Large-scale gene function analysis with the PANTHER classification system.
paper
Cited
Public
- Authors
- Mi, Huaiyu; Muruganujan, Anushya; Casagrande, John T; Thomas, Paul D
- Year
- 2013
- Journal
- Nature protocols
- PMID
- 23868073
- DOI
- 10.1038/nprot.2013.092
- PMCID
- PMC6519453
The PANTHER (protein annotation through evolutionary relationship) classification system (http://www.pantherdb.org/) is a comprehensive system that combines gene function, ontology, pathways and statistical analysis tools that enable biologists to analyze large-scale, genome-wide data from sequencing, proteomics or gene expression experiments. The system is built with 82 complete genomes organized into gene families and subfamilies, and their evolutionary relationships are captured in phylogenetic trees, multiple sequence alignments and statistical models (hidden Markov models or HMMs). Genes are classified according to their function in several different ways: families and subfamilies are annotated with ontology terms (Gene Ontology (GO) and PANTHER protein class), and sequences are assigned to PANTHER pathways. The PANTHER website includes a suite of tools that enable users to browse and query gene functions, and to analyze large-scale experimental data with a number of statistical tests. It is widely used by bench scientists, bioinformaticians, computer scientists and systems biologists. In the 2013 release of PANTHER (v.8.0), in addition to an update of the data content, we redesigned the website interface to improve both user experience and the system's analytical capability. This protocol provides a detailed description of how to analyze genome-wide experimental data with the PANTHER classification system.
Overview of PANTHER infrastructure.PANTHER is consisted of three modules. The core module is the PANTHER protein library (yellow shade) that contains a collection of PANTHER families and subfamilies, each of which is represented by a phylogenetic tree, an MSA and an HMM. The second module is the pathway that contains 176 expert-curated pathways (green shade). The pathway components are associated to the protein sequences that are used to build the protein library (the light green shade), and therefore, the pathways are also linked to the subfamilies and HMMs. The third module is the tool suite. In this diagram, the gene list analysis tool is used as an example (blue shade). When the user uploads a gene list to the tool, and if the IDs in the list are from one of 82 organisms in PANTHER, the tool will map the IDs to the IDs in the PANTHER protein library (green arrows). If the uploaded IDs are not from one of the 82 organisms, the user can score the sequences against the PANTHER HMM library and generate the PANTHER Generic Mapping file (see Box 2) (orange arrows). There are three tests in the tool: functional classification, statistical overrepresentation test and statistical enrichment test. Numeric values must be provided in order to use the statistical enrichment test.
Examples of PANTHER phylogenetic tree and pathway diagram(A) A sample phylogenetic tree from PANTHER (PTHR11633, PLATELET-DERIVED GROWTH FACTOR). The family contains three subfamilies (blue arrows). SF1 is annotated as βPDGF/VEGF growth factor related protein 1β based on the annotation in the drosophila and c. elegans sequences (Q9VWP6 and Q9N143, respectively). There is a recent duplication that generates the PDGF A chain (SF3) and the PDGF B chain (SF2). Ontology terms are annotated to the node that represents the common ancestor if the extant family, in this case, AN0 (SF1). The classifications are propagated to all the descent nodes, including the AN4 (SF3) and AN33 (SF2).(B) An example of PANTHER pathway diagram (P00047, PDGF signaling pathway). The diagram is shown in CellDesigner process diagram, which is similar to the SBGN-PD format, for example (blue circle), a transition of an input (e.g., ERK) to an output (eg., phosphorylated ERK) catalyzed by a modifier (eg., phosphorylated MEK). A pathway component (e.g, PDGF in red circle) is associated with the protein sequences in the protein library (red arrows in 2A) through expert curation. This association is supported by literature evidence. As a result, the pathway component of PDGF can be inferred to other orthologous protein sequences in the subfamilies in the library (SF2 and SF3 in 2A).
The PANTHER home page with the Gene List Analysis Tools.
User interface of the statistical overrepresentation test to allow user to select additional test gene lists.
Results of functional classification displayed as a gene list page. The results are based on the sampleTestList_NP_500 file in the Supplemental Materials.
PANTHER pie chart results from the sampleTestList_NP_500 file in the Supplemental Materials. You can use the Select ontology drop-down menu to switch to the pie chart of different ontologies. Click on the pie chart section to display the child categories. Click on the legends on the right side to retrieve the list of the genes for that category.
Result from the statistical overrepresentation test. The results are based on the sampleTestList_NP_500 file in the Supplemental Materials.(A) The summary of the results is displayed in a table. You can export the table in a tab-delimited file by clicking the Export results button. You can also view the results in other views by using the View drop-down menu. If your analysis is done in pathway as shown here, you can click the pathway name and display the pathway diagram. The pathway components that have genes in your test list will be highlighted. The color of the highlighted component can be defined at the top of the page (red circle). A total of 4 test lists can be analyzed and viewed at the same time.(B) The results viewed in the PANTHER pathway Heterotrimeric G-protein signaling pathway β Gi alpha and Gs alpha mediated pathway (P00026). The components that contain the genes in the test gene list are highlighted in red.
The results from the statistical enrichment test. The results are based on the sampleTestList_NP file in the Supplemental Materials. (A) The output of the tool with a list of P-values for each comparison between a functional category distribution and the reference distribution. (B) Comparison of the distributions from PDGF signaling pathway (red) and reference (blue) in graph view. (C) A pathway diagram of PDGF signaling pathway that is visualized using an interactive pathway Java applet that colors the pathway using a βheat mapβ derived from the input values.
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| Characterization of the Mitochondrial Proteome in the Ctenophore Mnemiopsis leidyi Using MitoPredictor. | Muthye V et al. | β | 2024 | β |
| Comparative Proteomic Analysis of Huh7 Cells Transfected with Sub-Saharan African Hepatitis B Virus (Sub)genotypes Reveals Potential Oncogenic Factors. | Padarath K et al. | β | 2024 | β |
| Comparison of B-Cell Lupus and Lymphoma Using a Novel Immune Imbalance Transcriptomics Algorithm Reveals Potential Therapeutic Targets. | Rapier-Sharman N et al. | β | 2024 | β |
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| Comprehensive proteomic analysis of HCoV-OC43 virions and virus-modulated extracellular vesicles. | Joharinia N et al. | β | 2024 | β |
| Cytidine deaminases APOBEC3C and APOBEC3D promote DNA replication stress resistance in pancreatic cancer cells. | Ubhi T et al. | β | 2024 | β |
| Detecting outliers in case-control cohorts for improving deep learning networks on Schizophrenia prediction. | Martins D et al. | β | 2024 | β |
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| Discovery and Verification of SjΓΆgren's Syndrome Protein Biomarkers in Tears by Targeted LC-MRM. | LΓ©pine M et al. | β | 2024 | β |
| Enhancing schizophrenia phenotype prediction from genotype data through knowledge-driven deep neural network models. | Martins D et al. | β | 2024 | β |
| Epigenetic biomarker for preeclampsia-associated preterm birth and potential preventative medicine. | Nilsson EE et al. | β | 2024 | β |
| Escherichia coli monothiol glutaredoxin GrxD replenishes Fe-S clusters to the essential ErpA A-type carrier under low iron stress. | Fisher CE et al. | β | 2024 | β |
| Exome sequencing improves the molecular diagnostics of paediatric unexplained neurodevelopmental disorders. | Wayhelova M et al. | β | 2024 | β |
| Exome sequencing of 20,979 individuals with epilepsy reveals shared and distinct ultra-rare genetic risk across disorder subtypes. | Epi25 Collaborative | β | 2024 | β |
| Expression of a mammalian RNA demethylase increases flower number and floral stem branching in <i>Arabidopsis thaliana</i>. | Markel K et al. | β | 2024 | β |
| Extracellular vesicles released by Trypanosoma evansi: induction analysis and proteomics. | Ungri AM et al. | β | 2024 | β |
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| Genome-wide association studies reveal differences in genetic susceptibility between single events vs. recurrent events of atrial fibrillation and myocardial infarction: the HUNT study. | Hall M et al. | β | 2024 | β |
| Genome-wide characterization of circulating metabolic biomarkers. | Karjalainen MK et al. | β | 2024 | β |
| Genomics 2 Proteins portal: a resource and discovery tool for linking genetic screening outputs to protein sequences and structures. | Kwon S et al. | β | 2024 | β |
| Global profiling of functional histidines in live cells using small-molecule photosensitizer and chemical probe relay labelling. | Zhai Y et al. | β | 2024 | β |
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| Hopanoid lipids promote soybean<i>-Bradyrhizobium</i> symbiosis. | Pan H et al. | β | 2024 | β |
| Identification of cancer risk groups through multi-omics integration using autoencoder and tensor analysis. | Braytee A et al. | β | 2024 | β |
| Identification of DNA methylation markers for age and Bovine Respiratory Disease in dairy cattle: A pilot study based on Reduced Representation Bisulfite Sequencing. | Attree E et al. | β | 2024 | β |
| Identification of Protein Targets of <i>S</i>-Nitroso-Coenzyme A-Mediated <i>S</i>-Nitrosation Using Chemoproteomics. | Falco JA et al. | β | 2024 | β |
| In Silico and In Vitro Study of Isoquercitrin against Kidney Cancer and Inflammation by Triggering Potential Gene Targets. | Iqbal S et al. | β | 2024 | β |
| Integrated Proteomics Analysis of Baseline Protein Expression in Pig Tissues. | Wang S et al. | β | 2024 | β |
| In vivo detection of endogenous toxic phenolic compounds of intestine. | Jin WY et al. | β | 2024 | β |
| IPD3, a master regulator of arbuscular mycorrhizal symbiosis, affects genes for immunity and metabolism of non-host Arabidopsis when restored long after its evolutionary loss. | Hornstein ED et al. | β | 2024 | β |
| Ketogenic Diet Reduces Age-Induced Chronic Neuroinflammation in Mice. | Nomura M et al. | β | 2024 | β |
| KLF13 promotes SLE pathogenesis by modifying chromatin accessibility of key proinflammatory cytokine genes. | Wang A et al. | β | 2024 | β |
| Knockdown of cullin 3 inhibits progressive phenotypes and increases chemosensitivity in cholangiocarcinoma cells. | Pratummanee K et al. | β | 2024 | β |
| Leucine-rich repeat receptor kinase BM41 regulates cuticular wax deposition in sorghum. | Tian R et al. | β | 2024 | β |
| Lifelong exercise training promotes the remodelling of the immune system and prostate signalome in a rat model of prostate carcinogenesis. | Nascimento-GonΓ§alves E et al. | β | 2024 | β |
| Loss of lysosomal acid lipase results in mitochondrial dysfunction and fiber switch in skeletal muscles of mice. | Akhmetshina A et al. | β | 2024 | β |
| <i>In silico</i> biomarker analysis of the adverse effects of perfluorooctane sulfonate (PFOS) exposure on the metabolic physiology of embryo-larval zebrafish. | Nolen RM et al. | β | 2024 | β |
| Mapping taste and flavour traits to genetic markers in lettuce <i>Lactuca sativa</i>. | Chadwick M et al. | β | 2024 | β |
| Metabolic Bypass Rescues Aberrant S-nitrosylation-Induced TCA Cycle Inhibition and Synapse Loss in Alzheimer's Disease Human Neurons. | Andreyev AY et al. | β | 2024 | β |
| MicroRNA expression in specific segments of the pig periovulatory internal genital tract is differentially regulated by semen or by seminal plasma. | Γlvarez-RodrΓguez M et al. | β | 2024 | β |
| MicroRNAs from edible plants reach the human gastrointestinal tract and may act as potential regulators of gene expression. | DΓez-Sainz E et al. | β | 2024 | β |
| Molecular Regulation of Fetal Brain Development in Inbred and Congenic Mouse Strains Differing in Longevity. | Islam M et al. | β | 2024 | β |
| Multiomics Analysis of the PHLDA Gene Family in Different Cancers and Their Clinical Prognostic Value. | Iqbal S et al. | β | 2024 | β |
| N-Acetylcysteine Alters Disease Progression and Increases Janus Kinase Mutation Frequency in a Mouse Model of Precursor B-Cell Acute Lymphoblastic Leukemia. | Sams MP et al. | β | 2024 | β |
| Nanoetched Stainless Steel Architecture Enhances Cell Uptake of Biomacromolecules and Alters Protein Corona Abundancy. | Pho T et al. | β | 2024 | β |
| Network pharmacology-based approach to elucidate the pharmacologic mechanisms of natural compounds from <i>Dictyostelium discoideum</i> for Alzheimer's disease treatment. | Patil N et al. | β | 2024 | β |
| Network Pharmacology, Molecular Docking, and In Vitro Insights into the Potential of <i>Mitragyna speciosa</i> for Alzheimer's Disease. | Hossain R et al. | β | 2024 | β |
| Network pharmacology, molecular docking, and molecular dynamics simulation to elucidate the mechanism of anti-aging action of Tinospora cordifolia. | Bisht A et al. | β | 2024 | β |
| Neuronal-specific methylome and hydroxymethylome analysis reveal significant loci associated with alcohol use disorder. | Andrade-Brito DE et al. | β | 2024 | β |
| Next-generation mapping of the salicylic acid signaling hub and transcriptional cascade. | Powers J et al. | β | 2024 | β |
| Nfe2l3 promotes neuroprotection and long-distance axon regeneration after injury in vivo. | Lukomska A et al. | β | 2024 | β |
| Non-collagenous proteins, rather than the collagens, are key biochemical factors that mediate tenogenic bioactivity of tendon extracellular matrix. | Huang S et al. | β | 2024 | β |
| Oct4 redox sensitivity potentiates reprogramming and differentiation. | Shen Z et al. | β | 2024 | β |
| PBRM-1/PBAF-regulated genes in a multipotent progenitor in Caenorhabditis elegans. | Mathies LD et al. | β | 2024 | β |
| Physiochemical interaction between osmotic stress and a bacterial exometabolite promotes plant disease. | Getzke F et al. | β | 2024 | β |
| Prediction of the most deleterious non-synonymous SNPs in the human IL1B gene: evidence from bioinformatics analyses. | Abuzaid O et al. | β | 2024 | β |
| Protein Biomarkers and Major Cardiovascular Events in Older People With Advanced CKD: The European Quality (EQUAL) Study. | Hayward SJL et al. | β | 2024 | β |
| Relevance of the regulation of the brain-placental axis to the nocturnal bottleneck of mammals. | Poudel SP et al. | β | 2024 | β |
| Resistance and aerobic training increases genome-wide DNA methylation in women with polycystic ovary syndrome. | Miranda Furtado CL et al. | β | 2024 | β |
| RNA-Seq Analysis Unraveling Novel Genes and Pathways Influencing Corneal Wound Healing. | Kumar R et al. | β | 2024 | β |
| Runx1+ vascular smooth muscle cells are essential for hematopoietic stem and progenitor cell development in vivo. | Gonzalez Galofre ZN et al. | β | 2024 | β |
| Secondary Transcriptomic Analysis of Triple-Negative Breast Cancer Reveals Reliable Universal and Subtype-Specific Mechanistic Markers. | Rapier-Sharman N et al. | β | 2024 | β |
| Sex-bias metabolism of fetal organs, and their relationship to the regulation of fetal brain-placental axis. | Poudel SP et al. | β | 2024 | β |
| Sildenafil as a Candidate Drug for Alzheimer's Disease: Real-World Patient Data Observation and Mechanistic Observations from Patient-Induced Pluripotent Stem Cell-Derived Neurons. | Gohel D et al. | β | 2024 | β |
| Single-Cell Transcriptional Response of the Placenta to the Ablation of Caveolin-1: Insights into the Adaptive Regulation of Brain-Placental Axis in Mice. | Islam M et al. | β | 2024 | β |
| Statistical approaches applicable in managing OMICS data: Urinary proteomics as exemplary case. | An DW et al. | β | 2024 | β |
| Tape strips detect molecular alterations and cutaneous biomarkers in skin of patients with hidradenitis suppurativa. | Navrazhina K et al. | β | 2024 | β |
| The Arabidopsis Information Resource in 2024. | Reiser L et al. | β | 2024 | β |
| The association of protein-bound methionine sulfoxide with proteomic basis for aging in beech seeds. | Kalemba EM et al. | β | 2024 | β |
| The effects of resistance training on denervated myofibers, senescent cells, and associated protein markers in middle-aged adults. | Ruple BA et al. | β | 2024 | β |
| The mechanistic functional landscape of retinitis pigmentosa: a machine learning-driven approach to therapeutic target discovery. | Esteban-Medina M et al. | β | 2024 | β |
| Tissue Inhibitor of Metalloproteinase 3 (TIMP3) mutations increase glycolytic activity and dysregulate glutamine metabolism in RPE cells. | Grenell A et al. | β | 2024 | β |
| Tissue-specific and cis-regulatory changes underlie parallel, adaptive gene expression evolution in house mice. | Durkin SM et al. | β | 2024 | β |
| Transcriptome Analysis of Porcine Immune Cells Stimulated by Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) and <i>Caesalpinia sappan</i> Extract. | Arjin C et al. | β | 2024 | β |
| Transcriptome profiling of eight Zea mays lines identifies genes responsible for the resistance to Fusarium verticillioides. | Tran TN et al. | β | 2024 | β |
| Transcriptomic Meta-Analysis Identifies Upregulated Clotting and Fibrinolysis Pathways in Colorectal Cancer Tumors Containing Hereditary PMS2 Mismatch Repair Deficiency. | Gibson TM et al. | β | 2024 | β |
| Truncated protein isoforms generate diversity of protein localization and function in yeast. | Higdon AL et al. | β | 2024 | β |
| Two ARGONAUTE proteins loaded with transposon-derived small RNAs are associated with the reproductive cell lineage in Arabidopsis. | Bradamante G et al. | β | 2024 | β |
| Uncovering structural themes across cilia microtubule inner proteins with implications for human cilia function. | Andersen JS et al. | β | 2024 | β |
| Unveiling lignocellulolytic potential: a genomic exploration of bacterial lineages within the termite gut. | Salgado JFM et al. | β | 2024 | β |
| Upregulation of developmentally-downregulated miR-1247-5p promotes neuroprotection and axon regeneration in vivo. | Lukomska A et al. | β | 2024 | β |
| Use of a Novel Whole Blood Separation and Transport Device for Targeted and Untargeted Proteomics. | McDowell CT et al. | β | 2024 | β |
| Using the Bayesian variational spike and slab model in a genome-wide association study for finding associated loci with bipolar disorder. | Kazemi Naeini M et al. | β | 2024 | β |
| What is slough? Defining the proteomic and microbial composition of slough and its implications for wound healing. | Townsend EC et al. | β | 2024 | β |
| Acquired crizotinib-resistant pulmonary adenocarcinoma and subsequent primary gallbladder cancer: A case report. | Zhang M et al. | β | 2023 | β |
| Adaptation to glucose starvation is associated with molecular reorganization of the circadian clock in <i>Neurospora crassa</i>. | SzΕke A et al. | β | 2023 | β |
| A general method for quantitative fractionation of mammalian cells. | Udi Y et al. | β | 2023 | β |
| A genotypeβΓβenvironment experiment reveals contrasting response strategies to drought between populations of a keystone species (<i>Artemisia tridentata</i>; Asteraceae). | Melton AE et al. | β | 2023 | β |
| A molecular brake that modulates spliceosome pausing at detained introns contributes to neurodegeneration. | Meng D et al. | β | 2023 | β |
| A multi-omics integrative analysis based on CRISPR screens re-defines the pluripotency regulatory network in ESCs. | Ruan Y et al. | β | 2023 | β |
| Analysis of the Differentially Expressed Proteins and Metabolic Pathways of Honeybush (<i>Cyclopia subternata</i>) in Response to Water Deficit Stress. | Mahlare MS et al. | β | 2023 | β |
| Analysis of the GPR17 receptor in NG2-glia under physiological conditions unravels a new subset of oligodendrocyte progenitor cells with distinct functions. | Miralles AJ et al. | β | 2023 | β |
| Ancient gene linkages support ctenophores as sister to other animals. | Schultz DT et al. | β | 2023 | β |
| An EZH2-NF-ΞΊB regulatory axis drives expression of pro-oncogenic gene signatures in triple negative breast cancer. | Dardis GJ et al. | β | 2023 | β |
| Arena3D<sup>web</sup>: interactive 3D visualization of multilayered networks supporting multiple directional information channels, clustering analysis and application integration. | Kokoli M et al. | β | 2023 | β |
| Biological and clinical significance of the glypican-3 gene in human lung adenocarcinoma: An in silico analysis. | Imon RR et al. | β | 2023 | β |
| Calcineurin associates with centrosomes and regulates cilia length maintenance. | Tsekitsidou E et al. | β | 2023 | β |
| Cardiac Transcriptome Remodeling andΒ Impaired Bioenergetics in Single-Ventricle Congenital Heart Disease. | Garcia AM et al. | β | 2023 | β |
| Characterisation of the testicular transcriptome in stallions with age-related testicular degeneration. | Woodward E et al. | β | 2023 | β |
| Chromosome-scale genomes of commercially important mahoganies, Swietenia macrophylla and Khaya senegalensis. | Sahu SK et al. | β | 2023 | β |
| Chromosome-scale genomes of commercial timber trees (Ochroma pyramidale, Mesua ferrea, and Tectona grandis). | Sahu SK et al. | β | 2023 | β |
| Citrus genomic resources unravel putative genetic determinants of Huanglongbing pathogenicity. | Gao Y et al. | β | 2023 | β |
| Cloning of an Albino Mutation of <i>Arabidopsis thaliana</i> Using Mapping-by-Sequencing. | RodrΓguez-Alcocer E et al. | β | 2023 | β |
| Comparative transcriptomic analysis of the larval and adult stages of Dibothriocephalus dendriticus (Cestoda: Diphyllobothriidea). | Sidorova TV et al. | β | 2023 | β |
| Competing endogenous RNAs in human astrocytes: crosstalk and interacting networks in response to lipotoxicity. | Gil-Jaramillo N et al. | β | 2023 | β |
| Computational approaches for circRNAs prediction and in silico characterization. | Rebolledo C et al. | β | 2023 | β |
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| Correlation between aortic valve protein levels and vector flow mapping of wall shear stress and oscillatory shear index in patients supported with continuous-flow left ventricular assist devices. | Kobsa S et al. | β | 2023 | β |
| DCUN1D1 Is an Essential Regulator of Prostate Cancer Proliferation and Tumour Growth That Acts through Neddylation of Cullin 1, 3, 4A and 5 and Deregulation of Wnt/Catenin Pathway. | Vava A et al. | β | 2023 | β |
| DDX5 mRNA-targeting antisense oligonucleotide as a new promising therapeutic in combating castration-resistant prostate cancer. | Le TK et al. | β | 2023 | β |
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| Epigenome-wide association study of systemic effects of obesity susceptibility in human twins. | Duncan GE et al. | β | 2023 | β |
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| Gene Co-Expression Networks Offer New Perspectives on Sepsis Pathophysiology. | Martinez-Paz P et al. | β | 2023 | β |
| Gene expression profiling in NOD mice reveals that B cells are highly educated by the pancreatic environment during autoimmune diabetes. | Boldison J et al. | β | 2023 | β |
| Generation of novel in vitro flexible kidney organoid model to investigate the role of extracellular vesicles in induction of nephrogenesis. | Ahmad N et al. | β | 2023 | β |
| Genetic characterization of C. elegans TMED genes. | Navarro KG et al. | β | 2023 | β |
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| Global Discovery of Covalent Modulators of Ribonucleoprotein Granules. | Ciancone AM et al. | β | 2023 | β |
| Grandmaternal allergen sensitization reprograms epigenetic and airway responses to allergen in second-generation offspring. | Lebold KM et al. | β | 2023 | β |
| Growth Developmental Defects of Mitochondrial Iron Transporter 1 and 2 Mutants in Arabidopsis in Iron Sufficient Conditions. | Vargas J et al. | β | 2023 | β |
| Halogenated boroxine increases propensity to apoptosis in leukemia (UT-7) but not non-tumor cells inΒ vitro. | Hadzic M et al. | β | 2023 | β |
| Human TRMT2A methylates tRNA and contributes to translation fidelity. | Witzenberger M et al. | β | 2023 | β |
| Identification of a novel SNP in the miR172 binding site of Q homoeolog AP2L-D5 is associated with spike compactness and agronomic traits in wheat (Triticum aestivum L.). | Zeng V et al. | β | 2023 | β |
| Identification of Plasma Proteomic Biomarkers in Patients with Mild Cognitive Impairment. | Singh V et al. | β | 2023 | β |
| Identifying Genes Associated with Alzheimer's Disease Using Gene-Based Polygenic Risk Score. | Lai D et al. | β | 2023 | β |
| <i>Ficus deltoidea</i> Leaf Alters Oxidative Stress, Protein Homeostasis and Ubiquitin-Proteasome Pathways in Fatty Acid-Induced Cell Line. | Abrahim NN et al. | β | 2023 | β |
| <i>In silico</i> identification and characterization of the SNPs in the human <i>ASTL</i> gene and their probable role in female infertility. | Suri K et al. | β | 2023 | β |
| Immunopathological mechanisms in the early stage of Mycobacterium avium subsp. paratuberculosis infection via different administration routes in a murine model. | Lee JH et al. | β | 2023 | β |
| Integrative multi-omics and drug-response characterization of patient-derived prostate cancer primary cells. | Wang Z et al. | β | 2023 | β |
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| <i>POLD1</i> DEDD Motif Mutation Confers Hypermutation in Endometrial Cancer and Durable Response to Pembrolizumab. | Wei CH et al. | β | 2023 | β |
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| Lineage-Mismatched Mitochondrial Replacement in an Inducible Mitochondrial Depletion Model Effectively Restores the Original Proteomic Landscape of Recipient Cells. | Capelluto F et al. | β | 2023 | β |
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| Loss of the Atrial Fibrillation-Related Gene, <i>Zfhx3</i>, Results in Atrial Dilation and Arrhythmias. | Jameson HS et al. | β | 2023 | β |
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| Modular architecture and functional annotation of human RNA-binding proteins containing RNA recognition motif. | Agarwal A et al. | β | 2023 | β |
| Molecular, Circuit, and Stress Response Characterization of Ventral Pallidum Npas1-Neurons. | Morais-Silva G et al. | β | 2023 | β |
| Multiple generation distinct toxicant exposures induce epigenetic transgenerational inheritance ofΒ enhanced pathology andΒ obesity. | Nilsson EE et al. | β | 2023 | β |
| Pericytes control vascular stability and auditory spiral ganglion neuron survival. | Zhang Y et al. | β | 2023 | β |
| Phenotype Switching of Breast Cancer Cells upon Matrix Interface Crossing. | Riedl P et al. | β | 2023 | β |
| Phenotypic and Genetic Links between Body Fat Measurements and Primary Open-Angle Glaucoma. | Rong SS et al. | β | 2023 | β |
| PICKLE RELATED 2 is a Neofunctionalized Gene Duplicate Under Positive Selection With Antagonistic Effects to the Ancestral PICKLE Gene on the Seed Transcriptome. | Dupouy G et al. | β | 2023 | β |
| Progressive mitochondrial dysfunction in cerebellar synaptosomes of cystatin B-deficient mice. | Gorski K et al. | β | 2023 | β |
| Protein-protein networks analysis of differentially expressed genes unveils the key phenomenon of biological process with respect to reproduction in endangered catfish, C. Magur. | Kushwaha B et al. | β | 2023 | β |
| Proteomic analysis of neonatal mouse hearts shows PKA functions as a cardiomyocyte replication regulator. | Hu L et al. | β | 2023 | β |
| Proteomic analysis of the hepatic response to a pollutant mixture in mice. The protective action of selenium. | Huertas-Abril PV et al. | β | 2023 | β |
| Protocol to analyze and validate transcriptomic changes in PDGFRΞ²-KO mesenchymal stem cell osteogenic potential in the mouse embryo. | Kilpatrick AM et al. | β | 2023 | β |
| RNA Methyltransferase METTL16's Protein Domains Have Differential Functional Effects on Cell Processes. | Talic ES et al. | β | 2023 | β |
| Role of epigenetics in the etiology of hypospadias through penile foreskin DNA methylation alterations. | Kaefer M et al. | β | 2023 | β |
| S-Nitrosylation-mediated dysfunction of TCA cycle enzymes in synucleinopathy studied in postmortem human brains and hiPSC-derived neurons. | Doulias PT et al. | β | 2023 | β |
| SNP-based high-density linkage map construction and QTL mapping of black spot disease resistance in Chinese sand pear. | Hongyan Z et al. | β | 2023 | β |
| Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis. | Sampath Kumar A et al. | β | 2023 | β |
| Spermine deficiency shifts the balance between jasmonic acid and salicylic acid-mediated defence responses in Arabidopsis. | Zhang C et al. | β | 2023 | β |
| Spinal cord repair is modulated by the neurogenic factor Hb-egf under direction of a regeneration-associated enhancer. | Cigliola V et al. | β | 2023 | β |
| Systemic epigenome-wide association study of elk treponeme-associated hoof disease. | Wild MA et al. | β | 2023 | β |
| Targeted Workflow Investigating Variations in the Tear Proteome by Liquid Chromatography Tandem Mass Spectrometry. | LΓ©pine M et al. | β | 2023 | β |
| Target Landscape of Conserved Plant MicroRNAs and the Complexities of Their Ancient MicroRNA-Binding Sites. | Wong GY et al. | β | 2023 | β |
| The DNA binding high mobility group box protein family functionally binds RNA. | Hamilton DJ et al. | β | 2023 | β |
| The EXO70 inhibitor Endosidin2 alters plasma membrane protein composition in Arabidopsis roots. | Li X et al. | β | 2023 | β |
| The Impact of Modern Admixture on Archaic Human Ancestry in Human Populations. | Witt KE et al. | β | 2023 | β |
| The influence of adalimumab treatment on the systemic gene expression in patients with psoriatic arthritis - preliminary report. | Krawczyk A et al. | β | 2023 | β |
| The proteomic landscape of genome-wide genetic perturbations. | Messner CB et al. | β | 2023 | β |
| The role of thioredoxin proteins in <i>Mycobacterium tuberculosis</i> probed by proteome-wide target profiling. | Sugandhi S et al. | β | 2023 | β |
| Tomato MED25 regulates fruit ripening by interacting with EIN3-like transcription factors. | Deng L et al. | β | 2023 | β |
| Towards Understanding the Key Signature Pathways Associated from Differentially Expressed Gene Analysis in an Indian Prostate Cancer Cohort. | Shukla N et al. | β | 2023 | β |
| Trajectory reconstruction identifies dysregulation of perinatal maturation programs in pluripotent stem cell-derived cardiomyocytes. | Kannan S et al. | β | 2023 | β |
| Abnormal levels of mitochondrial Ca<sup>2+</sup> channel proteins in plasma neuron-derived extracellular vesicles of early schizophrenia. | Goetzl EJ et al. | β | 2022 | β |
| A Census of Human Methionine-Rich Prion-like Domain-Containing Proteins. | Aledo JC | β | 2022 | β |
| A chromosome-level genome assembly and annotation of the desert horned lizard, Phrynosoma platyrhinos, provides insight into chromosomal rearrangements among reptiles. | Koochekian N et al. | β | 2022 | β |
| A cross-study analysis of drug response prediction in cancer cell lines. | Xia F et al. | β | 2022 | β |
| A human adipose tissue cell-type transcriptome atlas. | Norreen-Thorsen M et al. | β | 2022 | β |
| A Hybrid Protocol for Finding Novel Gene Targets for Various Diseases Using Microarray Expression Data Analysis and Text Mining. | Manoharan S et al. | β | 2022 | β |
| A microengineered Brain-Chip to model neuroinflammation in humans. | Pediaditakis I et al. | β | 2022 | β |
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| Anti-asthmatic fraction screening and mechanisms prediction of Schisandrae Sphenantherae Fructus based on a combined approach. | Li F et al. | β | 2022 | β |
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| Axenic Culture of <i>Caenorhabditis elegans</i> Alters Lysosomal/Proteasomal Balance and Increases Neuropeptide Expression. | Cai H et al. | β | 2022 | β |
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| Characterizing and explaining the impact of disease-associated mutations in proteins without known structures or structural homologs. | Sen N et al. | β | 2022 | β |
| Circulating microRNAs predispose to takotsubo syndrome following high-dose adrenaline exposure. | Couch LS et al. | β | 2022 | β |
| Comparative Analysis of Co-Cultured Amniotic Cell-Conditioned Media with Cell-Free Amniotic Fluid Reveals Differential Effects on Epithelial-Mesenchymal Transition and Myofibroblast Activation. | Liu N et al. | β | 2022 | β |
| Conservation of magnetite biomineralization genes in all domains of life and implications for magnetic sensing. | Bellinger MR et al. | β | 2022 | β |
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| Contribution of Host miRNA-223-3p to SARS-CoV-Induced Lung Inflammatory Pathology. | Morales L et al. | β | 2022 | β |
| Control of spinal motor neuron terminal differentiation through sustained <i>Hoxc8</i> gene activity. | Catela C et al. | β | 2022 | β |
| COVID-19 Salivary Protein Profile: Unravelling Molecular Aspects of SARS-CoV-2 Infection. | Esteves E et al. | β | 2022 | β |
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| Dataset for proteomic analysis of arylamine <i>N</i>-acetyltransferase 1 knockout MDA-MB-231 breast cancer cells. | Hong KU et al. | β | 2022 | β |
| Deep RNA sequencing of intensive care unit patients with COVID-19. | Fredericks AM et al. | β | 2022 | β |
| Developmental cell death of cortical projection neurons is controlled by a Bcl11a/Bcl6-dependent pathway. | Wiegreffe C et al. | β | 2022 | β |
| Development and Characterization of Type I, Type II, and Type III LIM-Kinase Chemical Probes. | Hanke T et al. | β | 2022 | β |
| DIAMIN: a software library for the distributed analysis of large-scale molecular interaction networks. | Di Rocco L et al. | β | 2022 | β |
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| Dynamin-Related Proteins Enhance Tomato Immunity by Mediating Pattern Recognition Receptor Trafficking. | Leibman-Markus M et al. | β | 2022 | β |
| Ebola Virus Encodes Two microRNAs in Huh7-Infected Cells. | Diallo I et al. | β | 2022 | β |
| Enhancers of Host Immune Tolerance to Bacterial Infection Discovered Using Linked Computational and Experimental Approaches. | Sperry MM et al. | β | 2022 | β |
| Enrichment of Newly Synthesized Proteins following treatment of C2C12 Myotubes with Endotoxin and Interferon-Ξ³. | Coleman CS et al. | β | 2022 | β |
| Environmental induced transgenerational inheritance impacts systems epigenetics in disease etiology. | Beck D et al. | β | 2022 | β |
| EP300 Selectively Controls the Enhancer Landscape of MYCN-Amplified Neuroblastoma. | Durbin AD et al. | β | 2022 | β |
| Epigenetically silenced apoptosis-associated tyrosine kinase (AATK) facilitates a decreased expression of Cyclin D1 and WEE1, phosphorylates TP53 and reduces cell proliferation in a kinase-dependent manner. | Woods ML et al. | β | 2022 | β |
| Epigenome-wide association study of physical activity and physiological parameters in discordant monozygotic twins. | Duncan GE et al. | β | 2022 | β |
| Estrogen-related receptor gamma regulates mitochondrial and synaptic genes and modulates vulnerability to synucleinopathy. | Fox SN et al. | β | 2022 | β |
| Evaluation of post-colostrum ingestion changes in the protein composition of peripheral blood of newborn piglets: A pilot study. | Ito KR et al. | β | 2022 | β |
| Evolutionarily conserved bacterial effectors hijack abscisic acid signaling to induce an aqueous environment in the apoplast. | Roussin-LΓ©veillΓ©e C et al. | β | 2022 | β |
| Examination of generational impacts of adolescent chemotherapy: Ifosfamide and potential for epigenetic transgenerational inheritance. | Thompson RP et al. | β | 2022 | β |
| Finding the "switch" in platelet activation: prediction of key mediators involved in reversal of platelet activation using a novel network biology approach. | Lemmens TP et al. | β | 2022 | β |
| Full-Length Transcriptome Sequencing Analysis of Differentially Expressed Genes and Pathways After Treatment of Psoriasis With Oxymatrine. | Xue X et al. | β | 2022 | β |
| Gene-based polygenic risk scores analysis of alcohol use disorder in African Americans. | Lai D et al. | β | 2022 | β |
| Genes involved in mRNA surveillance are induced in Brachypodium distachyon under cadmium toxicity. | Aksoy E et al. | β | 2022 | β |
| Genome of Hippophae rhamnoides provides insights into a conserved molecular mechanism in actinorhizal and rhizobial symbioses. | Wu Z et al. | β | 2022 | β |
| Genome-wide analyses of introgression between two sympatric Asian oak species. | Fu R et al. | β | 2022 | β |
| Genome-wide CRISPR screen identifies PRC2 and KMT2D-COMPASS as regulators of distinct EMT trajectories that contribute differentially to metastasis. | Zhang Y et al. | β | 2022 | β |
| Global changes in gene expression related to <i>Opisthorchis felineus</i> liver fluke infection reveal temporal heterogeneity of a mammalian host response. | Pakharukova MY et al. | β | 2022 | β |
| Glucose derived carbon nanosphere (CSP) conjugated TTK21, an activator of the histone acetyltransferases CBP/p300, ameliorates amyloid-beta 1-42 induced deficits in plasticity and associativity in hippocampal CA1 pyramidal neurons. | Singh AK et al. | β | 2022 | β |
| Glutamyl-prolyl-tRNA synthetase 1 coordinates early endosomal anti-inflammatory AKT signaling. | Lee EY et al. | β | 2022 | β |
| G Protein Coupled Receptors Potentially Involved in Oligodendrogenesis: A Gene Expression Analysis. | Karami N et al. | β | 2022 | β |
| Histone 3 Methyltransferases Alter Melanoma Initiation and Progression Through Discrete Mechanisms. | DiNapoli SE et al. | β | 2022 | β |
| Human obese white adipose tissue sheds depot-specific extracellular vesicles and reveals candidate biomarkers for monitoring obesity and its comorbidities. | Camino T et al. | β | 2022 | β |
| Human primitive mesenchymal stem cell-derived retinal progenitor cells improved neuroprotection, neurogenesis, and vision in rd12 mouse model of retinitis pigmentosa. | Brown C et al. | β | 2022 | β |
| Identification of Essential Genes in Caenorhabditis elegans with Lethal Mutations Maintained by Genetic Balancers. | Yu S et al. | β | 2022 | β |
| Identification of stably expressed reference genes for expression studies in <i>Arabidopsis thaliana</i> using mass spectrometry-based label-free quantification. | Cheng SS et al. | β | 2022 | β |
| Identification of the common neurobiological process disturbed in genetic and non-genetic models for autism spectrum disorders. | Malijauskaite S et al. | β | 2022 | β |
| Implementation of a combined bioinformatics and experimental approach to address lncRNA mechanism of action: The example of NRIR. | Mariotti B et al. | β | 2022 | β |
| Influence of Padina gymnospora on Apoptotic Proteins of Oral Cancer Cells-a Proteome-Wide Analysis. | Zhang Q et al. | β | 2022 | β |
| <i>Rhodnius prolixus</i> Hemolymph Immuno-Physiology: Deciphering the Systemic Immune Response Triggered by <i>Trypanosoma cruzi</i> Establishment in the Vector Using Quantitative Proteomics. | Ouali R et al. | β | 2022 | β |
| Joint Secondary Transcriptomic Analysis of Non-Hodgkin's B-Cell Lymphomas Predicts Reliance on Pathways Associated with the Extracellular Matrix and Robust Diagnostic Biomarkers. | Rapier-Sharman N et al. | β | 2022 | β |
| Meta-analysis of gene expression data in adipose tissue reveals new obesity associated genes. | Goutzelas Y et al. | β | 2022 | β |
| microRNAs Control Antiviral Immune Response, Cell Death and Chemotaxis Pathways in Human Neuronal Precursor Cells (NPCs) during Zika Virus Infection. | Polonio CM et al. | β | 2022 | β |
| Microscopic and biochemical monitoring of endosomal trafficking and extracellular vesicle secretion in an endogenous in vivo model. | LinnemannstΓΆns K et al. | β | 2022 | β |
| Mitigating Host Burden of Genetic Circuits by Engineering Autonegatively Regulated Parts and Improving Functional Prediction. | Guan Y et al. | β | 2022 | β |
| Modulation of the Drosophila transcriptome by developmental exposure to alcohol. | Morozova TV et al. | β | 2022 | β |
| Molecular Evolution and Inheritance Pattern of <i>Sox</i> Gene Family among Bovidae. | Akinyemi MO et al. | β | 2022 | β |
| Molecular Evolutionary Rate Predicts Intraspecific Genetic Polymorphism and Species-Specific Selection. | Wu J et al. | β | 2022 | β |
| Multiple Profile Models Extract Features from Protein Sequence Data and Resolve Functional Diversity of Very Different Protein Families. | Vicedomini R et al. | β | 2022 | β |
| MYCN and HIF-1 directly regulate <i>TET1</i> expression to control 5-hmC gains and enhance neuroblastoma cell migration in hypoxia. | Hains AE et al. | β | 2022 | β |
| Neuronal-epithelial cross-talk drives acinar specification via NRG1-ERBB3-mTORC2 signaling. | May AJ et al. | β | 2022 | β |
| Neuropeptidergic regulation of compulsive ethanol seeking in C. elegans. | Salim C et al. | β | 2022 | β |
| Nitric Oxide Production and Effects in Group B <i>Streptococcus</i> Chorioamnionitis. | Keith MF et al. | β | 2022 | β |
| Non-invasive photobiomodulation treatment in an Alzheimer Disease-like transgenic rat model. | Yang L et al. | β | 2022 | β |
| Novel Insights into Redox-Based Mechanisms for Auranofin-Induced Rapid Cancer Cell Death. | Hatem E et al. | β | 2022 | β |
| Optimized sample preparation and data analysis for TMT proteomic analysis of cerebrospinal fluid applied to the identification of Alzheimer's disease biomarkers. | Weiner S et al. | β | 2022 | β |
| Organic anion transporter 1 is an HDAC4-regulated mediator of nociceptive hypersensitivity in mice. | Litke C et al. | β | 2022 | β |
| OTOP2, Inversely Modulated by miR-3148, Inhibits CRC Cell Migration, Proliferation and Epithelial-Mesenchymal Transition: Evidence from Bioinformatics Data Mining and Experimental Verification. | Guo S et al. | β | 2022 | β |
| PANTHER: Making genome-scale phylogenetics accessible to all. | Thomas PD et al. | β | 2022 | β |
| PDGFRΞ²<sup>+</sup> cells play a dual role as hematopoietic precursors and niche cells during mouse ontogeny. | SΓ‘ da Bandeira D et al. | β | 2022 | β |
| Peptide ligand-mediated trade-off between plant growth and stress response. | Ogawa-Ohnishi M et al. | β | 2022 | β |
| Photoperiod Stress in <i>Arabidopsis thaliana</i> Induces a Transcriptional Response Resembling That of Pathogen Infection. | Cortleven A et al. | β | 2022 | β |
| Phylogeny and potential virulence of cryptic clade <i>Escherichia coli</i> species complex isolates derived from an arable field trial. | MacKenzie K et al. | β | 2022 | β |
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| Prediction of transcript isoforms in 19 chicken tissues by Oxford Nanopore long-read sequencing. | Guan D et al. | β | 2022 | β |
| Preterm birth buccal cell epigenetic biomarkers to facilitate preventative medicine. | Winchester P et al. | β | 2022 | β |
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| Profiling Genome-Wide DNA Methylation Patterns in Human Aortic and Mitral Valves. | Halawa S et al. | β | 2022 | β |
| Prognostic Hub Genes in the Immune Microenvironment of Lung Adenocarcinoma by Estimation. | Liu S et al. | β | 2022 | β |
| Protective Mechanisms of Nootropic Herb Shankhpushpi (<i>Convolvulus pluricaulis</i>) against Dementia: Network Pharmacology and Computational Approach. | Hannan MA et al. | β | 2022 | β |
| Protein expression profiling, <i>in silico</i> classification and pathway analysis of cariogenic bacteria <i>Streptococcus mutans</i> under bacitracin stress conditions. | Zaidi S et al. | β | 2022 | β |
| Proteomic analysis of arylamine <i>N</i>-acetyltransferase 1 knockout breast cancer cells: Implications in immune evasion and mitochondrial biogenesis. | Hong KU et al. | β | 2022 | β |
| Proteomic Markers in the Muscles and Brain of Pigs Recovered from Hemorrhagic Stroke. | Fedulova L et al. | β | 2022 | β |
| Quantitative Proteomics Reveals Molecular Network Driving Stromal Cell Differentiation: Implications for Corneal Wound Healing. | Nishtala K et al. | β | 2022 | β |
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| Retinal Proteomic Analysis in a Mouse Model of Endotoxin-Induced Uveitis Using Data-Independent Acquisition-Based Mass Spectrometry. | Zhang J et al. | β | 2022 | β |
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| Root Membrane Ubiquitinome under Short-Term Osmotic Stress. | Berger N et al. | β | 2022 | β |
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| Six potential biomarkers for bladder cancer: key proteins in cell-cycle division and apoptosis pathways. | Inal GΓΌltekin G et al. | β | 2022 | β |
| Small extracellular vesicles from young adipose-derived stem cells prevent frailty, improve health span, and decrease epigenetic age in old mice. | Sanz-Ros J et al. | β | 2022 | β |
| Statistical and functional convergence of common and rare genetic influences on autism at chromosome 16p. | Weiner DJ et al. | β | 2022 | β |
| Structural and Functional Impact of Damaging Nonsynonymous Single Nucleotide Polymorphisms (nsSNPs) on Human VPS35 Protein Using Computational Approaches. | Jawad Ul Hasnain M et al. | β | 2022 | β |
| Surface Engineering of Protein Nanoparticles Modulates Transport, Adsorption, and Uptake in Mucus. | Pho T et al. | β | 2022 | β |
| Sustained experimental activation of FGF8/ERK in the developing chicken spinal cord models early events in ERK-mediated tumorigenesis. | Wilmerding A et al. | β | 2022 | β |
| Synaptoproteomic Analysis of the Prefrontal Cortex Reveals Spatio-Temporal Changes in SYNGAP1 Following Cannabinoid Exposure in Rat Adolescence. | Qvist JS et al. | β | 2022 | β |
| Systematic Survey of the Regulatory Networks of the Long Noncoding RNA BANCR in Cervical Cancer Cells. | Wang B et al. | β | 2022 | β |
| T-cell trans-synaptic vesicles are distinct and carry greater effector content than constitutive extracellular vesicles. | CΓ©spedes PF et al. | β | 2022 | β |
| Temporal Proteomic and Phosphoproteomic Analysis of EV-A71-Infected Human Cells. | Zhao Y et al. | β | 2022 | β |
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| The arginine methyltransferase Carm1 is necessary for heart development. | Jamet S et al. | β | 2022 | β |
| The Response of the Human Umbilical Vein Endothelial Cell Transcriptome to Variation in Magnesium Concentration. | Almousa LA et al. | β | 2022 | β |
| The Revelation of Continuously Organized, Co-Overexpressed Protein-Coding Genes with Roles in Cellular Communications in Breast Cancer. | Paul AM et al. | β | 2022 | β |
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| The structural coverage of the human proteome before and after AlphaFold. | Porta-Pardo E et al. | β | 2022 | β |
| Transcriptional Regulation of Human Arylamine N-Acetyltransferase 2 Gene by Glucose and Insulin in Liver Cancer Cell Lines. | Hong KU et al. | β | 2022 | β |
| Transcriptomic Analysis of Human NaΓ―ve and Primed Pluripotent Stem Cells. | Ghosh A et al. | β | 2022 | β |
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| Urinary Proteomic Signature in Acute Decompensated Heart Failure: Advances into Molecular Pathophysiology. | Diaz-Riera E et al. | β | 2022 | β |
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| A Meta-Analysis of the Effects of High-LET Ionizing Radiations in Human Gene Expression. | Michalettou TD et al. | β | 2021 | β |
| A Monocyte-Orchestrated IFN-I-to-IL-4 Cytokine Axis Instigates Protumoral Macrophages and Thwarts Poly(I:C) Therapy. | Guo P et al. | β | 2021 | β |
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| A Network-Based Methodology to Identify Subnetwork Markers for Diagnosis and Prognosis of Colorectal Cancer. | Al-Harazi O et al. | β | 2021 | β |
| An Integrated Transcriptomics and Proteomics Analysis Implicates lncRNA MALAT1 in the Regulation of Lipid Metabolism. | Wang H et al. | β | 2021 | β |
| An Investigation into Proteomic Constituents of Cerebrospinal Fluid in Patients with Chronic Peripheral Neuropathic Pain Medicated with Opioids- a Pilot Study. | Royds J et al. | β | 2021 | β |
| A nonviral, nonintegrating DNA nanovector platform for the safe, rapid, and persistent manufacture of recombinant T cells. | Bozza M et al. | β | 2021 | β |
| A population based expression atlas provides insights into disease resistance and other physiological traits in cassava (Manihot esculenta Crantz). | Ogbonna AC et al. | β | 2021 | β |
| Applying Proteomics and Integrative "Omics" Strategies to Decipher the Chronic Kidney Disease-Related Atherosclerosis. | Tracz J et al. | β | 2021 | β |
| Assessing technical and biological variation in SWATH-MS-based proteomic analysis of chronic lymphocytic leukaemia cells. | Eagle GL et al. | β | 2021 | β |
| Automated generation of context-specific gene regulatory networks with a weighted approach in <i>Drosophila melanogaster</i>. | Murgas L et al. | β | 2021 | β |
| Avian ceca are indispensable for hindgut enteric nervous system development. | Nagy N et al. | β | 2021 | β |
| Bioinformatic Analysis of Temporal and Spatial Proteome Alternations During Infections. | Rahmatbakhsh M et al. | β | 2021 | β |
| Bioinformatic Tools in Arabidopsis Research. | Alex Mason G et al. | β | 2021 | β |
| Biologically Enhanced Genome-Wide Association Study Provides Further Evidence for Candidate Loci and Discovers Novel Loci That Influence Risk of Anterior Cruciate Ligament Rupture in a Dog Model. | Baker LA et al. | β | 2021 | β |
| Brain atrophy progression in Parkinson's disease is shaped by connectivity and local vulnerability. | Tremblay C et al. | β | 2021 | β |
| Calling large indels in 1047 Arabidopsis with IndelEnsembler. | Liu DX et al. | β | 2021 | β |
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| Cell-Based Therapies for Trabecular Meshwork Regeneration to Treat Glaucoma. | Mallick S et al. | β | 2021 | β |
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| Characterization and differentiation of quinoa seed proteomes by label-free mass spectrometry-based shotgun proteomics. | Galindo-LujΓ‘n R et al. | β | 2021 | β |
| Clinical trait-connected network analysis reveals transcriptional markers of active psoriasis treatment with Liangxue-Jiedu decoction. | Li YJ et al. | β | 2021 | β |
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| Comparative microsomal proteomics of a model lung cancer cell line NCI-H23 reveals distinct differences between molecular profiles of 3D and 2D cultured cells. | Kaczmarczyk JA et al. | β | 2021 | β |
| Comparative transcriptome profiling of heat stress response of the mangrove crab Scylla serrata across sites of varying climate profiles. | Shrestha AMS et al. | β | 2021 | β |
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| Construction and Analysis of Survival-Associated Competing Endogenous RNA Network in Lung Adenocarcinoma. | Chen L et al. | β | 2021 | β |
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| Establishment of a bovine rumen epithelial cell line. | Ji X et al. | β | 2021 | β |
| Evaluation of the susceptibility and fatality of lung cancer patients towards the COVID-19 infection: A systemic approach through analyzing the ACE2, CXCL10 and their co-expressed genes. | Mahmood TB et al. | β | 2021 | β |
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| Fungal Wound Healing through Instantaneous Protoplasmic Gelation. | Nguyen TA et al. | β | 2021 | β |
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| Epigenome-wide association study (EWAS) for potential transgenerational disease epigenetic biomarkers in sperm following ancestral exposure to the pesticide methoxychlor. | Nilsson EE et al. | β | 2020 | β |
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| Evolution and Domestication Footprints Uncovered from the Genomes of Coix. | Liu H et al. | β | 2020 | β |
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| From genome to phenome: Predicting multiple cancer phenotypes based on somatic genomic alterations via the genomic impact transformer. | Tao Y et al. | β | 2020 | β |
| Functional and Structural Analysis of Predicted Proteins Obtained from <i>Homo sapiens'</i> Minisatellite 33.15-Tagged Transcript pAKT-45 Variants. | Shahbaaz M et al. | β | 2020 | β |
| Functional gene networks reveal distinct mechanisms segregating in migraine families. | Rasmussen AH et al. | β | 2020 | β |
| Gene Expression Profiling in Fibromyalgia Indicates an Autoimmune Origin of the Disease and Opens New Avenues for Targeted Therapy. | Dolcino M et al. | β | 2020 | β |
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| Genetic mechanisms of formation of radiation-induced instability of the genome and its transgenerational effects in the descendants of chronically irradiated individuals of Drosophila melanogaster. | Yushkova E | β | 2020 | β |
| Genetic Networks Underlying Natural Variation in Basal and Induced Activity Levels in <i>Drosophila melanogaster</i>. | Watanabe LP et al. | β | 2020 | β |
| Genome-wide CRISPR screens of oral squamous cell carcinoma reveal fitness genes in the Hippo pathway. | Chai AWY et al. | β | 2020 | β |
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| High-Throughput Identification of the <i>Rhodnius prolixus</i> Midgut Proteome Unravels a Sophisticated Hematophagic Machinery. | Ouali R et al. | β | 2020 | β |
| Hyena paleogenomes reveal a complex evolutionary history of cross-continental gene flow between spotted and cave hyena. | Westbury MV et al. | β | 2020 | β |
| Identification of key proteins involved in stickleback environmental adaptation with system-level analysis. | Hall M et al. | β | 2020 | β |
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| Integration of Transcriptome, Gross Morphology and Histopathology in the Gill of Sea Farmed Atlantic Salmon (<i>Salmo salar</i>): Lessons From Multi-Site Sampling. | KrΓ³l E et al. | β | 2020 | β |
| Interesting Properties of Profile Data Analysis in the Understanding and Utilization of the Effects of Drugs. | Mizuno T et al. | β | 2020 | β |
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| Investigation of spectroscopic and proteomic alterations underlying prostate carcinogenesis. | Felgueiras J et al. | β | 2020 | β |
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| Listeria monocytogenes Exploits Mitochondrial Contact Site and Cristae Organizing System Complex Subunit Mic10 To Promote Mitochondrial Fragmentation and Cellular Infection. | Carvalho F et al. | β | 2020 | β |
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| MicroRNA-411 and Its 5'-IsomiR Have Distinct Targets and Functions and Are Differentially Regulated in the Vasculature under Ischemia. | van der Kwast RVCT et al. | β | 2020 | β |
| MicroRNA expression profiling in PBMCs of Indian water Buffalo (<i>Bubalus bubalis</i>) infected with Brucella and Johne's disease. | Singh J et al. | β | 2020 | β |
| Modelling the developmental spliceosomal craniofacial disorder Burn-McKeown syndrome using induced pluripotent stem cells. | Wood KA et al. | β | 2020 | β |
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| The Plant Ontology Facilitates Comparisons of Plant Development Stages Across Species. | Walls RL et al. | β | 2019 | β |
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| Transcriptome Analysis of the Hierarchical Response of Histone Deacetylase Proteins That Respond in an Antagonistic Manner to Salinity Stress. | Ueda M et al. | β | 2019 | β |
| Transcriptome analysis reveals differentially expressed genes and pathways for oviduct development and defense in prelaying and laying hens. | Yin L et al. | β | 2019 | β |
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| Transcriptomic analysis of 3D Cardiac Differentiation of Human Induced Pluripotent Stem Cells Reveals Faster Cardiomyocyte Maturation Compared to 2D Culture. | Branco MA et al. | β | 2019 | β |
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| Unilateral L4-dorsal root ganglion stimulation evokes pain relief in chronic neuropathic postsurgical knee pain and changes of inflammatory markers: part II whole transcriptome profiling. | Kinfe TM et al. | β | 2019 | β |
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| Whole-Exome Sequencing Characterized the Landscape of Somatic Mutations and Pathways in Colorectal Cancer Liver Metastasis. | Feng L et al. | β | 2019 | β |
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