Steve DePalma's Boring Home Page

Particularly Useful Links

• Lab protocols and how-to's, particularly in regard to ABI genotyping and lod score calculation.
• Genotyping/Linkage Analysis
• Sequencing, including troubleshooting info.
• Lab safety and MSDS's
• Some links to Macintosh help
• myosin links
• actin links
• The CardioGenomics Hypertrophic Cardiomyopathy / Sarcomere Gene Mutation Database:
  (MYH7   |   MYBPC3   |   TNNT2   |   TNNI3   |   ACTC   |   TPM1   |   MYL2   |   MYL3)
• References to standards for mutation nomenclature and mutation database structure
• An annotated slideshow of mine, entitled Mapping human disease genes with Affymetrix 10K SNP chips and the HMS Orchestra Shared Research Cluster. We are using Orchestra to calculate 10,000 multipoint lod scores with Linkmap or Vitesse.

Tools

• Make a genotyping plate record for the ABI 3700 in the HMS Biopolymers Facility, using a spreadsheet as input.
• Restore a PubMed session
• These are some AppleScripts that are useful for batch-mode changing of file names and file types on a Mac.

Other Links

• Countway Library
• The Seidman lab at Harvard Medical School.
• Genetics Department at Harvard Medical School
• HIM/NRB Environmental Health & Safety Services (includes emergency information and MSDS's).
• The Cardiovascular Genetics Center at Brigham and Women's Hospital.
• Broad Institute seminar calendar
• Events Calendar, Harvard Medical School (login required).
• NCBI, with links to PubMed, OMIM, BLAST, etc.
• GDB, The Genome Database
• Search for markers between two other markers, at GDB.
• PolyPhen, a tool to predict the effect of amino acid variants. You'll need protein ID's from UniProt, a great source for protein information.
  For checking variants in sarcomere protein genes, use P12883 (or MYH7_HUMAN), Q14896 (not MYPC3_HUMAN), P45379 (not TNNT2_HUMAN, but add 9 to my residue numbering to match theirs), P19429 (not TNNI3_HUMAN, but subtract 1 from my residue numbering to match theirs), P09493 (or TPM1_HUMAN), P68032 (or ACTC_HUMAN), Q14908 (not Q14908_HUMAN, MYL2), P08590 (or MYL3_HUMAN).
• Countway BLAST server
• Protein Data Bank, and its theoretical models.
• The Ensembl Genome Server.
• A Primer on Molecular Genetics , from the DOE
• The correct time, from the U.S. Naval Observatory.
• www.stevedepalma-themovie.com
• NCBI's MapViewer for human chromosome
• What's my email address?