Weill Cornell Medical College Library
Online Survey

Molecular Biology & Bioinformatics Resources

WCMC, Cornell & NYC Area Resources

• Bioinformatics page - Dr. John Wagner, WCMC
• Computational Genomics Core Facility - WCMC
• DNA Sequencing Facility - at the BioResource Center of Cornell University, Ithaca, NY
• Institute for Computational Biomedicine - WCMC
• Microarray - WCMC
• Molecular Modeling - WCMC
• AMDeC Bioinformatics Core Facility - Columbia Genome Center

Library Materials and Services

• Computational Biology Books in Tri-Cat Online Catalog
• Current Protocols
  • Cell Biology
  • Human Genetics
  • Immunology
  • Molecular Biology
  • Neuroscience
  • Protein Science
  • See also the free site bioProtocol
• PubMed Bookshelf - genetic analysis and molecular biology texts free on the web
• Library Workshops:
  • Molecular Biology Resources
  • Advanced Molecular Biology Searching Tools

Molecular Biology Databases & Tools

• Annual Database Issue and Annual Web Server Issue - Nucleic Acids Research
• Connectivity Map (cmap) (genome-wide transcriptional expression data from cultured human cells treated with bioactive small molecules) - Broad Institute
• Human Genome Resources - National Center for Biotechnology Information (NCBI)
• Entrez Gene (curated sequence and descriptive information about genetic loci) - NCBI
• NCBI Site Map - list of all NCBI resources
• NCBI Tools for Data Mining
• Gene Ontology - goal is to provide a controlled vocabulary to describe gene and gene product attributes in any organism
• Clone and Gene Collections
  • The I.M.A.G.E. Consortium - large public collection of genes
  • NIGMS Human Genetic Cell Repository
  • Cancer Genome Anatomy Project - Tissues (cDNA Libraries & SNPs)
  • Mammalian Gene Collection - cDNA clones of expressed genes (human, mouse, rat and cow)

Structure Visualization Software

[FREE loaded on Library's Computer Lab machines]
Note: The Library staff does not provide technical support for this software

• Cn3D 3-D structure viewer FREE - Cn3D is a visualization tool for biomolecular structures, sequences, and sequence alignments. Cn3D is typically run from a WWW browser as a helper application for NCBI's Entrez system, but it can also be used as a standalone application. Cn3D reads only ASN.1 data files from the MMDB database. Tutorial and help available.
• RasMol FREE - RasMol is a molecular graphics program intended for the visualization of proteins, nucleic acids and small molecules. The program is aimed at display, teaching and generation of publication quality images. RasMol (UNIX and Win32 versions) can read MMDB ASN.1 files- Introduction to RasMol
• Protein Explorer, a RasMol-derivative - The Protein Explorer (PE) enables you to explore the 3D structure of any macromolecule. You can explore proteins, DNA, RNA, carbohydrates, and complexes, such as between transcriptional regulatory proteins and DNA, or enzymes and drugs. Tutorial for Protein Explorer
• MAGE / Official Kinemage Homepage - A "kinemage" (kinetic image) is a scientific illustration presented as an interactive computer display. The kinemages are viewed and explored by using a simple graphics program called MAGE.
• Chime FREE - Chime shows molecules like RasMol, but unlike RasMol, Chime shows molecules inside a webpage. MolviZ.Org - Molecular Visualization Resources: http://www.umass.edu/microbio/chime/index.html. Chime support is available for registered (free) users on main Chime page.

Advanced Structure Manipulation Programs

• MOLMOL FREE - MOLecule analysis and MOLecule display MOLMOL is a molecular graphics program for displaying, analyzing, and manipulating the three-dimensional structure of biological macromolecules, with special emphasis on the study of protein or DNA structures determined by NMR. The program runs on UNIX and Windows NT/95/98/2000 and is freely available.
• Visual Molecular Dynamics (VMD) FREE - VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting. VMD supports computers running MacOS-X, Unix, or Windows, is distributed free of charge, and includes source code.

Tutorials and Training Materials

• NCBI Education Page
• BLAST Information/Tutorial
• Cn3D Tutorial
• Entrez Help Document
  

Other Resource Collections

• BioResearcher Toolkit - University of Washington
• 123Genomics - Hundreds of genomics-related bookmarks in categories: careers, courses, news, research labs, databases, scientific societies, protocol guides, microarrays, sequence databases & analysis, publications, and diseases & disorders.