Links

Links

• Pubmed
• WU Directory
• WUSM Bernard Becker Medical Library

WU Funding resources

• Grants and Contracts
• WU Funding resources databases

Bioinformatics

BLAST at NCBI

Regulatory Element Analysis/Comparative Genomics

• EEL Program for regulatory element analysis
  Dcode comparative genomics center
• ECR Browser for regulatory element analysis
• TESS: Transcription Element search system
  TESS is a web tool for predicting transcription factor binding sites in DNA sequences
• PAP: The Promoter Analysis Pipeline (PAP)
  has been developed to allow for the analysis of a set of coexpressed genes and the prediction of their transcriptional regulatory mechanisms
• Metazome
  (orthologous genes/ synteny)

Microarray Analysis

• DAVID Bioinformatics resources
  (gene conversions/functional clustering and analysis)
• GEO Gene expression omnibus microarray data
• IPA-Ingenuity Pathways Analysis
• Affymetrix

Wash U. Microarray and Bioinformatics Cores

• Multiplexed Gene analysis core
• Siteman Cancer Center Bioinformatics Core
• Genome Sequencing/microarray

Epigenetics/Genome-wide Location Analysis

• Nimblegen Systems, Inc.
• Superarray Biosciences
• Agilent Technologies

Antibodies/reagents for ChIP

• Active Motif
• Upstate USA Inc.
  (now part of Millipore)
• Lake Placid Biologicals
• Santa Cruz Biotechnology

Atlases of gene expression/anatomy

Mouse/human

• GenePaint.org
  is a digital atlas of gene expression patterns in the mouse
• The Jackson Labs Mouse Genome Informatics (MGI)
  provides integrated access to data on the genetics, genomics, and biology of the laboratory mouse
  • informatics.jax
  • jax.org/resources/supporting_resources
• The Cancer Genome Atlas Data Portal
• Allen Brain Atlas

Xenopus/Zebrafish

• Xenopus anatomy/fate maps/gene expression at Xenbase
• atlas.html
• index.html
• NIBB XDB
  a library of in situ hybridization patterns of X. laevis/tropicalis genes
• Axeldb
  a library of in situ hybridization patterns of X. laevis/tropicalis genes
• X. Tropicalis in situ expression pattern gallery @ Harland lab
• ZFIN
  zebrafish gene expression patterns

Xenopus Resources

• Xenbase: a Xenopus Community Resource
  database of information pertaining to the cell and
  developmental biology of the frog, Xenopus
• Troplist at University of Virginia
  mailing list dedicated to the exchange of technical
  advances in the research, husbandry, transgenesis,
  and embryology of the short-generation diploid pipid
  frog Xenopus tropicalis, and to facilitating
  collaborations in the emerging field of amphibian genetics
• X. tropicalis genome sequence
  at Joint Genome Institute (JGI)

Obtaining Full-length Xenopus Clones

• Full length cDNAs at Open Biosystems
• Sanger Wellcome Inst. ESTs
• MRC Geneservice
  distributes the EST clones sequenced by the Sanger/Wellcome
• Full Length ESTs
  a database of X. tropicalis ESTs that has been clustered
  and analyzed for full length clones
• Xenopus Gene Collection
  full length X. tropicalis cDNA sequences

Xenopus Bioinformatics

• Sanger Centre
  genomics, X. tropicalis ESTs
• XDB, Japan
  X. laevis EST sequence and searching
• Joint Genome Institute
  X. tropicalis genomic sequence project
• Xenopus Gene Ortholog Conversion
  from St. Jude’s Hartwell center
• Linkage/microsatellite Map
  at U. of Houston
• CHORI BAC — X. tropicalis BAC libraries
  at The Children's Hospital of Oakland (CHORI)

Xenopus Tropicalis Labs

• Enrique Amaya’s lab at University of Manchester
• Frank Conlon’s lab at University of North Carolina
• Rob Grainger's lab at University of Virginia
• Richard Harland’s lab at UC Berkeley
• Paul Mead's lab at St. Jude Children's Hospital
• Nancy Papalopulu's lab at the University of Manchester
• Derek Stemple's lab at the Sanger/Wellcome
• Lyle Zimmerman's lab at the NIMR

Washington University Core Facilities

• Core facilities through Pathology/Immunology
  (multiplexed Gene analysis, Animal, histology, transgenic, tissue, molecular, hybridoma, FACS, EM, Bioinformatics cores)
• Siteman Cancer Center
• Siteman Cancer Center Bioinformatics Core
• Stem cell core
  (mouse Cre lines on campus)
• Proteomics Core
• Mouse Genetics Core
• Genome Sequencing and Microarray Core
• High Throughput Screening Robotics Core
• Wash U. Center for Mass Spectrometry

Developmental Biology Societies, Resources, and Meetings

• Cold Spring Harbor Laboratories
• Marine Biological Laboratories/Woods Hole
• The Society for Developmental Biology
• The Virtual Embryo-educational Resource
• American Soc. for Cell Biology
• Gordon Research Conferences
• Keystone Symposia

Developmental Biology at Washington University

• Department of Developmental Biology
• Developmental Biology Program
• Division of Biology and Biomedical Sciences
• DBBS Faculty pages
• Neuroscience Program
• Molecular and Cell Biology Program
• Genetics Program