ONLINE ANALYSIS TOOLS 

   
Each of the items in blue text is hyperlinked to a separate page containing useful sites on the Web. 

PicoSearch
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Site Search by PicoSearch

Analysis of nucleotide and protein sequence data was initially restricted to those with access to complicated mainframe or expensive desktop computer programs (for example PC/GENE, Lasergene, MacVector, Accelrys etc.). The availability of online tools permits even the novice molecular biologist the opportunity to derive a considerable amount of useful nformation from nucleotide or protein sequence data. For those with no experience I have provided three sequences: (a) a DNA sequence, (b) a protein sequence, and (c) four protein sequences presented in FASTA format. Prior to trying out a Web Site select the sequence and copy to clipboard.  Each of the items in blue text is hyperlinked to a site on the Web.  Each of these Web Sites has a box into which you can "Paste" your sequence. Click on the button labeled "Search," "Run" or "Submit." If in doubt use the default setting that the sites provide, but for the more adventuresome some of the sites offer the chance of modifying the search strategy.

  ONLINE RESOURCES (tutorials and glossaries)

  TERTIARY STRUCTURE PREDICTIONS OF SACCHARIDES

  ALIGNMENTS
  CONVERT SEQUENCE
(upper to low case, complement, reverse, RNA to DNA)
  COMPOSITION
  DNA MOTIFS
  HOMOLOGY SEARCHES
  MELTING TEMPERATURE (Tm)
  PCR PRIMER DESIGN
  PHYLOGENY
 
PROMOTERS
  REPEATS & SECONDARY STRUCTURE
  RESTRICTION ENDONUCLEASE SITES
  TRANSLATION (GENERAL)
 
TRANSLATION (EUKARYOTIC GENES) (identification of introns and exons)
  TRANSCRIPTION FACTORS

  TOOLS FOR WHOLE GENOME ANALYSIS

 

  ALIGNMENTS
  COMPOSITION & CHEMISTRY
  HOMOLOGY SEARCHES
  MOTIFS
  PHYLOGENY
  QUATERNARY STRUCTURE PREDICTIONS
  SECONDARY STRUCTURE PREDICTIONS
  TERTIARY STRUCTURE PREDICTIONS

  RNA ANALYSIS
  PROMOTERS  & Terminators
  TRANSCRIPTION FACTORS

  TOOLS FOR TRANSCRIPTOME RESEARCH

  BUFFERS
  CENTRIFUGATION CALCULATIONS 
  GENERAL MOLECULAR BIOLOGY CALCULATIONS
  META SITES FOR DNA & PROTEIN ANALYSIS
  SEQUENCE CLEANUP & CONVERSION
  ONLINE GRAPHICS 

  WINDOWS- & JAVA or PERL-BASED PROGRAMS
- free molecular biology programs


  RECOVERING SEQUENCES FROM GENBANK

The Bio-Web: Resources for Molecular and Cell Biologists is a non-commercial, educational site with the only purpose of facilitating access to biology-related information over the internet. 

CREATED  BY: Dr. Andrew Kropinski,  Departments of Molecular & Cellular Biology,; and, Pathobiology University of Guelph,  Guelph , Ontario, N1G 2W1 CANADA
Problems and suggestions: Contact Dr. Andrew Kropinski