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Cyrface: An interface from Cytoscape to R that provides a user interface to R packages.
PMID 24715956 · F1000Res · 2013
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A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly.
PMID 23496952 · BMC Genomics · 2013
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69/100
The TREM2-APOE Pathway Drives the Transcriptional Phenotype of Dysfunctional Microglia in Neurodegenerative Diseases.
PMID 28930663 · Immunity · 2017
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67/100
Endogenous retroviral elements LTR8B and MER65 rewire PSG9 regulation to control trophoblast syncytialization and pre-eclampsia risk.
PMID 41796334 · Genome Biol · 2026
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68/100
Distinct senotypes in p16- and p21-positive cells across human and mouse aging tissues.
PMID 41162753 · EMBO J · 2025
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CDKL1 variants affecting ciliary formation predispose to thoracic aortic aneurysm and dissection.
PMID 41056017 · · 2025
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A blood-based DNA damage signature in patients with Parkinson's disease is associated with disease progression.
PMID 40913219 · Nat Aging · 2025
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Genetic parallels in biomineralization of the calcareous sponge Sycon ciliatum and stony corals.
PMID 40922549 · Elife · 2025
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MACanalyzeR scRNAseq analysis tool reveals PPARγHIGH/GDF15HIGH lipid-associated macrophages facilitate thermogenic⚑
PMID 40450001 · Nat Commun · 2025
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Chemical genomics informs antibiotic and essential gene function in Acinetobacter baumannii.
PMID 40153700 · PLoS Genet · 2025
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Metabolic features that select for Bathyarchaeia in modern ferruginous lacustrine subsurface sediments.
PMID 39660009 · ISME Commun · 2024
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Community assessment of methods to deconvolve cellular composition from bulk gene expression.
PMID 39191725 · Nat Commun · 2024
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63/100
An atlas of the human liver diurnal transcriptome and its perturbation by hepatitis C virus infection.
PMID 39209804 · Nat Commun · 2024
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Integrated drug resistance and leukemic stemness gene-expression scores predict outcomes in large cohort of over 3500 AML patients from 10 trials.
PMID 39090192 · NPJ Precis Oncol · 2024
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Meta-analysis of six dairy cattle breeds reveals biologically relevant candidate genes for mastitis resistance.⚑
PMID 39009986 · Genet Sel Evol · 2024
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Intergenic risk variant rs56258221 skews the fate of naive CD4+ T cells via miR4464-BACH2 interplay in primary sclerosing cholangitis
PMID 38901430 · · 2024
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Characterizing Neutrophil Subtypes in Cancer Using scRNA Sequencing Demonstrates the Importance of IL1β/CXCR2 Axis in Generation of Metastasis-specific Neutroph
PMID 38358352 · Cancer Res Commun · 2024
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Microglia maintain structural integrity during fetal brain morphogenesis.
PMID 38309258 · Cell · 2024
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68/100
Clustering and machine learning-based integration identify cancer associated fibroblasts genes' signature in head and neck squamous cell carcinoma.
PMID 37065499 · Front Genet · 2023
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63/100
Software JimenaE allows efficient dynamic simulations of Boolean networks, centrality and system state analysis.⚑
PMID 36725967 · Sci Rep · 2023
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74/100
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The rates of adult neurogenesis and oligodendrogenesis are linked to cell cycle regulation through p27-dependent gene repression of SOX2.
PMID 36627412 · Cell Mol Life Sci · 2023
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59/100
An individualized causal framework for learning intercellular communication networks that define microenvironments of individual tumors.
PMID 36548438 · PLoS Comput Biol · 2022
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N6-methyladenosine (m6A) reader Pho92 is recruited co-transcriptionally and couples translation to mRNA decay to promote meiotic fitness in y⚑
PMID 36422864 · Elife · 2022
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55/100
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The third international hackathon for applying insights into large-scale genomic composition to use cases in a wide range of organisms.
PMID 36262335 · F1000Res · 2022
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Cutaneous manifestations in Costello syndrome: HRAS p.Gly12Ser affects RIN1-mediated integrin trafficking in immortalized epidermal keratinocytes.
PMID 35981076 · · 2023
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Apoptotic brown adipocytes enhance energy expenditure via extracellular inosine
PMID 35790189 · · 2022
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57/100
A hybrid empirical and parametric approach for managing ecosystem complexity: Water quality in Lake Geneva under nonstationary futures.
PMID 35733249 · Proc Natl Acad Sci U S A · 2022
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Enhancer RNAs stimulate Pol II pause release by harnessing multivalent interactions to NELF.
PMID 35508485 · Nat Commun · 2022
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Prospects of telomere-to-telomere assembly in barley: Analysis of sequence gaps in the MorexV3 reference genome.
PMID 35338551 · Plant Biotechnol J · 2022
71/100
epiGBS2: Improvements and evaluation of highly multiplexed, epiGBS-based reduced representation bisulfite sequencing.⚑
PMID 35178872 · Mol Ecol Resour · 2022
52/100
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Downstream high-speed plasma jet generation as a direct consequence of shock reformation.
PMID 35105885 · Nat Commun · 2022
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Phosphorylation of ribosomal protein S6 differentially affects mRNA translation based on ORF length.
PMID 34871442 · Nucleic Acids Res · 2021
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58/100
EpiDiverse Toolkit: a pipeline suite for the analysis of bisulfite sequencing data in ecological plant epigenetics.⚑
PMID 34805989 · NAR Genom Bioinform · 2021
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metaGEM: reconstruction of genome scale metabolic models directly from metagenomes.
PMID 34614189 · Nucleic Acids Res · 2021
64/100
Gene Set Enrichment Analysis Reveals Individual Variability in Host Responses in Tuberculosis Patients.
PMID 34421903 · Front Immunol · 2021
71/100
treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses.
PMID 34001188 · Genome Biol · 2021
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WASP: a versatile, web-accessible single cell RNA-Seq processing platform.
PMID 33736596 · BMC Genomics · 2021
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A crowdsourced set of curated structural variants for the human genome.
PMID 32559231 · PLoS Comput Biol · 2020
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miEAA 2.0: integrating multi-species microRNA enrichment analysis and workflow management systems.
PMID 32374865 · Nucleic Acids Res · 2020
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61/100
STAT3-dependent analysis reveals PDK4 as independent predictor of recurrence in prostate cancer.
PMID 32323921 · Mol Syst Biol · 2020
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NET-prism enables RNA polymerase-dedicated transcriptional interrogation at nucleotide resolution.
PMID 31156037 · RNA Biol · 2019
67/100
Transcriptome maps of general eukaryotic RNA degradation factors.
PMID 31135339 · Elife · 2019
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Predicting enhancers in mammalian genomes using supervised hidden Markov models.
PMID 30917778 · BMC Bioinformatics · 2019
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Analysis of the genome of the New Zealand giant collembolan (Holacanthella duospinosa) sheds light on hexapod evolution.
PMID 29041914 · BMC Genomics · 2017
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Bayesian prediction of RNA translation from ribosome profiling.⚑
PMID 28126919 · Nucleic Acids Res · 2017
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Mutations in CHD7, encoding a chromatin-remodeling protein, cause idiopathic hypogonadotropic hypogonadism and Kallmann syndrome.
PMID 18834967 · · 2008
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