Integrated transcriptome analysis of mouse spermatogenesis

Cellular Source and Mechanisms of High Transcriptome Complexity in the Mammalian Testis

(2013) Magali Soumillon et al.   Cell Reports

A quantitative atlas of polyadenylation in five mammals

(2012) Adnan Derti et al.   GENOME RESEARCH

Genetic recombination is directed away from functional genomic elements in mice

(2012) Kevin Brick et al.   NATURE

A map of the cis-regulatory sequences in the mouse genome

(2012) Yin Shen et al.   NATURE

Alternative polyadenylation: New insights from global analyses

(2012) Y. Shi   RNA

Spata22, a Novel Vertebrate-Specific Gene, Is Required for Meiotic Progress in Mouse Germ Cells1

(2011) Sophie La Salle et al.   BIOLOGY OF REPRODUCTION

Genome-wide analysis reveals novel molecular features of mouse recombination hotspots

(2011) Fatima Smagulova et al.   NATURE

lincRNAs act in the circuitry controlling pluripotency and differentiation

(2011) Mitchell Guttman et al.   NATURE

Next generation sequencing allows deeper analysis and understanding of genomes and transcriptomes including aspects to fertility

(2011) Thomas Werner   REPRODUCTION FERTILITY AND DEVELOPMENT

piRNA profiling during specific stages of mouse spermatogenesis

(2011) H. Gan et al.   RNA

Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq

(2011) P. J. Shepard et al.   RNA

A signal–noise model for significance analysis of ChIP-seq with negative control

(2010) Han Xu et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Flow Cytometry for Gene Expression Studies in Mammalian Spermatogenesis

(2010) A. Geisinger et al.   CYTOGENETIC AND GENOME RESEARCH

The Expression Profile of the Major Mouse SPO11 Isoforms Indicates that SPO11  Introduces Double Strand Breaks and Suggests that SPO11  Has an Additional Role in Prophase in both Spermatocytes and Oocytes

(2010) M. A. Bellani et al.   MOLECULAR AND CELLULAR BIOLOGY

Deciphering the splicing code

(2010) Yoseph Barash et al.   NATURE

Ab initio reconstruction of cell type–specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

(2010) Mitchell Guttman et al.   NATURE BIOTECHNOLOGY

Cell type–specific gene expression differences in complex tissues

(2010) Shai S Shen-Orr et al.   NATURE METHODS

Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq

(2010) Hao Sun et al.   NUCLEIC ACIDS RESEARCH

The biology of spermatogenesis: the past, present and future

(2010) C. Y. Cheng et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Testicular postgenomics: targeting the regulation of spermatogenesis

(2010) P. Calvel et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Spermatogonial stem cell regulation and spermatogenesis

(2010) B. T. Phillips et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

PRDM9 Is a Major Determinant of Meiotic Recombination Hotspots in Humans and Mice

(2010) F. Baudat et al.   SCIENCE

Surfing the wave, cycle, life history, and genes/proteins expressed by testicular germ cells. Part 1: Background to spermatogenesis, spermatogonia, and spermatocytes

(2009) Louis Hermo et al.   MICROSCOPY RESEARCH AND TECHNIQUE

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Deconvolution of Blood Microarray Data Identifies Cellular Activation Patterns in Systemic Lupus Erythematosus

(2009) Alexander R. Abbas et al.   PLoS One

The FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation

(2009) Hideya Kawaji et al.   GENOME BIOLOGY

The mouse X chromosome is enriched for multicopy testis genes showing postmeiotic expression

(2008) Jacob L Mueller et al.   NATURE GENETICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY