This is an updated version of the list I previously posted to bionews.
I did not cross post it to bio-software because I thought there would be
a heavy overlap. However, in response to the recent questions about
DOS software, here is the most recent version. In addition to sites
mentioned in other postings, I note that there is one other listing that
meentions DOS, the NIC.FUNET site in Finland. I hope this is helpful.
* * * * * * * * * * * * * *
* * * * * * * * * * * * * *
Molecular Biology FTP and Server List
7 March 1991
Michael Gribskov
gribskov at ncifcrf.gov
IF YOU REDISTRIBUTE THIS LIST, PLEASE PRESERVE THIS HEADER
-------------------------------------------------------------------------------
The address for each site is shown in the left column, with the numerical
intenet address below, if it was available. This is followed by the mail
address of the responsible person, or an address for more information. For
FTP sites, the directory containing the relevent material is shown in
parentheses if it is other than the default directory. Note that the larger
FTP sites may have a great deal of material of general interest in addition
to what is shown here.
For bulletin boards, the subscription address is shown in the left
column, and the address for actual message in parentheses in the center
column.
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Software packages, databases, and smaller FTP sites
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
address contents
responsible person/more information
+-----------------------------------------------------------------------------
evolution.genetics.washington.edu PHYLIP phylogeny package v3.3
128.95.12.41
Joe Felsenstein*, joe at genetics.washington.edu
+-----------------------------------------------------------------------------
anthro.utah.edu. PHYLIP phylogeny package v3.3
128.110.192.93 (officially sanctioned by author)
Alan Rogers, rogers at anthro.utah.edu
+------------------------------------------------------------------------------
frodo.mgh.harvard.edu Codon usage tables for all major species
132.183.190.10
( [.codon] )
Mike Cherry*, cherry at frodo.mgh.harvard.edu
+------------------------------------------------------------------------------
haywire.nmsu.edu gm (gene modeler) package
128.123.001.032
Chris Fields*, cfields at nmsu.edu
+------------------------------------------------------------------------------
lhc.nlm.nih.gov AIMB (AI and mol.bio.
130.14.1.128 researchers database)
(/pub/aimb-db)
Lawrence Hunter*, hunter at nlm.nih.gov
-------------------------------------------------------------------------------
mcclb0.med.nyu.edu USENET genbank software
Ross Smith, smith at mcclb0.med.nyu.edu
+------------------------------------------------------------------------------
ncifcrf.gov Delila sequence analysis system
129.43.1.11 (150 programs)
(/pub/delila)
Tom Schneider*, toms at ncifcrf.gov
+------------------------------------------------------------------------------
uvaarpa.virginia.edu FASTA database search
(/public_access/fasta.shar) program
William Pearson*, wrp at virginia.edu
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Larger FTP sites
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
embl-heidelberg.de EMBL server
192.54.41.20 EMBL (updated daily)
SWISS-PROT (and updates), PDB
DROMAP, ECD, ENZYME, EPD, LiMB, NGDD,
Rainer Fuchs PROSITE, SEQANALREF, TFD.
fuchs at embl.bitnet PC, UNIX, Mac & VAX software
+------------------------------------------------------------------------------
flat.nig.ac.jp
133.39.128.2 GenBank, EMBL, DDBJ, PIR, SWISS-PROT,
GENPEPT, LiMB
Software: FLAT DB search/retrieval
program for UNIX
Sanzo Miyazawa
smiyazaw at flat.nig.ac.jp
+------------------------------------------------------------------------------
genbank.bio.net Genbank server
134.172.1.160 Genbank db (quarterly)
(/Public) Genbank updates (weekly & nightly)
GENPEPT db & updates
EMBL db & updates
SWISS-PROT db (soon available)
ALU, ENZYME, PROSITE, REBASE,
Dave Kristofferson, SEQANALREF.
kristoff at genbank.bio.net software
consultant at genbank.bio.net On-line services
+------------------------------------------------------------------------------
iubio.bio.indiana.edu IUBIO archive
129.79.1.101 Mac,VAX,Atari,DOS software
DROMAP, EPD, LiMB, PROSITE, REBASE,
Don Gilbert, TFD
gilbertd at iubio.bio.indiana.edu Phylip
Authorin program
-------------------------------------------------------------------------------
mbcrr.harvard.edu Molecular Biology Computer
134.174.51.4 Research Resource
software
Temple Smith, PLSEARCH pattern db
tsmith at mbcrr.harvard.edu MASE 3.1 multiple sequence editor
+------------------------------------------------------------------------------
menudo.uh.edu U Houston archive
129.7.1.6 Genbank sequence db
PIR sequence db
Dan Davison, UNIX,DOS,VMS,Mac software
dbd at theory.bchs.uh.edu Cray software (future)
BioMatrix archive
Molecular evolution bb archive
+------------------------------------------------------------------------------
modl.unibas.ch Biocomputing server
131.152.1.2 Biozentrum, Universitaet Basel
(/biology/EMBnet) EMBL ( updated daily)
(/biology/databases) ALU, DROMAP, ECD, ENZYME, EPD, LiMB,
NGDD, PROSITE, REBASE, SEQANALREF,
TFD.
GCG (3) format codon usage tables
Reinhard Doelz, BIOSCI Journal tables of contents
doelz at urz.unibas.ch Amos Bairoch*, bairoch at cgecmu51.bitnet
+------------------------------------------------------------------------------
ncbi.nlm.nih.gov Natl. Center for Biotech. Information
130.14.20.1 NCBI software
Geninfo db documentation
Scott Federhen,
federhen at ncbi.nlm.nih.gov (help and information)
(/repository) ENZYME, EPD, LiMB, NGDD, PROSITE,
REBASE, SEQANALREF, TFD
metabolism, mol-model
(/toolbox) assorted public domain software
(/pub) more software - BLAST, FASTA, MACAW, etc
(/pub/aimb-db) AIMB db
Lawrence Hunter*, hunter at nlm.nih.gov
+------------------------------------------------------------------------------
nic.funet.fi Finnish State Supercomputer Center
128.214.6.100 Center for Scientific Computing
(pub/sci/molbio) VAX, Unix, DOS, Mac software
many non-biological applications
Rob Harper, harper at csc.fi
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Server sites
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
bioserve%genome at lanl.gov (2) Los Alamos National Laboratory server
Genbank documentation
Michael Cinofsky, software archive (future)
michael%domain at lanl.gov
-------------------------------------------------------------------------------
fileserv at gunbrf.bitnet (2) PIR server
PIR, NBRF Nucleic, Genbank, EMBL
Dr. John S. Garavelli, garavell at gunbrf.bitnet
Ms. Kathryn Sidman, pirmail at gunbrf.bitnet
+------------------------------------------------------------------------------
gene-server at bchs.uh.edu (1) U Houston gene server
Genbank sequence db
gene-server-management at bchs.uh.edu PIR sequence db
UNIX,DOS,VMS,Mac software
Cray software (future)
BioMatrix archive
Molecular evolution bb archive
FASTA searches
-------------------------------------------------------------------------------
listserv at irlearn.bitnet (2) IRLEARN list server
BIOSCI newsgroups & archives
Newsgroups:
AGEING, AG-FORST, BIO-NAUT, BIONEWS,
BIO-JRNL, BIOMATRX, BIO-SOFT, CHROM-22,
EMBL-DB, BIOJOBS, GENBANKB, GENE-ORG,
ORG, GNOME-PR, METHODS, MOL
