| PROTOCOLS |
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Protocols-MolBiol-NWFSC
Molecular Biology Protocols from NWFSC: DNA purification techniques, DNA
transformation/library preparation, Southern/Northern blotting, DNA sequencing,
oligonucleotides, PCR and related methods, RNA methods, protein electrophoresis
and purification, autoradiography tips, safety, and links.
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CPC-MB
Protocols Comprehensive Protocol Collection in Molecular Biology
from Dartmouth: RNA, DNA, Proteins
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IUBio
Archive Indiana University Bio Archive for Biology data
and software. This is an archive of biology data and software, established
in 1989 to promote public access to freely available information, primarily
in the field of molecular biology.
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Protocols-metazoa
Protocol Library from metazoa.com: all fields of Biology and Medicine
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iProtocol,
a free service to publicize research protocols used in bioscience
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highveld
-- Molecular Bioloogy Protocols
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SAGE
Serial Analysis of Gene Expression
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Gene
Expression in E. coli. Some guidelines
for successful gene expression in E. coli including an overview of the
many factors that can influence gene expression such as codon usage, expression
vectors, choice of cellular compartment, translocation and folding competence,
proteases, and manipulation of translation efficiency.
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HisologicalProtocols
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MICROSCOPY
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Microscopy-VL
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Microscopy Primer
Introduction to Optical Microscopy and Photomicrography
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Societies
A list of Micriscopy societies with web pages
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Microscopy Resource,
University of Wisconsin
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LOCI Laboratory of Optical and
Computational Instrumentation. The mission of LOCI is to develop advanced
optical and computational techniques for imaging and experimentally manipulating
living specimens.
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Purdue University Cytometry Laboratories.
Flow cytometry, confocal microscopy, image analysis, cytometry email discussion,
cytometry CD-ROM series, and links to cytometry web sites and suppliers
worldwide.
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Protocols
from the Cell Analysis Facility of the UW
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Dennis Kunkel Microscopy, Inc.
Stock Photography and Education Web Site contains hundreds of micrographs
of scientific, biological and medical subjects photographed with electron
microscopes.
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Center for In Vivo Microscopy,
Duke University, NIH National Center for Research Resources.
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PCR
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primer design
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CODEHOP-PCR
primer design COnsensus-DEgenerate Hybrid Oligonucleotide
Primers. PCR primers designed from protein multiple sequence alignments
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Primer3
picks primers from a DNA sequence for PCR reactions, considering as criteria:
oligonucleotide melting temperature, size, GC content, and primer-dimer
possibilities, PCR product size, positional constraints within the source
sequence, and miscellaneous other constraints.
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GeneFisher,
an Interactive PCR Primer Design Tool.
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xprimer is a
tool for selection of PCR primers. It is designed for selection of sets
of primers along very large queries, all with a relatively narrow Tm range.
It is also useful in more traditional PCR applications.
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program has two interfaces:
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rawprimer, produces
no graphics. It is set up to use human and dog repeat files and several
species models
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webprimers, a
second version produces maps of the primer locations and the locations
of repeated elements of various types
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primer design for site-directed mutagenesis:
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Primer
Generator is an automated generator of primers for site-directed mutagenesis.
The program analyzes the original nucleotide sequence and desired amino
acid sequence and designs a primer that either has a new restriction enzyme
site or is missing an old one. This allows for faster sorting out of mutated
and non-mutated sequences.
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primer analysis/evaluation and calculators:
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Oligo
Calculator @ Molecular Biology Core Facilities, Dana-Farber Cancer Institute.
- Primer3 picks primers from a DNA sequence. Whitehead Institute, MIT
Amplify
is a Macintosh program for simulating and testing polymerase chain reactions
(PCRs). It can also be used as a tool for designing primers by evaluating
candidates.
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MICROARRAYS
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MicroarrayP@NHGRI
Links from the µAP: Laboratories, Companies, Meetings
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NHGRI
Protocols provided by the Laboratory of Cancer Genetics at NHGRI for RNA
isolation and cDNA probe labeling, in downloadable formats.
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MGuide
Version 2.0 by the P. Brown's Lab. A complete guide to microarraying
for the molecular biologist: protocols, software, etc, and
Microarray
Forum
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IBD Mapping
Microarray Protocols as a part of the Direct Identical-by-Descent (IBD)
Mapping project at V. Cheung's Lab, UPenn
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SMD
Stanford Microarray Database stores raw and normalized data from microarray
experiments, as well as their corresponding image files. In addition, SMD
provides interfaces for data retrieval, analysis and visualization. Data
is released to the public at the researcher's discretion or upon publication.
The site has a page with Software
& Tools resources.
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| Tools
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