Pedro's Research Tools

A Collection of WWW Links to Information
and Services Usefull to Molecular Biologists

- Hot/Very Useful Tools *

- Good/Useful Tools *

- Other Tools *

- Local Pages *

- Email Search *

- More Recent Additions/Changes *

- Less Recent Additions/Changes *

- WWW Server *

- Gopher Server *

- FTP Server *

- Telnet Port *

3D-ALI - Database relating Proteins Structures and Sequences (see Documentation) at EMBL-Heidelberg

AA Composition - Protein Identification (SwissProt) using Amino Acid Composition at ExPASy, Switzerland

Biologist's Search Palette - Collection of Search Engines for Biological Databases at Oxford U., UK

BioSCAN - Biological Sequence Comparative Analysis at U. North Caroline

BLAST at NCBI and BLAST-FTHOM at ABC, Hungary

BLITZ at EMBL-Heidelberg

BLOCKS - Database of Highly Conserved Regions in Proteins and BLOCKS-WAIS at Fred Hutchinson Cancer Research Center, BLOCKS at EMBL-Heidelberg and BLOCKS-Search w/ search from Iowa State

Codon Usage - Analysis of Different ORFs in a Gene Sequence at U. Minnesota

Cloning Vectors - Database at John Hopkins

dbEST - Database of Expressed Sequence Tags at NCBI

DBGET - Integrated Database Retrieval System (w/ diagram links) at GenomeNet, Japan

DDBJ - DNA Database of Japan at National Institute of Genetics, Japan

Dot Plot - Compare a DNA Sequence with Itself at U. Minnesota

DSSP - Database of Secondary Structure of Proteins from PDB at EMBL-Heidelberg

EC Enzyme at John Hopkins and EC Number Table at GenomeNet, Japan and GenoBase Enzyme Index at NIH

EMBL Database and EMBL Database Updates at EMBnet-Basel

EMP Compound and EMP Pathways - Selkov Enzyme and Metabolic Pathway (EMP) Database at NIH

ENTREZ - Protein and Nucleotide Database at NCBI

EPO - European Patent Office Nucleotide Database at CSC, Finland

FSSP - Database of Families of Structurally Similar Proteins derived from PDB at EMBL-Heidelberg

GenBank Database (+Updates) at NCBI and GenBank-Fetch at Washington U.

GenoBase at NIH

GenQuest - Search Against Protein Databases with the Q server at John Hopkins

GuessProt - Selects SwissProt proteins given pI and Mw at ExPASy, Switzerland

HHS - SwissProt and PDB Systematic Sequence Classification Database at Washington U.

HSSP - Database of Homology-Derived Structures of Proteins based on PDB and SwissProt at EMBL-Heidelberg

Kabat - Database of Proteins of Immunological Interest at John Hopkins

Klotho - Biochemical Compounds Declarative Database at Washington U.

LIGAND - Ligand Chemical Database for Enzyme Reactions at GenomeNet, Japan

LiMB - Listing of Molecular Biology Databases at NIH and LiMB at EMBL-Heidelberg

Molecules R US and PDB At A Glance - Interactive Text and Images of PDB Files at NIH

Motif - Patterns in Protein Sequences at GenomeNet, Japan w/ search from Iowa State

MPBD - Molecular Probe Data Base at EMBL-Heidelberg and MPDB at U. Agricultural Sciences, Sweeden

MSA - Multiple Sequence Alignment at Washington U.

NRL_3D - Sequence/Structure Database derived from PDB at John Hopkins and NRL_3D at EMBL-Heidelberg

OWL - Non-Redundant Protein Sequence Database (Updated Daily) at John Hopkins

PDB - Protein Data Bank Structures and PDB-Pending at Brookhaven National Laboratory , PDB at GenomeNet Japan, PDB at U. Genova, Italy, PDB-List and PDB-Annotated at Brussels Free U., Belgium and PDB-Select at EMBL-Heidelberg

PDBSTR - Re-organized Protein Data Bank at GenomeNet, Japan

PHD - Predict Protein Secondary Structure at EMBL-Heidelberg w/ search from Iowa State

PIR - Protein Identification Resource Database at John Hopkins

PIRALN - Database of Sequence Alignments based on PIR at EMBL-Heidelberg

PMD - Protein Mutant Database at GenomeNet, Japan and PMD at EMBL-Heidelberg

PMOTIF - Search Protein Motifs in Gene Sequence at U. Minnesota

Poland - Calculate the Thermal Denaturation Profile of Double Stranded RNA or DNA at Uni-Düsseldorf, Germany

Protein Families - Links to Information on Different Protein Families at Iowa State

PRF - Protein Research Foundation Sequence Database at GenomeNet, Japan

Primer Selection - Select Primers in a Gene Sequence at U. Minnesota

ProDom - Repository of Protein Domain Families at EMBL-Heidelberg and ProDom-Info at Iowa State

PROSITE - Protein Sites and Patterns Database at ExPASy, Switzerland and PROSITE-Search at EMBL-Heidelberg

Protein-Extras at EMBL-Heidelberg

PUU - Protein Domains Database Based on PDB-Select at EMBL-Heidelberg

ReBase - Restriction Enzyme Database at EMBL-Heidelberg and ReBase at John Hopkins

SBASE - Library of Protein Domains and SBASE-Search at ICGEB-Trieste, Italy

SCOP - Structural Classification of Proteins at Cambridge, UK

Sequence Annotation - Annotations on NCBI Sequences at

Sequence Translation - Translate Gene Sequences at U. Minnesota

Sleuth - Amino Acid Conformation and Solvent Accessibility of PDB Files at Washington U.

SRS - Network Browser for Databanks in Molecular Biology (w/ diagram links) at EMBL-Heidelberg

SwissProt - Protein Sequence Database (+ Weekly Updates) at ExPASy, Switzerland

TFD - Transcription Factor Database at NIH

Tm - Oligonucleotide Melting Point Determination at U. Minnesota

AA-Index - Amino Acid Index Database at GenomeNet, Japan

Annual Reviews - Bibliographic Searches at LMMB-National Cancer Institute

ArchiePlexForm - Search Files Available by Anonymous FTP at LeRC-NASA

BIBLIO - Molbio Journal Searches at Genethon, France and Biology Journal Contents at CERN, Switzerland

BIBSYS - Interuniversitary Bibliographic System in Norway

BIOBIB - Biocomputing Bibliography at ICGEB-Trieste, Italy and CompAlgo at CERN, Switzerland

Bio-catalogue - Catalogue of Molecular Biology Programs at Genethon, France

Bioline - Bio-Publications at Base de Dados Tropical, Brazil

Bionet Journal Articles and Bionet News

BIOSCI Archives at EMBnet-UK and BIOSCI at CERN, Switzerland

Biotechnology Abstracts DataBase at Stack-Serpukhov, Russia

BOING - Bio Oriented INternet Gophers at John Hopkins

CARL UnCover - Bibliographic Service from U. Texas

CRIS - Current Research Information System on Research Grants at USDA

Codon Usage Tables at Massachusetts General Hospital-Harvard and Table of Standard Genetic Code at NIH

Conference Listings - Search Chemistry, Biology and Medicine Conference Catalogs at Northern Illinois

DataResearch-Demo, -Authority and -LCMARC Databases at Data Research Associates

DIBUG - Discover Insight Biosym User Group Mailing List at EMBnet-Basel, Switzerland

EMBL-Software - Listing of Software Available from EMBL at U. of Agricultural Sciences, Sweden and EMBL.ALL-Search at John Hopkins

FGSC - Fungal Genetics Stock Center Online Catalogue at U. Kansas

GenTools at John Hopkins

Jughead - Gopher Directory Search at W&L

L.Allison Biblio - Collected References in Algorithms, Computing for Molecular Biology, WWW Sites, etc. at Monash University, Australia

Life Sciences List of Journals at UCSC

Listdoc - Amos Bairoch's List Documents Describing Molecular Biology Oriented Services, Software, Email Servers, FTP Sites, etc. at ExPASy, Switzerland

LITDB - PRF Protein/Peptide Literature Database at GenomeNet, Japan

MEDLINE - Bibliographic References of the National Library of Medicine and ENTREZ-MEDLINE Subset at NCBI and MEDLINE at EMBL-Heidelberg

Millipore On-line Catalog at John Hopkins

MSDS - Material Safety Data Sheets and Fisher Scientific MSDS's at Iowa State

Meetings/Symposia/Workshops in Biotechnology at U. Maryland

Newsletters - Newsletters in Biotechnology Issues at U. Maryland

NSF-Awards - Information on Research Grants at NSF

On-line Journals at Harvard

Powell's Technical Books - Consult Titles and Prices at Powell's Technical Books

QCPE - Quantum Chemistry Program Exchange Program Library at Okazaki National Research Institute, Japan and Quantum Chemistry Acronyms Database at Northern Illinois U.

Scientific Journal Abbreviation at Oregon State

Seqanalref - Sequence Analysis Bibliographic Reference Data Bank at Harvard

Softsearch - Search and Retrieve Software and Data starting at John Hopkins

U.S. Patent Database at Town Hall

Veronica - Search Gopher Files and Directories at U. Nevada

W3 Search Engines at Georgia Tech

WebCrawler at U. Washington

WWW Worm at U. Colorado-Boulder

AA-Notations and Properties and AA-Images with Atomic Numbering at IMB-Jena, Germany

Abbreviation of Chemical Compounds at FU-Berlin, Germany

Ag/Biotech Electronic Information Resources at U. Maryland

Amino Acids at FU-Berlin, Germany

Big Dummy's Guide to the Internet

BioGuide - PCR Guide at Weizmann Institute of Science, Israel

Biologist's Guide to Internet Resources at U. Minnesota

BIOSCI/Bionet FAQ at ANU, Australia

BIRCH - BIological Research Computer Hierarchy User's Guide at U. Montreal, Canada

Book Reviews in Biology at John Hopkins

Chemist's Guide to Network Resources at CSC, Finland

Course in Cellular Biology (in French) at U. Montreal, Canada

Course on Organic Chemistry of Biomolecules at U. Windsor, Canada

Course on Recombinant DNA Technology at U. Minnesota

Databases Related to Agricultural Biotechnology at U. Maryland

Dictionaries at Iowa State

Directories Related to Agricultural Biotechnology at U. Maryland

GCG-GenManual (Analysis Type) and GCG-GenHelp (Program Name) at Harvard

Guide to Computer-Assisted Drug Design at Computational Chemistry Archives-Ohio

Guide to DNA Cloning in E. coli at UWF

Guide to GCG and AGRENET at U. Minnesota

Guide to Geometric Aspects of Protein Structure and Function at Duke

Guide to Molecular Modeling at NIH

Guide to Printed Information Sources in Biotechnology at U. Maryland

Guide to ProCheck at EMBL-Heidelberg, Germany

Guide to Sequence Search at Harvard

Guide to XMol at U. Minnesota

Fundamental Physical Constants at FU-Berlin, Germany

Interaction Trap - Method to clone cDNAs of proteins that interact w/ known protein at Harvard

Materials & Methods and M&M-Search - Laboratory Protocols at Bio-Indiana

Mathematics & Biology at U. Jena, Germany

Molecular Biology Protocols at NWFSC-NOAA

NetBiochem - Medical Biochemistry Course at U. Utah

Primer on Molecular Genetics at John Hopkins

Molbio French Dictionary and its English-French Version at CITI2, France

PCR in situ (1): New Technologies with Single Cell Resolution for the Detection and Investigation of Viral Latency and Persistance at U. Minnesota

PCR in situ (2): Amplification and Detection in a Cellular Context at U. Minnesota

Periodic Table at Berkeley and WebElements at U. Shefield, UK

RasmolHELP at Iowa State

SI Units at FU-Berlin, Germany

Tutorials in Analytical Chemistry at Virginia Tech

Tutorials in Organic Chemistry at Virginia Tech

Tutorials in Physical Chemistry at Virginia Tech

UNIXhelp for Users and UNIX Manual Pages

I welcome any comments or suggestions of changes to this Page!

Last Modified: 09/06/94