FTP servers list / Release 1.70
Amos Bairoch
BAIROCH at cmu.unige.ch
Fri Dec 10 12:13:06 EST 1993
==============================================================================
Name : serv_ftp.txt
Version: 1.70 / December 10, 1993
Concern: List of molecular biology FTP servers for databases and software
Author : Amos Bairoch / Dept. Medical Biochemistry / University of Geneva
bairoch at cmu.unige.ch
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FEEDBACK IN THE FORM OF CORRECTIONS, ADDITIONS, ETC ARE MORE THAN WELCOME !!!
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A) INTRODUCTION
===============
A1) General introduction
------------------------
This document describes the various sources of databases and software for
molecular biologists that are publicly available on the internet computer
network. This documents restricts itself to describing sites that allows
the transfer of files by what is known as anonymous "ftp" (File transfer
protocol). We do not describe here the BIOSCI electronic newsgroup system
or the other bulletin boards that are available to molecular biologist,
nor do we describe email servers. These services are described in the
following documents:
serv_ema.txt: For a list of molecular biology email servers.
serv_bbo.txt: For a list of bulletin boards services for molecular
biologists.
Acknowledgment: the information contained in this document come from many
different sources; but we want to partcularily acknowledge
the work of Michael Gribskov (gribskov at sdsc.edu) which, in
December 1990 and March 1991 produced a compilation of
server sites; Bob Harper (harper at convex.csc.fi) for having
forwarded me information from various sources.
A2) Some tips
-------------
1) On all the FTP servers listed in this document you should login using the
user name "anonymous" and using your full E-mail address as the password
(example: smith at somemachine.somenet.somedomain).
2) There are, in general, files with names such as "read.me", "readme.txt"
or "readme" at different directory levels on many FTP servers. If you are
using a server for the first time, it is a good idea to first transfer
these files and to read them before transferring other files. Note that
you can generally do that without interupting the connection by shelling
to your operating system:
a) Type "get readme.txt" to transfer the file on your local system.
b) Once the file has been transferred type "!" (if your local system is
running DOS or UNIX system) or "SPAWN" (if your local system is a VAX
VMS). You will then see your usual operating system prompt.
c) You can then view the file with your favorite file viewer or editor.
d) To get back in the FTP program type "exit" (on DOS or on UNIX) or
"LOGOUT" (on a VAX VMS).
Note: on VAX VMS there is a shortcut to the above procedure, you can type:
GET readme.txt TT:
This displays the file directly to the terminal (but it does not transfer
it to your computer, so if you want to keep a local copy you should follow
the procedure described above).
3) When transferring binary files such as program files or compressed files
(with the .Z file extension for example), do not forget to first set the
transfer mode to "binary". Do not also forget to reset it back to "ASCII"
if you later, in the same session, want to transfer text files. However,
if your system is running the same operating system than that of the host
server, you can transfer all files, even text files, in binary mode.
A3) Where can you find this file and the other serv_xxx files
-------------------------------------------------------------
The latest version of the serv_ema.txt, serv_ftp.txt and serv_bbo.txt files
are always available, by anonymous FTP, on the following server:
expasy.hcuge.ch (129.195.254.61)
These files are in the directory:
/databases/info
==============================================================================
B) DATABASES
============
B1) Databases abbreviations
---------------------------
db Database
5S_RNA Berlin 5S rRNA db
AIDS-db Human Retroviruses and HIV viruses compilation of sequences
AIMB-db Artificial intelligence and molecular biology researchers db
Blocks Protein blocks db
Codon Codon usage tables for the GCG software package
CpGIsle CpG islands in the human genome db
CCSD Complex Carbohydrate Structure db
CUTG Codon usage tables for all major species
dbEST NCBI Expressed Sequence Tag db
DDBJ DNA Data Bank of Japan
DSSP Dictionary of Secondary structure of proteins
ECD Escherichia coli db
EMBL European Molecular Biology Laboratory nucleotide sequence db
Enzyme Enzymes nomenclature db
EPD Eukaryotic Promoter db
FANS_Ref Functional Analysis of Nucleotide Sequences bibliography
FlyBase Drosophila Genetic Maps db
GDB Human Genome db
GenBank GenBank nucleic acid db
GenPept Automatic translation of GenBank CDS into protein sequences
HAEMB Haemophilia B mutations db
Jour_TOC Table of contents of some biomolecular journals
Kabat Sequences of proteins of immunological interest
LiMB Listing of Molecular Biology databases
LISTA Compilation of nucleotide seq. encoding prot. from Saccharomyces
NGDD Normalized Gene Designation db
OMIM Online Mendelian Inheritance in Man
PDB Protein Data Bank (3D structures)
PIR Protein Information Resource (NBRF protein sequence db)
PKCDD Protein kinases catalytic domain db
Plsearch Automatically generated protein sequence patterns db
Prosite Dictionary of Protein Sites and Patterns
RDP Ribosomal Database project
Rebase Restriction Enzymes db
RepBase Prototypic sequences for repetitive DNA
SBASE Proteins sequence domains db
SeqAnalRef Sequence analysis bibliography
Small_RNA Compilation of small RNA sequences
Swiss-Prot Swiss-Prot protein sequence db
T4-Phage Bacteriophage T4 genome sequence files
TFD Transcription Factors Relational db
TransTerm Translational Termination signal db
tRNA Compilation of tRNA sequences and sequences of tRNA genes
B2) Major FTP servers for databases
-----------------------------------
Organiz. : National Center for Biotechnology Information (NCBI)
Name : NCBI repository
Address : ncbi.nlm.nih.gov (130.14.20.1)
Contact : Scott Federhen; federhen at ncbi.nlm.nih.gov
Organiz. : European Molecular Biology Laboratory
Name : EMBL Anonymous Ftp Server
Address : ftp.embl-heidelberg.de (192.54.41.33)
Contact : Rainer Fuchs; nethelp at embl-heidelberg.de
Organiz. : Weizmann Institute of Science (EMBnet Israel national node)
Name : DNA and protein sequence analysis (DAPSAS) ftp server
Address : bioinformtics.weizmann.ac.il (132.76.55.12)
Contact : Chaim Prilusky; lsprilus at bioinformtics.weizmann.ac.il
Organiz. : Basel Biozentrum Biocomputing server (EMBnet SWISS national node)
Name : Basel EMBNet ftp server
Address : nic.switch.ch (130.59.1.40)
Contact : Reinhard Doelz; doelz at urz.unibas.ch
Organiz. : National Institute of Genetics (Japan)
Name : National Institute of Genetics ftp server
Address : ftp.nig.ac.jp (133.39.16.66)
Contact : Yoshihiro Ugawa; yugawa at genes.nig.ac.jp
+-------------------------+--------+------+------+-------+-------+
| Name | NCBI | EMBL | Weiz | Basel | Japan |
+-------------------------+--------+------+------+-------+-------+
| | | | | | |
| DDBJ | | | | | Yes |
| EMBL | | Yes | Yes | Yes | Yes |
| GenBank | Yes | | Yes | | Yes |
| SWISS-PROT | Yes | Yes | Yes | Yes | Yes |
| PIR | | | Yes | Yes | Yes |
| | | | | | |
+-------------------------+--------+------+------+-------+-------+
| | | | | | |
| 5S_rRNA | | Yes | Yes | Yes | |
| AIDS-db | Yes | | Yes | | |
| AIMB-db | Yes | | Yes | | |
| Blocks | Yes | Yes | Yes | Yes | Yes |
| CpGIsle | | Yes | Yes | Yes | |
| CCSD | Yes | | | Yes | |
| CUTG | | Yes | Yes | Yes | Yes |
| dbEST | Yes | | | | |
| DSSP | | Yes | Yes | | |
| ECD | | Yes | Yes | Yes | Yes |
| EcoSeq/Map/Gene | Yes | | | | |
| Enzyme | Yes | Yes | Yes | Yes | Yes |
| EPD | Yes | Yes | Yes | Yes | Yes |
| FANS-Ref | | Yes | Yes | Yes | |
| FlyBase | Yes | Yes | Yes | Yes | Yes |
| HAEMB | | Yes | Yes | Yes | |
| HLA | | Yes | Yes | Yes | |
| HSSP | | Yes | Yes | | |
| Jour_TOC | Yes | | Yes | Yes | |
| Kabat | Yes | Yes | Yes | Yes | |
| LiMB | Yes | Yes | Yes | Yes | |
| LISTA | Yes | Yes | Yes | Yes | |
| NGDD | Yes | | | Yes | |
| PKCDD | Yes | Yes | Yes | Yes | |
| Prosite | Yes | Yes | Yes | Yes | Yes |
| Rebase | Yes | Yes | Yes | Yes | Yes |
| Repbase | Yes | Yes | Yes | Yes | |
| SeqanalRef | Yes | Yes | Yes | Yes | Yes |
| Small_RNA | | Yes | Yes | Yes | |
| T4-Phage | Yes | | Yes | Yes | |
| TFD | Yes | Yes | Yes | Yes | Yes |
| TransTerm | | Yes | Yes | | |
| tRNA | | Yes | Yes | Yes | |
| | | | | | |
+-------------------------+--------+------+------+-------+------ +
B3) Other FTP servers for databases
-----------------------------------
Organiz. : University of Geneva / Medical Biochemistry and University Hospital
Name : ExPASy server
Address : expasy.hcuge.ch (129.195.254.61)
Databases: Enzyme, EPD, Jour_TOC, Prosite, SeqanalRef, SWISS-PROT
Directory: /databases
Contact : Amos Bairoch; bairoch at cmu.unige.ch
Organiz. : Department of Molecular biology / Massachussetts General Hospital
Address : frodo.mgh.harvard.edu (132.183.190.10)
Databases: EMBL, Codon
Contact : Mike Cherry; cherry at frodo.mgh.harvard.edu
Organiz. : University of Houston Gene-Server
Address : ftp.bchs.uh.edu (129.7.2.43)
Databases: PIR
Directory: /pub/gene-server/pir
Contact : Dan Davison; dbd at theory.bchs.uh.edu
Organiz. : Indiana University / Biology Department
Name : IuBio archive for biology
Address : ftp.bio.indiana.edu (129.79.224.25)
Databases: FlyBase and various other fly databases and stock lists.
Archive of the BIOSCI newsgroup postings (In directory:
/usenet/bionet).
Contact : Don Gilbert; gilbertd at cricket.bio.indiana.edu
Organiz. : SERC Daresbury
Address : s-crim1.dl.ac.uk (148.79.64.2)
Databases: Various databases and software package. Provides part of what is
found on the EMBL and INN servers.
Contact : Alan Bleasby; ajb at s-crim1-dl.ac.uk
Organiz. : National Library of Medicine
Address : lhc.nlm.nih.gov (130.14.1.128)
Databases: AIMB-db
Directory= /pub/aimb-db
Contact : Lawrence Hunter; hunter at nlm.nih.gov
Organiz. : Molecular Biology Computer Research Resource (MBCRR)
Address : mbcrr.harvard.edu (134.174.51.4)
Databases: Plsearch
Directory= /MBCRR-Package
Contact : Temple Smith; tsmith at mbcrr.harvard.edu
Organiz. : Human Genome Data Base / Johns Hopkins University
Address : mendel.welch.jhu.edu (128.220.59.42)
Databases: GDB, OMIM.
Contact : GDB User Support; help at welch.jhu.edu
Organiz. : Protein Data Bank (PDB)
Address : pdb.pdb.bnl.gov (130.199.144.1)
Databases: PDB
Contact : skora at bnl.gov.
Organiz. : The Salk Institute for Biological Studies
Address : salk-sc2.sdsc.edu (192.31.153.12)
Databases: PKCDD
Contact : Anne Marie Quinn; quinn at salk-sc2.sdsc.edu
Organiz. : New England BioLabs (NEB)
Address : vent.neb.com (192.138.220.2)
Databases: Rebase
Directory= /pub/rebase
Contact : Dana Macelis; macelis at neb.com
Organiz. : NCI-FCRDC
Address : fconvx.ncifcrf.gov (129.43.52.4)
Databases: GenPept
Directory= /pub/genpept
Contact : Mark A. Gunnell; gunnell at ncifcrf.gov
Organiz. : Pittsburgh Supercomputing Center (PSC)
Address : ftp.psc.edu (128.182.62.148)
Databases: GenBank
Directory= /biomed/genbank/annotated
Contact : Alex Ropelewski; ropelews at psc.edu
Organiz. : Ribosomal Database Project / University of Illinois
Address : rdp.life.uiuc.edu (128.174.86.14)
Databases: RDP
Directory= /pub/RNAdb
Contact : rdp at phylo.life.uiuc.edu
Organiz. : BIOSCI at IntelliGenetics
Address : net.bio.net (134.172.2.69)
Databases: BIOSCI documents (including FAQ)
Directory= /pub/BIOSCI
Contact : Dave Kristofferson; kristoff at net.bio.net
Organiz. : Protein Science
Address : ftp.uci.edu (128.200.15.20)
Databases: Table of contents, abstracts and other documents from the journal
Protein Science.
Organiz. : Stanford university human genome mapping center
Address : toolik.stanford.edu (36.159.0.5)
Databases: High-resolution physical maps of human chromosome 4.
Contact : hgmcinfo at camis.stanford.edu
Organiz. : ICGEB
Address : ftp.icgeb.trieste.it (140.105.9.1)
Databases: SBASE
Directory= /pub/sbase2
Contact : Zsolt Hatsagi; hatsagi at icgeb.trieste.it
==============================================================================
C) SOFTWARE
===========
C1) General remarks
-------------------
There are a few servers (see section C2) that store a variety of software
packages for molecular biology users. These servers offer you many packages
for DOS, Mac, Unix, or VMS. In addition to these big software "supermarkets"
there are quite a number of sites that provide one or two specific packages
or programs which have been writen by the person(s) that work at that
particular computer site. In general these programs are also available from
the "supermarkets", but if you want to be sure to get the latest release of
a software package, it is always better to get it from the people who wrote
it !!
+++ Will add a section on compression scheme and software +++
C2) Major FTP servers for software
----------------------------------
Organiz. : European Molecular Biology Laboratory
Name : EMBL Anonymous Ftp Server
Address : ftp.embl-heidelberg.de (192.54.41.33)
Contents : Various Mac, VAX, DOS, and UNIX software
DOS and VAX software are stored as uuencoded (.UUE) files.
Mac software are stored as binhexed (.HQX) files.
UNIX software are stored as archive (tar) files compressed (.Z).
Directory= /pub/software/dos or /pub/software/mac or
/pub/software/unix or /pub/software/vax
Contact : Rainer Fuchs; nethelp at embl-heidelberg.de
Status : Tested (30 Oct 1992).
Organiz. : Weizmann Institute of Science (EMBnet Israel national node)
Name : DNA and protein sequence analysis (DAPSAS) FTP server
Address : bioinformtics.weizmann.ac.il (132.76.55.12)
Contents : This server provides a "mirror" image of the content of the EMBL
file server (described above), but as the access to EMBL can be
very slow, you can use this server as an alternative source of
all the software listed above.
Contact : Chaim Prilusky; lsprilus at bioinformtics.weizmann.ac.il
Status : Tested (30 Sep 1992).
Organiz. : Indiana University / Biology Department
Name : IuBio archive for biology
Address : ftp.bio.indiana.edu (129.79.224.25)
Contents : Various Mac, VAX, Atari, DOS software
Authorin data entry program
PHYLIP phylogeny package
readseq sequence reformating program
Contact : Don Gilbert; gilbertd at cricket.bio.indiana.edu
Organiz. : University of Houston
Name : University of Houston Gene-Server
Address : ftp.bchs.uh.edu (129.7.2.43)
Contents : Various Mac, VAX, DOS, and UNIX software
Contact : Dan Davison; dbd at theory.bchs.uh.edu
Status : Tested (30 Oct 1992).
Organiz. : National Institute of Genetics (NIG) (Japan)
Name : National Institute of Genetics ftp server
Address : ftp.nig.ac.jp (133.39.16.66)
Contents : Mac software: Amplify; DNAnalyze; DNAstacks; MacPattern;
MacPlasmap; MacMolecule; NCSA GelReader; Phylip; Speakquencer;
Treedraw
DOS software: Phylip
UNIX software: Phylip; ProSearch
Contact : Yoshihiro Ugawa; yugawa at genes.nig.ac.jp
Status : Tested (5 Oct 1992).
C3) Servers for specific software packages
------------------------------------------
-------------------------------------------------------------------------------
Organiz.: National Center for Biotechnology Information (NCBI)
Address : ncbi.nlm.nih.gov (130.14.20.1)
Programs: Name=blast; Desc=Basic Local Alignment Search Tool; OS=UNIX
Directory= /pub/blast
Name=Macaw; Desc=Multiple sequence alignment program;
OS=DOS/Windows
Directory= /pub/macaw
NCBI Entrez
Directory= /entrez
GenInfo Software Toolbox
Directory= /toolbox
Name=nrdb; Desc=Program to generate the NCBI ""nonredundant""
databases; OS=UNIX
Directory= /pub/nrdb
Contact : Scott Federhen; federhen at ncbi.nlm.nih.gov
Status : Tested (30 Sep 1992).
-------------------------------------------------------------------------------
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Address : evolution.genetics.washington.edu (128.95.12.41)
Programs: Name=PHYLIP; Desc=Phylogeny inference package;
Directory= /pub
Contact : Joe Felsenstein [*]; joe at genetics.washington.edu
Status : Tested (30 Sep 1992).
-------------------------------------------------------------------------------
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Address : anthro.utah.edu (128.110.192.93)
Programs: Name=PHYLIP; Desc=Phylogeny inference package;
Directory= /pub
Contact : Alan Rogers; rogers at anthro.utah.edu
Status : Tested (30 Oct 1992).
------------------------------------------------------------------------------
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Address: relay.cs.utoronto.ca (128.100.3.6 or 128.100.1.105)
Programs: Name=RAMHA; Desc=Random mutagenesis simulation software; OS=DOS;
Directory= /pub/molbio/ramha1
Contact: David P. Siderovski [*]; siderovski at galen.oci.utoronto.ca
Status : Tested (18 Jan 1993).
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Address : ccu.umanitoba.ca (130.179.16.8)
Programs: Name=XYLEM; Desc=Molecular Database package;
Directory= /psgendb
Name=FSAP; Desc=Sequence Analysis;
Directory= /psgendb
Contact : Brian Fristensky [*]; frist at ccu.umanitoba.ca
Status : Tested (30 Sep 1992).
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Organiz.: University of Geneva / Switzerland
Address : expasy.hcuge.ch (129.195.254.61)
Programs: Name=ProMod; Desc=3D modeling software; OS=UNIX;
Directory= /pub/ProMod
Contact : Manuel Peitsch [*]; peitsch at ulbio1.unil.ch
Status : Tested (30 Sep 1992).
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Organiz.: New Mexico State University
Address : haywire.nmsu.edu (128.123.001.032)
Programs: Name=gm; Desc=Gene modeler software package; OS=UNIX;
Directory= /gm
Contact : Chris Fields [*]; cfields at nmsu.edu
Status : Tested (1 Oct 1992).
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Organiz.: NCI/FCRDC
Address : ncifcrf.gov (129.43.2.10)
Programs: Name=Delila; Desc=sequence analysis system (150 programs including
those for creating sequence logos). Portable Pascal and C;
Directory= /pub/delila
Contact : Tom Schneider [*]; toms at ncifcrf.gov
Status : Tested (30 Sep 1992).
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Organiz.: University of Virginia
Address : uvaarpa.virginia.edu (128.143.2.7)
Programs: Name=FASTA; Desc=database search program; OS=UNIX and DOS;
Directory= /pub/fasta
Contact : William Pearson [*]; wrp at virginia.edu
Status : Tested (30 Sep 1992).
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Organiz.: Department of Molecular Biology / Massachussetts General Hospital
Address : frodo.mgh.harvard.edu (132.183.190.10)
Programs: Desc=Zuker's suboptimal RNA folding package; OS=VMS;
Directory= [.VAX]
Contact : Mike Cherry; cherry at frodo.mgh.harvard.edu
Status : Tested (30 Sep 1992).
-------------------------------------------------------------------------------
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Organiz.: Harvard/M.I.T. Division of Health Sciences and Technology and the
Harvard Division on Aging
Address : amber.mgh.harvard.edu (132.183.190.26)
Programs: Name=sg2iq; Desc=Utility program for converting images of gels
created by software for a Hewlett Packard desktop scanner (tiff
files) to the format expected by the ImageQuant gel analysis
software from Molecular Dynamics; OS=DOS;
Directory= [.PC]
Contact : Dave Rigney [*]; david at astro.bih.harvard.edu
Status : Tested (27 Oct 1992).
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Organiz.: University of Illinois / Urbana-Champaign
Address : ftp.ncsa.uiuc.edu (141.142.20.50)
Programs: Name=NCSA GelReader; Desc=Measurement of DNA length from gels;
OS=Mac;
Directory= /Mac/GelReader
Name=NCSA ContigAsm; Desc=Reads NCSA GelReader files and assemble
contigs; OS=Mac;
Directory= /Mac/ContigAsm
Contact : Jennie File [*]; jfile at ncsa.uiuc.edu
Status : Tested (2 Oct 1992).
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Organiz.: Department of Mathematics / Stanford University
Address : gnomic.stanford.edu (36.120.0.19)
Programs: Name=SAPS; Desc=Statistical analysis of protein sequences; OS=UNIX;
Directory= /pub
Contact : Volker Brendel [*]; volker at gnomic.stanford.edu
Status : Tested (2 Oct 1992).
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Organiz.: Department of Biochemistry / Stanford University
Address : cmgm.stanford.edu (36.96.0.200)
Programs: Desc=Series of BLAST and FASTA scripts both for users and for Unix
systems administrators who prepare BLAST indexes available via
anonymous FTP. The database indexing scripts are specific for those
who use the IntelliGenetics suite;
Directory= /pub/IGdb
Contact : Klinger; klingler at cmgm.stanford.edu
Status : Tested (29 Oct 1992).
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Organiz.: Molecular Biology Computer Research Resource (MBCRR)
Address : mbcrr.harvard.edu (134.174.51.4)
Programs: Name=ALIGN/LOCAL; Desc=Optimally aligns a pair of sequences;
Directory= /MBCRR-Package
Name=DASHER3; Desc=High-speed k-tuple/hash database search tool
Directory= /MBCRR-Package
Name=DYNAMIC; Desc=Match one or more short sequences against a
longer sequence using a fast dynamic programming algorithm
Directory= /MBCRR-Package
Name=GGREP; Desc=Performs "regular expression" pattern searches of
nucleic acid or protein sequences using the GNU-Emacs regular
expression handler
Directory= /MBCRR-Package
Name=MASE; Desc=Multiple sequence editor
Directory= /MBCRR-Package
Name=PIMA; Desc=Pattern-Induced Multiple-sequence Alignment program
Directory= /MBCRR-Package
Contact : Temple Smith [*]; tsmith at mbcrr.harvard.edu
Status : Tested (1 Oct 1992).
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Organiz.: New England BioLabs (NEB)
Address : vent.neb.com (192.138.220.2)
Programs: Name=detect; Desc=Program that locates errors in DNA sequences;
OS=UNIX or other OS (source code in C provided);
Directory= /pub/detect
Contact : Rich Roberts [*]; roberts at neb.com
Status : Tested (1 Oct 1992).
-------------------------------------------------------------------------------
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Organiz.: Intelligenetics Inc.
Address : net.bio.net (134.172.2.69)
Programs: Name=Authorin; Desc=Program for preparing sequence data for
submission to the nucleic acid and protein data banks;
OS=Mac and DOS;
Directory= /pub/mac/authorin or /pub/dos/authorin
Contact : Dave Kristofferson; kristoff at net.bio.net
Status : Tested (27 Oct 1992).
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Organiz.: CSIRO Division of Entomology / Canberra / Australia
Address : spider.ento.csiro.au (138.44.23.1)
Programs: Name=DELTA; Desc=DEscriptive Language for TAxonomy;
OS=DOS and UNIX;
Directory= /delta
Contact : Mike Dallwitz; delta at ento.csiro.au
Status : Tested (27 Oct 1992).
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Organiz.: Pennsylvania State University / USA
Address : groucho.cs.psu.edu (130.203.2.10)
Programs: Name=LAV and LAD; Desc=Software tools for analyzing pairwise
alignments of long sequences; OS=UNIX;
Directory= /lav
Name=TNB; Desc=Software tools for multiple alignment and
visualization; OS=UNIX;
Directory= /TNB
Desc=Software for aligning two sequences within a specified
diagonal band; OS=UNIX or DOS;
Directory= /band
Contact : ?
Status : Tested (30 Oct 1992).
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Organiz.: Rice University / Houston / USA
Address : ion.rice.edu (?)
Programs: Name=MolViewer; Desc=Molecule viewing program; OS=Next UNIX;
Directory= /pub
Contact : Steve Ludtke; steve at ion.rice.edu
Status : Tested (2 Feb 1993).
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Organiz.: Protein Science
Address : ftp.uci.edu (128.200.15.20)
Programs: Name=Kinemage; OS=Mac and DOS;
Directory= /protein
Status : Tested (17 March 1993).
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Organiz.: Department of Biochemistry and Molecular Biophysics
Columbia University
Address : cuhhca.hhmi.columbia.edu (128.59.98.1)
Programs: Name=PDBviewer; Desc=Rendering tool for protein structures as found
in the PDB; OS=UNIX;
Directory= /pub/programs/PDBview
Contact : Phil Bourne; system at cuhhca.hhmi.columbia.edu
Status : Tested (22 March 1993).
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Organiz.: Institut fur Theoretische Chemie / Universitat Wien / Austria
Address : ftp.itc.univie.ac.at (131.130.29.27)
Programs: Name=Vienna RNA Package; Desc=Software for folding and comparing
RNA secondary structures; OS=UNIX;
Directory= /pub/RNA
Contact : Ivo Hofacker; ivo.hofacker at itc.univie.ac.at
Status : Tested (26 May 1993).
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Organiz.: Science and Engineering Research Council / Daresbury Laboratory /
UK
Address : ccp4.dl.ac.uk (148.79.160.77)
Programs: CCP4 program suite for protein crystallography; OS=VMS and UNIX;
Directory= /pub/ccp4
Contact : Secretary to CCP4, SERC Daresbury Laboratory, Warrington WA4 4AD,
UK; ccp4 at daresbury.ac.uk.
Status : Tested (5 Aug 1993).
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Organiz.: Department of Biochemistry / University of Antwerp (UIA) / Belgium
Address : uiam3.uia.ac.be (143.169.8.1)
Programs: DCSE (Dedicated Comparative Sequence Editor); OS=VMS, UNIX, DOS;
Directory= [.dcse]
Contact : Peter De Rijk [*]; derijkp at reks.uia.ac.be
Status : Tested (9 Dec 1993).
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Organiz.: Department of Medical Genetics / University of British Columbia /
Canada
Address : ulam.generes.ca (137.82.64.150)
Programs: SAR2RIS; Desc=Convert SeqAnalRef to RIS format; OS=DOS;
SORFIND; Desc=Exon detection program; OS=DOS;
Directory= /pub
Contact : Gord Hutchinson [*]; hutch at ulam.generes.ca
Status : Tested (9 Dec 1993).
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Organiz.: Department of Software Engineering (ZXA/US) / BASF Inc /
Ludwigshafen / Germany
Address : ftp.uni-kl.de (131.246.9.95)
Programs: BIOSIM; Desc=Biologically oriented neural network simulator;
OS=UNIX and or DOS/Windows;
Directory= /pub/bio/neurobio
Contact : Stefan Bergdoll [*]; bergdoll at zxa.basf-ag.de
Status : Tested (9 Dec 1993).
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