My Hotlist

My (big) database of useful links, in the process of growing and becoming organized

Sequence Data and Manipulation

NCBI BLAST Home Page

Genbank Database Query (NCBI Entrez Nucleotide)

Plastid Genome Sequences at NCBI

Plastid Genome Sequences at ExPasy (a part of their plastid proteome page; nice in that it includes taxon identification info)

Don Gilbert's ReadSeq sequence file format conversion software

Paul Stothard's Sequence Manipulation Suite (2000 version) and 2004 version (which is re-organized, but has stricter browser-compatibility constraints)

Molecular Biology and Biochemistry analysis tools online, compiled by Scott Russel at University of Oklahoma

OSU's Plant-Microbe Genomics Facility DNA sequencing service

Molecular Modeling and Information

Molecules from Chemistry at Okanagan University College (mostly organics, in Chime scripts)

Western Washington University's Virtual Student Model Kit, in PDB format

Database of PDB files for many simple inorganic molecules, at the Lycˇe Faidherbe, France

The NCBI's entryway to the Protein Data Bank: Molecules To Go (formerly "Molecules R Us")

The Research Collaboratory for Structural Bioinformatics' "official" PDB site

The best quick protein viewer I've found: First Glance in JMOL. For a more powerful structure viewer and analysis engine, try Swiss PDB Viewer ("spdbv" or "Deepview"). [To use First Glance in JMOL to view Okanagan structure files, replace XXX in the following URL with the name of the Okanagan file: http://molvis.sdsc.edu/fgij/fg.htm?mol=http%3A//www.molecularmodels.ca/molecule/pdb/XXX.pdb]

ConSurf at Tel Aviv University, for generating 3D protein models colored by sequence conservation

Protein information extraordinaire: the BRENDA enzyme database

People

Denison student and staff directory

Books and Journals

Denison University Libraries, including Chemistry-specific resources, CONSORT, and ILL

Short-cuts to online journals

NCBI's Pub Med (with links to OhioLink holdings)

Search engines

Google

Phylogeny schemes

my global scheme

my eukaryote scheme

my green plant scheme

my scheme for the Geranium family

my animal scheme

NCBI's NCBI Taxonomy Browser

Other information

My course materials page

My links to things Japanese

Denison web page

Denison Blackboard sites

Denison Print-job release

Registrar's Office, the current schedule of classes, Denison's AP credit table, and the Denison Registration Database

Provosts' Office

Campus safety info (including MSDS links)

The current time (subtract five hours for EST) from the US NAVAL Observatory Master Clock (updated in semi-real time)

Weather Underground's Granville, Ohio Forecast

Educational Institutions I've Known

• Canadian Academy in Kobe, Japan
• Saint Olaf College (UmmYahYah!)
• The department of Chemistry and Biochemistry at UC San Diego (general UCSD info can be found in UCSD's InfoPath on-line directory)
• The department of Biology at Indiana University, Bloomington, home of the Hoosiers, and one seriously basketball-crazy place.
• The Department of Chemistry and Biochemistry at Denison University in Granville, Ohio. (see also: Biology Dept.)