Manolis Kellis | Academic Influence

Manolis Kellis's AcademicInfluence.com Rankings

Manolis Kellis

Biology

#1346

World Rank

#2276

Historical Rank

Computational Biology

#25

World Rank

#25

Historical Rank

Bioinformatics

#44

World Rank

#44

Historical Rank

biology Degrees

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Biology

Manolis Kellis's Degrees

Bachelors Computer Science University of Crete

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Why Is Manolis Kellis Influential?

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According to Wikipedia, Manolis Kellis is a professor of Computer Science at the Massachusetts Institute of Technology in the area of Computational Biology and a member of the Broad Institute of MIT and Harvard. He is the head of the Computational Biology Group at MIT and is a Principal Investigator in the Computer Science and Artificial Intelligence Lab at MIT.

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Manolis Kellis's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

The Genotype-Tissue Expression (GTEx) project (2013) (6030)
Integrative analysis of 111 reference human epigenomes (2015) (4979)
GENCODE: The reference human genome annotation for The ENCODE Project (2012) (4009)
The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans (2015) (3904)
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals (2009) (3820)
Genetic effects on gene expression across human tissues (2017) (2841)
Genetic effects on gene expression across human tissues (2017) (2841)
Genome sequence, comparative analysis and haplotype structure of the domestic dog (2005) (2448)
Transcriptional regulatory code of a eukaryotic genome (2004) (2362)
Histone modifications at human enhancers reflect global cell-type-specific gene expression (2009) (2354)
Discrete Small RNA-Generating Loci as Master Regulators of Transposon Activity in Drosophila (2007) (2256)
An integrated encyclopedia of DNA elements in the human genome (2012) (2080)
HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants (2011) (2073)
Evolution of genes and genomes on the Drosophila phylogeny (2007) (1992)
Systematic discovery of regulatory motifs in human promoters and 3′ UTRs by comparison of several mammals (2005) (1975)
ChromHMM: automating chromatin-state discovery and characterization (2012) (1974)
Mapping and Analysis of Chromatin State Dynamics in Nine Human Cell Types (2011) (1925)
Sequencing and comparison of yeast species to identify genes and regulatory elements (2003) (1920)
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype (2004) (1905)
GENCODE reference annotation for the human and mouse genomes (2018) (1848)
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia (2012) (1701)
The NIH Roadmap Epigenomics Mapping Consortium (2010) (1680)
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae (2004) (1510)
Wisdom of crowds for robust gene network inference (2012) (1506)
A User's Guide to the Encyclopedia of DNA Elements (ENCODE) (2011) (1467)
Systematic analysis of chromatin state dynamics in nine human cell types (2011) (1355)
A comparative encyclopedia of DNA elements in the mouse genome (2014) (1337)
Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE (2010) (1211)
Single-cell transcriptomic analysis of Alzheimer’s disease (2019) (1099)
A high-resolution map of human evolutionary constraint using 29 mammals (2011) (1081)
Extensive and coordinated transcription of noncoding RNAs within cell cycle promoters (2011) (1066)
Discovery and characterization of chromatin states for systematic annotation of the human genome (2010) (1022)
FTO Obesity Variant Circuitry and Adipocyte Browning in Humans. (2015) (1017)
Evolution of pathogenicity and sexual reproduction in eight Candida genomes (2009) (929)
Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use (2018) (914)
Comprehensive analysis of the chromatin landscape in Drosophila (2010) (868)
The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse. (2013) (854)
Unlocking the secrets of the genome (2009) (832)
RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo (2007) (770)
Expanded encyclopaedias of DNA elements in the human and mouse genomes (2020) (765)
PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions (2011) (761)
Genome analysis of the platypus reveals unique signatures of evolution (2008) (711)
Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo (2013) (699)
HaploReg v4: systematic mining of putative causal variants, cell types, regulators and target genes for human complex traits and disease (2015) (693)
An endogenous small interfering RNA pathway in Drosophila (2008) (693)
Defining functional DNA elements in the human genome (2014) (647)
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures (2007) (639)
Multiple knockout mouse models reveal lincRNAs are required for life and brain development (2013) (637)
Distinguishing protein-coding and noncoding genes in the human genome (2007) (616)
Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs. (2007) (609)
The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes. (2009) (569)
Integrative annotation of chromatin elements from ENCODE data (2012) (523)
Fine mapping of type 1 diabetes susceptibility loci and evidence for colocalization of causal variants with lymphoid gene enhancers (2015) (520)
A cis-regulatory map of the Drosophila genome (2011) (514)
Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes (2015) (499)
Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer’s disease (2015) (486)
Alzheimery's disease pathology is associated with early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci (2014) (482)
Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes (2014) (463)
Comparative Functional Genomics of the Fission Yeasts (2011) (439)
Chromatin-state discovery and genome annotation with ChromHMM (2017) (432)
Systematic discovery and characterization of regulatory motifs in ENCODE TF binding experiments (2013) (419)
Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci (2014) (402)
Interpreting noncoding genetic variation in complex traits and human disease (2012) (388)
Common Genetic Variants Modulate Pathogen-Sensing Responses in Human Dendritic Cells (2014) (383)
Constitutive nuclear lamina–genome interactions are highly conserved and associated with A/T-rich sequence (2013) (379)
Patterns of somatic structural variation in human cancer genomes (2020) (377)
Long noncoding RNAs regulate adipogenesis (2013) (372)
Genomic analyses identify hundreds of variants associated with age at menarche and support a role for puberty timing in cancer risk (2017) (359)
Extensive Variation in Chromatin States Across Humans (2013) (346)
Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites (2007) (345)
Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga (2013) (333)
A Comprehensive Map of Insulator Elements for the Drosophila Genome (2010) (331)
Combinatorial Patterning of Chromatin Regulators Uncovered by Genome-wide Location Analysis in Human Cells (2011) (328)
Comparative analysis of metazoan chromatin organization (2014) (325)
Using an atlas of gene regulation across 44 human tissues to inform complex disease- and trait-associated variation (2018) (319)
Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo. (2007) (317)
Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals (2014) (311)
BRCA1 Recruitment to Transcriptional Pause Sites Is Required for R-Loop-Driven DNA Damage Repair (2015) (306)
Network Motif Discovery Using Subgraph Enumeration and Symmetry-Breaking (2007) (298)
Rapid dissection and model-based optimization of inducible enhancers in human cells using a massively parallel reporter assay (2012) (279)
Common Variants at 9p21 and 8q22 Are Associated with Increased Susceptibility to Optic Nerve Degeneration in Glaucoma (2012) (273)
Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay. (2013) (270)
An Epigenetic Signature for Monoallelic Olfactory Receptor Expression (2011) (267)
CHD8 regulates neurodevelopmental pathways associated with autism spectrum disorder in neural progenitors (2014) (266)
Large-scale imputation of epigenomic datasets for systematic annotation of diverse human tissues (2015) (265)
Tissue-specific regulatory circuits reveal variable modular perturbations across complex diseases (2016) (262)
N6-methyladenosine RNA modification regulates embryonic neural stem cell self-renewal through histone modifications (2018) (262)
Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization (2014) (260)
Network deconvolution as a general method to distinguish direct dependencies in networks (2013) (258)
Corrigendum: Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases (2016) (242)
GENCODE 2021 (2020) (240)
A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands. (2008) (236)
The Tasmanian Devil Transcriptome Reveals Schwann Cell Origins of a Clonally Transmissible Cancer (2009) (229)
Analyses of non-coding somatic drivers in 2,658 cancer whole genomes (2020) (220)
Evidence of Abundant Purifying Selection in Humans for Recently Acquired Regulatory Functions (2012) (212)
Reliable prediction of regulator targets using 12 Drosophila genomes. (2007) (204)
RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State (2013) (201)
Evidence of abundant stop codon readthrough in Drosophila and other metazoa. (2011) (201)
Comprehensive molecular characterization of mitochondrial genomes in human cancers (2017) (197)
The impact of rare variation on gene expression across tissues (2016) (197)
Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes. (2007) (197)
Efficient algorithms for the reconciliation problem with gene duplication, horizontal transfer and loss (2012) (195)
Comparative analysis of regulatory information and circuits across distant species (2014) (177)
Position specific variation in the rate of evolution in transcription factor binding sites (2003) (175)
Evidence of efficient stop codon readthrough in four mammalian genes (2014) (174)
Genomic RNA Elements Drive Phase Separation of the SARS-CoV-2 Nucleocapsid (2020) (173)
Molecular Transducers of Physical Activity Consortium (MoTrPAC): Mapping the Dynamic Responses to Exercise (2020) (169)
Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases (2015) (167)
Unified modeling of gene duplication, loss, and coalescence using a locus tree. (2012) (161)
Enhancing GTEx by bridging the gaps between genotype, gene expression, and disease (2017) (158)
Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes. (2007) (158)
Evolution of enhanced innate immune evasion by SARS-CoV-2 (2021) (144)
Single-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degeneration (2019) (144)
Deep learning for regulatory genomics (2015) (144)
A Quantitative Proteome Map of the Human Body (2019) (143)
Spatial expression of transcription factors in Drosophila embryonic organ development (2013) (135)
Three Periods of Regulatory Innovation During Vertebrate Evolution (2011) (134)
Comparative validation of the D. melanogaster modENCODE transcriptome annotation (2014) (134)
Discovery of Human sORF-Encoded Polypeptides (SEPs) in Cell Lines and Tissue (2014) (134)
Survey of variation in human transcription factors reveals prevalent DNA binding changes (2016) (133)
Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks (2012) (130)
The NF-κB genomic landscape in lymphoblastoid B cells. (2014) (128)
Regulatory genomic circuitry of human disease loci by integrative epigenomics (2021) (127)
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration. (2011) (125)
A Bayesian Approach for Fast and Accurate Gene Tree Reconstruction (2010) (124)
Deep-coverage whole genome sequences and blood lipids among 16,324 individuals (2017) (124)
Reconstruction of the human blood–brain barrier in vitro reveals a pathogenic mechanism of APOE4 in pericytes (2020) (120)
Joint profiling of DNA methylation and chromatin architecture in single cells (2019) (113)
Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions (2016) (113)
RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction (2012) (113)
Methods in Comparative Genomics: Genome Correspondence, Gene Identification and Regulatory Motif Discovery (2004) (113)
New families of human regulatory RNA structures identified by comparative analysis of vertebrate genomes. (2011) (109)
TreeFix: Statistically Informed Gene Tree Error Correction Using Species Trees (2012) (109)
Core and region-enriched networks of behaviorally regulated genes and the singing genome (2014) (106)
Analysis of variation at transcription factor binding sites in Drosophila and humans (2012) (104)
52 Genetic Loci Influencing Myocardial Mass. (2016) (98)
Linking DNA methyltransferases to epigenetic marks and nucleosome structure genome-wide in human tumor cells. (2012) (97)
Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types (2013) (97)
Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes. (2007) (96)
Integrative pathway enrichment analysis of multivariate omics data (2018) (96)
Cell Type-Specific Transcriptomics Reveals that Mutant Huntingtin Leads to Mitochondrial RNA Release and Neuronal Innate Immune Activation (2020) (89)
Discovery and validation of sub-threshold genome-wide association study loci using epigenomic signatures (2016) (89)
Locating protein-coding sequences under selection for additional, overlapping functions in 29 mammalian genomes. (2011) (88)
High-resolution genome-wide functional dissection of transcriptional regulatory regions and nucleotides in human (2018) (88)
PhyloCSF: a comparative genomics method to distinguish protein-coding and non-coding regions (2010) (87)
Human Primordial Germ Cells Are Specified from Lineage-Primed Progenitors (2019) (87)
Improved Identification and Analysis of Small Open Reading Frame Encoded Polypeptides. (2016) (86)
Analyses of mRNA structure dynamics identify embryonic gene regulatory programs (2018) (85)
SubMAP: Aligning Metabolic Pathways with Subnetwork Mappings (2010) (83)
Soft X-Ray Tomography Reveals Gradual Chromatin Compaction and Reorganization during Neurogenesis In Vivo. (2016) (81)
Evolutionary principles of modular gene regulation in yeasts (2013) (81)
Intermediate DNA methylation is a conserved signature of genome regulation (2015) (81)
Interpreting non-coding variation in complex disease genetics (2012) (80)
Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis (2020) (80)
Perspectives on ENCODE (2020) (79)
APOE4 disrupts intracellular lipid homeostasis in human iPSC-derived glia (2021) (72)
Local genetic effects on gene expression across 44 human tissues (2016) (72)
SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes (2021) (71)
The evolutionary dynamics of the Saccharomyces cerevisiae protein interaction network after duplication (2008) (69)
Joint Bayesian inference of risk variants and tissue-specific epigenomic enrichments across multiple complex human diseases (2016) (69)
Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries (2017) (68)
Reconciliation Revisited: Handling Multiple Optima When Reconciling with Duplication, Transfer, and Loss (2013) (68)
Most parsimonious reconciliation in the presence of gene duplication, loss, and deep coalescence using labeled coalescent trees (2014) (67)
Disruption of a large intergenic noncoding RNA in subjects with neurodevelopmental disabilities. (2012) (64)
Allele-specific epigenome maps reveal sequence-dependent stochastic switching at regulatory loci (2018) (64)
SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes (2020) (62)
Information-Theoretic Inference of Gene Networks Using Backward Elimination (2010) (62)
PRC2 Is Required to Maintain Expression of the Maternal Gtl2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells. (2015) (62)
Distinct metabolic programs established in the thymus control effector functions of γδ T cell subsets in tumor microenvironments (2021) (62)
Improved gene tree error correction in the presence of horizontal gene transfer (2014) (59)
Performance and Scalability of Discriminative Metrics for Comparative Gene Identification in 12 Drosophila Genomes (2008) (59)
Unannotated proteins expand the MHC-I-restricted immunopeptidome in cancer (2021) (58)
Pareto-optimal phylogenetic tree reconciliation (2014) (57)
Single-cell dissection of the human brain vasculature (2022) (55)
Computational analysis of noncoding RNAs (2012) (55)
Mapping the epigenomic and transcriptomic interplay during memory formation and recall in the hippocampal engram ensemble (2020) (55)
Population-scale tissue transcriptomics maps long non-coding RNAs to complex disease (2021) (54)
Conservation of small RNA pathways in platypus. (2008) (54)
Challenges in IBD Research: Environmental Triggers. (2019) (53)
Systematic chromatin state comparison of epigenomes associated with diverse properties including sex and tissue type (2015) (53)
Alzheimer’s loci: epigenetic associations and interaction with genetic factors (2015) (52)
Phylogenetically and spatially conserved word pairs associated with gene-expression changes in yeasts (2003) (52)
BRCA 1 Recruitment to Transcriptional Pause Sites Is Required for R-Loop-Driven DNA Damage Repair (51)
Arboretum: Reconstruction and analysis of the evolutionary history of condition-specific transcriptional modules (2013) (50)
Integrating and mining the chromatin landscape of cell-type specificity using self-organizing maps (2013) (49)
Stop codon readthrough generates a C-terminally extended variant of the human vitamin D receptor with reduced calcitriol response (2018) (49)
RANGER-DTL 2.0: rigorous reconstruction of gene-family evolution by duplication, transfer and loss (2018) (48)
Alzheimer ' s disease : early alterations in brain DNA methylation (2015) (48)
Evolution at the Subgene Level: Domain Rearrangements in the Drosophila Phylogeny (2011) (47)
Genome-wide In Vivo CNS Screening Identifies Genes that Modify CNS Neuronal Survival and mHTT Toxicity (2020) (47)
Pan-cancer screen for mutations in non-coding elements with conservation and cancer specificity reveals correlations with expression and survival (2017) (47)
Elucidation of Codon Usage Signatures across the Domains of Life (2018) (47)
Optimization of parameters for coverage of low molecular weight proteins (2010) (46)
Discovery and characterization of coding and non-coding driver mutations in more than 2,500 whole cancer genomes (2017) (46)
Evolutionary Dynamics of Abundant Stop Codon Readthrough (2016) (44)
Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci (2019) (43)
Spectral Alignment of Graphs (2016) (41)
Motif discovery in physiological datasets: A methodology for inferring predictive elements (2010) (41)
Sex differences in oncogenic mutational processes (2019) (41)
Inferring multimodal latent topics from electronic health records (2020) (41)
Chromatin Accessibility Impacts Transcriptional Reprogramming in Oocytes (2018) (40)
FRESCo: finding regions of excess synonymous constraint in diverse viruses (2015) (39)
Evolution of delayed resistance to immunotherapy in a melanoma responder (2021) (37)
A wealth of discovery built on the Human Genome Project — by the numbers (2021) (37)
Reconstruction of Cell-type-Specific Interactomes at Single-Cell Resolution. (2019) (37)
Multi-scale chromatin state annotation using a hierarchical hidden Markov model (2017) (35)
Thousands of novel unannotated proteins expand the MHC I immunopeptidome in cancer (2020) (35)
Large-scale epigenome imputation improves data quality and disease variant enrichment (2015) (35)
Distinct and Predictive Histone Lysine Acetylation Patterns at Promoters, Enhancers, and Gene Bodies (2014) (35)
Genus-Wide Characterization of Bumblebee Genomes Provides Insights into Their Evolution and Variation in Ecological and Behavioral Traits (2020) (34)
Predicting gene expression in massively parallel reporter assays: A comparative study (2017) (34)
Context influences on TALE–DNA binding revealed by quantitative profiling (2015) (34)
Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster (2014) (34)
MicroRNA and gene expression changes in unruptured human cerebral aneurysms. (2016) (34)
Analysis of Genetically Regulated Gene Expression Identifies a Prefrontal PTSD Gene, SNRNP35, Specific to Military Cohorts. (2020) (33)
Translation Initiation Site Profiling Reveals Widespread Synthesis of Non-AUG-Initiated Protein Isoforms in Yeast. (2020) (33)
Error and Error Mitigation in Low-Coverage Genome Assemblies (2011) (33)
Genetic drivers of m6A methylation in human brain, lung, heart and muscle (2021) (33)
Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use (2019) (33)
An AR-ERG transcriptional signature defined by long-range chromatin interactomes in prostate cancer cells (2019) (32)
Combined burden and functional impact tests for cancer driver discovery using DriverPower (2020) (31)
APOE4 impairs myelination via cholesterol dysregulation in oligodendrocytes (2022) (31)
Standardized annotation of translated open reading frames (2022) (31)
Single-cell dissection of schizophrenia reveals neurodevelopmental-synaptic axis and transcriptional resilience (2020) (31)
Evidence of reduced recombination rate in human regulatory domains (2017) (30)
A high-throughput screening and computation platform for identifying synthetic promoters with enhanced cell-state specificity (SPECS) (2019) (30)
Author Correction: Single-cell transcriptomic analysis of Alzheimer’s disease (2019) (29)
Conflicting and ambiguous names of overlapping ORFs in the SARS-CoV-2 genome: A homology-based resolution (2021) (29)
A multiresolution framework to characterize single-cell state landscapes (2019) (28)
NEBULA is a fast negative binomial mixed model for differential or co-expression analysis of large-scale multi-subject single-cell data (2021) (28)
Discovery of Genetic Variation on Chromosome 5q22 Associated with Mortality in Heart Failure (2016) (27)
High-throughput 5′ UTR engineering for enhanced protein production in non-viral gene therapies (2020) (27)
Plasma-derived extracellular vesicle analysis and deconvolution enable prediction and tracking of melanoma checkpoint blockade outcome (2020) (26)
Spectral Alignment of Networks (2015) (26)
Evidence for a novel overlapping coding sequence in POLG initiated at a CUG start codon (2020) (25)
Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples (2020) (22)
Conserved Epigenetic Regulatory Logic Infers Genes Governing Cell Identity (2019) (21)
Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics (2018) (21)
Target site specificity and in vivo complexity of the mammalian arginylome (2018) (20)
A gene expression atlas of embryonic neurogenesis in Drosophila reveals complex spatiotemporal regulation of lncRNAs (2018) (19)
High-resolution genome-wide functional dissection of transcriptional regulatory regions in human (2017) (19)
Network Infusion to Infer Information Sources in Networks (2016) (17)
Multi-tissue polygenic models for transcriptome-wide association studies (2017) (17)
Evidence for secondary-variant genetic burden and non-random distribution across biological modules in a recessive ciliopathy (2018) (17)
Convergence of dispersed regulatory mutations predicts driver genes in prostate cancer (2016) (16)
Model-based assessment of replicability for genome-wide association meta-analysis (2021) (15)
Nearly all new protein-coding predictions in the CHESS database are not protein-coding (2018) (15)
Phylogenetic Identification and Functional Characterization of Orthologs and Paralogs across Human, Mouse, Fly, and Worm (2014) (15)
Response to Comment on “Evidence of Abundant Purifying Selection in Humans for Recently Acquired Regulatory Functions” (2013) (15)
The NIH Roadmap Epigenomics Mapping (2010) (15)
Sarbecovirus comparative genomics elucidates gene content of SARS-CoV-2 and functional impact of COVID-19 pandemic mutations. (2020) (15)
Reply to Brunet and Doolittle: Both selected effect and causal role elements can influence human biology and disease (2014) (15)
FTO Obesity Variant and Adipocyte Browning in Humans. (2016) (14)
Single-cell profiling of the human primary motor cortex in ALS and FTLD (2021) (13)
Modeling prediction error improves power of transcriptome-wide association studies (2017) (13)
Methods in comparative genomics: genome correspondence, gene identification and motif discovery (2003) (13)
Best practices for genome-wide RNA structure analysis: combination of mutational profiles and drop-off information (2017) (13)
MEF2 is a key regulator of cognitive potential and confers resilience to neurodegeneration (2021) (13)
Loss of LDAH associated with prostate cancer and hearing loss (2018) (13)
Single-cell dissection of the obesity-exercise axis in adipose-muscle tissues implies a critical role for mesenchymal stem cells (2022) (13)
Causal gene inference by multivariate mediation analysis in Alzheimer’s disease (2017) (12)
Single-cell dissection of the human cerebrovasculature in health and disease (2021) (12)
Mathematical analysis of Cordoba calcifediol trial suggests strong role for Vitamin D in reducing ICU admissions of hospitalized COVID-19 patients (2020) (12)
Diversifying Sparsity Using Variational Determinantal Point Processes (2014) (12)
Improved haplotype inference by exploiting long-range linking and allelic imbalance in RNA-seq datasets (2020) (11)
Genie: A Secure, Transparent Sharing and Services Platform for Genetic and Health Data (2018) (11)
Few SINEs of life: Alu elements have little evidence for biological relevance despite elevated translation (2019) (11)
Distant regulatory effects of genetic variation in multiple human tissues (2016) (11)
Publisher Correction: N6-methyladenosine RNA modification regulates embryonic neural stem cell self-renewal through histone modifications (2018) (11)
SwiSpot: modeling riboswitches by spotting out switching sequences (2016) (11)
Interleukin-6 deficiency exacerbates Huntington’s disease model phenotypes (2020) (11)
Neurons burdened by DNA double-strand breaks incite microglia activation through antiviral-like signaling in neurodegeneration (2021) (10)
Rate of brain aging and APOE ε4 are synergistic risk factors for Alzheimer’s disease (2019) (10)
PRC 2 Is Required to Maintain Expression of the Maternal Gtl 2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells (2015) (9)
Network Maximal Correlation (2016) (9)
Heterologous Stop Codon Readthrough of Metazoan Readthrough Candidates in Yeast (2013) (9)
Correction: Evolutionary principles of modular gene regulation in yeasts (2013) (9)
The long non-coding RNAs : a new ( p ) layer in the “ dark matter ” (2014) (9)
A Bayesian approach to mediation analysis predicts 206 causal target genes in Alzheimer’s disease (2017) (9)
Multi-resolution single-cell state characterization via joint archetypal/network analysis (2019) (8)
BACE-1 inhibition facilitates the transition from homeostatic microglia to DAM-1 (2022) (8)
High depth, whole-genome sequencing of cholera isolates from Haiti and the Dominican Republic (2012) (8)
The GENCODE human gene set (2010) (8)
DECODE-ing sparsity patterns in single-cell RNA-seq (2018) (8)
Single-cell deconvolution of 3,000 post-mortem brain samples for eQTL and GWAS dissection in mental disorders (2021) (8)
Exome-wide age-of-onset analysis reveals exonic variants in ERN1 and SPPL2C associated with Alzheimer’s disease (2021) (8)
Conflicting and Ambiguous Names of Overlapping ORFs in SARS-CoV-2: A Homology-Based Resolution (2020) (8)
Single-cell anatomical analysis of human hippocampus and entorhinal cortex uncovers early-stage molecular pathology in Alzheimer’s disease (2021) (8)
A partnership between the lipid scramblase XK and the lipid transfer protein VPS13A at the plasma membrane (2022) (7)
Alternatives to amyloid for Alzheimer's disease therapies—a symposium report (2020) (7)
1 RNA Polymerase Stalling at Developmental Control Genes in the Drosophila Embryo (2007) (7)
Integrative analysis of 10,000 epigenomic maps across 800 samples for regulatory genomics and disease dissection (2019) (7)
Abstract 4282: Deconvolution of plasma-derived exosomes for tracking and prediction of immunotherapy across multiple tissues (2018) (6)
conserved and associated with A / T-rich sequence genome interactions are highly − Constitutive nuclear lamina Material Supplemental (2013) (6)
ncdDetect2: improved models of the site-specific mutation rate in cancer and driver detection with robust significance evaluation (2018) (5)
A synthetic transcription platform for programmable gene expression in mammalian cells (2020) (5)
Integrative construction of regulatory region networks in 127 human reference epigenomes by matrix factorization (2017) (5)
Functional enrichments of disease variants across thousands of independent loci in eight diseases (2016) (5)
GeneNetWeaver 3.0: realistic benchmark generation and performance profiling of network inference methods (2010) (5)
RNA Polymerase Stalling at Developmental Control Genes in the Drosophila Embryo – Supplementary Information (2007) (5)
A Perspective on Future Research Directions in Information Theory (2015) (5)
RiVIERA-MT: A Bayesian model to infer risk variants in related traits using summary statistics and functional genomic annotations (2016) (5)
Death by Round Numbers and Sharp Thresholds: How to Avoid Dangerous AI EHR Recommendations (2022) (5)
Phylogenomic Approach to the Evolutionary Dynamics of Gene Duplication in Birds (2010) (5)
A probabilistic framework to dissect functional cell-type-specific regulatory elements and risk loci underlying the genetics of complex traits (2017) (5)
GENCODE: reference annotation for the human and mouse genomes in 2023 (2022) (5)
Large-scale discovery and validation of functional elements in the human genome (2005) (5)
Corrigendum: Network deconvolution as a general method to distinguish direct dependencies in networks (2015) (4)
SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes (2020) (4)
Single-Cell Dissection of Schizophrenia Reveals Neurodevelopmental-Synaptic Link and Transcriptional Resilience Associated Cellular State (2021) (4)
Revisiting the protein-coding gene catalog of Drosophila melanogaster using twelve fly genomes (2007) (4)
Leveraging single-cell ATAC-seq to identify disease-critical fetal and adult brain cell types (2021) (4)
CoCoA-diff: counterfactual inference for single-cell gene expression analysis (2021) (4)
A partnership of the lipid scramblase XK and of the lipid transfer protein VPS13A at the plasma membrane (2022) (4)
Analysis of Genetically Regulated Gene Expression identifies a trauma type specific PTSD gene, SNRNP35 (2019) (4)
Evidence of a recombination rate valley in human regulatory domains (2016) (3)
Publisher Correction: Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries (2018) (3)
Genome-wide regulatory model from MPRA data predicts functional regions, eQTLs, and GWAS hits (2017) (3)
Structural variant selection for high-altitude adaptation using single-molecule long-read sequencing (2021) (3)
Extensive and choreographed transcription of noncoding RNAs within cell cycle promoters (2010) (3)
A Proposal for Comparative Genomics in Support the modENCODE Project (2008) (3)
Data Related to Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use (2019) (3)
noncoding RNAs in six mammals Evolutionary dynamics and tissue specificity of human long Material Supplemental (2014) (3)
Transcriptional vulnerabilities of striatal neurons in human and rodent models of Huntington’s disease (2023) (3)
Causal Mediation Analysis Leveraging Multiple Types of Summary Statistics Data (2019) (3)
Single-Nucleus Transcriptomic Dissection of PTSD and MDD in Human Post-Mortem DLPFC Reveals Genetic and Environmental Regulation (2021) (3)
Genome-wide exploration of DNA methylation in the aging brain and its relation to Alzheimer's disease (2012) (3)
Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2011 Special Issue (2015) (3)
Single-cell dissection of live human hearts in ischemic heart disease and heart failure reveals cell-type-specific driver genes and pathways (2021) (3)
Integrative analysis of 111 reference human epigenomes Open (2015) (2)
Genus-wide characterization of bumblebee genomes reveals variation associated with key ecological and behavioral traits of pollinators (2020) (2)
Metabolic resilience is encoded in genome plasticity (2021) (2)
Author Correction: Reconstruction of the human blood–brain barrier in vitro reveals a pathogenic mechanism of APOE4 in pericytes (2021) (2)
Soft X-Ray Tomography Reveals Gradual Chromatin Compaction and Reorganization during Neurogenesis In Vivo Citation (2016) (2)
Abstract 4533: Plasma and exosome proteomic profiling for prediction of immunotherapy response and toxicity (2019) (2)
a locus tree Unified modeling of gene duplication, loss, and coalescence using (2012) (2)
Human Dendritic Cells Common Genetic Variants Modulate Pathogen-Sensing Responses in (2014) (2)
Genome-Wide Exploration of DNA Methylation in the Aging Brain and Its Relation to Alzheimer's Disease (P05.070) (2012) (2)
Energy-based RNA consensus secondary structure prediction in multiple sequence alignments. (2014) (2)
specificity using self-organizing maps Integrating and mining the chromatin landscape of cell-type Material Supplemental (2013) (2)
Abstract A35: BRAF inhibition increases exosomal PD-L1 protein expression in melanoma (2018) (2)
Single-cell multi-region dissection of brain vasculature in Alzheimer’s Disease (2022) (2)
Abstract 5689: Identify tissue-of-origin in cancer cfDNA by whole genome sequencing (2017) (2)
Simultaneous profiling of DNA methylation and chromatin architecture in mixed populations and in single cells (2018) (2)
modENCODE and ENCODE resources for analysis of metazoan chromatin organization (2013) (2)
Plasma-derived exosomal analysis and deconvolution enables prediction and tracking of melanoma checkpoint blockade response (2019) (2)
Cellular intelligence: dynamic specialization through non-equilibrium multi-scale compartmentalization (2021) (2)
Single-cell dissection of obesity-exercise axis in adipose-muscle tissues (2021) (2)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (2)
Author Correction: Combined burden and functional impact tests for cancer driver discovery using DriverPower (2020) (1)
Evolutionary dynamics of abundant stop codon readthrough in Anopheles and Drosophila (2016) (1)
Global landscape of the host response to SARS-CoV-2 variants reveals viral evolutionary trajectories (2022) (1)
An Autoimmune Transcriptional Circuit Driving Foxp3+ Regulatory T cell Dysfunction (2022) (1)
The changing face of genomics (2004) (1)
Comparison of human and mouse tissues with focus on genes with no 1-to-1 homology (2021) (1)
Publisher Correction: Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries (2018) (1)
Exome-wide age-of-onset analysis reveals exonic variants in ERN1, TACR3 and SPPL2C associated with Alzheimer’s disease (2020) (1)
Abstract 948: Epigenomic correlates of checkpoint blockade immunotherapy resistance (2019) (1)
Enhancer Reprogramming in Melanoma Immune Checkpoint Therapy Resistance (2022) (1)
Single-cell interactomes of the human brain reveal cell-type specific convergence of brain disorders (2019) (1)
1 Dynamics of the Epigenetic Landscape During Erythroid Differentiation after GATA 1 Restoration Running head : Chromatin state profiles precede gene regulation (2011) (1)
Single-cell multi-cohort dissection of the schizophrenia transcriptome (2022) (1)
Author Correction: Pan-cancer analysis of whole genomes (2023) (1)
Analysis of variation at transcription factor binding sites in Drosophila and humans (2012) (1)
Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes (2020) (1)
Sequences to systems (2010) (1)
Loose ends: almost one in five human genes still have unresolved coding status (2018) (1)
6.047 / 6.878 Computational Biology: Genomes, Networks, Evolution, Fall 2008 (2008) (1)
Counterfactual inference for single-cell gene expression analysis (2021) (1)
Genetic Loci In fl uencing Myocardial Mass (2016) (1)
Resource Linking DNAMethyltransferases to Epigenetic Marks and Nucleosome Structure Genome-wide in Human Tumor Cells (2012) (1)
CoCoA-diff: counterfactual inference for single-cell gene expression analysis (2021) (1)
Response to Lior Pachter ' s " nonsense " blog post (1)
A latent topic model for mining heterogenous non-randomly missing electronic health records data (2018) (1)
Author Correction: Integrative pathway enrichment analysis of multivariate omics data (2020) (1)
QClus: Robust and reliable preprocessing method for human heart snRNA-seq (2022) (1)
Single-cell mosaicism analysis reveals cell-type-specific somatic mutational burden in Alzheimer’s Dementia (2022) (1)
Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries (2018) (1)
Various localized epigenetic marks predict expression across 54 samples and reveal underlying chromatin state enrichments (2015) (1)
mRNA structure dynamics identifies the embryonic RNA regulome (2018) (1)
modENCODE consortia ChIP-seq guidelines and practices of the ENCODE and Material Supplemental (2012) (1)
Correlating predicted epigenetic marks with expression data to find interactions between SNPs and genes (2020) (1)
RiVIERA-MT : 1 A Bayesian model to infer risk variants in related traits 2 using summary statistics and functional genomic (2016) (1)
RECOMB/ISCB Systems Biology, Regulatory Genomics, and DREAM 2013 Special Issue (2014) (1)
Supplementary material for "Evolutionary dynamics of abundant stop codon readthrough" (2017) (1)
Erratum to: Genus-wide characterization of bumblebee genomes provides insights into their evolution and variation in ecological and behavioral traits (2021) (1)
Preface: RECOMB Conference on Systems Biology, Regulatory Genomics, and DREAM Challenges 2010 special issue. (2011) (1)
embryoDrosophila suggests integration of diverse patterning processes in the Whole-genome ChIP – chip analysis of Dorsal , Twist , and Snail data (2007) (1)
Evidence for secondary-variant genetic burden and non-random distribution across biological modules in a recessive ciliopathy (2020) (1)
Spatial expression of transcription factors in Drosophilaembryonic organ development (2013) (1)
Analyses of mRNA structure dynamics identify embryonic gene regulatory programs (2018) (1)
embryo Drosophilaintegration of diverse patterning processes in the Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail (2007) (1)
other metazoa and Drosophila Evidence of abundant stop codon readthrough in Material (2011) (1)
Temporal Dynamics of Regulatory Networks in Drosophila melanogaster Embryogenesis (2009) (0)
Author Correction: Perspectives on ENCODE (2022) (0)
Title A gene expression atlas of embryonic neurogenesis in Drosophila reveals complex spatiotemporal regulation of lncRNAs . Running title lncRNAs in Drosophila neurogenesis (2018) (0)
Predictive Regulatory Models in of Transcriptional Networks (2012) (0)
of condition-specific transcriptional modules Arboretum : Reconstruction and analysis of the evolutionary history Material Supplemental (2013) (0)
Abstract B25: Exosomal transcriptomic signatures tracks and predicts response to checkpoint blockade immunotherapy (2018) (0)
from opposite DNA strands produces functional microRNAs Drosophila A single Hox locus in (2008) (0)
Title Comparative analysis of metazoan chromatin organization Permalink (2014) (0)
Abstract B20: Discovery of combination therapies in a pan-cancer context through functional complementarity and convergence analysis of oncogenic drivers (2017) (0)
Integrative inference of transcriptional regulatory networks in Drosophila (2011) (0)
A Classification Approach to Comparative Gene Finding in Mammals (2005) (0)
Cancer Schwann Cell Origins of a Clonally Transmissible The Tasmanian Devil Transcriptome Reveals (2010) (0)
Experimental evidence for embedded cis-regulatory enhancers within Hox protein-coding regions (2011) (0)
Immune genes outside immune cells for multiple sclerosis (2022) (0)
TFAP2C Safeguards Weismann's Barrier to Preserve Human Germline Identity During Primordial Germ Cell Specification from Lineage Primed Progenitors (2019) (0)
Supporting Online Material for Comparative Functional Genomics of the Fission Yeasts (2011) (0)
Network Deconvolution-A General Method to Distinguish Direct Dependencies over Networks (2013) (0)
Reconstruction of the human blood–brain barrier in vitro reveals a pathogenic mechanism of APOE4 in pericytes (2020) (0)
N6-methyladenosine RNA modification regulates embryonic neural stem cell self-renewal through histone modifications (2018) (0)
Exercise Training Remodels Inguinal White Adipose Tissue Through Adaptations in Innervation, Vascularization and the Extracellular Matrix (2022) (0)
Genome analysis ncdDetect 2 : improved models of the site-specific mutation rate in cancer and driver detection with robust significance evaluation (2018) (0)
Single-Nucleus Transcriptomic Analysis of PTSD and MDD in Human Post-Mortem DLPFC (2020) (0)
GENCODE: Creating a Validated Manually Annotated Geneset for the Whole Human Genome (2009) (0)
200. Dissecting the Transcriptomic and Phenotypic Complexity of PTSD With Transcriptomic Imputation and Bayesian Machine Learning (2019) (0)
Cardiovascular disease causes proinflammatory microvascular changes in the human right atrium (2022) (0)
Single-cell transcriptional and epigenomic dissection of human heart in health and coronary artery disease reveals cell-type-specific driver genes and pathways (2021) (0)
Publisher Correction: N6-methyladenosine RNA modification regulates embryonic neural stem cell self-renewal through histone modifications (2018) (0)
Error and Error Mitigation in Low-Coverage Genomes (2011) (0)
A high-throughput screening and computation platform for identifying synthetic promoters with enhanced cell-state specificity (SPECS) (2019) (0)
Enhancing GTEx by bridging the gaps between genotype, gene expression, and disease (2017) (0)
916 Acquired resistance to immune checkpoint blockade by phenotypic plasticity of melanoma (2022) (0)
Analysis of Genetically Regulated Gene Expression Identifies a Prefrontal PTSD Gene, SNRNP35, Specific to Military Cohorts (2019) (0)
Publisher Correction: Evolution of enhanced innate immune evasion by SARS-CoV-2 (2022) (0)
The role of DNA methylation in Alzheimer's susceptibility genes with Alzheimer's disease phenotypes (2012) (0)
D S ] 5 S ep 2 01 7 Spectral Alignment of Graphs (2017) (0)
Abstract 3271: Multiomic meta-analysis of differential response to PD-1 and CTLA-4 blockade in metastatic melanoma (2023) (0)
isomiRs-specific differential expression is the rule, not the exception: Are we missing hundreds of species in microRNA analysis? (2021) (0)
Rabies virus-based barcoded neuroanatomy resolved by single-cell RNA and in situ sequencing (2023) (0)
regulatory motifs in six human cell types Interplay between chromatin state, regulator binding, and (2013) (0)
Single-cell transcriptomic analysis of Alzheimer’s disease (2019) (0)
Target site specificity and in vivo complexity of the mammalian arginylome (2018) (0)
Inferring the Properties of Transcription Factor Regulation (2016) (0)
Molecule Required for Human Speech Birdsong Decreases Protein Levels of FoxP2, a (2015) (0)
Huntington’s Disease Produces Multiplexed Transcriptional Vulnerabilities of Striatal D1-D2 and Striosome-Matrix Neurons (2022) (0)
Author Correction: Reconstruction of the human blood–brain barrier in vitro reveals a pathogenic mechanism of APOE4 in pericytes (2021) (0)
Publisher Correction: Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries (2018) (0)
The ENCODE Imputation Challenge: a critical assessment of methods for cross-cell type imputation of epigenomic profiles (2022) (0)
Publisher Correction: Evolution of enhanced innate immune evasion by SARS-CoV-2 (2022) (0)
Author Correction: Inferring structural variant cancer cell fraction (2022) (0)
Author Correction: Patterns of somatic structural variation in human cancer genomes (2020) (0)
Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes (2020) (0)
enhancers using a massively parallel reporter assay Systematic dissection of regulatory motifs in 2000 predicted human Material Supplemental (2013) (0)
Phylogenetic analysis of longitudinal melanoma samples to reveal convergent evolution and markers of immunotherapy resistance. (2018) (0)
Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples (2020) (0)
High-resolution genome-wide functional dissection of transcriptional regulatory regions and nucleotides in human (2018) (0)
The third tree : Modeling genes undergoing duplications , losses , and coalescence (2011) (0)
Lateral mammillary body neurons in mouse brain are disproportionately vulnerable in Alzheimer’s disease (2023) (0)
Abstract A14: Convergence analysis of regulatory mutations into immuno-modulatory pathways across 14 tumor types (2017) (0)
Computational analysis of noncoding RNAs Citation (2012) (0)
Abstract 3013: Acquired resistance to immune checkpoint inhibition by melanoma phenotypic transformation (2019) (0)
– MIT – Regulatory and network clustering of genetic variants associated with complex traits (0)
Pan-cancer screen for mutations in non-coding elements with conservation and cancer specificity reveals correlations with expression and survival (2018) (0)
6.895 / 6.095J Computational Biology: Genomes, Networks, Evolution, Fall 2005 (2005) (0)
Alzheimer's risk gene undermines insulation of brain's 'wiring' (2022) (0)
Interleukin-6 deficiency exacerbates Huntington’s disease model phenotypes (2020) (0)
Author Correction: Single-cell transcriptomic analysis of Alzheimer’s disease (2019) (0)
Linkage Disequilibrium (2020) (0)
Comparative Genomics II: From Genomes to Evolution (2008) (0)
Novel variant of the human vitamin D receptor (2018) (0)
Drosophila melanogaster in Diverse patterns of genomic targeting by transcriptional regulators Material Supplemental (2014) (0)
Inferring multimodal latent topics from electronic health records (2020) (0)
FRESCo: finding regions of excess synonymous constraint in diverse viruses (2015) (0)
Pareto-optimal phylogenetic tree reconciliation Citation (2014) (0)
Discovering candidate intron motifs regulating tissue-specific alternative splicing patterns in exons as identified by exon junction microarrays (2005) (0)
Session Introduction (2003) (0)
SPIML : a machine learning approach to phylogenomics (2007) (0)
Preface: RECOMB/ISCB Systems Biology, Regulatory Genomics, and DREAM 2014 Special Issue (2015) (0)
Author Correction: The evolutionary history of 2,658 cancers (2023) (0)
HMMs II-Posterior Decoding and Learning (2010) (0)
Corrigendum: Loss of LDAH associated with prostate cancer and hearing loss. (2019) (0)
AnAR-ERG transcriptional signature defined by long- range chromatin interactomes in prostate cancer cells (2019) (0)
Deep-coverage whole genome sequences and blood lipids among 16,324 individuals (2018) (0)
Abstract A47: scRNA-seq reveals functionally distinct gd T cells in human colorectal tumors (2020) (0)
Randomized Algorithms : Bounds , Quicksort , and Quickselect 1 Deviation Bounds (2014) (0)
A causal inference framework for estimating genetic variance and pleiotropy from GWAS summary data (2019) (0)
Evolution at the sub-gene level : gene architecture rearrangements inthe Drosophila phylogeny (2010) (0)
integrative inference of transcriptional networks by Drosophila melanogaster Predictive regulatory models in Material (2012) (0)
Publisher Correction: Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries (2020) (0)
Conserved word-pair templates are associated with significant changes in gene expression (2011) (0)
PRC 2 Is Required to Maint ain Expression of the Maternal Gtl 2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells Graphical (2015) (0)
RECOMB Conference on Systems Biology, Regulatory Genomics, and DREAM Challenges 2010 Special Issue, Preface (2011) (0)
Inhibitors of mutant IDH1 and IDH2 (2013) (0)
Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2012 Special Issue (2013) (0)
Abstract A15: Deconvolution of diverse cell types in the tumor microenvironment by jointly modeling transcriptomic and epigenomic information (2017) (0)
NOTMAD: Estimating Bayesian Networks with Sample-Specific Structures and Parameters (2021) (0)
differentiation after GATA 1 restoration Dynamics of the epigenetic landscape during erythroid Material (2011) (0)
Cell Reports Resource The NFk B Genomic Landscape in Lymphoblastoid B Cells (2014) (0)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (0)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (0)
Abstract 16742: Single-Cell Transcriptional and Epigenomic Dissection of Human Heart in Health and Coronary Artery Disease Reveals Cell-type-Specific Driver Genes and Pathways (2020) (0)
Small RNA pathways in platypus (2007) (0)
A vast resource of allelic expression data spanning human tissues (2020) (0)
, from opposite DNA strands produces functional microRNAsDrosophilaA single Hox locus in data (2007) (0)
Regulatory and systems genomics of complex traits and intermediate molecular phenotypes (2013) (0)
Evidence of reduced recombination rate in human regulatory domains (2017) (0)
Joint profiling of DNA methylation and chromatin architecture in single cells (2019) (0)
High depth, whole-genome sequencing of cholera isolates from Haiti and the Dominican Republic (2012) (0)
Abstract 6425: Functional roles of enhancers in immune microenvironment & immunotherapy response (2023) (0)
Predicting trait regulators by identifying co-localization of DNA binding and GWAS variants in regulatory regions (2018) (0)
Mediation analysis, multi-tissue factor QTLs, EHRs, transfer learning in deep CNNs for genetics (2017) (0)
Preface (2011) (0)
trees duplication , loss , and deep coalescence using labeled coalescent Most parsimonious reconciliation in the presence of gene Material (2014) (0)
RESPONSE to Comment (Green) on "Evidence of abundant purifying selection in humans for recently-acquired regulatory functions" 1225057 Ward (2014) (0)
Gene finding using multiple related species: a classification approach (2005) (0)

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