Circular binary segmentation for the analysis of array-based DNA copy number data.
paper
Cited
Public
Unavailable
- Authors
- Olshen, Adam B; Venkatraman, E S; Lucito, Robert; Wigler, Michael
- Year
- 2004
- Journal
- Biostatistics (Oxford, England)
- PMID
- 15475419
- DOI
- 10.1093/biostatistics/kxh008
DNA sequence copy number is the number of copies of DNA at a region of a genome. Cancer progression often involves alterations in DNA copy number. Newly developed microarray technologies enable simultaneous measurement of copy number at thousands of sites in a genome. We have developed a modification of binary segmentation, which we call circular binary segmentation, to translate noisy intensity measurements into regions of equal copy number. The method is evaluated by simulation and is demonstrated on cell line data with known copy number alterations and on a breast cancer cell line data set.
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| TAaCGH Suite for Detecting Cancer-Specific Copy Number Changes Using Topological Signatures. | Aslam J et al. | — | 2022 | → |
| Testing for a Change in Mean After Changepoint Detection. | Jewell S et al. | — | 2022 | → |
| The extended concurrent genes signature for disease-free survival in breast cancer. | Huang CS et al. | — | 2022 | → |
| Using Genomic Variation to Distinguish Ovarian High-Grade Serous Carcinoma from Benign Fallopian Tubes. | Gonzalez-Bosquet J et al. | — | 2022 | → |
| Whole-Exome Sequencing Reveals Clinical Potential of Circulating Tumor DNA from Peritoneal Fluid and Plasma in Endometrial Cancer. | Ju HY et al. | — | 2022 | → |
| A Bayesian model based computational analysis of the relationship between bisulfite accessible single-stranded DNA in chromatin and somatic hypermutation of immunoglobulin genes. | Yu G et al. | — | 2021 | → |
| A case-control study to identify molecular risk factors for local recurrence in young breast cancer patients. | Bosma SCJ et al. | — | 2021 | → |
| Accucopy: accurate and fast inference of allele-specific copy number alterations from low-coverage low-purity tumor sequencing data. | Fan X et al. | — | 2021 | → |
| Accurate calling of KIAA1549-BRAF fusions from DNA of human brain tumours using methylation array-based copy number and gene panel sequencing data. | Stichel D et al. | — | 2021 | → |
| Acquired mutations and transcriptional remodeling in long-term estrogen-deprived locoregional breast cancer recurrences. | Priedigkeit N et al. | — | 2021 | → |
| A practical guide to cancer subclonal reconstruction from DNA sequencing. | Tarabichi M et al. | — | 2021 | → |
| Assessment of genomic alterations in non-syndromic von Hippel-Lindau: Insight from integrating somatic and germline next generation sequencing genomic data. | Manning DK et al. | — | 2021 | → |
| A super scalable algorithm for short segment detection. | Hao N et al. | — | 2021 | → |
| Bioinformatic strategies for the analysis of genomic aberrations detected by targeted NGS panels with clinical application. | Hynst J et al. | — | 2021 | → |
| Canine tumor mutational burden is correlated with TP53 mutation across tumor types and breeds. | Alsaihati BA et al. | — | 2021 | → |
| Cell-free DNA captures tumor heterogeneity and driver alterations in rapid autopsies with pre-treated metastatic cancer. | Pereira B et al. | — | 2021 | → |
| Characterization of Copy-Number Variations and Possible Candidate Genes in Recurrent Pregnancy Losses. | Sheng YR et al. | — | 2021 | → |
| Coordinated Prefrontal State Transition Leads Extinction of Reward-Seeking Behaviors. | Russo E et al. | — | 2021 | → |
| Copy number alteration profiling facilitates differential diagnosis between ossifying fibroma and fibrous dysplasia of the jaws. | Ma M et al. | — | 2021 | → |
| Delineating copy number and clonal substructure in human tumors from single-cell transcriptomes. | Gao R et al. | — | 2021 | → |
| Depletion of NK6 Homeobox 3 (NKX6.3) causes gastric carcinogenesis through copy number alterations by inducing impairment of DNA replication and repair regulation. | Yoon JH et al. | — | 2021 | → |
| Detectable chromosome X mosaicism in males is rarely tolerated in peripheral leukocytes. | Zhou W et al. | — | 2021 | → |
| Detecting rare copy number variants from Illumina genotyping arrays with the CamCNV pipeline: Segmentation of z-scores improves detection and reliability. | Dennis J et al. | — | 2021 | → |
| ER expression associates with poor prognosis in male lung squamous carcinoma after radical resection. | Yang X et al. | — | 2021 | → |
| Evolution of delayed resistance to immunotherapy in a melanoma responder. | Liu D et al. | — | 2021 | → |
| Frequent post-operative monitoring of colorectal cancer using individualised ctDNA validated by multiregional molecular profiling. | Yaegashi M et al. | — | 2021 | → |
| Genetic risk score for ovarian cancer based on chromosomal-scale length variation. | Toh C et al. | — | 2021 | → |
| Genomic Adaption and Mutational Patterns in a HaCaT Subline Resistant to Alkylating Agents and Ionizing Radiation. | Ullmann R et al. | — | 2021 | → |
| Genomic analysis and preclinical xenograft model development identify potential therapeutic targets for MYOD1-mutant soft-tissue sarcoma of childhood. | Ting MA et al. | — | 2021 | → |
| Germline DNMT3A mutation in familial acute myeloid leukaemia. | DiNardo CD et al. | — | 2021 | → |
| HCMMCNVs: hierarchical clustering mixture model of copy number variants detection using whole exome sequencing technology. | Song C et al. | — | 2021 | → |
| High-grade Follicular Lymphomas Exhibit Clinicopathologic, Cytogenetic, and Molecular Diversity Extending Beyond Grades 3A and 3B. | Laurent C et al. | — | 2021 | → |
| High resolution copy number inference in cancer using short-molecule nanopore sequencing. | Baslan T et al. | — | 2021 | → |
| Humans with inherited T cell CD28 deficiency are susceptible to skin papillomaviruses but are otherwise healthy. | Béziat V et al. | — | 2021 | → |
| Identification of Let-7 miRNA Activity as a Prognostic Biomarker of SHH Medulloblastoma. | Westphal MS et al. | — | 2021 | → |
| Implications of germline copy-number variations in psychiatric disorders: review of large-scale genetic studies. | Nakatochi M et al. | — | 2021 | → |
| Improvement in the risk assessment of oral leukoplakia through morphology-related copy number analysis. | Li X et al. | — | 2021 | → |
| Integrated Genomic Analysis Identifies Driver Genes and Cisplatin-Resistant Progenitor Phenotype in Pediatric Liver Cancer. | Hirsch TZ et al. | — | 2021 | → |
| Integrating genomic correlation structure improves copy number variations detection. | Luo X et al. | — | 2021 | → |
| Integrating molecular profiles into clinical frameworks through the Molecular Oncology Almanac to prospectively guide precision oncology. | Reardon B et al. | — | 2021 | → |
| Longitudinal single-cell profiling reveals molecular heterogeneity and tumor-immune evolution in refractory mantle cell lymphoma. | Zhang S et al. | — | 2021 | → |
| Loss of synergistic transcriptional feedback loops drives diverse B-cell cancers. | Andrews JM et al. | — | 2021 | → |
| Mapping the micro-proteome of the nuclear lamina and lamina-associated domains. | Wong X et al. | — | 2021 | → |
| Massively Parallel Sequencing of Esophageal Brushings Enables an Aneuploidy-Based Classification of Patients With Barrett's Esophagus. | Douville C et al. | — | 2021 | → |
| MEDALT: single-cell copy number lineage tracing enabling gene discovery. | Wang F et al. | — | 2021 | → |
| Modeling the first wave of Covid-19 pandemic in the Republic of Cyprus. | Agapiou S et al. | — | 2021 | → |
| Molecular correlates of immune cytolytic subgroups in colorectal cancer by integrated genomics analysis. | Roufas C et al. | — | 2021 | → |
| Molecular correlates of response to eribulin and pembrolizumab in hormone receptor-positive metastatic breast cancer. | Keenan TE et al. | — | 2021 | → |
| Multi-modal meta-analysis of cancer cell line omics profiles identifies ECHDC1 as a novel breast tumor suppressor. | Jaiswal A et al. | — | 2021 | → |
| Multi-omic molecular profiling reveals potentially targetable abnormalities shared across multiple histologies of brain metastasis. | Fukumura K et al. | — | 2021 | → |
| Multi-platform profiling characterizes molecular subgroups and resistance networks in chronic lymphocytic leukemia. | Bloehdorn J et al. | — | 2021 | → |
| Nivolumab in combination with cabozantinib for metastatic triple-negative breast cancer: a phase II and biomarker study. | Barroso-Sousa R et al. | — | 2021 | → |
| NSG-Pro mouse model for uncovering resistance mechanisms and unique vulnerabilities in human luminal breast cancers. | Sun Y et al. | — | 2021 | → |
| Opposing immune and genetic mechanisms shape oncogenic programs in synovial sarcoma. | Jerby-Arnon L et al. | — | 2021 | → |
| Post-selection inference for changepoint detection algorithms with application to copy number variation data. | Hyun S et al. | — | 2021 | → |
| PP2A and E3 ubiquitin ligase deficiencies: Seminal biological drivers in endometrial cancer. | Gonzalez-Bosquet J et al. | — | 2021 | → |
| Prognostic value of integrated cytogenetic, somatic variation, and copy number variation analyses in Korean patients with newly diagnosed multiple myeloma. | Lee N et al. | — | 2021 | → |
| SCYN: single cell CNV profiling method using dynamic programming. | Feng X et al. | — | 2021 | → |
| Shall genomic correlation structure be considered in copy number variants detection? | Qin F et al. | — | 2021 | → |
| SMOOTH-seq: single-cell genome sequencing of human cells on a third-generation sequencing platform. | Fan X et al. | — | 2021 | → |
| STARCH: copy number and clone inference from spatial transcriptomics data. | Elyanow R et al. | — | 2021 | → |
| Statistical Considerations on NGS Data for Inferring Copy Number Variations. | Chen J | — | 2021 | → |
| Super.FELT: supervised feature extraction learning using triplet loss for drug response prediction with multi-omics data. | Park S et al. | — | 2021 | → |
| SurVIndel: improving CNV calling from high-throughput sequencing data through statistical testing. | Rajaby R et al. | — | 2021 | → |
| The acquisition of molecular drivers in pediatric therapy-related myeloid neoplasms. | Schwartz JR et al. | — | 2021 | → |
| The Progenetix oncogenomic resource in 2021. | Huang Q et al. | — | 2021 | → |
| Uniform genomic data analysis in the NCI Genomic Data Commons. | Zhang Z et al. | — | 2021 | → |
| Validation of a liquid biopsy assay with molecular and clinical profiling of circulating tumor DNA. | Finkle JD et al. | — | 2021 | → |
| Whole-genome characterization of lung adenocarcinomas lacking the RTK/RAS/RAF pathway. | Carrot-Zhang J et al. | — | 2021 | → |
| WisecondorFF: Improved Fetal Aneuploidy Detection from Shallow WGS through Fragment Length Analysis. | Mokveld T et al. | — | 2021 | → |
| Acquired resistance to combined BET and CDK4/6 inhibition in triple-negative breast cancer. | Ge JY et al. | — | 2020 | → |
| Analysis of mutational and proteomic heterogeneity of gastric cancer suggests an effective pipeline to monitor post-treatment tumor burden using circulating tumor DNA. | Sasaki N et al. | — | 2020 | → |
| A novel algorithm comprehensively characterizes human RH genes using whole-genome sequencing data. | Chang TC et al. | — | 2020 | → |
| A novel patient-derived organoids-based xenografts model for preclinical drug response testing in patients with colorectal liver metastases. | Jian M et al. | — | 2020 | → |
| A simple new approach to variable selection in regression, with application to genetic fine mapping. | Wang G et al. | — | 2020 | → |
| Assessing the performance of methods for copy number aberration detection from single-cell DNA sequencing data. | Mallory XF et al. | — | 2020 | → |
| Autophagy gene haploinsufficiency drives chromosome instability, increases migration, and promotes early ovarian tumors. | Delaney JR et al. | — | 2020 | → |
| CaSpER identifies and visualizes CNV events by integrative analysis of single-cell or bulk RNA-sequencing data. | Serin Harmanci A et al. | — | 2020 | → |
| Chromosomal instability in the prediction of pituitary neuroendocrine tumors prognosis. | Lasolle H et al. | — | 2020 | → |
| CNApp, a tool for the quantification of copy number alterations and integrative analysis revealing clinical implications. | Franch-Expósito S et al. | — | 2020 | → |
| Combination of PI3K and MEK inhibitors yields durable remission in PDX models of PIK3CA-mutated metaplastic breast cancers. | Coussy F et al. | — | 2020 | → |
| Complex Structure of <i>Lasiopodomys mandarinus vinogradovi</i> Sex Chromosomes, Sex Determination, and Intraspecific Autosomal Polymorphism. | Romanenko SA et al. | — | 2020 | → |
| Comprehensive analysis of cutaneous and uveal melanoma liver metastases. | Hoefsmit EP et al. | — | 2020 | → |
| Comprehensive identification and characterization of somatic copy number alterations in triple‑negative breast cancer. | Li Z et al. | — | 2020 | → |
| Comprehensive Molecular Characterization Identifies Distinct Genomic and Immune Hallmarks of Renal Medullary Carcinoma. | Msaouel P et al. | — | 2020 | → |
| Computational Analysis of DNA and RNA Sequencing Data Obtained from Liquid Biopsies. | Marass F et al. | — | 2020 | → |
| Concordance of copy number abnormality detection using SNP arrays and Multiplex Ligation-dependent Probe Amplification (MLPA) in acute lymphoblastic leukaemia. | Bashton M et al. | — | 2020 | → |
| Copolymerization of single-cell nucleic acids into balls of acrylamide gel. | Li S et al. | — | 2020 | → |
| Copy number aberrations from Affymetrix SNP 6.0 genotyping data-how accurate are commonly used prediction approaches? | Pitea A et al. | — | 2020 | → |
| Copy Number Amplification of DNA Damage Repair Pathways Potentiates Therapeutic Resistance in Cancer. | Wu Z et al. | — | 2020 | → |
| Copy Number Loss of 17q22 Is Associated with Enzalutamide Resistance and Poor Prognosis in Metastatic Castration-Resistant Prostate Cancer. | Guan X et al. | — | 2020 | → |
| Detection of Copy Number Variants by Short Multiply Aggregated Sequence Homologies. | Jobanputra V et al. | — | 2020 | → |
| Discriminant Analysis of Lung Cancer Using Nonlinear Clustering of Copy Numbers. | Kachouie NN et al. | — | 2020 | → |
| Distinct Classes of Complex Structural Variation Uncovered across Thousands of Cancer Genome Graphs. | Hadi K et al. | — | 2020 | → |
| DNA FISH Diagnostic Assay on Cytological Samples of Thyroid Follicular Neoplasms. | Vielh P et al. | — | 2020 | → |
| ERDS-exome: a Hybrid Approach for Copy Number Variant Detection from Whole-exome Sequencing Data. | Tan R et al. | — | 2020 | → |
| Functional genomic analysis identifies drug targetable pathways in invasive and metastatic cutaneous squamous cell carcinoma. | Anderson AN et al. | — | 2020 | → |
| Fuzzy methods for the detection of copy number variations in comparative genomic hybridization arrays. | AlShibli A et al. | — | 2020 | → |
| GCNA Interacts with Spartan and Topoisomerase II to Regulate Genome Stability. | Dokshin GA et al. | — | 2020 | → |
| Genetic profiling of primary and secondary tumors from patients with lung adenocarcinoma and bone metastases reveals targeted therapy options. | Huang L et al. | — | 2020 | → |
| Genomic and Epigenomic Features of Primary and Recurrent Hepatocellular Carcinomas. | Ding X et al. | — | 2020 | → |
| Genomic characterization of human brain metastases identifies drivers of metastatic lung adenocarcinoma. | Shih DJH et al. | — | 2020 | → |
| HetRCNA: A Novel Method to Identify Recurrent Copy Number Alternations from Heterogeneous Tumor Samples Based on Matrix Decomposition Framework. | Xi J et al. | — | 2020 | → |
| Hierarchical discovery of large-scale and focal copy number alterations in low-coverage cancer genomes. | Khalil AIS et al. | — | 2020 | → |
| Identification of Deregulated Pathways, Key Regulators, and Novel miRNA-mRNA Interactions in HPV-Mediated Transformation. | Babion I et al. | — | 2020 | → |
| <i>NDRG1-PLAG1</i> and <i>TRPS1-PLAG1</i> Fusion Genes in Chondroid Syringoma. | Panagopoulos I et al. | — | 2020 | → |
| Integrated Computational Pipeline for Single-Cell Genomic Profiling. | Chorbadjiev L et al. | — | 2020 | → |
| Integrative multiplatform molecular profiling of benign prostatic hyperplasia identifies distinct subtypes. | Liu D et al. | — | 2020 | → |
| KAT6A amplifications are associated with shorter progression-free survival and overall survival in patients with endometrial serous carcinoma. | Saglam O et al. | — | 2020 | → |
| Large 1p36 Deletions Affecting Arid1a Locus Facilitate Mycn-Driven Oncogenesis in Neuroblastoma. | García-López J et al. | — | 2020 | → |
| Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer. | Johnstone SE et al. | — | 2020 | → |
| MethCP: Differentially Methylated Region Detection with Change Point Models. | Gong B et al. | — | 2020 | → |
| Methods for copy number aberration detection from single-cell DNA-sequencing data. | Mallory XF et al. | — | 2020 | → |
| Molecular Analysis of Clinically Defined Subsets of High-Grade Serous Ovarian Cancer. | Lee S et al. | — | 2020 | → |
| MTOR signaling orchestrates stress-induced mutagenesis, facilitating adaptive evolution in cancer. | Cipponi A et al. | — | 2020 | → |
| Multimodal genomic features predict outcome of immune checkpoint blockade in non-small-cell lung cancer. | Anagnostou V et al. | — | 2020 | → |
| Multiple change point detection and validation in autoregressive time series data. | Ma L et al. | — | 2020 | → |
| Mutation analysis and genomic imbalances of cells found in effusion fluids from patients with ovarian cancer. | Brunetti M et al. | — | 2020 | → |
| Mutation Analysis of Colorectal and Gastric Carcinomas Originating from Adenomas: Insights into Genomic Evolution Associated with Malignant Progression. | Lee SH et al. | — | 2020 | → |
| Noninvasive prenatal detection of hemoglobin Bart hydrops fetalis via maternal plasma dispensed with parental haplotyping using the semiconductor sequencing platform. | Yang J et al. | — | 2020 | → |
| NOTCH and DNA repair pathways are more frequently targeted by genomic alterations in inflammatory than in non-inflammatory breast cancers. | Bertucci F et al. | — | 2020 | → |
| Novel Pathogenic Germline Variant of the Adenomatous Polyposis Coli (APC) Gene, p.S2627Gfs*12 Identified in a Mild Phenotype of APC-Associated Polyposis: A Case Report. | Koeller DR et al. | — | 2020 | → |
| Organoid Cultures as Preclinical Models of Non-Small Cell Lung Cancer. | Shi R et al. | — | 2020 | → |
| Pan-cancer identification of clinically relevant genomic subtypes using outcome-weighted integrative clustering. | Arora A et al. | — | 2020 | → |
| PiggyBac mutagenesis and exome sequencing identify genetic driver landscapes and potential therapeutic targets of EGFR-mutant gliomas. | Noorani I et al. | — | 2020 | → |
| Population-wide copy number variation calling using variant call format files from 6,898 individuals. | Png G et al. | — | 2020 | → |
| Preprocessing Sequence Coverage Data for More Precise Detection of Copy Number Variations. | Zare F et al. | — | 2020 | → |
| Quantitative characterization of tumor cell-free DNA shortening. | Guo J et al. | — | 2020 | → |
| Relapse-Fated Latent Diagnosis Subclones in Acute B Lineage Leukemia Are Drug Tolerant and Possess Distinct Metabolic Programs. | Dobson SM et al. | — | 2020 | → |
| Retrospective clinical trial experimentally validates glioblastoma genome-wide pattern of DNA copy-number alterations predictor of survival. | Ponnapalli SP et al. | — | 2020 | → |
| SCCNV: A Software Tool for Identifying Copy Number Variation From Single-Cell Whole-Genome Sequencing. | Dong X et al. | — | 2020 | → |
| Shallow whole-genome sequencing of plasma cell-free DNA accurately differentiates small from non-small cell lung carcinoma. | Raman L et al. | — | 2020 | → |
| Single-cell analysis of copy-number alterations in serous ovarian cancer reveals substantial heterogeneity in both low- and high-grade tumors. | Kumar M et al. | — | 2020 | → |
| Small Cell Carcinoma of the Ovary, Hypercalcemic Type (SCCOHT) beyond <i>SMARCA4</i> Mutations: A Comprehensive Genomic Analysis. | Auguste A et al. | — | 2020 | → |
| Systematic analysis of copy-number variations associated with early pregnancy loss. | Wang Y et al. | — | 2020 | → |
| Systematic Characterization of Recurrent Genomic Alterations in Cyclin-Dependent Kinases Reveals Potential Therapeutic Strategies for Cancer Treatment. | Shan W et al. | — | 2020 | → |
| The Genomic Landscape of Intrinsic and Acquired Resistance to Cyclin-Dependent Kinase 4/6 Inhibitors in Patients with Hormone Receptor-Positive Metastatic Breast Cancer. | Wander SA et al. | — | 2020 | → |
| The Landscape of Somatic Copy Number Alterations in Head and Neck Squamous Cell Carcinoma. | Yang J et al. | — | 2020 | → |
| The signature of pharmaceutical sensitivity based on ctDNA mutation in eleven cancers. | Zhang S et al. | — | 2020 | → |
| Transient commensal clonal interactions can drive tumor metastasis. | Naffar-Abu Amara S et al. | — | 2020 | → |
| Two types of primary mucinous ovarian tumors can be distinguished based on their origin. | Simons M et al. | — | 2020 | → |
| Whole Genome Sequencing of Spontaneously Occurring Rat Natural Killer Large Granular Lymphocyte Leukemia Identifies JAK1 Somatic Activating Mutation. | Wang TT et al. | — | 2020 | → |
| A Comparison of DNA Mutation and Copy Number Profiles of Primary Breast Cancers and Paired Brain Metastases for Identifying Clinically Relevant Genetic Alterations in Brain Metastases. | Tyran M et al. | — | 2019 | → |
| Acquired HER2 mutations in ER<sup>+</sup> metastatic breast cancer confer resistance to estrogen receptor-directed therapies. | Nayar U et al. | — | 2019 | → |
| A large collection of integrated genomically characterized patient-derived xenografts highlighting the heterogeneity of triple-negative breast cancer. | Coussy F et al. | — | 2019 | → |
| Allele-Specific Expression Analysis in Cancer Using Next-Generation Sequencing Data. | Romanel A | — | 2019 | → |
| An accurate and powerful method for copy number variation detection. | Xiao F et al. | — | 2019 | → |
| Analysis of high-throughput biological data using their rank values. | Dembélé D | — | 2019 | → |
| An integrated prediction model of recurrence in endometrial endometrioid cancers. | Miller MD et al. | — | 2019 | → |
| Association Analysis of Deep Genomic Features Extracted by Denoising Autoencoders in Breast Cancer. | Liu Q et al. | — | 2019 | → |
| A Unique Panel of Patient-Derived Cutaneous Squamous Cell Carcinoma Cell Lines Provides a Preclinical Pathway for Therapeutic Testing. | Hassan S et al. | — | 2019 | → |
| A Universal Nonparametric Event Detection Framework for Neuropixels Data | Chen H et al. | — | 2019 | — |
| Before and After: Comparison of Legacy and Harmonized TCGA Genomic Data Commons' Data. | Gao GF et al. | — | 2019 | → |
| Bioinformatics Analysis for Circulating Cell-Free DNA in Cancer. | Huang CC et al. | — | 2019 | → |
| Cellular and Genetic Determinants of the Sensitivity of Cancer to α-Particle Irradiation. | Yard BD et al. | — | 2019 | → |
| Clinical validation of the tempus xT next-generation targeted oncology sequencing assay. | Beaubier N et al. | — | 2019 | → |
| Colorectal metastasis to the gallbladder mimicking a primary gallbladder malignancy: histopathological and molecular characteristics. | de Bitter TJJ et al. | — | 2019 | → |
| Combination of TMB and CNA Stratifies Prognostic and Predictive Responses to Immunotherapy Across Metastatic Cancer. | Liu L et al. | — | 2019 | → |
| Copy Number Variation Detection Using Total Variation. | Zare F et al. | — | 2019 | → |
| CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples. | Zhang X et al. | — | 2019 | → |
| DBS: a fast and informative segmentation algorithm for DNA copy number analysis. | Ruan J et al. | — | 2019 | → |
| DeepSNP: An End-to-End Deep Neural Network with Attention-Based Localization for Breakpoint Detection in Single-Nucleotide Polymorphism Array Genomic Data. | Eghbal-Zadeh H et al. | — | 2019 | → |
| Detection of de novo copy number deletions from targeted sequencing of trios. | Fu JM et al. | — | 2019 | → |
| Directional allelic imbalance profiling and visualization from multi-sample data with RECUR. | Jakubek YA et al. | — | 2019 | → |
| Dynamics of Tumor and Immune Responses during Immune Checkpoint Blockade in Non-Small Cell Lung Cancer. | Anagnostou V et al. | — | 2019 | → |
| Effector gene reshuffling involves dispensable mini-chromosomes in the wheat blast fungus. | Peng Z et al. | — | 2019 | → |
| EnsembleCNV: an ensemble machine learning algorithm to identify and genotype copy number variation using SNP array data. | Zhang Z et al. | — | 2019 | → |
| Epigenome-wide study uncovers large-scale changes in histone acetylation driven by tau pathology in aging and Alzheimer's human brains. | Klein HU et al. | — | 2019 | → |
| Exome Sequencing of a Primary Ovarian Insufficiency Cohort Reveals Common Molecular Etiologies for a Spectrum of Disease. | Jolly A et al. | — | 2019 | → |
| Forty-five patient-derived xenografts capture the clinical and biological heterogeneity of Wilms tumor. | Murphy AJ et al. | — | 2019 | → |
| Free-access copy-number variant detection tools for targeted next-generation sequencing data. | Roca I et al. | — | 2019 | → |
| Frequent clonal relations between metastases and non-index prostate cancer lesions. | Kneppers J et al. | — | 2019 | → |
| Gene copy number variations involved in balsam poplar (Populus balsamifera L.) adaptive variations. | Prunier J et al. | — | 2019 | → |
| Genome reorganization in different cancer types: detection of cancer specific breakpoint regions. | Standfuß C et al. | — | 2019 | → |
| Genome-Wide Copy Number Variation Detection Using NGS: Data Analysis and Interpretation. | Shen W et al. | — | 2019 | → |
| Genomic and Epigenomic Features of Primary and Recurrent Hepatocellular Carcinomas. | Ding X et al. | — | 2019 | → |
| Genomic characterization of genes encoding histone acetylation modulator proteins identifies therapeutic targets for cancer treatment. | Hu Z et al. | — | 2019 | → |
| Genomic Characterization of TP53-Wild-Type Esophageal Carcinoma. | Quaas A et al. | — | 2019 | → |
| Genomic copy number variation of the CHKB gene alters gene expression and affects growth traits of Chinese domestic yak (Bos grunniens) breeds. | Goshu HA et al. | — | 2019 | → |
| GSVD- and tensor GSVD-uncovered patterns of DNA copy-number alterations predict adenocarcinomas survival in general and in response to platinum. | Bradley MW et al. | — | 2019 | → |
| High-Resolution Copy Number Patterns From Clinically Relevant FFPE Material. | Filia A et al. | — | 2019 | → |
| High throughput genotyping of structural variations in a complex plant genome using an original Affymetrix® axiom® array. | Mabire C et al. | — | 2019 | → |
| Hybridization promotes asexual reproduction in Caenorhabditis nematodes. | Lamelza P et al. | — | 2019 | → |
| Identification of Distinct Prognostic Groups: Implications for Patient Selection to Targeted Therapies Among Anti-Endocrine Therapy-Resistant Early Breast Cancers. | Bayani J et al. | — | 2019 | → |
| Immune signature drives leukemia escape and relapse after hematopoietic cell transplantation. | Toffalori C et al. | — | 2019 | → |
| <i>MYD88</i> L265P mutation and <i>CDKN2A</i> loss are early mutational events in primary central nervous system diffuse large B-cell lymphomas. | Nayyar N et al. | — | 2019 | → |
| Inferring clonal heterogeneity in cancer using SNP arrays and whole genome sequencing. | Zucker MR et al. | — | 2019 | → |
| Integrative molecular and clinical modeling of clinical outcomes to PD1 blockade in patients with metastatic melanoma. | Liu D et al. | — | 2019 | → |
| Intrinsic Resistance to Immune Checkpoint Blockade in a Mismatch Repair-Deficient Colorectal Cancer. | Gurjao C et al. | — | 2019 | → |
| In-Vitro and In-Vivo Establishment and Characterization of Bioluminescent Orthotopic Chemotherapy-Resistant Human Osteosarcoma Models in NSG Mice. | Marques da Costa ME et al. | — | 2019 | → |
| <i>PIK3CA</i> Amplification Associates with Aggressive Phenotype but Not Markers of AKT-MTOR Signaling in Endometrial Carcinoma. | Holst F et al. | — | 2019 | → |
| Measuring DNA Copy Number Variation Using High-Density Methylation Microarrays. | Cho S et al. | — | 2019 | → |
| Metabolic reprogramming toward oxidative phosphorylation identifies a therapeutic target for mantle cell lymphoma. | Zhang L et al. | — | 2019 | → |
| MOGSA: Integrative Single Sample Gene-set Analysis of Multiple Omics Data. | Meng C et al. | — | 2019 | → |
| Molecular Characterization of Non-responders to Chemotherapy in Serous Ovarian Cancer. | McDonald ME et al. | — | 2019 | → |
| Multi-region exome sequencing reveals genomic evolution from preneoplasia to lung adenocarcinoma. | Hu X et al. | — | 2019 | → |
| Mutation heterogeneity between primary gastric cancers and their matched lymph node metastases. | Lee HH et al. | — | 2019 | → |
| MYC protein expression is an important prognostic factor in acute myeloid leukemia. | Ohanian M et al. | — | 2019 | → |
| Neurons with Complex Karyotypes Are Rare in Aged Human Neocortex. | Chronister WD et al. | — | 2019 | → |
| Noninvasive preimplantation genetic testing for aneuploidy in spent medium may be more reliable than trophectoderm biopsy. | Huang L et al. | — | 2019 | → |
| Paralog Studies Augment Gene Discovery: DDX and DHX Genes. | Paine I et al. | — | 2019 | → |
| Ploidy- and Purity-Adjusted Allele-Specific DNA Analysis Using CLONETv2. | Prandi D et al. | — | 2019 | → |
| Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities. | Vasaikar S et al. | — | 2019 | → |
| Quantitative Analysis of Pedogenic Thresholds and Domains in Volcanic Soils. | Bateman JB et al. | — | 2019 | → |
| Rare variant phasing using paired tumor:normal sequence data. | Buckley AR et al. | — | 2019 | → |
| Recurring genomic structural variation leads to clonal instability and loss of productivity. | Bandyopadhyay AA et al. | — | 2019 | → |
| Ridge estimation of network models from time-course omics data. | Miok V et al. | — | 2019 | → |
| Robust pathway-based multi-omics data integration using directed random walks for survival prediction in multiple cancer studies. | Kim SY et al. | — | 2019 | → |
| Single-cell sequencing of primate preimplantation embryos reveals chromosome elimination via cellular fragmentation and blastomere exclusion. | Daughtry BL et al. | — | 2019 | → |
| SMURF-seq: efficient copy number profiling on long-read sequencers. | Prabakar RK et al. | — | 2019 | → |
| Targeted Inhibition of the Dual Specificity Phosphatases DUSP1 and DUSP6 Suppress MPNST Growth via JNK. | Ramkissoon A et al. | — | 2019 | → |
| The Genomic and Immune Landscapes of Lethal Metastatic Breast Cancer. | De Mattos-Arruda L et al. | — | 2019 | → |
| The Genomics of Arthrogryposis, a Complex Trait: Candidate Genes and Further Evidence for Oligogenic Inheritance. | Pehlivan D et al. | — | 2019 | → |
| The Landscape of Circular RNA in Cancer. | Vo JN et al. | — | 2019 | → |
| The NSL complex maintains nuclear architecture stability via lamin A/C acetylation. | Karoutas A et al. | — | 2019 | → |
| UVB-Induced Tumor Heterogeneity Diminishes Immune Response in Melanoma. | Wolf Y et al. | — | 2019 | → |
| V-ATPase-associated prorenin receptor is upregulated in prostate cancer after PTEN loss. | Mohammad AH et al. | — | 2019 | → |
| WisecondorX: improved copy number detection for routine shallow whole-genome sequencing. | Raman L et al. | — | 2019 | → |
| A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers. | Berger AC et al. | — | 2018 | → |
| A computational approach to distinguish somatic vs. germline origin of genomic alterations from deep sequencing of cancer specimens without a matched normal. | Sun JX et al. | — | 2018 | → |
| A computational tool to detect DNA alterations tailored to formalin-fixed paraffin-embedded samples in cancer clinical sequencing. | Kato M et al. | — | 2018 | → |
| Aggressive natural killer-cell leukemia mutational landscape and drug profiling highlight JAK-STAT signaling as therapeutic target. | Dufva O et al. | — | 2018 | → |
| An anatomic transcriptional atlas of human glioblastoma. | Puchalski RB et al. | — | 2018 | → |
| APOBEC mutation drives early-onset squamous cell carcinomas in recessive dystrophic epidermolysis bullosa. | Cho RJ et al. | — | 2018 | → |
| A recurrent point mutation in PRKCA is a hallmark of chordoid gliomas. | Rosenberg S et al. | — | 2018 | → |
| Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer. | Hoadley KA et al. | — | 2018 | → |
| Centralization errors in comparative genomic hybridization array analysis of pituitary tumor samples. | Lasolle H et al. | — | 2018 | → |
| Characterization of Children's Exposure to Extremely Low Frequency Magnetic Fields by Stochastic Modeling. | Bonato M et al. | — | 2018 | → |
| Chemoresistance Evolution in Triple-Negative Breast Cancer Delineated by Single-Cell Sequencing. | Kim C et al. | — | 2018 | → |
| Chromosomal Aberrations and Survival after Unrelated Donor Hematopoietic Stem Cell Transplant in Patients with Fanconi Anemia. | Wang Y et al. | — | 2018 | → |
| Chromothripsis Detection and Characterization Using the CTLPScanner Web Server. | Yang J et al. | — | 2018 | → |
| Clonal dynamics of donor-derived myelodysplastic syndrome after unrelated hematopoietic cell transplantation for high-risk pediatric B-lymphoblastic leukemia. | Schwartz JR et al. | — | 2018 | → |
| Comparative Molecular Analysis of Gastrointestinal Adenocarcinomas. | Liu Y et al. | — | 2018 | → |
| Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line. | Nattestad M et al. | — | 2018 | → |
| Consensus molecular subtype classification of colorectal adenomas. | Komor MA et al. | — | 2018 | → |
| Copy Number Variation. | Macé A et al. | — | 2018 | → |
| Cyclin A2/E1 activation defines a hepatocellular carcinoma subclass with a rearrangement signature of replication stress. | Bayard Q et al. | — | 2018 | → |
| Delineation of human prostate cancer evolution identifies chromothripsis as a polyclonal event and FKBP4 as a potential driver of castration resistance. | Federer-Gsponer JR et al. | — | 2018 | → |
| Detecting Multiple Change Points Using Adaptive Regression Splines With Application to Neural Recordings. | Toutounji H et al. | — | 2018 | → |
| Detection of cell-free DNA fragmentation and copy number alterations in cerebrospinal fluid from glioma patients. | Mouliere F et al. | — | 2018 | → |
| Detection of CNVs in NGS Data Using VS-CNV. | Fortier N et al. | — | 2018 | → |
| Detection of copy number variants and loss of heterozygosity from impure tumor samples using whole exome sequencing data. | Liu X et al. | — | 2018 | → |
| Detection of Copy Number Variation Regions Using the DNA-Sequencing Data from Multiple Profiles with Correlated Structure. | Chen J et al. | — | 2018 | → |
| Detection of genome-wide copy number variants in myeloid malignancies using next-generation sequencing. | Shen W et al. | — | 2018 | → |
| DeviCNV: detection and visualization of exon-level copy number variants in targeted next-generation sequencing data. | Kang Y et al. | — | 2018 | → |
| Diagnostic Targeted Sequencing Panel for Hepatocellular Carcinoma Genomic Screening. | Paradiso V et al. | — | 2018 | → |
| Diffuse gliomas with FGFR3-TACC3 fusion have characteristic histopathological and molecular features. | Bielle F et al. | — | 2018 | → |
| DNA copy number profiling using single-cell sequencing. | Wang X et al. | — | 2018 | → |
| DNA Methylation Patterns in Normal Tissue Correlate more Strongly with Breast Cancer Status than Copy-Number Variants. | Gao Y et al. | — | 2018 | → |
| Drug-Sensitivity Screening and Genomic Characterization of 45 HPV-Negative Head and Neck Carcinoma Cell Lines for Novel Biomarkers of Drug Efficacy. | Lepikhova T et al. | — | 2018 | → |
| ERK Mutations and Amplification Confer Resistance to ERK-Inhibitor Therapy. | Jaiswal BS et al. | — | 2018 | → |
| EXACT SPIKE TRAIN INFERENCE VIA ℓ<sub>0</sub> OPTIMIZATION. | Jewell S et al. | — | 2018 | → |
| Expanded Genomic Profiling of Circulating Tumor Cells in Metastatic Breast Cancer Patients to Assess Biomarker Status and Biology Over Time (CALGB 40502 and CALGB 40503, Alliance). | Magbanua MJM et al. | — | 2018 | → |
| Exploiting genetic variation to uncover rules of transcription factor binding and chromatin accessibility. | Behera V et al. | — | 2018 | → |
| FFPE breast tumour blocks provide reliable sources of both germline and malignant DNA for investigation of genetic determinants of individual tumour responses to treatment. | Wilkins A et al. | — | 2018 | → |
| Genetic and transcriptional evolution alters cancer cell line drug response. | Ben-David U et al. | — | 2018 | → |
| Genetic Mechanisms of Immune Evasion in Colorectal Cancer. | Grasso CS et al. | — | 2018 | → |
| GENIPAC: A Genomic Information Portal for Head and Neck Cancer Cell Systems. | Lee BKB et al. | — | 2018 | → |
| Genome-Wide Copy Number Alteration Detection in Preimplantation Genetic Diagnosis. | Deleye L et al. | — | 2018 | → |
| Genome-wide copy number analyses of samples from LACE-Bio project identify novel prognostic and predictive markers in early stage non-small cell lung cancer. | Rotolo F et al. | — | 2018 | → |
| Genomic correlates of response to immune checkpoint blockade in microsatellite-stable solid tumors. | Miao D et al. | — | 2018 | → |
| Genomic correlates of response to immune checkpoint therapies in clear cell renal cell carcinoma. | Miao D et al. | — | 2018 | → |
| Genomic Hallmarks and Structural Variation in Metastatic Prostate Cancer. | Quigley DA et al. | — | 2018 | → |
| Genomic hotspots but few recurrent fusion genes in breast cancer. | Fimereli D et al. | — | 2018 | → |
| Genomic profiling of dedifferentiated liposarcoma compared to matched well-differentiated liposarcoma reveals higher genomic complexity and a common origin. | Beird HC et al. | — | 2018 | → |
| Genomic region detection via Spatial Convex Clustering. | Nagorski J et al. | — | 2018 | → |
| Grapevine field experiments reveal the contribution of genotype, the influence of environment and the effect of their interaction (G×E) on the berry transcriptome. | Dal Santo S et al. | — | 2018 | → |
| Identification of Copy Number Variants from SNP Arrays Using PennCNV. | Fang L et al. | — | 2018 | → |
| Identification of copy number variations and translocations in cancer cells from Hi-C data. | Chakraborty A et al. | — | 2018 | → |
| Identification of therapeutic targets in chordoma through comprehensive genomic and transcriptomic analyses. | Liang WS et al. | — | 2018 | → |
| Identifying disease-associated copy number variations by a doubly penalized regression model. | Cheng Y et al. | — | 2018 | → |
| <i>Drosophila</i> Larval Brain Neoplasms Present Tumour-Type Dependent Genome Instability. | Rossi F et al. | — | 2018 | → |
| Inactivation of CDK12 Delineates a Distinct Immunogenic Class of Advanced Prostate Cancer. | Wu YM et al. | — | 2018 | → |
| Insights into clonal haematopoiesis from 8,342 mosaic chromosomal alterations. | Loh PR et al. | — | 2018 | → |
| Integrated genetic and epigenetic analysis of myxofibrosarcoma. | Ogura K et al. | — | 2018 | → |
| Integrated Genomic, Epigenomic, and Expression Analyses of Ovarian Cancer Cell Lines. | Papp E et al. | — | 2018 | → |
| Integrated landscape of copy number variation and RNA expression associated with nodal metastasis in invasive ductal breast carcinoma. | Behring M et al. | — | 2018 | → |
| Integrated molecular analysis of Tamoxifen-resistant invasive lobular breast cancer cells identifies MAPK and GRM/mGluR signaling as therapeutic vulnerabilities. | Stires H et al. | — | 2018 | → |
| Integrative analysis and machine learning on cancer genomics data using the Cancer Systems Biology Database (CancerSysDB). | Krempel R et al. | — | 2018 | → |
| Integrative genomic analysis of adult mixed phenotype acute leukemia delineates lineage associated molecular subtypes. | Takahashi K et al. | — | 2018 | → |
| Intragenic Meiotic Crossovers Generate Novel Alleles with Transgressive Expression Levels. | Liu S et al. | — | 2018 | → |
| IRS2 mutations linked to invasion in pleomorphic invasive lobular carcinoma. | Zhu S et al. | — | 2018 | → |
| iSeg: an efficient algorithm for segmentation of genomic and epigenomic data. | Girimurugan SB et al. | — | 2018 | → |
| KDM5 Histone Demethylase Activity Links Cellular Transcriptomic Heterogeneity to Therapeutic Resistance. | Hinohara K et al. | — | 2018 | → |
| Lack of APC somatic mutation is associated with early-onset colorectal cancer in African Americans. | Xicola RM et al. | — | 2018 | → |
| Long-read sequencing identified a causal structural variant in an exome-negative case and enabled preimplantation genetic diagnosis. | Miao H et al. | — | 2018 | → |
| Loss of Chromosome 18q11.2-q12.1 Is Predictive for Survival in Patients With Metastatic Colorectal Cancer Treated With Bevacizumab. | van Dijk E et al. | — | 2018 | → |
| Loss of the candidate tumor suppressor ZEB1 (TCF8, ZFHX1A) in Sézary syndrome. | Caprini E et al. | — | 2018 | → |
| Maftools: efficient and comprehensive analysis of somatic variants in cancer. | Mayakonda A et al. | — | 2018 | → |
| Malignant cells from pleural fluids in malignant mesothelioma patients reveal novel mutations. | Sneddon S et al. | — | 2018 | → |
| Mathematically universal and biologically consistent astrocytoma genotype encodes for transformation and predicts survival phenotype. | Aiello KA et al. | — | 2018 | → |
| Noise cancellation using total variation for copy number variation detection. | Zare F et al. | — | 2018 | → |
| Optimization of Routine Testing for MET Exon 14 Splice Site Mutations in NSCLC Patients. | Descarpentries C et al. | — | 2018 | → |
| Pharmacological and genomic profiling of neurofibromatosis type 1 plexiform neurofibroma-derived schwann cells. | Ferrer M et al. | — | 2018 | → |
| Prevalent Homozygous Deletions of Type I Interferon and Defensin Genes in Human Cancers Associate with Immunotherapy Resistance. | Ye Z et al. | — | 2018 | → |
| SEG - A Software Program for Finding Somatic Copy Number Alterations in Whole Genome Sequencing Data of Cancer. | Zhang M et al. | — | 2018 | → |
| segment_liftover : a Python tool to convert segments between genome assemblies. | Gao B et al. | — | 2018 | → |
| Selection Has Countered High Mutability to Preserve the Ancestral Copy Number of Y Chromosome Amplicons in Diverse Human Lineages. | Teitz LS et al. | — | 2018 | → |
| Somatic inactivating PTPRJ mutations and dysregulated pathways identified in canine malignant melanoma by integrated comparative genomic analysis. | Hendricks WPD et al. | — | 2018 | → |
| Submegabase copy number variations arise during cerebral cortical neurogenesis as revealed by single-cell whole-genome sequencing. | Rohrback S et al. | — | 2018 | → |
| Targeting immune checkpoints potentiates immunoediting and changes the dynamics of tumor evolution. | Efremova M et al. | — | 2018 | → |
| The Integrated Genomic Landscape of Thymic Epithelial Tumors. | Radovich M et al. | — | 2018 | → |
| The landscape of genomic alterations across childhood cancers. | Gröbner SN et al. | — | 2018 | → |
| The mutational landscape of <i>MYCN</i>, <i>Lin28b</i> and <i>ALK</i><sup><i>F1174L</i></sup> driven murine neuroblastoma mimics human disease. | De Wilde B et al. | — | 2018 | → |
| Unsupervised correction of gene-independent cell responses to CRISPR-Cas9 targeting. | Iorio F et al. | — | 2018 | → |
| Using HaMMLET for Bayesian Segmentation of WGS Read-Depth Data. | Wiedenhoeft J et al. | — | 2018 | → |
| Utility of Single-Cell Genomics in Diagnostic Evaluation of Prostate Cancer. | Alexander J et al. | — | 2018 | → |
| Xome-Blender: A novel cancer genome simulator. | Semeraro R et al. | — | 2018 | → |
| 10p15.3p13 duplication inherited from paternal balance translocation (46,XY,t(5;10)(q35.1;p13)) identified on non-invasive prenatal testing. | Mei J et al. | — | 2017 | → |
| A comparative genomic hybridization approach to study gene copy number variations among Chinese hamster cell lines. | Vishwanathan N et al. | — | 2017 | → |
| A computationally efficient nonparametric approach for changepoint detection. | Haynes K et al. | — | 2017 | → |
| A high-throughput molecular data resource for cutaneous neurofibromas. | Gosline SJ et al. | — | 2017 | → |
| ALLELE-SPECIFIC COPY NUMBER ESTIMATION BY WHOLE EXOME SEQUENCING. | Chen H et al. | — | 2017 | → |
| AMKL chimeric transcription factors are potent inducers of leukemia. | Dang J et al. | — | 2017 | → |
| An mRNA Gene Expression-Based Signature to Identify FGFR1-Amplified Estrogen Receptor-Positive Breast Tumors. | Luo J et al. | — | 2017 | → |
| APOBEC3A is an oral cancer prognostic biomarker in Taiwanese carriers of an APOBEC deletion polymorphism. | Chen TW et al. | — | 2017 | → |
| Application of the cghRA framework to the genomic characterization of Diffuse Large B-Cell Lymphoma. | Mareschal S et al. | — | 2017 | → |
| A short review of variants calling for single-cell-sequencing data with applications. | Wei Z et al. | — | 2017 | → |
| Assembling draft genomes using contiBAIT. | O'Neill K et al. | — | 2017 | → |
| Assessing genome-wide copy number variation in the Han Chinese population. | Lu J et al. | — | 2017 | → |
| Assessment of circulating copy number variant detection for cancer screening. | Molparia B et al. | — | 2017 | → |
| A Total-variation Constrained Permutation Model for Revealing Common Copy Number Patterns. | Zhang Y et al. | — | 2017 | → |
| Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors. | Serra F et al. | — | 2017 | → |
| Change-point detection of cognitive states across multiple trials in functional neuroimaging. | Koerner FS et al. | — | 2017 | → |
| Characterization of genetic aberrations in a single case of metastatic thymic adenocarcinoma. | Lee Y et al. | — | 2017 | → |
| CINdex: A Bioconductor Package for Analysis of Chromosome Instability in DNA Copy Number Data. | Song L et al. | — | 2017 | → |
| cnAnalysis450k: an R package for comparative analysis of 450k/EPIC Illumina methylation array derived copy number data. | Knoll M et al. | — | 2017 | → |
| CNVs into the wild: screening the genomes of conifer trees (Picea spp.) reveals fewer gene copy number variations in hybrids and links to adaptation. | Prunier J et al. | — | 2017 | → |
| Comparative analysis of primary <i>versus</i> relapse/refractory DLBCL identifies shifts in mutation spectrum. | Greenawalt DM et al. | — | 2017 | → |
| Comprehensive analysis of The Cancer Genome Atlas reveals a unique gene and non-coding RNA signature of fibrolamellar carcinoma. | Dinh TA et al. | — | 2017 | → |
| Comprehensive and Integrated Genomic Characterization of Adult Soft Tissue Sarcomas. | Cancer Genome Atlas Research Network. Electronic address: elizabeth.demicco@sinaihealthsystem.ca et al. | — | 2017 | → |
| Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. | Cancer Genome Atlas Research Network. Electronic address: wheeler@bcm.edu et al. | — | 2017 | → |
| Comprehensive Molecular Characterization of Muscle-Invasive Bladder Cancer. | Robertson AG et al. | — | 2017 | → |
| Copy number gains at chr3p25 and chr11p11 are associated with lymph node involvement and survival in muscle-invasive bladder tumors. | Lindquist KJ et al. | — | 2017 | → |
| Enrichment of PI3K-AKT-mTOR Pathway Activation in Hepatic Metastases from Breast Cancer. | Pierobon M et al. | — | 2017 | → |
| Establishment and characterization of an oral tongue squamous cell carcinoma cell line from a never-smoking patient. | Wang SJ et al. | — | 2017 | → |
| Excess of genomic defects in a woolly mammoth on Wrangel island. | Rogers RL et al. | — | 2017 | → |
| ExCNVSS: A Noise-Robust Method for Copy Number Variation Detection in Whole Exome Sequencing Data. | Kong J et al. | — | 2017 | → |
| FDR control of detected regions by multiscale matched filtering. | Kachouie NN et al. | — | 2017 | → |
| Gene Copy Number Estimation from Targeted Next-Generation Sequencing of Prostate Cancer Biopsies: Analytic Validation and Clinical Qualification. | Seed G et al. | — | 2017 | → |
| Genetic load makes cancer cells more sensitive to common drugs: evidence from Cancer Cell Line Encyclopedia. | Pavel AB et al. | — | 2017 | → |
| Genomic Heterogeneity and Exceptional Response to Dual Pathway Inhibition in Anaplastic Thyroid Cancer. | Gibson WJ et al. | — | 2017 | → |
| Genomic landscape and evolution of metastatic chromophobe renal cell carcinoma. | Casuscelli J et al. | — | 2017 | → |
| Genomic landscape of retinoblastoma in Rb<sup>-/-</sup> p130<sup>-/-</sup> mice resembles human retinoblastoma. | Kooi IE et al. | — | 2017 | → |
| Genomic profiling of ER<sup>+</sup> breast cancers after short-term estrogen suppression reveals alterations associated with endocrine resistance. | Giltnane JM et al. | — | 2017 | → |
| gsrc: an R package for genome structure rearrangement calling. | Grandke F et al. | — | 2017 | → |
| Haploinsufficiency for DNA methyltransferase 3A predisposes hematopoietic cells to myeloid malignancies. | Cole CB et al. | — | 2017 | → |
| High grade serous ovarian carcinomas originate in the fallopian tube. | Labidi-Galy SI et al. | — | 2017 | → |
| Homozygous and hemizygous CNV detection from exome sequencing data in a Mendelian disease cohort. | Gambin T et al. | — | 2017 | → |
| Integrated genomic analyses of de novo pathways underlying atypical meningiomas. | Harmancı AS et al. | — | 2017 | → |
| Integrated genomic and molecular characterization of cervical cancer. | Cancer Genome Atlas Research Network et al. | — | 2017 | → |
| Integrating Clinical and Multiple Omics Data for Prognostic Assessment across Human Cancers. | Zhu B et al. | — | 2017 | → |
| Integrative Analysis Identifies Four Molecular and Clinical Subsets in Uveal Melanoma. | Robertson AG et al. | — | 2017 | → |
| Integrative analysis of copy number and gene expression in breast cancer using formalin-fixed paraffin-embedded core biopsy tissue: a feasibility study. | Iddawela M et al. | — | 2017 | → |
| Integrative analysis of genome-wide gene copy number changes and gene expression in non-small cell lung cancer. | Jabs V et al. | — | 2017 | → |
| Intraindividual genomic heterogeneity of high-grade serous carcinoma of the ovary and clinical utility of ascitic cancer cells for mutation profiling. | Choi YJ et al. | — | 2017 | → |
| In vivo CRISPR screening identifies Ptpn2 as a cancer immunotherapy target. | Manguso RT et al. | — | 2017 | → |
| KLF6 depletion promotes NF-κB signaling in glioblastoma. | Masilamani AP et al. | — | 2017 | → |
| Microarray analysis of copy-number variations and gene expression profiles in prostate cancer. | Han Y et al. | — | 2017 | → |
| modSaRa: a computationally efficient R package for CNV identification. | Xiao F et al. | — | 2017 | → |
| Molecular analysis of high-grade serous ovarian carcinoma with and without associated serous tubal intra-epithelial carcinoma. | Ducie J et al. | — | 2017 | → |
| Multi-omics analysis of primary glioblastoma cell lines shows recapitulation of pivotal molecular features of parental tumors. | Rosenberg S et al. | — | 2017 | → |
| Mutational patterns in chemotherapy resistant muscle-invasive bladder cancer. | Liu D et al. | — | 2017 | → |
| Next-Generation Assessment of Human Epidermal Growth Factor Receptor 2 (ERBB2) Amplification Status: Clinical Validation in the Context of a Hybrid Capture-Based, Comprehensive Solid Tumor Genomic Profiling Assay. | Ross DS et al. | — | 2017 | → |
| Novel near-diploid ovarian cancer cell line derived from a highly aneuploid metastatic ovarian tumor. | Rozenblum E et al. | — | 2017 | → |
| On optimal multiple changepoint algorithms for large data. | Maidstone R et al. | — | 2017 | → |
| Passage-dependent accumulation of somatic mutations in mesenchymal stromal cells during in vitro culture revealed by whole genome sequencing. | Kim M et al. | — | 2017 | → |
| Pediatric non-Down syndrome acute megakaryoblastic leukemia is characterized by distinct genomic subsets with varying outcomes. | de Rooij JD et al. | — | 2017 | → |
| Performance of four modern whole genome amplification methods for copy number variant detection in single cells. | Deleye L et al. | — | 2017 | → |
| Preclinical and clinical implications of <i>TERT</i> promoter mutation in glioblastoma multiforme. | Jeong DE et al. | — | 2017 | → |
| Prediction of peripheral neuropathy in multiple myeloma patients receiving bortezomib and thalidomide: a genetic study based on a single nucleotide polymorphism array. | García-Sanz R et al. | — | 2017 | → |
| Resolving the phylogenetic origin of glioblastoma via multifocal genomic analysis of pre-treatment and treatment-resistant autopsy specimens. | Brastianos PK et al. | — | 2017 | → |
| Scalable whole-exome sequencing of cell-free DNA reveals high concordance with metastatic tumors. | Adalsteinsson VA et al. | — | 2017 | → |
| Sequencing thousands of single-cell genomes with combinatorial indexing. | Vitak SA et al. | — | 2017 | → |
| Shallow Whole Genome Sequencing on Circulating Cell-Free DNA Allows Reliable Noninvasive Copy-Number Profiling in Neuroblastoma Patients. | Van Roy N et al. | — | 2017 | → |
| SLMSuite: a suite of algorithms for segmenting genomic profiles. | Orlandini V et al. | — | 2017 | → |
| Small chromosomal regions position themselves autonomously according to their chromatin class. | van de Werken HJG et al. | — | 2017 | → |
| Sox17 drives functional engraftment of endothelium converted from non-vascular cells. | Schachterle W et al. | — | 2017 | → |
| Statistical Contributions to Bioinformatics: Design, Modeling, Structure Learning, and Integration. | Morris JS et al. | — | 2017 | → |
| SynthEx: a synthetic-normal-based DNA sequencing tool for copy number alteration detection and tumor heterogeneity profiling. | Silva GO et al. | — | 2017 | → |
| TACO produces robust multisample transcriptome assemblies from RNA-seq. | Niknafs YS et al. | — | 2017 | → |
| Targeted exome sequencing and chromosomal microarray for the molecular diagnosis of nevoid basal cell carcinoma syndrome. | Matsudate Y et al. | — | 2017 | → |
| tGBS® genotyping-by-sequencing enables reliable genotyping of heterozygous loci. | Ott A et al. | — | 2017 | → |
| The AURORA pilot study for molecular screening of patients with advanced breast cancer-a study of the breast international group. | Maetens M et al. | — | 2017 | → |
| The epigenetic landscape of Alu repeats delineates the structural and functional genomic architecture of colon cancer cells. | Jordà M et al. | — | 2017 | → |
| The evolutionary landscape of chronic lymphocytic leukemia treated with ibrutinib targeted therapy. | Landau DA et al. | — | 2017 | → |
| The genomic landscape of pediatric myelodysplastic syndromes. | Schwartz JR et al. | — | 2017 | → |
| Whole exome association of rare deletions in multiplex oral cleft families. | Fu J et al. | — | 2017 | → |
| Whole-exome sequencing identified mutational profiles of high-grade colon adenomas. | Lee SH et al. | — | 2017 | → |
| Whole exome sequencing of an asbestos-induced wild-type murine model of malignant mesothelioma. | Sneddon S et al. | — | 2017 | → |
| Whole Exome Sequencing of Growing and Non-Growing Cutaneous Neurofibromas from a Single Patient with Neurofibromatosis Type 1. | Faden DL et al. | — | 2017 | → |
| A Biobank of Breast Cancer Explants with Preserved Intra-tumor Heterogeneity to Screen Anticancer Compounds. | Bruna A et al. | — | 2016 | → |
| A comparative assessment of clinical whole exome and transcriptome profiling across sequencing centers: implications for precision cancer medicine. | Van Allen EM et al. | — | 2016 | → |
| A genetic basis for the variation in the vulnerability of cancer to DNA damage. | Yard BD et al. | — | 2016 | → |
| A Meta-Analysis of Retinoblastoma Copy Numbers Refines the List of Possible Driver Genes Involved in Tumor Progression. | Kooi IE et al. | — | 2016 | → |
| A Method for Checking Genomic Integrity in Cultured Cell Lines from SNP Genotyping Data. | Danecek P et al. | — | 2016 | → |
| An integrated analysis tool for analyzing hybridization intensities and genotypes using new-generation population-optimized human arrays. | Huang MC et al. | — | 2016 | → |
| An Integrated Approach for RNA-seq Data Normalization. | Yang S et al. | — | 2016 | → |
| A potential founder variant in <i>CARMIL2/RLTPR</i> in three Norwegian families with warts, molluscum contagiosum, and T-cell dysfunction. | Sorte HS et al. | — | 2016 | → |
| A primer on precision medicine informatics. | Sboner A et al. | — | 2016 | → |
| A semiparametric Bayesian model for comparing DNA copy numbers. | Nieto-Barajas L et al. | — | 2016 | → |
| Assessment of megabase-scale somatic copy number variation using single-cell sequencing. | Knouse KA et al. | — | 2016 | → |
| Characterization of copy number alterations in a mouse model of fibrosis-associated hepatocellular carcinoma reveals concordance with human disease. | Chappell G et al. | — | 2016 | → |
| Clinical and genomic evaluation of a Chinese patient with a novel deletion associated with Phelan-McDermid syndrome. | Lei D et al. | — | 2016 | → |
| Clinical validation of a noninvasive prenatal test for genomewide detection of fetal copy number variants. | Lefkowitz RB et al. | — | 2016 | → |
| Clonal evolution of glioblastoma under therapy. | Wang J et al. | — | 2016 | → |
| CloneCNA: detecting subclonal somatic copy number alterations in heterogeneous tumor samples from whole-exome sequencing data. | Yu Z et al. | — | 2016 | → |
| CNARA: reliability assessment for genomic copy number profiles. | Ai N et al. | — | 2016 | → |
| CNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing. | Talevich E et al. | — | 2016 | → |
| Comparative genomic analysis of primary tumors and metastases in breast cancer. | Bertucci F et al. | — | 2016 | → |
| Comprehensive Analysis of Genome Rearrangements in Eight Human Malignant Tumor Tissues. | Marczok S et al. | — | 2016 | → |
| Comprehensive genomic characterization of five canine lymphoid tumor cell lines. | Roode SC et al. | — | 2016 | → |
| Concurrent detection of targeted copy number variants and mutations using a myeloid malignancy next generation sequencing panel allows comprehensive genetic analysis using a single testing strategy. | Shen W et al. | — | 2016 | → |
| Copy number variants calling for single cell sequencing data by multi-constrained optimization. | Xu B et al. | — | 2016 | → |
| Copy number variants in the sheep genome detected using multiple approaches. | Jenkins GM et al. | — | 2016 | → |
| Copy number variation in archival melanoma biopsies versus benign melanocytic lesions. | Mahas A et al. | — | 2016 | → |
| CTLPScanner: a web server for chromothripsis-like pattern detection. | Yang J et al. | — | 2016 | → |
| Deletion and low expression of NFKBIA are associated with poor prognosis in lower-grade glioma patients. | Kinker GS et al. | — | 2016 | → |
| Detailed gene dose analysis reveals recurrent focal gene deletions in pediatric B-cell precursor acute lymphoblastic leukemia. | Ivanov Öfverholm I et al. | — | 2016 | → |
| Discovering Recurrent Copy Number Aberrations in Complex Patterns via Non-Negative Sparse Singular Value Decomposition. | Xi J et al. | — | 2016 | → |
| Distinct patterns of somatic genome alterations in lung adenocarcinomas and squamous cell carcinomas. | Campbell JD et al. | — | 2016 | → |
| Evaluation of somatic copy number estimation tools for whole-exome sequencing data. | Nam JY et al. | — | 2016 | → |
| Exocytosis of polyubiquitinated proteins in bortezomib-resistant leukemia cells: a role for MARCKS in acquired resistance to proteasome inhibitors. | Franke NE et al. | — | 2016 | → |
| Exome sequencing in mostly consanguineous Arab families with neurologic disease provides a high potential molecular diagnosis rate. | Charng WL et al. | — | 2016 | → |
| FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing. | Shen R et al. | — | 2016 | → |
| Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression. | Wiedenhoeft J et al. | — | 2016 | → |
| GeneBreak: detection of recurrent DNA copy number aberration-associated chromosomal breakpoints within genes. | van den Broek E et al. | — | 2016 | → |
| Genomic evolution and chemoresistance in germ-cell tumours. | Taylor-Weiner A et al. | — | 2016 | → |
| Genomic heterogeneity of multiple synchronous lung cancer. | Liu Y et al. | — | 2016 | → |
| Genomic profiling of stage II and III colon cancers reveals APC mutations to be associated with survival in stage III colon cancer patients. | van den Broek E et al. | — | 2016 | → |
| Human centromere repositioning within euchromatin after partial chromosome deletion. | Sullivan LL et al. | — | 2016 | → |
| Independent Tumor Origin in Two Cases of Synchronous Bilateral Clear Cell Renal Cell Carcinoma. | Ji Z et al. | — | 2016 | → |
| Indexing Effects of Copy Number Variation on Genes Involved in Developmental Delay. | Uddin M et al. | — | 2016 | → |
| Integrated genomic profiling identifies microRNA-92a regulation of IQGAP2 in locally advanced rectal cancer. | Pelossof R et al. | — | 2016 | → |
| Language-Agnostic Reproducible Data Analysis Using Literate Programming. | Vassilev B et al. | — | 2016 | → |
| Loss of IFN-γ Pathway Genes in Tumor Cells as a Mechanism of Resistance to Anti-CTLA-4 Therapy. | Gao J et al. | — | 2016 | → |
| Loss of the HVEM Tumor Suppressor in Lymphoma and Restoration by Modified CAR-T Cells. | Boice M et al. | — | 2016 | → |
| metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data. | Jühling F et al. | — | 2016 | → |
| Molecular etiology of arthrogryposis in multiple families of mostly Turkish origin. | Bayram Y et al. | — | 2016 | → |
| Monoallelic and biallelic deletions of 13q14 in a group of CLL/SLL patients investigated by CGH Haematological Cancer and SNP array (8x60K). | Grygalewicz B et al. | — | 2016 | → |
| Mutational landscape of EGFR-, MYC-, and Kras-driven genetically engineered mouse models of lung adenocarcinoma. | McFadden DG et al. | — | 2016 | → |
| Mutational landscape of uterine and ovarian carcinosarcomas implicates histone genes in epithelial-mesenchymal transition. | Zhao S et al. | — | 2016 | → |
| Mutations in TSC1, TSC2, and MTOR Are Associated with Response to Rapalogs in Patients with Metastatic Renal Cell Carcinoma. | Kwiatkowski DJ et al. | — | 2016 | → |
| nbCNV: a multi-constrained optimization model for discovering copy number variants in single-cell sequencing data. | Zhang C et al. | — | 2016 | → |
| Neoadjuvant tamoxifen synchronizes ERα binding and gene expression profiles related to outcome and proliferation. | Severson TM et al. | — | 2016 | → |
| Optimization of Signal Decomposition Matched Filtering (SDMF) for Improved Detection of Copy-Number Variations. | Stamoulis C et al. | — | 2016 | → |
| Performance of a TthPrimPol-based whole genome amplification kit for copy number alteration detection using massively parallel sequencing. | Deleye L et al. | — | 2016 | → |
| Platform-Independent Genome-Wide Pattern of DNA Copy-Number Alterations Predicting Astrocytoma Survival and Response to Treatment Revealed by the GSVD Formulated as a Comparative Spectral Decomposition. | Aiello KA et al. | — | 2016 | → |
| Punctuated copy number evolution and clonal stasis in triple-negative breast cancer. | Gao R et al. | — | 2016 | → |
| rCGH: a comprehensive array-based genomic profile platform for precision medicine. | Commo F et al. | — | 2016 | → |
| Recurrent somatic mutations in POLR2A define a distinct subset of meningiomas. | Clark VE et al. | — | 2016 | → |
| Reduced cohesin destabilizes high-level gene amplification by disrupting pre-replication complex bindings in human cancers with chromosomal instability. | Yun J et al. | — | 2016 | → |
| Reduced expression of APC-1B but not APC-1A by the deletion of promoter 1B is responsible for familial adenomatous polyposis. | Yamaguchi K et al. | — | 2016 | → |
| Sensitivity Analysis of the MGMT-STP27 Model and Impact of Genetic and Epigenetic Context to Predict the MGMT Methylation Status in Gliomas and Other Tumors. | Bady P et al. | — | 2016 | → |
| Sequential model selection-based segmentation to detect DNA copy number variation. | Hu J et al. | — | 2016 | → |
| SMASH, a fragmentation and sequencing method for genomic copy number analysis. | Wang Z et al. | — | 2016 | → |
| Spatial intratumoral heterogeneity and temporal clonal evolution in esophageal squamous cell carcinoma. | Hao JJ et al. | — | 2016 | → |
| Statistical Inference in Hidden Markov Models Using <i>k</i>-Segment Constraints. | Titsias MK et al. | — | 2016 | → |
| Stepwise Signal Extraction via Marginal Likelihood. | Du C et al. | — | 2016 | → |
| The genomic landscape of core-binding factor acute myeloid leukemias. | Faber ZJ et al. | — | 2016 | → |
| THE SCREENING AND RANKING ALGORITHM FOR CHANGE-POINTS DETECTION IN MULTIPLE SAMPLES. | Song C et al. | — | 2016 | → |
| Transcriptomic analyses of the radiation response in head and neck squamous cell carcinoma subclones with different radiation sensitivity: time-course gene expression profiles and gene association networks. | Michna A et al. | — | 2016 | → |
| Two classes of intrahepatic cholangiocarcinoma defined by relative abundance of mutations and copy number alterations. | Kim YH et al. | — | 2016 | → |
| Type II enteropathy-associated T-cell lymphoma features a unique genomic profile with highly recurrent SETD2 alterations. | Roberti A et al. | — | 2016 | → |
| Acquirement of DNA copy number variations in non-small cell lung cancer metastasis to the brain. | Li F et al. | — | 2015 | → |
| A Cre-conditional MYCN-driven neuroblastoma mouse model as an improved tool for preclinical studies. | Althoff K et al. | — | 2015 | → |
| A decade of structural variants: description, history and methods to detect structural variation. | Escaramís G et al. | — | 2015 | → |
| A genome-wide copy number variant study of suicidal behavior. | Gross JA et al. | — | 2015 | → |
| Allele-specific copy-number discovery from whole-genome and whole-exome sequencing. | Wang W et al. | — | 2015 | → |
| Allele-specific copy number profiling by next-generation DNA sequencing. | Chen H et al. | — | 2015 | → |
| An Integrative Analysis to Identify Driver Genes in Esophageal Squamous Cell Carcinoma. | Sawada G et al. | — | 2015 | → |
| An integrative approach identified genes associated with drug response in gastric cancer. | Zhou J et al. | — | 2015 | → |
| arrayMap 2014: an updated cancer genome resource. | Cai H et al. | — | 2015 | → |
| A simplified interventional mapping system (SIMS) for the selection of combinations of targeted treatments in non-small cell lung cancer. | Lazar V et al. | — | 2015 | → |
| A Statistical Method for Identifying Trait-Associated Copy Number Variants. | Jeng J et al. | — | 2015 | → |
| A Two-Sample Test for Equality of Means in High Dimension. | Gregory KB et al. | — | 2015 | → |
| Changepoint detection in base-resolution methylome data reveals a robust signature of methylated domain landscape. | Yokoyama T et al. | — | 2015 | → |
| Characterization of a novel radiation-induced sarcoma cell line. | Lang J et al. | — | 2015 | → |
| Clinical implementation of integrated whole-genome copy number and mutation profiling for glioblastoma. | Ramkissoon SH et al. | — | 2015 | → |
| Clonal origins and parallel evolution of regionally synchronous colorectal adenoma and carcinoma. | Kim TM et al. | — | 2015 | → |
| cnvCurator: an interactive visualization and editing tool for somatic copy number variations. | Ma L et al. | — | 2015 | → |
| CODEX: a normalization and copy number variation detection method for whole exome sequencing. | Jiang Y et al. | — | 2015 | → |
| Collaborative regression. | Gross SM et al. | — | 2015 | → |
| Combined clinical and genomic signatures for the prognosis of early stage non-small cell lung cancer based on gene copy number alterations. | Aramburu A et al. | — | 2015 | → |
| Comparative analysis of methods for identifying somatic copy number alterations from deep sequencing data. | Alkodsi A et al. | — | 2015 | → |
| Comprehensive mutation profiling by next-generation sequencing of effusion fluids from patients with high-grade serous ovarian carcinoma. | Shah RH et al. | — | 2015 | → |
| CoNCoS: copy number estimation in cancer with controlled support. | Abdallah AT et al. | — | 2015 | → |
| Consistent testing for recurrent genomic aberrations. | Walter V et al. | — | 2015 | → |
| CopywriteR: DNA copy number detection from off-target sequence data. | Kuilman T et al. | — | 2015 | → |
| Deep intronic GPR143 mutation in a Japanese family with ocular albinism. | Naruto T et al. | — | 2015 | → |
| Detection, Characterization, and Inhibition of FGFR-TACC Fusions in IDH Wild-type Glioma. | Di Stefano AL et al. | — | 2015 | → |
| Detection of fetal subchromosomal abnormalities by sequencing circulating cell-free DNA from maternal plasma. | Zhao C et al. | — | 2015 | → |
| Detection of Local DNA Copy Number Changes in Lung Cancer Population Analyses Using A Multi-Scale Approach. | Kachouie NN et al. | — | 2015 | → |
| Developmental genes significantly afflicted by aberrant promoter methylation and somatic mutation predict overall survival of late-stage colorectal cancer. | An N et al. | — | 2015 | → |
| Development and Validation of a Gene-Based Model for Outcome Prediction in Germ Cell Tumors Using a Combined Genomic and Expression Profiling Approach. | Korkola JE et al. | — | 2015 | → |
| DNA copy number analysis of Grade II-III and Grade IV gliomas reveals differences in molecular ontogeny including chromothripsis associated with IDH mutation status. | Cohen A et al. | — | 2015 | → |
| ENVE: a novel computational framework characterizes copy-number mutational landscapes in colorectal cancers from African American patients. | Varadan V et al. | — | 2015 | → |
| Exome sequence read depth methods for identifying copy number changes. | Kadalayil L et al. | — | 2015 | → |
| Exome sequencing of hepatocellular carcinomas identifies new mutational signatures and potential therapeutic targets. | Schulze K et al. | — | 2015 | → |
| Genes that Affect Brain Structure and Function Identified by Rare Variant Analyses of Mendelian Neurologic Disease. | Karaca E et al. | — | 2015 | → |
| Genome instability model of metastatic neuroblastoma tumorigenesis by a dictionary learning algorithm. | Masecchia S et al. | — | 2015 | → |
| Genome-wide assessment of recurrent genomic imbalances in canine leukemia identifies evolutionarily conserved regions for subtype differentiation. | Roode SC et al. | — | 2015 | → |
| Genomic landscape of liposarcoma. | Kanojia D et al. | — | 2015 | → |
| Genomic spectra of biliary tract cancer. | Nakamura H et al. | — | 2015 | → |
| Global transcriptional disturbances underlie Cornelia de Lange syndrome and related phenotypes. | Yuan B et al. | — | 2015 | → |
| High Prevalence and Clinical Relevance of Genes Affected by Chromosomal Breaks in Colorectal Cancer. | van den Broek E et al. | — | 2015 | → |
| Histone H3F3A and HIST1H3B K27M mutations define two subgroups of diffuse intrinsic pontine gliomas with different prognosis and phenotypes. | Castel D et al. | — | 2015 | → |
| Hybrid algorithms for multiple change-point detection in biological sequences. | Priyadarshana M et al. | — | 2015 | → |
| Identification of Copy Number Aberrations in Breast Cancer Subtypes Using Persistence Topology. | Arsuaga J et al. | — | 2015 | → |
| Identifying rhesus macaque gene orthologs using heterospecific human CNV probes. | Ng J et al. | — | 2015 | → |
| IMP2/p62 induces genomic instability and an aggressive hepatocellular carcinoma phenotype. | Kessler SM et al. | — | 2015 | → |
| Impact of Parental Bos taurus and Bos indicus Origins on Copy Number Variation in Traditional Chinese Cattle Breeds. | Zhang L et al. | — | 2015 | → |
| Integrative clinical genomics of advanced prostate cancer. | Robinson D et al. | — | 2015 | → |
| Intra- and inter-tumor heterogeneity in a vemurafenib-resistant melanoma patient and derived xenografts. | Kemper K et al. | — | 2015 | → |
| Memorial Sloan Kettering-Integrated Mutation Profiling of Actionable Cancer Targets (MSK-IMPACT): A Hybridization Capture-Based Next-Generation Sequencing Clinical Assay for Solid Tumor Molecular Oncology. | Cheng DT et al. | — | 2015 | → |
| Microsatellite instability and mutations in BRAF and KRAS are significant predictors of disseminated disease in colon cancer. | Birgisson H et al. | — | 2015 | → |
| Modeling the next generation sequencing read count data for DNA copy number variant study. | Ji T et al. | — | 2015 | → |
| Modified screening and ranking algorithm for copy number variation detection. | Xiao F et al. | — | 2015 | → |
| Multiple Break-Points Detection in Array CGH Data via the Cross-Entropy Method. | Priyadarshana WJ et al. | — | 2015 | → |
| Mutational Landscapes of Sequential Prostate Metastases and Matched Patient Derived Xenografts during Enzalutamide Therapy. | Kohli M et al. | — | 2015 | → |
| New mutations in the RAB28 gene in 2 Spanish families with cone-rod dystrophy. | Riveiro-Álvarez R et al. | — | 2015 | → |
| Novel oncogene and tumor suppressor mutations in KIT and PDGFRA wild type gastrointestinal stromal tumors revealed by next generation sequencing. | Hechtman JF et al. | — | 2015 | → |
| Overlapping DNA methylation dynamics in mouse intestinal cell differentiation and early stages of malignant progression. | Forn M et al. | — | 2015 | → |
| Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer. | Torabi K et al. | — | 2015 | → |
| PAX5 is a tumor suppressor in mouse mutagenesis models of acute lymphoblastic leukemia. | Dang J et al. | — | 2015 | → |
| Penalized weighted low-rank approximation for robust recovery of recurrent copy number variations. | Gao X | — | 2015 | → |
| Performance evaluation of DNA copy number segmentation methods. | Pierre-Jean M et al. | — | 2015 | → |
| Prediction of clinical phenotypes in invasive breast carcinomas from the integration of radiomics and genomics data. | Guo W et al. | — | 2015 | → |
| Putative effectors for prognosis in lung adenocarcinoma are ethnic and gender specific. | Woolston A et al. | — | 2015 | → |
| Reconstructing breakage fusion bridge architectures using noisy copy numbers. | Zakov S et al. | — | 2015 | → |
| Reduced rate of copy number aberrations in mucinous colorectal carcinoma. | Hugen N et al. | — | 2015 | → |
| SAAS-CNV: A Joint Segmentation Approach on Aggregated and Allele Specific Signals for the Identification of Somatic Copy Number Alterations with Next-Generation Sequencing Data. | Zhang Z et al. | — | 2015 | → |
| Single cell-derived clonal analysis of human glioblastoma links functional and genomic heterogeneity. | Meyer M et al. | — | 2015 | → |
| Stratifying tumour subtypes based on copy number alteration profiles using next-generation sequence data. | Gusnanto A et al. | — | 2015 | → |
| Structural variation discovery in the cancer genome using next generation sequencing: computational solutions and perspectives. | Liu B et al. | — | 2015 | → |
| Tensor GSVD of patient- and platform-matched tumor and normal DNA copy-number profiles uncovers chromosome arm-wide patterns of tumor-exclusive platform-consistent alterations encoding for cell transformation and predicting ovarian cancer survival. | Sankaranarayanan P et al. | — | 2015 | → |
| The UBC-40 Urothelial Bladder Cancer cell line index: a genomic resource for functional studies. | Earl J et al. | — | 2015 | → |
| UrQt: an efficient software for the Unsupervised Quality trimming of NGS data. | Modolo L et al. | — | 2015 | → |
| Variation in crossover frequencies perturb crossover assurance without affecting meiotic chromosome segregation in Saccharomyces cerevisiae. | Krishnaprasad GN et al. | — | 2015 | → |
| VEGAWES: variational segmentation on whole exome sequencing for copy number detection. | Anjum S et al. | — | 2015 | → |
| Whole-genome and multisector exome sequencing of primary and post-treatment glioblastoma reveals patterns of tumor evolution. | Kim H et al. | — | 2015 | → |
| 1p36 deletion is a marker for tumour dissemination in microsatellite stable stage II-III colon cancer. | Mayrhofer M et al. | — | 2014 | → |
| A Bayesian changepoint analysis of ChIP-Seq data of Lamin B. | Herrmann S et al. | — | 2014 | → |
| AbsCN-seq: a statistical method to estimate tumor purity, ploidy and absolute copy numbers from next-generation sequencing data. | Bao L et al. | — | 2014 | → |
| A community computational challenge to predict the activity of pairs of compounds. | Bansal M et al. | — | 2014 | → |
| A general framework for analyzing tumor subclonality using SNP array and DNA sequencing data. | Li B et al. | — | 2014 | → |
| A genome-wide study of de novo deletions identifies a candidate locus for non-syndromic isolated cleft lip/palate risk. | Younkin SG et al. | — | 2014 | → |
| Analysis of molecular cytogenetic alteration in rhabdomyosarcoma by array comparative genomic hybridization. | Liu C et al. | — | 2014 | → |
| Angiomatous meningiomas have a distinct genetic profile with multiple chromosomal polysomies including polysomy of chromosome 5. | Abedalthagafi MS et al. | — | 2014 | → |
| An integrative analysis of the tumorigenic role of TAZ in human non-small cell lung cancer. | Noguchi S et al. | — | 2014 | → |
| A novel PTCH1 mutation in a patient with Gorlin syndrome. | Okamoto N et al. | — | 2014 | → |
| Application of Machine Learning to Development of Copy Number Variation-based Prediction of Cancer Risk. | Ding X et al. | — | 2014 | → |
| Application of SNP microarrays to the genome-wide analysis of chromosomal instability in premalignant airway lesions. | Nakachi I et al. | — | 2014 | → |
| A recurrent inactivating mutation in RHOA GTPase in angioimmunoblastic T cell lymphoma. | Yoo HY et al. | — | 2014 | → |
| A robust approach for blind detection of balanced chromosomal rearrangements with whole-genome low-coverage sequencing. | Dong Z et al. | — | 2014 | → |
| A Single-Array-Based Method for Detecting Copy Number Variants Using Affymetrix High Density SNP Arrays and its Application to Breast Cancer. | Li M et al. | — | 2014 | → |
| Association between copy number variation losses and alcohol dependence across African American and European American ethnic groups. | Ulloa AE et al. | — | 2014 | → |
| Autoregressive higher-order hidden Markov models: exploiting local chromosomal dependencies in the analysis of tumor expression profiles. | Seifert M et al. | — | 2014 | → |
| BCRgt: a Bayesian cluster regression-based genotyping algorithm for the samples with copy number alterations. | Yang S et al. | — | 2014 | → |
| BET bromodomain inhibition of MYC-amplified medulloblastoma. | Bandopadhayay P et al. | — | 2014 | → |
| biomvRhsmm: genomic segmentation with hidden semi-Markov model. | Du Y et al. | — | 2014 | → |
| Changes in colorectal carcinoma genomes under anti-EGFR therapy identified by whole-genome plasma DNA sequencing. | Mohan S et al. | — | 2014 | → |
| Characterization of the genomic architecture and mutational spectrum of a small cell prostate carcinoma. | Scott AF et al. | — | 2014 | → |
| Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens. | Cai H et al. | — | 2014 | → |
| c-Myc and Her2 cooperate to drive a stem-like phenotype with poor prognosis in breast cancer. | Nair R et al. | — | 2014 | → |
| Combined analysis of gene expression, DNA copy number, and mutation profiling data to display biological process anomalies in individual breast cancers. | Shi W et al. | — | 2014 | → |
| Common copy number variation detection from multiple sequenced samples. | Duan J et al. | — | 2014 | → |
| Comparative oncogenomics identifies PSMB4 and SHMT2 as potential cancer driver genes. | Lee GY et al. | — | 2014 | → |
| Comparing DNA integration site clusters with scan statistics. | Berry CC et al. | — | 2014 | → |
| Computational methods for DNA copy-number analysis of tumors. | Kendall J et al. | — | 2014 | → |
| Copy number variation analysis based on AluScan sequences. | Yang JF et al. | — | 2014 | → |
| Copy number variation analysis in the context of electronic medical records and large-scale genomics consortium efforts. | Connolly JJ et al. | — | 2014 | → |
| COVARIANCE ASSISTED SCREENING AND ESTIMATION. | Ke BT et al. | — | 2014 | → |
| dCaP: detecting differential binding events in multiple conditions and proteins. | Chen KB et al. | — | 2014 | → |
| Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity. | Li Y et al. | — | 2014 | → |
| Deep sequencing reveals clonal evolution patterns and mutation events associated with relapse in B-cell lymphomas. | Jiang Y et al. | — | 2014 | → |
| Deregulation of COMMD1 is associated with poor prognosis in diffuse large B-cell lymphoma. | Taskinen M et al. | — | 2014 | → |
| Detecting independent and recurrent copy number aberrations using interval graphs. | Wu HT et al. | — | 2014 | → |
| Detection of candidate tumor driver genes using a fully integrated Bayesian approach. | Yang J et al. | — | 2014 | → |
| Detection of copy number variations and their effects in Chinese bulls. | Zhang L et al. | — | 2014 | → |
| DNA methylation changes in genes frequently mutated in sporadic colorectal cancer and in the DNA repair and Wnt/β-catenin signaling pathway genes. | Farkas SA et al. | — | 2014 | → |
| eMBI: Boosting Gene Expression-based Clustering for Cancer Subtypes. | Chang Z et al. | — | 2014 | → |
| Epigenetics and the evolution of Darwin's Finches. | Skinner MK et al. | — | 2014 | → |
| Estimating optimal window size for analysis of low-coverage next-generation sequence data. | Gusnanto A et al. | — | 2014 | → |
| Focal adhesion kinase: an alternative focus for anti-angiogenesis therapy in ovarian cancer. | Stone RL et al. | — | 2014 | → |
| Focal chromosomal copy number aberrations in cancer-Needles in a genome haystack. | Krijgsman O et al. | — | 2014 | → |
| FOXO1 downregulation contributes to the oncogenic program of primary mediastinal B-cell lymphoma. | Xie L et al. | — | 2014 | → |
| Frequent disruption of the RB pathway in indolent follicular lymphoma suggests a new combination therapy. | Oricchio E et al. | — | 2014 | → |
| Frequent mutations in chromatin-remodelling genes in pulmonary carcinoids. | Fernandez-Cuesta L et al. | — | 2014 | → |
| Fusion of TTYH1 with the C19MC microRNA cluster drives expression of a brain-specific DNMT3B isoform in the embryonal brain tumor ETMR. | Kleinman CL et al. | — | 2014 | → |
| Gene-dosage dependent overexpression at the 13q amplicon identifies DIS3 as candidate oncogene in colorectal cancer progression. | de Groen FL et al. | — | 2014 | → |
| Genome-wide analysis of esophageal adenocarcinoma yields specific copy number aberrations that correlate with prognosis. | Frankel A et al. | — | 2014 | → |
| Genome-wide copy number analysis of cerebrospinal fluid tumor cells and their corresponding archival primary tumors. | Magbanua MJ et al. | — | 2014 | → |
| Genome-wide detection of copy number variations among diverse horse breeds by array CGH. | Wang W et al. | — | 2014 | → |
| Genomic landscape of metastatic colorectal cancer. | Haan JC et al. | — | 2014 | → |
| Global patterns of apparent copy number variation in birds revealed by cross-species comparative genomic hybridization. | Skinner BM et al. | — | 2014 | → |
| HaplotypeCN: copy number haplotype inference with Hidden Markov Model and localized haplotype clustering. | Lin YJ et al. | — | 2014 | → |
| High resolution copy number variation data in the NCI-60 cancer cell lines from whole genome microarrays accessible through CellMiner. | Varma S et al. | — | 2014 | → |
| Human CLP1 mutations alter tRNA biogenesis, affecting both peripheral and central nervous system function. | Karaca E et al. | — | 2014 | → |
| Identification of functional cooperative mutations of SETD2 in human acute leukemia. | Zhu X et al. | — | 2014 | → |
| Identification of genomic alterations in oesophageal squamous cell cancer. | Song Y et al. | — | 2014 | → |
| Identification of medium-sized copy number alterations in whole-genome sequencing. | Ozer HG et al. | — | 2014 | → |
| Identifying multiple change points in a linear mixed effects model. | Lai Y et al. | — | 2014 | → |
| Identifying structural variation in haploid microbial genomes from short-read resequencing data using breseq. | Barrick JE et al. | — | 2014 | → |
| Improving Detection of Driver Genes: Power-Law Null Model of Copy Number Variation in Cancer. | Loohuis LO et al. | — | 2014 | → |
| IndividualizedPath: identifying genetic alterations contributing to the dysfunctional pathways in glioblastoma individuals. | Ping Y et al. | — | 2014 | → |
| Inferring copy number and genotype in tumour exome data. | Amarasinghe KC et al. | — | 2014 | → |
| Integrated genomic analysis identifies recurrent mutations and evolution patterns driving the initiation and progression of follicular lymphoma. | Okosun J et al. | — | 2014 | → |
| Integrated genomic and epigenomic analysis of breast cancer brain metastasis. | Salhia B et al. | — | 2014 | → |
| Integrative analysis of transcriptional regulatory network and copy number variation in intrahepatic cholangiocarcinoma. | Li L et al. | — | 2014 | → |
| Integrative genomic and transcriptomic characterization of papillary carcinomas of the breast. | Piscuoglio S et al. | — | 2014 | → |
| Interstitial microduplication at 2p11.2 in a patient with syndromic intellectual disability: 30-year follow-up. | Jun KR et al. | — | 2014 | → |
| Intracystic papillary carcinoma of breast: interrelationship with in situ and invasive carcinoma and a proposal of pathogenesis: array comparative genomic hybridization study of 14 cases. | Khoury T et al. | — | 2014 | → |
| Investigating genomic structure using changept: A Bayesian segmentation model. | Algama M et al. | — | 2014 | → |
| Low-grade chromosomal mosaicism in human somatic and embryonic stem cell populations. | Jacobs K et al. | — | 2014 | → |
| Mate pair sequencing for the detection of chromosomal aberrations in patients with intellectual disability and congenital malformations. | Vergult S et al. | — | 2014 | → |
| Molecular sub-group-specific immunophenotypic changes are associated with outcome in recurrent posterior fossa ependymoma. | Hoffman LM et al. | — | 2014 | → |
| Mosaic loss of chromosome Y in peripheral blood is associated with shorter survival and higher risk of cancer. | Forsberg LA et al. | — | 2014 | → |
| Multi-factor data normalization enables the detection of copy number aberrations in amplicon sequencing data. | Boeva V et al. | — | 2014 | → |
| Multiple Components of the VHL Tumor Suppressor Complex Are Frequently Affected by DNA Copy Number Loss in Pheochromocytoma. | Rowbotham DA et al. | — | 2014 | → |
| New syngeneic inflammatory-related lung cancer metastatic model harboring double KRAS/WWOX alterations. | Bleau AM et al. | — | 2014 | → |
| Parametric modeling of whole-genome sequencing data for CNV identification. | Vardhanabhuti S et al. | — | 2014 | → |
| PatternCNV: a versatile tool for detecting copy number changes from exome sequencing data. | Wang C et al. | — | 2014 | → |
| Piecewise-constant and low-rank approximation for identification of recurrent copy number variations. | Zhou X et al. | — | 2014 | → |
| Prediction of MicroRNA Precursors Using Parsimonious Feature Sets. | Stepanowsky P et al. | — | 2014 | → |
| Profiling the tyrosine phosphoproteome of different mouse mammary tumour models reveals distinct, model-specific signalling networks and conserved oncogenic pathways. | Ali NA et al. | — | 2014 | → |
| PSCC: sensitive and reliable population-scale copy number variation detection method based on low coverage sequencing. | Li X et al. | — | 2014 | → |
| Recurrent ESR1-CCDC170 rearrangements in an aggressive subset of oestrogen receptor-positive breast cancers. | Veeraraghavan J et al. | — | 2014 | → |
| Reliable single cell array CGH for clinical samples. | Czyż ZT et al. | — | 2014 | → |
| Robust regression analysis of copy number variation data based on a univariate score. | Satten GA et al. | — | 2014 | → |
| Segmentor3IsBack: an R package for the fast and exact segmentation of Seq-data. | Cleynen A et al. | — | 2014 | → |
| Somatic mosaicism detected by exon-targeted, high-resolution aCGH in 10,362 consecutive cases. | Pham J et al. | — | 2014 | → |
| Spontaneous genomic alterations in a chimeric model of colorectal cancer enable metastasis and guide effective combinatorial therapy. | Zhou Y et al. | — | 2014 | → |
| SubcloneSeeker: a computational framework for reconstructing tumor clone structure for cancer variant interpretation and prioritization. | Qiao Y et al. | — | 2014 | → |
| The evolution of thymic lymphomas in p53 knockout mice. | Dudgeon C et al. | — | 2014 | → |
| The genetic basis for inactivation of Wnt pathway in human osteosarcoma. | Du X et al. | — | 2014 | → |
| The genetic landscape of clinical resistance to RAF inhibition in metastatic melanoma. | Van Allen EM et al. | — | 2014 | → |
| The prognostic role of intragenic copy number breakpoints and identification of novel fusion genes in paediatric high grade glioma. | Carvalho D et al. | — | 2014 | → |
| tigaR: integrative significance analysis of temporal differential gene expression induced by genomic abnormalities. | Miok V et al. | — | 2014 | → |
| TP53 mutational status is a potential marker for risk stratification in Wilms tumour with diffuse anaplasia. | Maschietto M et al. | — | 2014 | → |
| Trp53 haploinsufficiency modifies EGFR-driven peripheral nerve sheath tumorigenesis. | Rahrmann EP et al. | — | 2014 | → |
| Using high-density DNA methylation arrays to profile copy number alterations. | Feber A et al. | — | 2014 | → |
| VEGFA gene locus analysis across 80 human tumour types reveals gene amplification in several neoplastic entities. | Andreozzi M et al. | — | 2014 | → |
| ViVar: a comprehensive platform for the analysis and visualization of structural genomic variation. | Sante T et al. | — | 2014 | → |
| VTET: a variable threshold exact test for identifying disease-associated copy number variations enriched in short genomic regions. | Shi J et al. | — | 2014 | → |
| Whole-exome sequencing and clinical interpretation of formalin-fixed, paraffin-embedded tumor samples to guide precision cancer medicine. | Van Allen EM et al. | — | 2014 | → |
| Whole-genome sequencing and comprehensive molecular profiling identify new driver mutations in gastric cancer. | Wang K et al. | — | 2014 | → |
| A high-dimensional, deep-sequencing study of lung adenocarcinoma in female never-smokers. | Kim SC et al. | — | 2013 | → |
| A method for calling copy number polymorphism using haplotypes. | Ho Jang G et al. | — | 2013 | → |
| A method for finding consensus breakpoints in the cancer genome from copy number data. | Toloşi L et al. | — | 2013 | → |
| A novel measure of chromosome instability can account for prognostic difference in multiple myeloma. | Chung TH et al. | — | 2013 | → |
| A novel rearrangement of occludin causes brain calcification and renal dysfunction. | LeBlanc MA et al. | — | 2013 | → |
| A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data. | Sepúlveda N et al. | — | 2013 | → |
| A recurrent germline PAX5 mutation confers susceptibility to pre-B cell acute lymphoblastic leukemia. | Shah S et al. | — | 2013 | → |
| Array CGH in brain tumors. | Mohapatra G et al. | — | 2013 | → |
| Association testing to detect gene-gene interactions on sex chromosomes in trio data. | Lee Y et al. | — | 2013 | → |
| BAIT: Organizing genomes and mapping rearrangements in single cells. | Hills M et al. | — | 2013 | → |
| Breakpoint profiling of 64 cancer genomes reveals numerous complex rearrangements spawned by homology-independent mechanisms. | Malhotra A et al. | — | 2013 | → |
| Clinical and biological relevance of genomic heterogeneity in chronic lymphocytic leukemia. | Friedman DR et al. | — | 2013 | → |
| CLL cells respond to B-Cell receptor stimulation with a microRNA/mRNA signature associated with MYC activation and cell cycle progression. | Pede V et al. | — | 2013 | → |
| Comparative Analysis of CNV Calling Algorithms: Literature Survey and a Case Study Using Bovine High-Density SNP Data. | Xu L et al. | — | 2013 | → |
| Comprehensive genome characterization of solitary fibrous tumors using high-resolution array-based comparative genomic hybridization. | Bertucci F et al. | — | 2013 | → |
| Computational methods for detecting copy number variations in cancer genome using next generation sequencing: principles and challenges. | Liu B et al. | — | 2013 | → |
| Computational tools for copy number variation (CNV) detection using next-generation sequencing data: features and perspectives. | Zhao M et al. | — | 2013 | → |
| Concurrent gene signatures for han chinese breast cancers. | Huang CC et al. | — | 2013 | → |
| Confirmation of the reported association of clonal chromosomal mosaicism with an increased risk of incident hematologic cancer. | Schick UM et al. | — | 2013 | → |
| CoNVEX: copy number variation estimation in exome sequencing data using HMM. | Amarasinghe KC et al. | — | 2013 | → |
| Copy number variation genotyping using family information. | Chu JH et al. | — | 2013 | → |
| Copy number variation in pediatric multiple sclerosis. | McElroy JP et al. | — | 2013 | → |
| Current analysis platforms and methods for detecting copy number variation. | Li W et al. | — | 2013 | → |
| Detection and interpretation of genomic structural variation in health and disease. | Vandeweyer G et al. | — | 2013 | → |
| Detection limit of intragenic deletions with targeted array comparative genomic hybridization. | Askree SH et al. | — | 2013 | → |
| Detection of structural DNA variation from next generation sequencing data: a review of informatic approaches. | Abel HJ et al. | — | 2013 | → |
| Distinguishing somatic and germline copy number events in cancer patient DNA hybridized to whole-genome SNP genotyping arrays. | Ha G et al. | — | 2013 | → |
| Evaluation of calling algorithms for array-CGH. | Roy S et al. | — | 2013 | → |
| Evolution of aneuploidy up to Day 4 of human preimplantation development. | Mertzanidou A et al. | — | 2013 | → |
| EXCAVATOR: detecting copy number variants from whole-exome sequencing data. | Magi A et al. | — | 2013 | → |
| Expanding probe repertoire and improving reproducibility in human genomic hybridization. | Dorman SN et al. | — | 2013 | → |
| Finding common regions of alteration in copy number data. | Rueda OM et al. | — | 2013 | → |
| FishingCNV: a graphical software package for detecting rare copy number variations in exome-sequencing data. | Shi Y et al. | — | 2013 | → |
| Focal DNA copy number changes in neuroblastoma target MYCN regulated genes. | Kumps C et al. | — | 2013 | → |
| Forward genetic screen for malignant peripheral nerve sheath tumor formation identifies new genes and pathways driving tumorigenesis. | Rahrmann EP et al. | — | 2013 | → |
| Functional analysis-make or break for cancer predictability. | Deniz M et al. | — | 2013 | → |
| Functional genomic analysis of chromosomal aberrations in a compendium of 8000 cancer genomes. | Kim TM et al. | — | 2013 | → |
| Functional performance of aCGH design for clinical cytogenetics. | Gambin T et al. | — | 2013 | → |
| Genome-wide copy number profiling of single cells in S-phase reveals DNA-replication domains. | Van der Aa N et al. | — | 2013 | → |
| Genome-wide DNA profiling of HIV-related B-cell lymphomas. | Rinaldi A et al. | — | 2013 | → |
| Genomic profiling of isolated circulating tumor cells from metastatic breast cancer patients. | Magbanua MJ et al. | — | 2013 | → |
| Genomic variation by whole-genome SNP mapping arrays predicts time-to-event outcome in patients with chronic lymphocytic leukemia: a comparison of CLL and HapMap genotypes. | Schweighofer CD et al. | — | 2013 | → |
| Identification of genomic functional hotspots with copy number alteration in liver cancer. | Hsiao TH et al. | — | 2013 | → |
| Identification of prognostic gene signatures of glioblastoma: a study based on TCGA data analysis. | Kim YW et al. | — | 2013 | → |
| Increased CNV-region deletions in mild cognitive impairment (MCI) and Alzheimer's disease (AD) subjects in the ADNI sample. | Guffanti G et al. | — | 2013 | → |
| Integrated analysis of genome-wide copy number alterations and gene expression in microsatellite stable, CpG island methylator phenotype-negative colon cancer. | Loo LW et al. | — | 2013 | → |
| Integrated genomic, transcriptomic, and RNA-interference analysis of genes in somatic copy number gains in pancreatic ductal adenocarcinoma. | Samuel N et al. | — | 2013 | → |
| Integrated high-resolution array CGH and SKY analysis of homozygous deletions and other genomic alterations present in malignant mesothelioma cell lines. | Klorin G et al. | — | 2013 | → |
| Integrated molecular portrait of non-small cell lung cancers. | Lazar V et al. | — | 2013 | → |
| Integrative prediction of gene function and platinum-free survival from genomic and epigenetic features in ovarian cancer. | Wrzeszczynski KO et al. | — | 2013 | → |
| Kernel-Based Aggregation of Marker-Level Genetic Association Tests Involving Copy-Number Variation. | Li Y et al. | — | 2013 | → |
| Large, male germ cell-specific hypomethylated DNA domains with unique genomic and epigenomic features on the mouse X chromosome. | Ikeda R et al. | — | 2013 | → |
| Mammalian Exo1 encodes both structural and catalytic functions that play distinct roles in essential biological processes. | Schaetzlein S et al. | — | 2013 | → |
| Massively parallel sequencing reveals an accumulation of de novo mutations and an activating mutation of LPAR1 in a patient with metastatic neuroblastoma. | Wei JS et al. | — | 2013 | → |
| Molecular profiling of tumor cells in cerebrospinal fluid and matched primary tumors from metastatic breast cancer patients with leptomeningeal carcinomatosis. | Magbanua MJ et al. | — | 2013 | → |
| Molecular screening for a personalized treatment approach in advanced adrenocortical cancer. | De Martino MC et al. | — | 2013 | → |
| Mosaic copy number variation in human neurons. | McConnell MJ et al. | — | 2013 | → |
| Multiple Change-Point Detection via a Screening and Ranking Algorithm. | Hao N et al. | — | 2013 | → |
| Multiple samples aCGH analysis for rare CNVs detection. | Sykulski M et al. | — | 2013 | → |
| Multisample aCGH data analysis via total variation and spectral regularization. | Zhou X et al. | — | 2013 | → |
| Neuron navigator 3 alterations in nervous system tumors associate with tumor malignancy grade and prognosis. | Carlsson E et al. | — | 2013 | → |
| Novel multisample scheme for inferring phylogenetic markers from whole genome tumor profiles. | Subramanian A et al. | — | 2013 | → |
| Oncodrive-CIS: a method to reveal likely driver genes based on the impact of their copy number changes on expression. | Tamborero D et al. | — | 2013 | → |
| PAIR: paired allelic log-intensity-ratio-based normalization method for SNP-CGH arrays. | Yang S et al. | — | 2013 | → |
| Pan-cancer patterns of somatic copy number alteration. | Zack TI et al. | — | 2013 | → |
| Quantifying copy number variations using a hidden Markov model with inhomogeneous emission distributions. | McCallum KJ et al. | — | 2013 | → |
| Rare genomic structural variants in complex disease: lessons from the replication of associations with obesity. | Walters RG et al. | — | 2013 | → |
| Recurrent chromosome abnormalities define nonoverlapping unique subgroups of tumors in patients with chronic lymphocytic leukemia and known karyotypic abnormalities. | Jimenez-Zepeda VH et al. | — | 2013 | → |
| Reduced burden of very large and rare CNVs in bipolar affective disorder. | Grozeva D et al. | — | 2013 | → |
| Resistance to CDK2 inhibitors is associated with selection of polyploid cells in CCNE1-amplified ovarian cancer. | Etemadmoghadam D et al. | — | 2013 | → |
| Simultaneous Discovery of Rare and Common Segment Variants. | Jeng XJ et al. | — | 2013 | → |
| SomatiCA: identifying, characterizing and quantifying somatic copy number aberrations from cancer genome sequencing data. | Chen M et al. | — | 2013 | → |
| SPARSE INTEGRATIVE CLUSTERING OF MULTIPLE OMICS DATA SETS. | Shen R et al. | — | 2013 | → |
| Synthetic lethality between CCNE1 amplification and loss of BRCA1. | Etemadmoghadam D et al. | — | 2013 | → |
| The Growing Importance of CNVs: New Insights for Detection and Clinical Interpretation. | Valsesia A et al. | — | 2013 | → |
| The molecular diversity of Luminal A breast tumors. | Ciriello G et al. | — | 2013 | → |
| The piggyBac transposon displays local and distant reintegration preferences and can cause mutations at noncanonical integration sites. | Li MA et al. | — | 2013 | → |
| The role of high-throughput technologies in clinical cancer genomics. | Idris SF et al. | — | 2013 | → |
| The tumorigenic FGFR3-TACC3 gene fusion escapes miR-99a regulation in glioblastoma. | Parker BC et al. | — | 2013 | → |
| TM4SF20 ancestral deletion and susceptibility to a pediatric disorder of early language delay and cerebral white matter hyperintensities. | Wiszniewski W et al. | — | 2013 | → |
| Tumor-associated copy number changes in the circulation of patients with prostate cancer identified through whole-genome sequencing. | Heitzer E et al. | — | 2013 | → |
| Use of autocorrelation scanning in DNA copy number analysis. | Zhang L et al. | — | 2013 | → |
| Using passenger mutations to estimate the timing of driver mutations and identify mutator alterations. | Youn A et al. | — | 2013 | → |
| Variable clonal repopulation dynamics influence chemotherapy response in colorectal cancer. | Kreso A et al. | — | 2013 | → |
| An Inv(16)(p13.3q24.3)-encoded CBFA2T3-GLIS2 fusion protein defines an aggressive subtype of pediatric acute megakaryoblastic leukemia. | Gruber TA et al. | — | 2012 | → |
| A pilot study on collective effects of 22q13.31 deletions on gray matter concentration in schizophrenia. | Liu J et al. | — | 2012 | → |
| A Semiparametric Change-Point Regression Model for Longitudinal Observations. | Xing H et al. | — | 2012 | → |
| CDX2 is an amplified lineage-survival oncogene in colorectal cancer. | Salari K et al. | — | 2012 | → |
| Comparative analysis of methods for identifying recurrent copy number alterations in cancer. | Yuan X et al. | — | 2012 | → |
| Copynumber: Efficient algorithms for single- and multi-track copy number segmentation. | Nilsen G et al. | — | 2012 | → |
| Fast detection of de novo copy number variants from SNP arrays for case-parent trios. | Scharpf RB et al. | — | 2012 | → |
| Genomic aberrations in normal tissue adjacent to HER2-amplified breast cancers: field cancerization or contaminating tumor cells? | Sadanandam A et al. | — | 2012 | → |
| Histotype-specific copy-number alterations in ovarian cancer. | Huang RY et al. | — | 2012 | → |
| Robust Detection and Identification of Sparse Segments in Ultra-High Dimensional Data Analysis. | Cai TT et al. | — | 2012 | → |
| Simple binary segmentation frameworks for identifying variation in DNA copy number. | Yang TY | — | 2012 | → |