Sex-biased gene expression across mammalian organ development and evolution

Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches

(2022) Martin Guilliams et al.   CELL

Androgens increase excitatory neurogenic potential in human brain organoids

(2022) Iva Kelava et al.   NATURE

Interplay Between GH-regulated, Sex-biased Liver Transcriptome and Hepatic Zonation Revealed by Single-Nucleus RNA Sequencing

(2022) Christine N Goldfarb et al.   ENDOCRINOLOGY

Relative contributions of sex hormones, sex chromosomes, and gonads to sex differences in tissue gene regulation

(2022) Montgomery Blencowe et al.   GENOME RESEARCH

Dynamics of sex-biased gene expression during development in the stick insect Timema californicum

(2022) Jelisaveta Djordjevic et al.   HEREDITY

Sex-biased and parental allele-specific gene regulation by KDM6A

(2022) Wenxiu Ma et al.   Biology of Sex Differences

The International Mouse Phenotyping Consortium: comprehensive knockout phenotyping underpinning the study of human disease

(2022) Tudor Groza et al.   NUCLEIC ACIDS RESEARCH

Single-cell profiling of healthy human kidney reveals features of sex-based transcriptional programs and tissue-specific immunity

(2022) Caitriona M. McEvoy et al.   Nature Communications

UniBind: maps of high-confidence direct TF-DNA interactions across nine species

(2021) Rafael Riudavets Puig et al.   BMC GENOMICS

X-linked histone H3K27 demethylase Kdm6a regulates sexually dimorphic differentiation of hypothalamic neurons

(2021) Lucas E. Cabrera Zapata et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Caloric Restriction Reprograms the Single-Cell Transcriptional Landscape of Rattus Norvegicus Aging

(2020) Shuai Ma et al.   CELL

Systems Biology Analysis Reveals Eight SLC22 Transporter Subgroups, Including OATs, OCTs, and OCTNs

(2020) Darcy C. Engelhart et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Data-based RNA-seq simulations by binomial thinning

(2020) David Gerard   BMC BIOINFORMATICS

Comparative analysis of cell lineage differentiation during hepatogenesis in humans and mice at the single-cell transcriptome level

(2020) Xin Wang et al.   CELL RESEARCH

Single nuclei RNA sequencing assessment of the hepatic effects of 2,3,7,8-tetrachlorodibenzo-p-dioxin

(2020) Rance Nault et al.   Cellular and Molecular Gastroenterology and Hepatology

X chromosome dosage of histone demethylase KDM5C determines sex differences in adiposity

(2020) Jenny C. Link et al.   JOURNAL OF CLINICAL INVESTIGATION

A single-cell transcriptome atlas of marsupial embryogenesis and X inactivation

(2020) Shantha K. Mahadevaiah et al.   NATURE

The impact of sex on gene expression across human tissues

(2020) Meritxell Oliva et al.   SCIENCE

GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes

(2019) Yi Shao et al.   GENOME RESEARCH

Single cell analysis of the developing mouse kidney provides deeper insight into marker gene expression and ligand-receptor crosstalk

(2019) Alexander N. Combes et al.   DEVELOPMENT

Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data

(2019) Samuel L. Wolock et al.   Cell Systems

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Evolutionary patterns of major urinary protein scent signals in house mice and relatives

(2019) Michael J. Sheehan et al.   MOLECULAR ECOLOGY

Developmental dynamics of lncRNAs across mammalian organs and species

(2019) Ioannis Sarropoulos et al.   NATURE

Gene expression across mammalian organ development

(2019) Margarida Cardoso-Moreira et al.   NATURE

A human liver cell atlas reveals heterogeneity and epithelial progenitors

(2019) Nadim Aizarani et al.   NATURE

Conservation, acquisition, and functional impact of sex-biased gene expression in mammals

(2019) Sahin Naqvi et al.   SCIENCE

Molecular complexity of the major urinary protein system of the Norway rat, Rattus norvegicus

(2019) Guadalupe Gómez-Baena et al.   Scientific Reports

The developmental origins of sex-biased expression in cardiac development

(2019) Daniel F. Deegan et al.   Biology of Sex Differences

Single-Cell Profiling Reveals Sex, Lineage, and Regional Diversity in the Mouse Kidney

(2019) Andrew Ransick et al.   DEVELOPMENTAL CELL

A Novel Nonsense Mutation of PHF6 in a Female with Extended Phenotypes of Borjeson-Forssman-Lehmann Syndrome

(2019) Xia Zhang et al.   Journal of Clinical Research in Pediatric Endocrinology

Sex Differences in Early Embryogenesis: Inter-Chromosomal Regulation Sets the Stage for Sex-Biased Gene Networks

(2018) Nora Engel   BIOESSAYS

Evolution of Sex-Biased Gene Expression and Dosage Compensation in the Eye and Brain of Heliconius Butterflies

(2018) Ana Catalán et al.   MOLECULAR BIOLOGY AND EVOLUTION

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Taxonomically Restricted Genes Are Fundamental to Biology and Evolution

(2018) Brian R. Johnson   Frontiers in Genetics

Sex reversal

(2018) Ceri Weber et al.   CURRENT BIOLOGY

Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations

(2018) Sonya A. MacParland et al.   Nature Communications

Implications of monotreme and marsupial chromosome evolution on sex determination and differentiation

(2017) Janine E. Deakin   GENERAL AND COMPARATIVE ENDOCRINOLOGY

Vertebrate sex determination: evolutionary plasticity of a fundamental switch

(2017) Blanche Capel   NATURE REVIEWS GENETICS

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

The transcriptional architecture of phenotypic dimorphism

(2017) Judith E. Mank   Nature Ecology & Evolution

Stereological assessment of sexual dimorphism in the rat liver reveals differences in hepatocytes and Kupffer cells but not hepatic stellate cells

(2016) Ricardo Marcos et al.   JOURNAL OF ANATOMY

Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons

(2016) Suguna Rani Krishnaswami et al.   Nature Protocols

Sex Biased Gene Expression Profiling of Human Brains at Major Developmental Stages

(2016) Lei Shi et al.   Scientific Reports

Androgen Receptor Tumor Suppressor Function Is Mediated by Recruitment of Retinoblastoma Protein

(2016) Shuai Gao et al.   Cell Reports

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

(2015) Guangchuang Yu et al.   BIOINFORMATICS

Sex and the preimplantation embryo: implications of sexual dimorphism in the preimplantation period for maternal programming of embryonic development

(2015) Peter J. Hansen et al.   CELL AND TISSUE RESEARCH

Epigenetics and sex differences in the brain: A genome-wide comparison of histone-3 lysine-4 trimethylation (H3K4me3) in male and female mice

(2015) Erica Y. Shen et al.   EXPERIMENTAL NEUROLOGY

Cross Talk Between GH-Regulated Transcription Factors HNF6 and CUX2 in Adult Mouse Liver

(2015) Tara L. Conforto et al.   MOLECULAR ENDOCRINOLOGY

Evolution of vertebrate sex chromosomes and dosage compensation

(2015) Jennifer A. Marshall Graves   NATURE REVIEWS GENETICS

Ensembl 2016

(2015) Andrew Yates et al.   NUCLEIC ACIDS RESEARCH

Sexual selection drives evolution and rapid turnover of male gene expression

(2015) Peter W. Harrison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tissue-specific pioneer factors associate with androgen receptor cistromes and transcription programs

(2014) Päivi Pihlajamaa et al.   EMBO JOURNAL

Transcriptomics of developing embryos and organs: A raising tool for evo-devo

(2014) Sophie Pantalacci et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Hormone-Independent Pathways of Sexual Differentiation

(2014) Marilyn B. Renfree et al.   Sexual Development

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Hierarchical Bayesian modelling of gene expression time series across irregularly sampled replicates and clusters

(2013) James Hensman et al.   BMC BIOINFORMATICS

Genome-Wide Analysis of Chromatin States Reveals Distinct Mechanisms of Sex-Dependent Gene Regulation in Male and Female Mouse Liver

(2013) A. Sugathan et al.   MOLECULAR AND CELLULAR BIOLOGY

Distinct Properties of Cell-Type-Specific and Shared Transcription Factor Binding Sites

(2013) Jason Gertz et al.   MOLECULAR CELL

The evolutionary causes and consequences of sex-biased gene expression

(2013) John Parsch et al.   NATURE REVIEWS GENETICS

Estrogen represses gene expression through reconfiguring chromatin structures

(2013) Hatice Ulku Osmanbeyoglu et al.   NUCLEIC ACIDS RESEARCH

Origins of P450 diversity

(2013) H. Sezutsu et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

High resolution melting analysis for the identification of novel mutations in DKC1 and TERT genes in patients with dyskeratosis congenita

(2012) J. Carrillo et al.   BLOOD CELLS MOLECULES AND DISEASES

Foxa1 and Foxa2 Are Essential for Sexual Dimorphism in Liver Cancer

(2012) Zhaoyu Li et al.   CELL

Impact of CUX2 on the Female Mouse Liver Transcriptome: Activation of Female-Biased Genes and Repression of Male-Biased Genes

(2012) T. L. Conforto et al.   MOLECULAR AND CELLULAR BIOLOGY

Dynamic, Sex-Differential STAT5 and BCL6 Binding to Sex-Biased, Growth Hormone-Regulated Genes in Adult Mouse Liver

(2011) Y. Zhang et al.   MOLECULAR AND CELLULAR BIOLOGY

Unbiased, Genome-Wide In Vivo Mapping of Transcriptional Regulatory Elements Reveals Sex Differences in Chromatin Structure Associated with Sex-Specific Liver Gene Expression

(2010) G. Ling et al.   MOLECULAR AND CELLULAR BIOLOGY

Somatic sex identity is cell autonomous in the chicken

(2010) D. Zhao et al.   NATURE

The Sexually Antagonistic Genes of Drosophila melanogaster

(2010) Paolo Innocenti et al.   PLOS BIOLOGY

Sex Differences in Pharmacokinetics and Pharmacodynamics

(2009) Offie P. Soldin et al.   CLINICAL PHARMACOKINETICS

Male-Specific Hepatic Bcl6: Growth Hormone-Induced Block of Transcription Elongation in Females and Binding to Target Genes Inversely Coordinated with STAT5

(2009) Rosana D. Meyer et al.   MOLECULAR ENDOCRINOLOGY

Sex Differences in the Expression of Hepatic Drug Metabolizing Enzymes

(2009) D. J. Waxman et al.   MOLECULAR PHARMACOLOGY

Genetic and molecular insights into the development and evolution of sexual dimorphism

(2009) Thomas M. Williams et al.   NATURE REVIEWS GENETICS

Human and Murine Kidneys Show Gender- and Species-Specific Gene Expression Differences in Response to Injury

(2009) Han Si et al.   PLoS One

Elucidating the Role of Gonadal Hormones in Sexually Dimorphic Gene Coexpression Networks

(2008) Atila van Nas et al.   ENDOCRINOLOGY

Species Specificity in Major Urinary Proteins by Parallel Evolution

(2008) Darren W. Logan et al.   PLoS One

An Evolutionarily Conserved Sexual Signature in the Primate Brain

(2008) Björn Reinius et al.   PLoS Genetics