Y. Gilad

发表

RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays.

M. Stephens, J. Marioni, C. Mason, 2008, Genome research.

Initial sequence of the chimpanzee genome and comparison with the human genome

Jean L. Chang, T. Mikkelsen, E. Mauceli, 2005, Nature.

DNaseI sensitivity QTLs are a major determinant of human expression variation

Joseph K. Pickrell, Jacob F. Degner, Daniel J. Gaffney, 2011, Nature.

Revealing the architecture of gene regulation: the promise of eQTL studies.

Scott A. Rifkin, J. Pritchard, Y. Gilad, 2008, Trends in genetics : TIG.

Batch effects and the effective design of single-cell gene expression studies

David A. Knowles, J. Pritchard, Y. Gilad, 2016, Scientific Reports.

Batch effects and the effective design of single-cell gene expression studies

David A. Knowles, J. Pritchard, Y. Gilad, 2016, bioRxiv.

Sex-specific and lineage-specific alternative splicing in primates.

M. Stephens, J. Marioni, Y. Gilad, 2010, Genome research.

Natural selection on gene expression.

Scott A. Rifkin, Y. Gilad, S. Rifkin, 2006, Trends in genetics : TIG.

High-Resolution Mapping of Expression-QTLs Yields Insight into Human Gene Regulation

M. Stephens, J. Pritchard, Y. Gilad, 2008, PLoS genetics.

Expression profiling in primates reveals a rapid evolution of human transcription factors

Terence P. Speed, Kevin P. White, Alicia Oshlack, 2006, Nature.

Noisy Splicing Drives mRNA Isoform Diversity in Human Cells

Joseph K. Pickrell, J. Pritchard, Y. Gilad, 2010, PLoS genetics.

A Methodological Assessment and Characterization of Genetically-Driven Variation in Three Human Phosphoproteomes

Y. Gilad, C. Hsiao, J. Blischak, 2018, bioRxiv.

Sequence and Chromatin Accessibility Data Accurate Inference of Transcription Factor Binding from Dna Material Supplemental Open Access

Jacob F. Degner, Daniel J. Gaffney, J. Pritchard, 2022 .

msCentipede: Modeling Heterogeneity across Genomic Sites and Replicates Improves Accuracy in the Inference of Transcription Factor Binding

Matthew Stephens, Jonathan K. Pritchard, Yoav Gilad, 2015, PloS one.

Comparative studies of gene expression and the evolution of gene regulation

Y. Gilad, I. G. Romero, I. Ruvinsky, 2012, Nature Reviews Genetics.

The human olfactory transcriptome

Y. Gilad, D. Lancet, D. Restrepo, 2016, BMC Genomics.

Controls of Nucleosome Positioning in the Human Genome

Daniel J. Gaffney, J. Pritchard, Y. Gilad, 2012, PLoS genetics.

Gene Regulation in Primates Evolves under Tissue-Specific Selection Pressures

Alicia Oshlack, Ran Blekhman, Yoav Gilad, 2008, PLoS genetics.

Gene Expression Differences Among Primates Are Associated With Changes in a Histone Epigenetic Modification

John C. Marioni, Ran Blekhman, Yoav Gilad, 2011, Genetics.

Primate Transcript and Protein Expression Levels Evolve Under Compensatory Selection Pressures

Jonathan K. Pritchard, Yoav Gilad, J. Pritchard, 2013, Science.

Epigenetic modifications are associated with inter-species gene expression variation in primates

Xiang Zhou, Emily R. Davenport, Matthew Stephens, 2014, bioRxiv.

The Functional Consequences of Variation in Transcription Factor Binding

Jonathan K. Pritchard, Yoav Gilad, J. Pritchard, 2013, PLoS genetics.

Impact of regulatory variation from RNA to protein

Alexis Battle, Jonathan K. Pritchard, Yoav Gilad, 2015, Science.

Taxonomic Classification of Bacterial 16S rRNA Genes Using Short Sequencing Reads: Evaluation of Effective Study Designs

Emily R. Davenport, Y. Gilad, Orna Mizrahi-Man, 2013, PloS one.

Seasonal Variation in Human Gut Microbiome Composition

Emily R. Davenport, Y. Gilad, C. Ober, 2014, PloS one.

Characterizing natural variation using next-generation sequencing technologies.

J. Pritchard, Y. Gilad, K. Thornton, 2009, Trends in genetics : TIG.

, comparison with gene expression arrays RNA-seq : An assessment of technical reproducibility and data

M. Stephens, J. Marioni, C. Mason, 2008 .

RNA splicing is a primary link between genetic variation and disease

David A. Knowles, Yang I Li, Yang I. Li, 2016, Science.

Loss of Olfactory Receptor Genes Coincides with the Acquisition of Full Trichromatic Vision in Primates

S. Pääbo, Y. Gilad, D. Lancet, 2004, PLoS biology.

Comment on “Widespread RNA and DNA Sequence Differences in the Human Transcriptome”

Joseph K. Pickrell, J. Pritchard, Y. Gilad, 2012, Science.

Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes

Petra C. Schwalie, Andre J. Faure, D. Odom, 2013, Genome Biology.

Characterizing the expression of the human olfactory receptor gene family using a novel DNA microarray

Y. Gilad, D. Nicolae, S. Firestein, 2007, Genome biology.

RNA-seq: impact of RNA degradation on transcript quantification

Y. Gilad, Irene Gallego Romero, A. Pai, 2014, BMC Biology.

Reprogramming LCLs to iPSCs Results in Recovery of Donor-Specific Gene Expression Signature

J. Pritchard, Y. Gilad, Jonathan E. Burnett, 2015, bioRxiv.

Reprogramming LCLs to iPSCs Results in Recovery of Donor-Specific Gene Expression Signature

J. Pritchard, Y. Gilad, Jonathan E. Burnett, 2015, bioRxiv.

Determining the genetic basis of anthracycline-cardiotoxicity by molecular response QTL mapping in induced cardiomyocytes

David A. Knowles, J. Pritchard, D. Serie, 2017, bioRxiv.

Genome-Wide Association Studies of the Human Gut Microbiota

Emily R. Davenport, Y. Gilad, C. Ober, 2015, PloS one.

Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling

Yang I Li, Yang I. Li, Brett W. Engelmann, 2015, bioRxiv.

Gene expression variability in human and chimpanzee populations share common determinants

Y. Gilad, Abhishek K Sarkar, Lauren E. Blake, 2020, bioRxiv.

A comparison of gene expression and DNA methylation patterns across tissues and species.

Y. Gilad, T. Marquès-Bonet, C. Hsiao, 2020, Genome research.

A comparison of gene expression and DNA methylation patterns across tissues and species

Y. Gilad, T. Marquès-Bonet, C. Hsiao, 2018, bioRxiv.

Discovery and characterization of variance QTLs in human induced pluripotent stem cells

Yang I Li, Yang I. Li, M. Stephens, 2018, bioRxiv.

Supplementary Information for Impact of regulatory variation across human iPSCs and differentiated cells

Anshul Kundaje, Samantha M Thomas, Yoav Gilad, 2017 .

Sex-specific genetic architecture of human disease

Yoav Gilad, Carole Ober, Y. Gilad, 2008, Nature Reviews Genetics.

Deciphering the genetic architecture of variation in the immune response to Mycobacterium tuberculosis infection

John C. Marioni, Athma A. Pai, Yoav Gilad, 2012, Proceedings of the National Academy of Sciences.

A Genome Sequence Resource for the Aye-Aye (Daubentonia madagascariensis), a Nocturnal Lemur from Madagascar

Páll Melsted, Aakrosh Ratan, Webb Miller, 2011, Genome biology and evolution.

WASP: allele-specific software for robust molecular quantitative trait locus discovery

Jonathan K. Pritchard, Yoav Gilad, Graham McVicker, 2015, Nature Methods.

Where Are the Disease-Associated eQTLs?

Y. Gilad, A. Battle, Benjamin D Umans, 2020, Trends in genetics : TIG.

Human specific loss of olfactory receptor genes

Doron Lancet, Orna Man, Yoav Gilad, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Population differences in the human functional olfactory repertoire.

Doron Lancet, Yoav Gilad, Y. Gilad, 2003, Molecular biology and evolution.

Using DNA microarrays to study natural variation.

Yoav Gilad, Y. Gilad, J. Borevitz, 2006, Current opinion in genetics & development.

Natural selection on the olfactory receptor gene family in humans and chimpanzees.

Doron Lancet, Yoav Gilad, Svante Pääbo, 2003, American journal of human genetics.

A Methodological Assessment and Characterization of Genetically-Driven Variation in Three Human Phosphoproteomes

Brett W. Engelmann, Y. Gilad, C. Hsiao, 2018, Scientific Reports.

Divergence in alternative polyadenylation contributes to gene regulatory differences between humans and chimpanzees

Y. Gilad, Kenneth A. Barr, Sebastian Pott, 2020, bioRxiv.

msCentipede: Modeling heterogeneity across genomic sites improves accuracy in the inference of transcription factor binding

M. Stephens, J. Pritchard, Y. Gilad, 2014, bioRxiv.

Synthesis of Novel Protected Nα(ω-Drug) Amino Acid Building Units for Facile Preparation of Anticancer Drug-Conjugates

Y. Gilad, G. Gellerman, A. Albeck, 2016, International Journal of Peptide Research and Therapeutics.

Reorganization of 3D Genome Structure May Contribute to Gene Regulatory Evolution in Primates

Y. Gilad, C. Hsiao, Lauren E. Blake, 2018, bioRxiv.

Determining the genetic basis of anthracycline-cardiotoxicity by molecular response QTL mapping in induced cardiomyocytes

David A. Knowles, J. Pritchard, D. Serie, 2017, bioRxiv.

Systematic Comparison of High-throughput Single-Cell and Single-Nucleus Transcriptomes during Cardiomyocyte Differentiation

Y. Gilad, A. Basu, Jonathan E. Burnett, 2020, Scientific Reports.

Systematic Comparison of High-throughput Single-Cell and Single-Nucleus Transcriptomes during Cardiomyocyte Differentiation

Y. Gilad, A. Basu, Jonathan E. Burnett, 2019, Scientific Reports.

Single-Nucleus Transcriptomes during Cardiomyocyte

Y. Gilad, A. Basu, Jonathan E. Burnett, 2019 .

Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis.

M. Stephens, Y. Gilad, Kushal K. Dey, 2020, Genome research.

A comparative study of endoderm differentiation in humans and chimpanzees

Y. Gilad, C. Hsiao, J. Blischak, 2017, bioRxiv.

Alternative polyadenylation mediates genetic regulation of gene expression

Yang I Li, Y. Gilad, Zepeng Mu, 2020, eLife.

Alternative polyadenylation mediates genetic regulation of gene expression

Yang I Li, Yang I. Li, Y. Gilad, 2019, bioRxiv.

Identification and characterization of coding single-nucleotide polymorphisms within a human olfactory receptor gene cluster.

Y. Gilad, Gustavo Glusman, D. Lancet, 2000, Gene.

An Evolutionarily Conserved Sexual Signature in the Primate Brain

Y. Gilad, Roxana Merino-Martinez, B. Reinius, 2008, PLoS genetics.

A Framework for Exploring Functional Variability in Olfactory Receptor Genes

Gordon M. Shepherd, Chiquito J. Crasto, Orna Man, 2007, PloS one.

Silencing of transposable elements may not be a major driver of regulatory evolution in primate iPSCs

Mohammad M. Karimi, M. Stephens, Y. Gilad, 2018, eLife.

Silencing of transposable elements may not be a major driver of regulatory evolution in primate induced pluripotent stem cells

Mohammad M. Karimi, M. Stephens, Y. Gilad, 2017, bioRxiv.

A Comparative Assessment of Human and Chimpanzee iPSC-derived Cardiomyocytes with Primary Heart Tissues

Y. Gilad, Lauren E. Blake, Bryan J. Pavlovic, 2018, bioRxiv.

A Comparative Assessment of Human and Chimpanzee iPSC-derived Cardiomyocytes with Primary Heart Tissues

Y. Gilad, Lauren E. Blake, Bryan J. Pavlovic, 2018, Scientific Reports.

Exon-Specific QTLs Skew the Inferred Distribution of Expression QTLs Detected Using Gene Expression Array Data

Joseph K. Pickrell, Daniel J. Gaffney, M. Stephens, 2012, PloS one.

Dynamic effects of genetic variation on gene expression revealed following hypoxic stress in cardiomyocytes

M. Stephens, Y. Gilad, Abhishek K Sarkar, 2020, bioRxiv.

Gene expression variability in human and chimpanzee populations share common determinants

Y. Gilad, Abhishek K Sarkar, Lauren E. Blake, 2020, eLife.

Mycobacterial infection induces a specific human innate immune response

Y. Gilad, J. Blischak, L. Barreiro, 2015, Scientific Reports.

Mycobacterial infection induces a specific human innate immune response

Y. Gilad, J. Blischak, L. Barreiro, 2015, bioRxiv.

Metastasis Suppressors Regulate the Tumor Microenvironment by Blocking Recruitment of Prometastatic Tumor-Associated Macrophages.

Y. Gilad, K. Chada, M. Rosner, 2016, Cancer research.

Population differences in haplotype structure within a human olfactory receptor gene cluster.

Y. Gilad, D. Lancet, O. Man, 2002, Human molecular genetics.

A generally conserved response to hypoxia in iPSC-derived cardiomyocytes from humans and chimpanzees

Y. Gilad, Michelle C. Ward, 2019, eLife.

Inter-species differences in response to hypoxia in iPSC-derived cardiomyocytes from humans and chimpanzees

Y. Gilad, Michelle C. Ward, 2018, bioRxiv.

A generally conserved response to hypoxia in iPSC-derived cardiomyocytes from 1 humans and chimpanzees 2 3 4

Y. Gilad, Michelle C. Ward, 2022 .

Dynamic genetic regulation of gene expression during cellular differentiation

Benjamin J. Strober, Y. Gilad, A. Battle, 2019, Science.

Predicting susceptibility to tuberculosis based on gene expression profiling in dendritic cells

Y. Gilad, J. Blischak, R. Brosch, 2017, bioRxiv.

sequence and chromatin accessibility data Accurate inference of transcription factor binding from DNA Material

Jacob F. Degner, J. Pritchard, Y. Gilad, 2010 .

Host genetic variation in mucosal immunity pathways influences the upper airway microbiome

Emily R. Davenport, Y. Gilad, D. Nicolae, 2017, Microbiome.

Embryoid bodies facilitate comparative analysis of gene expression in humans and chimpanzees across dozens of cell types

Y. Gilad, Kenneth A. Barr, K. Rhodes, 2022, bioRxiv.

Embryoid bodies facilitate comparative analysis of gene expression in humans and chimpanzees across dozens of cell types

Y. Gilad, Kenneth A. Barr, K. Rhodes, 2022, bioRxiv.

Does a unique olfactory genome imply a unique olfactory world?

N. Sobel, Y. Gilad, I. Frumin, 2013, Nature Neuroscience.

Comparative metabolomics in primates reveals the effects of diet and gene on metabolic divergence.

G. Perry, A. Clark, O. Fiehn, 2014 .

Understanding mechanisms underlying human gene expression variation with RNA sequencing

Joseph K. Pickrell, Jacob F. Degner, M. Stephens, 2010, Nature.

Correction: Loss of Olfactory Receptor Genes Coincides with the Acquisition of Full Trichromatic Vision in Primates

S. Pääbo, Y. Gilad, D. Lancet, 2007, PLoS Biology.

A TAD Skeptic: Is 3D Genome Topology Conserved?

Y. Gilad, Ittai E Eres, 2020, Trends in genetics : TIG.

Different noses for different people

Y. Gilad, D. Lancet, O. Man, 2003, Nature Genetics.

The Genetic and Mechanistic Basis for Variation in Gene Regulation

Jonathan K. Pritchard, Athma A. Pai, Yoav Gilad, 2015, PLoS genetics.

Comparative studies of gene regulatory mechanisms.

Y. Gilad, A. Pai, 2014, Current opinion in genetics & development.

The Contribution of RNA Decay Quantitative Trait Loci to Inter-Individual Variation in Steady-State Gene Expression Levels

Matthew Stephens, Joseph K. Pickrell, Jonathan K. Pritchard, 2012, PLoS genetics.

Dissecting the regulatory architecture of gene expression QTLs

Matthew Stephens, Jean-Baptiste Veyrieras, Jacob F. Degner, 2012, Genome Biology.

Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes

Petra C. Schwalie, Andre J. Faure, D. Odom, 2013, Genome Biology.

WASP: allele-specific software for robust discovery of molecular quantitative trait loci

J. Pritchard, Y. Gilad, Graham P. McVicker, 2014, bioRxiv.

Single-cell sequencing reveals lineage-specific dynamic genetic regulation of gene expression during human cardiomyocyte differentiation

Benjamin J. Strober, Y. Gilad, A. Battle, 2021, bioRxiv.

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data

John C. Marioni, Joseph K. Pickrell, Jonathan K. Pritchard, 2009, Bioinform..

Evolution of bitter taste receptors in humans and apes.

Orna Man, Yoav Gilad, Svante Pääbo, 2005, Molecular biology and evolution.

DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines

Joseph K. Pickrell, Jacob F. Degner, Daniel J. Gaffney, 2011, Genome Biology.

Regulatory element copy number differences shape primate expression profiles

Ryan E. Mills, M. Gerstein, O. Gokcumen, 2012, Proceedings of the National Academy of Sciences.

Absence of the TAP2 Human Recombination Hotspot in Chimpanzees

Matthew Stephens, Molly Przeworski, Yoav Gilad, 2004, PLoS biology.

Evidence for positive selection and population structure at the human MAO-A gene

Doron Lancet, Molly Przeworski, Yoav Gilad, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Dichotomy of single-nucleotide polymorphism haplotypes in olfactory receptor genes and pseudogenes

Doron Lancet, Yoav Gilad, Karl Skorecki, 2000, Nature Genetics.

Bacterial infection remodels the DNA methylation landscape of human dendritic cells

Miao Yu, Jenny Tung, Kasper D Hansen, 2015, bioRxiv.

A reanalysis of mouse ENCODE comparative gene expression data

Yoav Gilad, Orna Mizrahi-Man, Y. Gilad, 2015, F1000Research.

Methylation QTLs Are Associated with Coordinated Changes in Transcription Factor Binding, Histone Modifications, and Gene Expression Levels

John D. Blischak, Jonathan K. Pritchard, Julien Roux, 2014, bioRxiv.

Functional Comparison of Innate Immune Signaling Pathways in Primates

M. Stephens, J. Marioni, Y. Gilad, 2010, PLoS genetics.

Identification of Genetic Variants That Affect Histone Modifications in Human Cells

Jonathan K. Pritchard, Jacob F. Degner, Yoav Gilad, 2013, Science.

False positive peaks in ChIP-seq and other sequencing-based functional assays caused by unannotated high copy number regions

Joseph K. Pickrell, Jonathan K. Pritchard, Yoav Gilad, 2011, Bioinform..

A panel of induced pluripotent stem cells from chimpanzees: a resource for comparative functional genomics

Yoav Gilad, Louise C Laurent, Irene Gallego Romero, 2014, bioRxiv.

Prediction of the odorant binding site of olfactory receptor proteins by human–mouse comparisons

Doron Lancet, Orna Man, Yoav Gilad, 2004, Protein science : a publication of the Protein Society.

Mouse-human orthology relationships in an olfactory receptor gene cluster.

Y. Pilpel, Y. Gilad, D. Lancet, 2001, Genomics.

Human embryoid bodies as a novel system for genomic studies of functionally diverse cell types

Benjamin J. Strober, Y. Gilad, A. Battle, 2021, bioRxiv.

A comparison of the human and chimpanzee olfactory receptor gene repertoires.

Gustavo Glusman, Orna Man, Yoav Gilad, 2005, Genome research.

Widespread conservation of chromatin accessibility patterns and transcription factor binding in human and chimpanzee induced pluripotent stem cells

Y. Gilad, I. G. Romero, S. Gopalakrishnan, 2018 .

A comparative study of endoderm differentiation in humans and chimpanzees

John D. Blischak, Yoav Gilad, Y. Gilad, 2017, Genome Biology.

Comparative RNA sequencing reveals substantial genetic variation in endangered primates.

Páll Melsted, Matthew Stephens, Joseph K. Pickrell, 2012, Genome research.

A Genome-Wide Study of DNA Methylation Patterns and Gene Expression Levels in Multiple Human and Chimpanzee Tissues

J. Bell, J. Pritchard, J. Marioni, 2011, PLoS genetics.

Using Reporter Gene Assays to Identify cis Regulatory Differences Between Humans and Chimpanzees

Adrien E. Chabot, Y. Gilad, Ran Blekhman, 2007, Genetics.

Synthesis, biological studies and molecular dynamics of new anticancer RGD-based peptide conjugates for targeted drug delivery.

Y. Gilad, H. Senderowitz, E. Noy, 2016, Bioorganic & medicinal chemistry.

Genomic-scale capture and sequencing of endogenous DNA from feces.

G. Perry, J. Marioni, Y. Gilad, 2010, Molecular ecology.

The effects of EBV transformation on gene expression levels and methylation profiles.

Yoav Gilad, Carole Ober, Y. Gilad, 2011, Human molecular genetics.

Genetic Variation, Not Cell Type of Origin, Underlies the Majority of Identifiable Regulatory Differences in iPSCs

J. Pritchard, Y. Gilad, Irene Gallego Romero, 2016, PLoS genetics.

We present a parametric analysis of the data that is based on the Poisson random field ( PRF ) model

C. Bustamante, S. Pääbo, Y. Gilad, 2007 .

Copy Number Variation of CCL3-like Genes Affects Rate of Progression to Simian-AIDS in Rhesus Macaques (Macaca mulatta)

Jeremiah D. Degenhardt, Adrien E. Chabot, E. Eichler, 2009, PLoS genetics.

Copy Number Variation of CCL 3-like Genes Affects Rate of Progression to Simian-AIDS in Rhesus Macaques ( Macaca mulatta )

Jeremiah D. Degenhardt, Adrien E. Chabot, E. Eichler, 2009 .

Discovery of potent molecular chimera (CM358) to treat human metastatic melanoma.

Y. Gilad, H. Senderowitz, G. Gellerman, 2017, European journal of medicinal chemistry.

NIEHS Scientist Serves at White House

Y. Gilad, D. Nicolae, S. Firestein, 1996, Genome Biology.

Genomics: ENCODE explained

J. Pritchard, E. Segal, Y. Gilad, 2012, Nature.

High-resolution mapping of expression-QTLs yields insight into human gene regulation . Supplementary Methods

M. Stephens, J. Pritchard, Y. Gilad, 2008 .

A Methodological Assessment and Characterization of Genetically-Driven Variation in Three Human Phosphoproteomes

Brett W. Engelmann, Y. Gilad, C. Hsiao, 2018, bioRxiv.

Genetic Variation, Not Cell Type of Origin, Underlies Regulatory Differences in iPSCs

J. Pritchard, Y. Gilad, I. G. Romero, 2015, bioRxiv.

comparison with gene expression arrays RNA-seq : An assessment of technical reproducibility and Material Supplemental

M. Stephens, J. Marioni, C. Mason, 2008 .

Using genomic tools to study regulatory evolution.

Y. Gilad, 2012, Methods in molecular biology.

Correction: DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines

Joseph K. Pickrell, Jacob F. Degner, Daniel J. Gaffney, 2011, Genome Biology.

Characterizing gene expression in an in vitro biomechanical strain model of joint health

Y. Gilad, Genevieve Housman, Claudia Cuevas, 2022, F1000Research.

Evolutionary insights into primate skeletal gene regulation using a comparative cell culture model

Y. Gilad, Genevieve Housman, Emilie Briscoe, 2021, bioRxiv.

Host genetic variation in mucosal immunity pathways influences the upper airway microbiome

Emily R. Davenport, Y. Gilad, D. Nicolae, 2016, bioRxiv.

Reducing mitochondrial reads in ATAC-seq using CRISPR/Cas9

Y. Gilad, G. Crawford, M. Nóbrega, 2017, Scientific Reports.

Prime time for primate functional genomics.

Y. Gilad, Genevieve Housman, 2020, Current opinion in genetics & development.

The genetic architecture of gene expression levels in wild baboons

Matthew Stephens, Jenny Tung, Yoav Gilad, 2014, bioRxiv.

Mechanisms for evolving hypervariability: the case of conopeptides.

Y. Gilad, E. Ben‐Asher, N. Avidan, 2001, Molecular biology and evolution.

The Effect of Freeze-Thaw Cycles on Gene Expression Levels in Lymphoblastoid Cell Lines

J. Pritchard, Y. Gilad, C. Ober, 2014, PloS one.

Expression quantitative trait loci detected in cell lines are often present in primary tissues.

Yoav Gilad, Graham Coop, G. Coop, 2009, Human molecular genetics.

Multi-species microarrays reveal the effect of sequence divergence on gene expression profiles.

Mark Gerstein, Scott A. Rifkin, Paul Bertone, 2005, Genome research.

Reorganization of 3D genome structure may contribute to gene regulatory evolution in primates

Yoav Gilad, Y. Gilad, C. Hsiao, 2018, bioRxiv.

Segmental Duplications Contribute to Gene Expression Differences Between Humans and Chimpanzees

Alicia Oshlack, Ran Blekhman, Yoav Gilad, 2009, Genetics.

Impact of RNA degradation on measurements of gene expression

Y. Gilad, I. G. Romero, A. Pai, 2014, bioRxiv.

A Combination of Genomic Approaches Reveals the Role of FOXO1a in Regulating an Oxidative Stress Response Pathway

Adrien E. Chabot, Y. Gilad, A. Oshlack, 2008, PloS one.

Social environment is associated with gene regulatory variation in the rhesus macaque immune system

Jenny Tung, Kasper D. Hansen, Yoav Gilad, 2012, Proceedings of the National Academy of Sciences.

Integrated analyses of gene expression and genetic association studies in a founder population

Roberto M. Lang, Yoav Gilad, Jack A. Elias, 2016, Human molecular genetics.

The combination of a genome-wide association study of lymphocyte count and analysis of gene expression data reveals novel asthma candidate genes

Xiang Zhou, Athma A. Pai, Yoav Gilad, 2012, Human molecular genetics.

Social environmental effects on gene regulation

Y. Gilad, J. Tung, Jenny Tung, 2013, Cellular and Molecular Life Sciences.

Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis

John D. Blischak, Matthew Stephens, Yoav Gilad, 2019, bioRxiv.

Comparative metabolomics in primates reveals the effects of diet and gene regulatory variation on metabolic divergence

G. Perry, A. Clark, O. Fiehn, 2014, Scientific Reports.

Inflammation-induced disruption of SCS macrophages impairs B cell responses to secondary infection

J. Pritchard, Y. Gilad, A. Battle, 2022 .

General Olfactory Sensitivity Database (GOSdb): Candidate Genes and their Genomic Variations

Y. Gilad, D. Lancet, D. Restrepo, 2013, Human mutation.

A Comparative Assessment of Human and Chimpanzee iPSC-derived Cardiomyocytes with Primary Heart Tissues

Y. Gilad, Lauren E. Blake, Bryan J. Pavlovic, 2018, bioRxiv.

Using DNA microarrays to study gene expression in closely related species

Gordon K. Smyth, Alicia Oshlack, Yoav Gilad, 2007, Bioinform..

Functional dynamic genetic effects on gene regulation are specific to particular cell types and environmental conditions

Cynthia A. Kalita, Y. Gilad, X. Wen, 2021, bioRxiv.

Gene expression in local stroma reflects breast tumor states and predicts patient outcome

Y. Gilad, G. An, M. Rosner, 2016, Scientific Reports.

DNA methylation in lung cells is associated with asthma endotypes and genetic risk.

Yoav Gilad, Carole Ober, Dan L Nicolae, 2016, JCI insight.

The human olfactory transcriptome

Y. Gilad, D. Lancet, D. Restrepo, 2016, BMC Genomics.

A signature of evolutionary constraint on a subset of ectopically expressed olfactory receptor genes.

Omar De la Cruz, Ran Blekhman, Yoav Gilad, 2008, Molecular biology and evolution.

Benchmarking sequencing methods and tools that facilitate the study of alternative polyadenylation

Y. Gilad, Yang I. Li, Ankeeta Shah, 2021, Genome Biology.

Epigenetic modifications are associated with inter-species gene expression variation in primates

Emily R. Davenport, M. Stephens, J. Pritchard, 2014, Genome Biology.

Effective study design for comparative functional genomics

Joanna L. Kelley, J. Kelley, Y. Gilad, 2020, Nature Reviews Genetics.

Time-dependent transcriptional profiling links gene expression to mitogen-activated protein kinase kinase 4 (MKK4)-mediated suppression of omental metastatic colonization

Y. Gilad, A. Montag, M. Lingen, 2012, Clinical & Experimental Metastasis.

Functional dynamic genetic effects on gene regulation are specific to particular cell types and environmental conditions.

Cynthia A. Kalita, Y. Gilad, X. Wen, 2021, eLife.

LRRK 2 regulates mitochondrial dynamics and function through direct interaction with DLP 1

Y. Gilad, A. Prentice, F. Zhou, 2012 .

Human genomics: Cracking the regulatory code

Yoav Gilad, Y. Gilad, Michelle C. Ward, 2017, Nature.

Host Genetic Variation Influences Gene Expression Response to Rhinovirus Infection

Samuel W. Baker, Yoav Gilad, Carole Ober, 2015, PLoS genetics.

Synthesis of Novel Protected Nα(ω-Drug) Amino Acid Building Units for Facile Preparation of Anticancer Drug-Conjugates

Y. Gilad, G. Gellerman, A. Albeck, 2016, International Journal of Peptide Research and Therapeutics.

Characterizing gene expression responses to biomechanical strain in an in vitro model of osteoarthritis

Y. Gilad, Genevieve Housman, Claudia Cuevas, 2021, bioRxiv.

Reducing mitochondrial reads in ATAC-seq using CRISPR/Cas9

Y. Gilad, G. Crawford, C. Ober, 2016, bioRxiv.

Determining the genetic basis of anthracycline-cardiotoxicity by molecular response QTL mapping in induced cardiomyocytes

David A. Knowles, J. Pritchard, D. Serie, 2017, bioRxiv.

The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees

Y. Gilad, Kenneth A. Barr, K. Rhodes, 2023, Genome Biology.

Social environment is associated with gene regulatory variation in the rhesus macaque immune system

K. Hansen, Y. Gilad, D. Toufexis, 2012, Proceedings of the National Academy of Sciences of the United States of America.

GEGenetic regulatory effects in response to a high cholesterol, high fat diet in baboons

Y. Gilad, L. Cox, Michael Olivier, 2023, bioRxiv.

Characterizing the expression of the human olfactory receptor gene family using a novel DNA microarray

Y. Gilad, D. Nicolae, S. Firestein, 2007, Genome Biology.

Gene Regulation in Primates Evolves under Tissue-Specific Selection Pressures

Adrien E. Chabot, Y. Gilad, G. Smyth, 2008, PLoS genetics.

Genomics: ENCODE explained

J. Pritchard, E. Segal, Y. Gilad, 2012, Nature.

Metastasis Suppressors Regulate the Tumor Microenvironment by Blocking Recruitment of Prometastatic Tumor-Associated Macrophages.

Y. Gilad, K. Chada, M. Rosner, 2016, Cancer research.

Impact of regulatory variation across human iPSCs and differentiated cells

A. Kundaje, Y. Gilad, Anil Raj, 2016, bioRxiv.

Genetic regulatory effects in response to a high-cholesterol, high-fat diet in baboons

Y. Gilad, Michael Olivier, Ge Li, 2023, bioRxiv.

Faculty Opinions recommendation of Interpreting principal component analyses of spatial population genetic variation.

Y. Gilad, 2008 .

Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling

Yang I. Li, Brett W. Engelmann, M. Stephens, 2015, bioRxiv.

Cell-type and dynamic state govern genetic regulation of gene expression in heterogeneous differentiating cultures

Y. Gilad, Karl Tayeb, Katherine Rhodes, 2024, bioRxiv.

DNA methylation in lung cells is associated with asthma endotypes and genetic risk.

Y. Gilad, D. Nicolae, C. Ober, 2016, JCI insight.

Oxygen-induced stress reveals context-specific gene regulatory effects in human brain organoids

Y. Gilad, Benjamin D. Umans, 2024, bioRxiv.

Thousands of novel translated open reading frames in 1 " humans inferred by ribosome footprint profiling . ! 2 " 3 "

Y. Gilad, Anil Raj, A. Harpak, 2015 .

Supplementary Information for Impact of regulatory variation across human iPSCs and differentiated cells

Yang I. Li, A. Kundaje, J. Pritchard, 2017 .

A comparison of the human and chimpanzee olfactory receptor gene repertoires.

Y. Gilad, Gwênlyn Glusman, Orna Man, 2005, Genome research.