Chromatin profiling ofDrosophilaCNS subpopulations identifies active transcriptional enhancers

The MEME Suite

(2015) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Co-regulation of invected and engrailed by a complex array of regulatory sequences in Drosophila

(2014) Yuzhong Cheng et al.   DEVELOPMENTAL BIOLOGY

Enhancer diversity and the control of a simple pattern of Drosophila CNS midline cell expression

(2014) Joseph C. Pearson et al.   DEVELOPMENTAL BIOLOGY

Comparative analysis of metazoan chromatin organization

(2014) Joshua W. K. Ho et al.   NATURE

Genome-scale functional characterization of Drosophila developmental enhancers in vivo

(2014) Evgeny Z. Kvon et al.   NATURE

The Functional Consequences of Variation in Transcription Factor Binding

(2014) Darren A. Cusanovich et al.   PLoS Genetics

A Common Set of DNA Regulatory Elements Shapes Drosophila Appendages

(2013) Daniel J. McKay et al.   DEVELOPMENTAL CELL

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Formation and specification of a Drosophila dopaminergic precursor cell

(2012) J. D. Watson et al.   DEVELOPMENT

Transcriptome analysis of Drosophila CNS midline cells reveals diverse peptidergic properties and a role for castor in neuronal differentiation

(2012) Joseph R. Fontana et al.   DEVELOPMENTAL BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

A Resource for Manipulating Gene Expression and Analyzing cis-Regulatory Modules in the Drosophila CNS

(2012) Laurina Manning et al.   Cell Reports

Drosophila hedgehog signaling and engrailed - runt mutual repression direct midline glia to alternative ensheathing and non-ensheathing fates

(2011) Joseph D. Watson et al.   DEVELOPMENT

Tissue-specific cell sorting from Drosophila embryos: Application to gene expression analysis

(2011) Pierre-Adiren Salmand et al.   FLY

Molecular and functional analysis of Drosophila single-minded larval central brain expression

(2011) Stephanie M. Freer et al.   GENE EXPRESSION PATTERNS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data

(2010) Robert C McLeay et al.   BMC BIOINFORMATICS

Diverse modes of Drosophila tracheal fusion cell transcriptional regulation

(2010) Lan Jiang et al.   MECHANISMS OF DEVELOPMENT

FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system

(2010) Lihua Julie Zhu et al.   NUCLEIC ACIDS RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

MidExDB: A database of Drosophila CNS midline cell gene expression

(2009) Scott R Wheeler et al.   BMC DEVELOPMENTAL BIOLOGY

Multiple Notch signaling events control Drosophila CNS midline neurogenesis, gliogenesis and neuronal identity

(2008) S. R. Wheeler et al.   DEVELOPMENT

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY