Links & Resources

UPenn Lab Affiliates:

• University of Pennsylvania, Cell and Molecular Biology Graduate Group (CAMB) (www.med.upenn.edu/camb)
• UPenn Institute for Regenerative Medicine (IRM) – (www.irm.upenn.edu)
• UPenn Epigenetics Program (www.med.upenn.edu/epigenetics)
• Cell and Developmental Biology (CDB) Department (www.med.upenn.edu/cellbio/faculty.shtml)
• Center for Molecular Studies in Digestive and Liver Diseases (www.med.upenn.edu/molecular)
• Abramson Cancer Center (www.penncancer.org/research)
• Institute for Diabetes, Obesity and Metabolism (IDOM) (www.med.upenn.edu/idom)
• Institute for Translational Medicine and Therapeutics (ITMAT) http://www.itmat.upenn.edu/

UPenn Core Facilities:

• University of Pennsylvania, Proteomics Core Facility (http://www.med.upenn.edu/ccp/cancer_pharm_bio.shtml)
• University of Pennsylvania, Microarray Facility (www.med.upenn.edu/bmcrc/microarr/?microarr)
• Center for Liver and Digestive Disease, NIDDK (www2.niddk.nih.gov/Research/Centers/CenterPrograms/DDRC-Penn.htm)
• University of Pennsylvania, DNA Sequencing Facility (www.med.upenn.edu/dnaseq/)
• University of Pennsylvania, Bioinformatics Core (www.bioinformatics.upenn.edu/)
• U. Penn Vector Core (http://www.med.upenn.edu/rpd/core_sect1.htm#IHGTVector)

Societies:

• International Society for Stem Cell Research (http://www.isscr.org/)
• Society for Developmental Biology (http://www.sdbonline.org/)
• American Society for Microbiology (http://www.asm.org/)
• National Academy of Science (http://www.nasonline.org)
• European Molecular Biology Network (http://www.embnet.org/)
• American Liver Foundation (http://www.liverfoundation.org)

Transcription and Chromatin:

• Transfac (http://www.gene-regulation.com/pub/databases.html#transfac)
• rVista analysis of factor binding sites (http://rvista.dcode.org/)
• Reactome Database of Biological Pathways (http://www.reactome.org/)
• Histone Sequence Database (http://genome.nhgri.nih.gov/histones)
• Chromatin Structure & Function Page (http://www.chromatin.us/chrom.html)
• Histone Web Page (https://www.ncbi.nlm.nih.gov/research/HistoneDB2.0/index.fcgi/browse/)
• PipMaker – DNA sequence alignments (http://bio.cse.psu.edu/)
• The endocrine system (http://www.vivo.colostate.edu/hbooks/pathphys/endocrine/index.html)
• DNA Translation Tool (http://web.expasy.org/translate/)
• Primer Blast (http://www.ncbi.nlm.nih.gov/tools/primer-blast/)

Protein and Signaling:

• Protein Data Bank (Structural bioinformatics) (http://www.rcsb.org/pdb/)
• Swiss-PdbViewer (3-D structure rendering) (http://www.expasy.ch/spdbv/mainpage.htm)
• Rasmol home page (3-D structure rendering) (http://www.umass.edu/microbio/rasmol/)
• Signal Transduction Knowledge Environment – Science Magazine (http://www.stke.org/)
• PFAM Protein Domain Analysis Site (http://www.sanger.ac.uk/Software/Pfam//)
• Signaling Gateway – Nature (http://www.signaling-gateway.org/)
• InterPro Protein Database (http://www.ebi.ac.uk/interpro/)
• Kinase site (http://www.kinase.com/)
• International Protein Index – EMBL (http://www.ebi.ac.uk/IPI/IPIhelp.html)
• Expasy proteomics, search/profile, and protein structure server (http://us.expasy.org/ ) OR? (http://us.expasy.org/alinks.html#Proteins)
• Mammalian MAPK Signalling Pathways (http://kinase.uhnres.utoronto.ca/signallingmap.html)
• Protein Parameters Tool (http://web.expasy.org/protparam/)
• Swiss-PdbViewer (http://spdbv.vital-it.ch/)

Mouse and Related Development Databases:

• The Whole Mouse Catalog (http://www.rodentia.com/wmc/index.html)
• Mouse Atlas Database (http://www.emouseatlas.org/)
• Mouse Atlas of Gene Expression (http://www.emouseatlas.org/)
• Digital Atlas of Gene Expression Patterns in the Mouse using In-Situ Hybridization (http://www.genepaint.org/)
• Jackson Lab Mouse Genome Database (http://www.informatics.jax.org/)
• Mouse Genome Project (http://www.ensembl.org/Mus_musculus/)
• Mouse Genome Informatics: (http://www.informatics.jax.org/)
• Embryo (http://embryology.med.unsw.edu.au/)
• The Virtual Embryo – Embryonic Development (http://www.cbil.upenn.edu/EPConDB/)
• The Virtual Library – Developmental Biology (http://www.sdbonline.org/archive/Other/VL_DB.html)
• Beautifully Ilustrated Series of Gut Development – must see (http://www.med.unc.edu/embryo_images/unit-digest/digest_htms/digesttoc.htm)
• Functional annotation of mouse (FANTOM) (http://www.gsc.riken.go.jp/e/FANTOM/)
• Great images of developing mouse embryos/sections (http://www.med.unc.edu/embryo_images/unit-welcome/welcome_htms/contents.htm)
• Mouse Genome Server – Sanger Institute (http://www.ensembl.org/Mus_musculus/)
• Mouse embryo in situ hybridization and immunohistochemistry (http://genome.ucsc.edu/cgi-bin/hgVisiGene)
• Visigene Image Browser (http://genome.ucsc.edu/cgi-bin/hgVisiGene?hgp_listSpec=)
• Jackson Laboratories (http://www.jax.org/)
• Charles River Laboratories (http://www.criver.com/)
• Mouse Consortium (http://emice.nci.nih.gov/)
• Texas Institute for Genomic Medicine Knock-out Mice (http://www.tigm.org/)
• Lexicon Genetics (http://www.lexgen.com)

Other Genome Databases:

• OncoMine – Data from cancer-related microarrays (http://www.oncomine.org/)
• Fly GRID Drosophila Database (http://www.thebiogrid.org/)
• C. elegans – Worm Base (http://www.wormbase.org)
• Species 2000 (http://www.sp2000.org/)
• Emsemble Genome Brower (http://useast.ensembl.org/index.html)
• GEO – Gene Expression Omnibus (array, sequence data site) (http://www.ncbi.nlm.nih.gov/geo/)
• PipMaker:  Comparing large genomic domains (http://www.bx.psu.edu/miller_lab/)
• Incyte (http://www.incyte.com/)

Grants, NIH, Funding Politics:

• Contact your representative to promote research (https://www.house.gov/representatives/find-your-representative)
• GrantsNet (everything for postdoc fellowships etc.) (http://urlm.co/www.grantsnet.org)
• NIH Study Sections (http://www.csr.nih.gov/review/irgdesc.htm#gs)
• U.S. Patent Office (http://www.uspto.gov)