Variability of cross-tissue X-chromosome inactivation characterizes timing of human embryonic lineage specification events

Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function

(2022) Gökcen Eraslan et al.   SCIENCE

Human gastrulation: The embryo and its models

(2021) Sabitri Ghimire et al.   DEVELOPMENTAL BIOLOGY

Cross-species examination of X-chromosome inactivation highlights domains of escape from silencing

(2021) Bradley P. Balaton et al.   Epigenetics & Chromatin

Bayesian modeling of skewed X inactivation in genetically diverse mice identifies a novel Xce allele associated with copy number changes

(2021) Kathie Y Sun et al.   GENETICS

GENCODE 2021

(2020) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

Heterogeneous Escape from X Chromosome Inactivation Results in Sex Differences in Type I IFN Responses at the Single Human pDC Level

(2020) Sven Hendrik Hagen et al.   Cell Reports

Determining cell type abundance and expression from bulk tissues with digital cytometry

(2019) Aaron M. Newman et al.   NATURE BIOTECHNOLOGY

X-chromosome upregulation is driven by increased burst frequency

(2019) Anton J. M. Larsson et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Skewed X-inactivation is common in the general female population

(2018) Ekaterina Shvetsova et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Molecular signatures of X chromosome inactivation and associations with clinical outcomes in epithelial ovarian cancer

(2018) Stacey J Winham et al.   HUMAN MOLECULAR GENETICS

X chromosome inactivation in human pluripotent stem cells as a model for human development: back to the drawing board?

(2017) Mieke Geens et al.   HUMAN REPRODUCTION UPDATE

Landscape of X chromosome inactivation across human tissues

(2017) Taru Tukiainen et al.   NATURE

Early X chromosome inactivation during human preimplantation development revealed by single-cell RNA-sequencing

(2017) Joana C. Moreira de Mello et al.   Scientific Reports

Complex heatmaps reveal patterns and correlations in multidimensional genomic data

(2016) Zuguang Gu et al.   BIOINFORMATICS

Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

(2016) Sophie Petropoulos et al.   CELL

Have humans lost control: The elusive X-controlling element

(2016) Samantha B. Peeters et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Buccal swab as a reliable predictor for X inactivation ratio in inaccessible tissues

(2015) Bas de Hoon et al.   JOURNAL OF MEDICAL GENETICS

Escape from X Inactivation Varies in Mouse Tissues

(2015) Joel B. Berletch et al.   PLoS Genetics

Cellular Resolution Maps of X Chromosome Inactivation: Implications for Neural Development, Function, and Disease

(2014) Hao Wu et al.   NEURON

Genes That Escape X-Inactivation in Humans Have High Intraspecific Variability in Expression, Are Associated with Mental Impairment but Are Not Slow Evolving

(2013) Yuchao Zhang et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Genotype-Tissue Expression (GTEx) project

(2013) John Lonsdale et al.   NATURE GENETICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

X Chromosome Inactivation Is Initiated in Human Preimplantation Embryos

(2009) Ilse M. van den Berg et al.   AMERICAN JOURNAL OF HUMAN GENETICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS