Cell fate inclination within 2-cell and 4-cell mouse embryos revealed by single-cell RNA sequencing

Single-Cell RNA-Seq Reveals Dynamic, Random Monoallelic Gene Expression in Mammalian Cells

(2014) Q. Deng et al.   SCIENCE

Interchromosomal Communication Coordinates Intrinsically Stochastic Expression Between Alleles

(2014) R. J. Johnston et al.   SCIENCE

Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing

(2013) Zhigang Xue et al.   NATURE

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Quantitative assessment of single-cell RNA-sequencing methods

(2013) Angela R Wu et al.   NATURE METHODS

Accounting for technical noise in single-cell RNA-seq experiments

(2013) Philip Brennecke et al.   NATURE METHODS

Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

(2013) Liying Yan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Ensembl 2014

(2013) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

Dynamics of 5-hydroxymethylcytosine during mouse spermatogenesis

(2013) Haiyun Gan et al.   Nature Communications

The differential response to Fgf signalling in cells internalized at different times influences lineage segregation in preimplantation mouse embryos

(2013) S. A. Morris et al.   Open Biology

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis

(2012) M.-A. Dillies et al.   BRIEFINGS IN BIOINFORMATICS

The UCSC genome browser and associated tools

(2012) R. M. Kuhn et al.   BRIEFINGS IN BIOINFORMATICS

Developmental Bias in Cleavage-Stage Mouse Blastomeres

(2012) Inna Tabansky et al.   CURRENT BIOLOGY

Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

(2012) Daniel Ramsköld et al.   NATURE BIOTECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Early cell fate decisions in the mouse embryo

(2012) Néstor Saiz et al.   REPRODUCTION

Developmental Plasticity Is Bound by Pluripotency and the Fgf and Wnt Signaling Pathways

(2012) Samantha A. Morris et al.   Cell Reports

Cell fate decisions and axis determination in the early mouse embryo

(2011) K. Takaoka et al.   DEVELOPMENT

Oct4 kinetics predict cell lineage patterning in the early mammalian embryo

(2011) Nicolas Plachta et al.   NATURE CELL BIOLOGY

 -catenin/TCF4 complex induces the epithelial-to-mesenchymal transition (EMT)-activator ZEB1 to regulate tumor invasiveness

(2011) E. Sanchez-Tillo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Development of Monozygotic Twin Mouse Embryos from the Time of Blastomere Separation at the Two-Cell Stage to Blastocyst1

(2010) Mika Katayama et al.   BIOLOGY OF REPRODUCTION

Resolution of Cell Fate Decisions Revealed by Single-Cell Gene Expression Analysis from Zygote to Blastocyst

(2010) Guoji Guo et al.   DEVELOPMENTAL CELL

Rewirable gene regulatory networks in the preimplantation embryonic development of three mammalian species

(2010) D. Xie et al.   GENOME RESEARCH

N-Glycosylation GeneDPAGT1Is a Target of the Wnt/β-Catenin Signaling Pathway

(2010) Pritam K. Sengupta et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cell Lineage Determination in State Space: A Systems View Brings Flexibility to Dogmatic Canonical Rules

(2010) Sui Huang   PLOS BIOLOGY

Myocilin Is a Modulator of Wnt Signaling

(2009) H.-S. Kwon et al.   MOLECULAR AND CELLULAR BIOLOGY

mRNA-Seq whole-transcriptome analysis of a single cell

(2009) Fuchou Tang et al.   NATURE METHODS

Making a firm decision: multifaceted regulation of cell fate in the early mouse embryo

(2009) Magdalena Zernicka-Goetz et al.   NATURE REVIEWS GENETICS

Nature, Nurture, or Chance: Stochastic Gene Expression and Its Consequences

(2008) Arjun Raj et al.   CELL

Formation of the embryonic-abembryonic axis of the mouse blastocyst: relationships between orientation of early cleavage divisions and pattern of symmetric/asymmetric divisions

(2008) M. Bischoff et al.   DEVELOPMENT

Role of Cdx2 and cell polarity in cell allocation and specification of trophectoderm and inner cell mass in the mouse embryo

(2008) A. Jedrusik et al.   GENES & DEVELOPMENT

Maternal Argonaute 2 Is Essential for Early Mouse Development at the Maternal-Zygotic Transition

(2008) Karin Lykke-Andersen et al.   MOLECULAR BIOLOGY OF THE CELL

Reactome knowledgebase of human biological pathways and processes

(2008) L. Matthews et al.   NUCLEIC ACIDS RESEARCH

Spatiotemporal expression of transcriptional regulators in concert with the maternal-to-embryonic transition during bovine in vitro embryogenesis

(2008) Christian Vigneault et al.   REPRODUCTION

Tead4 is required for specification of trophectoderm in pre-implantation mouse embryos

(2007) Noriyuki Nishioka et al.   MECHANISMS OF DEVELOPMENT