High-throughput cis-regulatory element discovery in the vector mosquito Aedes aegypti

Bidirectional Promoters of Insects: Genome-Wide Comparison, Evolutionary Implication and Influence on Gene Expression

(2015) Susanta K. Behura et al.   JOURNAL OF MOLECULAR BIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes

(2014) D. E. Neafsey et al.   SCIENCE

Host genetic studies in adult pulmonary tuberculosis

(2014) Christian G. Meyer et al.   SEMINARS IN IMMUNOLOGY

Assembly of the Genome of the Disease Vector Aedes aegypti onto a Genetic Linkage Map Allows Mapping of Genes Affecting Disease Transmission

(2014) Punita Juneja et al.   PLoS Neglected Tropical Diseases

Probing functional polymorphisms in the dengue vector, Aedes aegypti

(2013) Mariangela Bonizzoni et al.   BMC GENOMICS

A Common Set of DNA Regulatory Elements Shapes Drosophila Appendages

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

Requirement for commissureless2 function during dipteran insect nerve cord development

(2013) Joseph Sarro et al.   DEVELOPMENTAL DYNAMICS

Intragenic Enhancers Act as Alternative Promoters

(2012) Monika S. Kowalczyk et al.   MOLECULAR CELL

Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to isolate active regulatory DNA

(2012) Jeremy M Simon et al.   Nature Protocols

Measuring reproducibility of high-throughput experiments

(2011) Qunhua Li et al.   Annals of Applied Statistics

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

Cis -regulation of microRNA expression by scaffold/matrix-attachment regions

(2011) Pavithra Lakshminarasimhan Chavali et al.   NUCLEIC ACIDS RESEARCH

VectorBase: improvements to a bioinformatics resource for invertebrate vector genomics

(2011) K. Megy et al.   NUCLEIC ACIDS RESEARCH

The sequence read archive: explosive growth of sequencing data

(2011) Y. Kodama et al.   NUCLEIC ACIDS RESEARCH

siRNA-Mediated Gene Targeting in Aedes aegypti Embryos Reveals That Frazzled Regulates Vector Mosquito CNS Development

(2011) Anthony Clemons et al.   PLoS One

Semaphorin-1a Is Required for Aedes aegypti Embryonic Nerve Cord Development

(2011) Morgan Haugen et al.   PLoS One

Global Cross-Talk of Genes of the Mosquito Aedes aegypti in Response to Dengue Virus Infection

(2011) Susanta K. Behura et al.   PLoS Neglected Tropical Diseases

Identification of cis- and trans-regulatory variation modulating microRNA expression levels in human fibroblasts

(2010) C. Borel et al.   GENOME RESEARCH

A map of open chromatin in human pancreatic islets

(2010) Kyle J Gaulton et al.   NATURE GENETICS

Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation

(2010) Gong Zhang et al.   NUCLEIC ACIDS RESEARCH

Sequencing of Culex quinquefasciatus Establishes a Platform for Mosquito Comparative Genomics

(2010) P. Arensburger et al.   SCIENCE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Enhancers: The abundance and function of regulatory sequences beyond promoters

(2009) Michael Bulger et al.   DEVELOPMENTAL BIOLOGY

Isolation of active regulatory elements from eukaryotic chromatin using FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements)

(2009) Paul G. Giresi et al.   METHODS

UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

(2009) Giorgio Grillo et al.   NUCLEIC ACIDS RESEARCH

Comparative genomics allows the discovery of cis-regulatory elements in mosquitoes

(2009) D. H. Sieglaff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Eukaryotic transcription factor binding sites--modeling and integrative search methods

(2008) S. Hannenhalli   BIOINFORMATICS

Comparative genomic analysis of novel conserved peptide upstream open reading frames in Drosophila melanogaster and other dipteran species

(2008) Celine A Hayden et al.   BMC GENOMICS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY

Nucleosome destabilization in the epigenetic regulation of gene expression

(2007) Steven Henikoff   NATURE REVIEWS GENETICS