gene expression phenotype
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Related entities (65)
Mentioned in (213)
Papers in which this entity is mentioned.
- Infant subcortical brain volumes associated with maternal obesity and diabetes: a large multicohort human study. (2026)
- Integrative epigenetics and transcriptomics identify aging genes in human blood. (2026)
- Consortium profile: the methylation, imaging and NeuroDevelopment (MIND) consortium. (2026)
- Advancing regulatory variant effect prediction with AlphaGenome. (2026)
- Integrated in vivo combinatorial functional genomics and spatial transcriptomics of tumours to decode genotype-to-phenotype relationships. (2026)
- Modeling heterogeneity in single-cell perturbation states enhances detection of response eQTLs. (2025)
- Nanopore-based cell-free DNA fragmentation and methylation profiles from the cerebral spinal fluid of patients with lung cancer brain metastases. (2025)
- MutBERT: probabilistic genome representation improves genomics foundation models. (2025)
- Multi-omic quantitative trait loci link tandem repeat size variation to gene regulation in human brain. (2025)
- Chromosomal instability as a driver of cancer progression. (2025)
- Multiple overlapping binding sites determine transcription factor occupancy. (2025)
- Single-cell RNA-seq data augmentation using generative Fourier transformer. (2025)
- Single cell and spatial alternative splicing analysis with Nanopore long read sequencing. (2025)
- Nucleotide Transformer: building and evaluating robust foundation models for human genomics. (2025)
- High-Parameter Spatial Multi-Omics through Histology-Anchored Integration (2025)
- Transcription start sites experience a high influx of heritable variants fueled by early development. (2025)
- Global impact of unproductive splicing on human gene expression. (2024)
- CAGI, the Critical Assessment of Genome Interpretation, establishes progress and prospects for computational genetic variant interpretation methods. (2024)
- Sequence modeling and design from molecular to genome scale with Evo. (2024)
- Detection and analysis of complex structural variation in human genomes across populations and in brains of donors with psychiatric disorders. (2024)
- Choline-An Underappreciated Component of a Mother-to-Be's Diet. (2024)
- An overview of DNA methylation-derived trait score methods and applications. (2023)
- Cell-Free DNA Fragmentomics: The Novel Promising Biomarker. (2023)
- A DNA methylation atlas of normal human cell types. (2023)
- Partial alignment of multislice spatially resolved transcriptomics data. (2023)
- At the dawn: cell-free DNA fragmentomics and gene regulation. (2022)
- Massively parallel reporter perturbation assays uncover temporal regulatory architecture during neural differentiation. (2022)
- Estimation of tumor cell total mRNA expression in 15 cancer types predicts disease progression. (2022)
- Inferring gene expression from cell-free DNA fragmentation profiles. (2022)
- Feasibility of whole genome and transcriptome profiling in pediatric and young adult cancers. (2022)
- Integrated analysis of multimodal single-cell data. (2021)
- Shannon entropy as a metric for conditional gene expression in Neurospora crassa. (2021)
- Autosomal sex-associated co-methylated regions predict biological sex from DNA methylation. (2021)
- Integrated Genomic Analysis Identifies Driver Genes and Cisplatin-Resistant Progenitor Phenotype in Pediatric Liver Cancer. (2021)
- Prenatal Adversity Alters the Epigenetic Profile of the Prefrontal Cortex: Sexually Dimorphic Effects of Prenatal Alcohol Exposure and Food-Related Stress. (2021)
- BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq. (2021)
- Programmed suppression of oxidative phosphorylation and mitochondrial function by gestational alcohol exposure correlate with widespread increases in H3K9me2 that do not suppress transcription. (2021)
- Joint single-cell measurements of nuclear proteins and RNA in vivo. (2021)
- Early-life nicotine or cotinine exposure produces long-lasting sleep alterations and downregulation of hippocampal corticosteroid receptors in adult mice. (2021)
- Data structures based on -mers for querying large collections of sequencing data sets. (2021)
- Genotypes of informative loci from 1000 Genomes data allude evolution and mixing of human populations. (2021)
- Exposure to ethanol leads to midfacial hypoplasia in a zebrafish model of FASD via indirect interactions with the Shh pathway. (2021)
- Simultaneous single cell measurements of intranuclear proteins and gene expression (2021)
- Simultaneous epigenetic perturbation and genome imaging reveal distinct roles of H3K9me3 in chromatin architecture and transcription. (2020)
- : batch effect adjustment for RNA-seq count data. (2020)
- Structural variation in the sequencing era. (2020)
- Patterns of Reliability: Assessing the Reproducibility and Integrity of DNA Methylation Measurement. (2020)
- Neonatal Alcohol Exposure in Mice Induces Select Differentiation- and Apoptosis-Related Chromatin Changes Both Independent of and Dependent on Sex. (2020)
- Genetic identification of cell types underlying brain complex traits yields insights into the etiology of Parkinson's disease. (2020)
- Addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq (2020)
- Biological embedding of experience: A primer on epigenetics. (2020)
- Effects of chronic intermittent ethanol exposure and withdrawal on neuroblastoma cell transcriptome. (2020)
- Detecting cell-type-specific allelic expression imbalance by integrative analysis of bulk and single-cell RNA sequencing data (2020)
- Comprehensive analysis of structural variants in breast cancer genomes using single-molecule sequencing. (2020)
- Transcriptomic signatures across human tissues identify functional rare genetic variation. (2020)
- Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity. (2019)
- Comparative RNA-seq analysis aids in diagnosis of a rare pediatric tumor. (2019)
- Integrating predicted transcriptome from multiple tissues improves association detection. (2019)
- Prenatal Particulate Air Pollution and DNA Methylation in Newborns: An Epigenome-Wide Meta-Analysis. (2019)
- Integrating predicted transcriptome from multiple tissues improves association detection. (2019)
- Germline variants associated with leukocyte genes predict tumor recurrence in breast cancer patients. (2019)
- Fast and robust deconvolution of tumor infiltrating lymphocyte from expression profiles using least trimmed squares. (2019)
- Genome-wide DNA methylation profiling identifies convergent molecular signatures associated with idiopathic and syndromic autism in post-mortem human brain tissue. (2019)
- Persistent Changes in Stress-Regulatory Genes in Pregnant Women or Children Exposed Prenatally to Alcohol. (2019)
- A SNP panel for identification of DNA and RNA specimens. (2018)
- Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics. (2018)
- Driver Fusions and Their Implications in the Development and Treatment of Human Cancers. (2018)
- Effects of prenatal alcohol exposure (PAE): insights into FASD using mouse models of PAE. (2018)
- Positively selected enhancer elements endow osteosarcoma cells with metastatic competence. (2018)
- Personal Cancer Genome Reporter: variant interpretation report for precision oncology. (2018)
- Prenatal Alcohol Exposure: Profiling Developmental DNA Methylation Patterns in Central and Peripheral Tissues. (2018)
- Integrating single-cell transcriptomic data across different conditions, technologies, and species. (2018)
- PASSPORT-seq: A Novel High-Throughput Bioassay to Functionally Test Polymorphisms in Micro-RNA Target Sites. (2018)
- Incorporating Functional Genomic Information to Enhance Polygenic Signal and Identify Variants Involved in Gene-by-Environment Interaction for Young Adult Alcohol Problems. (2018)
- The fractured landscape of RNA-seq alignment: the default in our STARs. (2018)
- Cohort Profile: Pregnancy And Childhood Epigenetics (PACE) Consortium. (2018)
- Constrained release of lamina-associated enhancers and genes from the nuclear envelope during T-cell activation facilitates their association in chromosome compartments. (2017)
- The evolution of tumour phylogenetics: principles and practice. (2017)
- Cerebral organoids reveal early cortical maldevelopment in schizophrenia-computational anatomy and genomics, role of FGFR1. (2017)
- Patient-derived xenografts undergo mouse-specific tumor evolution. (2017)
- Integrated analysis of gene expression and copy number identified potential cancer driver genes with amplification-dependent overexpression in 1,454 solid tumors. (2017)
- Evidence for a Link Between Fkbp5/FKBP5, Early Life Social Relations and Alcohol Drinking in Young Adult Rats and Humans. (2017)
- Benchmark Dose Modeling Estimates of the Concentrations of Inorganic Arsenic That Induce Changes to the Neonatal Transcriptome, Proteome, and Epigenome in a Pregnancy Cohort. (2017)
- A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications. (2017)
- Sexual Dimorphism of miRNAs Secreted by Bovine -produced Embryos. (2017)
- DNA replication timing during development anticipates transcriptional programs and parallels enhancer activation. (2017)
- The effect of alcohol on the differential expression of cluster of differentiation 14 gene, associated pathways, and genetic network. (2017)
- Epigenetics studies of fetal alcohol spectrum disorder: where are we now? (2017)
- The impact of structural variation on human gene expression. (2017)
- Cell-free DNA Comprises an In Vivo Nucleosome Footprint that Informs Its Tissues-Of-Origin. (2016)
- The role of active DNA demethylation and Tet enzyme function in memory formation and cocaine action. (2016)
- Males are from Mars, and females are from Venus: sex-specific fetal brain gene expression signatures in a mouse model of maternal diet-induced obesity. (2016)
- A hit-and-run heat shock factor governs sustained histone methylation and transcriptional stress memory. (2016)
- Mitochondrial Stress Induces Chromatin Reorganization to Promote Longevity and UPR(mt). (2016)
- Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancers. (2016)
- Alteration of Gene Expression, DNA Methylation, and Histone Methylation in Free Radical Scavenging Networks in Adult Mouse Hippocampus following Fetal Alcohol Exposure. (2016)
- Divergent clonal evolution of castration-resistant neuroendocrine prostate cancer. (2016)
- Enacting the molecular imperative: How gene-environment interaction research links bodies and environments in the post-genomic age. (2016)
- The Placenta as a Mediator of Stress Effects on Neurodevelopmental Reprogramming. (2016)
- DNA methylation signature of human fetal alcohol spectrum disorder. (2016)
- Roar: detecting alternative polyadenylation with standard mRNA sequencing libraries. (2016)
- Tissue-Specific Gene Repositioning by Muscle Nuclear Membrane Proteins Enhances Repression of Critical Developmental Genes during Myogenesis. (2016)
- Oxidative stress signaling to chromatin in health and disease. (2016)
- Comprehensive analyses of tumor immunity: implications for cancer immunotherapy. (2016)
- Development and clinical application of an integrative genomic approach to personalized cancer therapy. (2016)
- RNA splicing is a primary link between genetic variation and disease. (2016)
- Adolescent Choline Supplementation Attenuates Working Memory Deficits in Rats Exposed to Alcohol During the Third Trimester Equivalent. (2016)
- Tools and best practices for data processing in allelic expression analysis. (2015)
- Early maternal alcohol consumption alters hippocampal DNA methylation, gene expression and volume in a mouse model. (2015)
- limma powers differential expression analyses for RNA-sequencing and microarray studies. (2015)
- A gene-based association method for mapping traits using reference transcriptome data. (2015)
- Lead exposure induces changes in 5-hydroxymethylcytosine clusters in CpG islands in human embryonic stem cells and umbilical cord blood. (2015)
- Integrative Clinical Sequencing in the Management of Refractory or Relapsed Cancer in Youth. (2015)
- Methylomic trajectories across human fetal brain development. (2015)
- Post-translational modifications of histones that influence nucleosome dynamics. (2015)
- A comprehensive view of the epigenetic landscape part I: DNA methylation, passive and active DNA demethylation pathways and histone variants. (2015)
- DNA methylation and healthy human aging. (2015)
- Orchestrating high-throughput genomic analysis with Bioconductor. (2015)
- Prenatal alcohol exposure alters steady-state and activated gene expression in the adult rat brain. (2015)
- Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data. (2015)
- The use of exome capture RNA-seq for highly degraded RNA with application to clinical cancer sequencing. (2015)
- Strain dependent neurochemical changes induced by embryonic alcohol exposure in zebrafish. (2014)
- Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain. (2014)
- The ENIGMA Consortium: large-scale collaborative analyses of neuroimaging and genetic data. (2014)
- Transcriptome sequencing of a large human family identifies the impact of rare noncoding variants. (2014)
- Distinct structural transitions of chromatin topological domains correlate with coordinated hormone-induced gene regulation. (2014)
- Gene expression signatures affected by alcohol-induced DNA methylomic deregulation in human embryonic stem cells. (2014)
- Dynamic analyses of alternative polyadenylation from RNA-seq reveal a 3'-UTR landscape across seven tumour types. (2014)
- Heritability and genomics of gene expression in peripheral blood. (2014)
- Fetal alcohol programming of hypothalamic proopiomelanocortin system by epigenetic mechanisms and later life vulnerability to stress. (2014)
- Genetic variability in the regulation of gene expression in ten regions of the human brain. (2014)
- Long-term genomic and epigenomic dysregulation as a consequence of prenatal alcohol exposure: a model for fetal alcohol spectrum disorders. (2014)
- Fetal alcohol spectrum disorders and their transmission through genetic and epigenetic mechanisms. (2014)
- Temporal specification and bilaterality of human neocortical topographic gene expression. (2014)
- RNA in unexpected places: long non-coding RNA functions in diverse cellular contexts. (2013)
- Global epigenomic reconfiguration during mammalian brain development. (2013)
- Genome-wide variation of cytosine modifications between European and African populations and the implications for complex traits. (2013)
- Mitogen-activated protein kinase modulates ethanol inhibition of cell adhesion mediated by the L1 neural cell adhesion molecule. (2013)
- Impact of low dose prenatal ethanol exposure on glucose homeostasis in Sprague-Dawley rats aged up to eight months. (2013)
- Neurodevelopmental alcohol exposure elicits long-term changes to gene expression that alter distinct molecular pathways dependent on timing of exposure. (2013)
- Ewing sarcoma protein: a key player in human cancer. (2013)
- Candidate gene association studies: a comprehensive guide to useful in silico tools. (2013)
- Alcohol metabolism and epigenetics changes. (2013)
- Long-lasting alterations to DNA methylation and ncRNAs could underlie the effects of fetal alcohol exposure in mice. (2013)
- Large-scale genotyping identifies 41 new loci associated with breast cancer risk. (2013)
- DNA methylation contributes to natural human variation. (2013)
- Identification and characterization of the miRNA transcriptome of Ovis aries. (2013)
- Mutational heterogeneity in cancer and the search for new cancer-associated genes. (2013)
- Passive and active DNA methylation and the interplay with genetic variation in gene regulation. (2013)
- The role of nutrition in children's neurocognitive development, from pregnancy through childhood. (2013)
- DNA methylation program in developing hippocampus and its alteration by alcohol. (2013)
- Commonality in Down and fetal alcohol syndromes. (2013)
- A cross-platform analysis of 14,177 expression quantitative trait loci derived from lymphoblastoid cell lines. (2013)
- Gene expression in the human brain: the current state of the study of specificity and spatiotemporal dynamics. (2013)
- DNA methylation, genotype and gene expression: who is driving and who is along for the ride? (2013)
- The Growing Importance of CNVs: New Insights for Detection and Clinical Interpretation. (2013)
- The Genotype-Tissue Expression (GTEx) project. (2013)
- The Genotype-Tissue Expression (GTEx) project. (2013)
- Zebrafish models of human liver development and disease. (2013)
- Strain dependent gene expression and neurochemical levels in the brain of zebrafish: focus on a few alcohol related targets. (2012)
- Recurrent variations in DNA methylation in human pluripotent stem cells and their differentiated derivatives. (2012)
- An anatomically comprehensive atlas of the adult human brain transcriptome. (2012)
- Population-specificity of human DNA methylation. (2012)
- Integrative analysis reveals relationships of genetic and epigenetic alterations in osteosarcoma. (2012)
- Mutational processes molding the genomes of 21 breast cancers. (2012)
- CNVs: harbingers of a rare variant revolution in psychiatric genetics. (2012)
- Annotation of functional variation in personal genomes using RegulomeDB. (2012)
- GABAergic gene expression in postmortem hippocampus from alcoholics and cocaine addicts; corresponding findings in alcohol-naïve P and NP rats. (2012)
- GENCODE: the reference human genome annotation for The ENCODE Project. (2012)
- Maternal nutritional status, C(1) metabolism and offspring DNA methylation: a review of current evidence in human subjects. (2012)
- Gene expression changes in C57BL/6J and DBA/2J mice following prenatal alcohol exposure. (2012)
- A framework for regularized non-negative matrix factorization, with application to the analysis of gene expression data. (2012)
- Adolescent binge drinking alters adult brain neurotransmitter gene expression, behavior, brain regional volumes, and neurochemistry in mice. (2011)
- A hippocampal insulin-growth factor 2 pathway regulates the extinction of fear memories. (2011)
- Spatio-temporal transcriptome of the human brain. (2011)
- The AVPR1A gene and substance use disorders: association, replication, and functional evidence. (2011)
- Regulation of chromatin by histone modifications. (2011)
- Extensive epigenetic reprogramming in human somatic tissues between fetus and adult. (2011)
- Quality control parameters on a large dataset of regionally dissected human control brains for whole genome expression studies. (2011)
- Postmortem interval effect on RNA and gene expression in human brain tissue. (2011)
- Effects of ethanol and NAP on cerebellar expression of the neural cell adhesion molecule L1. (2011)
- MicroRNAs are transported in plasma and delivered to recipient cells by high-density lipoproteins. (2011)
- Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA. (2011)
- Allele-specific copy number analysis of tumors. (2010)
- Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation. (2010)
- MicroRNAs: master regulators of ethanol abuse and toxicity? (2010)
- Liver and adipose expression associated SNPs are enriched for association to type 2 diabetes. (2010)
- Changes in gene expression in regions of the extended amygdala of alcohol-preferring rats after binge-like alcohol drinking. (2010)
- Genetics and beyond--the transcriptome of human monocytes and disease susceptibility. (2010)
- Maternal ethanol consumption alters the epigenotype and the phenotype of offspring in a mouse model. (2010)
- The epigenetics of sex differences in the brain. (2009)
- Genomewide association studies: history, rationale, and prospects for psychiatric disorders. (2009)
- Alcohol exposure alters DNA methylation profiles in mouse embryos at early neurulation. (2009)
- The future of genetics in psychology and psychiatry: microarrays, genome-wide association, and non-coding RNA. (2009)
- Neuroimaging of children following prenatal drug exposure. (2009)
- Large histone H3 lysine 9 dimethylated chromatin blocks distinguish differentiated from embryonic stem cells. (2009)
- A haplotype containing quantitative trait loci for SLC1A1 gene expression and its association with obsessive-compulsive disorder. (2009)
- QPCR: Application for real-time PCR data management and analysis. (2009)
- The relationship of 5HTT (SLC6A4) methylation and genotype on mRNA expression and liability to major depression and alcohol dependence in subjects from the Iowa Adoption Studies. (2008)
- Choline supplementation attenuates learning deficits associated with neonatal alcohol exposure in the rat: effects of varying the timing of choline administration. (2008)
- 3' end mRNA processing: molecular mechanisms and implications for health and disease. (2008)
- RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. (2008)
- Effect of in utero and early-life conditions on adult health and disease. (2008)
- Maternal immune activation alters fetal brain development through interleukin-6. (2007)
- Spatial genetic patterning of the embryonic neuroepithelium generates GABAergic interneuron diversity in the adult cortex. (2007)
- Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. (2007)
- Dietary protein restriction of pregnant rats in the F0 generation induces altered methylation of hepatic gene promoters in the adult male offspring in the F1 and F2 generations. (2007)
- The genetics of alcohol metabolism: role of alcohol dehydrogenase and aldehyde dehydrogenase variants. (2007)
- The fetal origins of memory: the role of dietary choline in optimal brain development. (2006)
- Environmental programming of stress responses through DNA methylation: life at the interface between a dynamic environment and a fixed genome. (2005)
- Transposable elements: targets for early nutritional effects on epigenetic gene regulation. (2003)
Merged raw entities (23)
All extracted name/type variants the normalize job merged into this entity. Use this to spot wrong merges, or aliases that should be split off.
| Raw name | Type | Papers | Mentions |
|---|---|---|---|
| gene expression | phenotype | 176 | 273 |
| gene expression | drug | 20 | 23 |
| mrna expression | phenotype | 14 | 32 |
| gene expression changes | phenotype | 11 | 13 |
| gene expression levels | phenotype | 9 | 10 |
| expression | phenotype | 8 | 10 |
| gene expression level | phenotype | 7 | 7 |
| expression levels | phenotype | 3 | 4 |
| gene_expression | phenotype | 3 | 3 |
| gene expression profiles | phenotype | 3 | 3 |
| differential gene expression | phenotype | 2 | 2 |
| mrna production | phenotype | 1 | 1 |
| altered expression levels | phenotype | — | — |
| developmental gene expression changes | phenotype | — | — |
| gene expression measures | phenotype | — | — |
| gene expression of both alleles | phenotype | — | — |
| gene regulatory effect | phenotype | — | — |
| high level of gene expression | phenotype | — | — |
| mrna transcription | phenotype | — | — |
| postdevelopmental gene expression changes | phenotype | — | — |
| quantitative expression trait | phenotype | — | — |
| rna transcripts | phenotype | — | — |
| transcript levels | phenotype | — | — |