Wikiomics:List of articles

This is the list of the most important articles of this wiki. If you create an article in this wiki, just insert a link on this page. Not all articles need to be listed here, just do what feels right. There is also a space for wanted articles. Also, see Special:Categories for all the categories which are used to tag articles, and Special:Allpages for all the pages.

General

• What is bioinformatics?
• Bioinformatics tutorial
• External collections of bioinformatics links which are well-maintained and recognized as useful by biologists
• Wikiomics:Other wikis and forums in the field of bioinformatics
• Wikiomics:Bioinformatics journals: what they provide and where to submit (new)
• Wikiomics:Cool links: links to bioinformatics-related projects, documents or communities of special interest.

Sequence analysis

• Practical guide to BLAST and its different flavors
• How to compute the percentage identity between a pair of sequences?
• How to deal with the multiple sequence alignment?

Proteins

• Techniques and resources for automated protein function prediction
• Practical guide to BLAST and its different flavors
• In-silico simulation of Site Directed Mutagenesis procedure or how to find best targets

Protein structure

• Searching for 3D functional sites in a protein structure without any requirement of sequence or fold similarity
• RMSD howto
• PDB File Howto
• Protein volume: definitions and tools

RNA

• RNA secondary structure prediction
  • Single sequence folding
  • Structures from alignments
  • Simultaneous alignment and structure prediction
  • Aligning RNA structures
• RNA homology search
  • Probabilistic methods (SCFG/CM and HMMs)
  • Descriptor-based methods
  • Family specific methods (eg. tRNAs, miRNAs)
• RNA gene-finding
• RNA databases
  • Sequence databases
  • Alignment and consensus secondary structure databases
  • Tertiary structure databases
• RNA phylogenetics
• Alignment visualization and plotting RNA structures
• RNA Tertiary structure prediction

Phylogenetics

• Building phylogenetic trees
• Phylogenetic databases

Microarrays

• Wikiomics:Exon_microarrays
• Wikiomics:Quality Control
• Wikiomics:Background subtraction
• Wikiomics:Microarray normalization
• Wikiomics:Statistical Modeling
• Wikiomics:Dimension reduction
• Wikiomics:Annotation
• Wikiomics:Inferences

SNP and CGH Data

• Quality Control
• Background subtraction
• Normalization
• Integration with Microarray data analysis

Chromatin Immunoprecipitation

• ChIP-chip Analysis Software

Proteomics

• Protein mass spectrometry
• Protein microarray

Genome Annotation

• Viewing and sharing genome annotations
• Gene-finding

Viruses

• Tools for annotation and analysis of viral genomes

Linux

• Specialized Linux distributions for bioinformatics

Bioinformatics and databases

• Database downloads

Large-scale and intensive computing

• Grid computing in practice

Communities and labs

• Automated function prediction of genes and proteins
• Godzik Lab
• ScientistSolutions Bioinformatics Forum

External Medical Reference Links

• eMedicine Physician contributed medical articles and CME
• KMLE Medical Dictionary Medical dictionary and medical related links
• NLM (US National Library of Medicine, contains resources for patients and health care professionals)
• WebMD General comprehensive online health information

Wikiforum: open questions and wanted articles

Ask questions and build solutions collaboratively at our wikiforum. It is like a forum where threads would eventually evolve into clean tutorials: anyone can ask questions about bioinformatics. Just create a page where your specific question is asked. Once satisfying answers are given, the page can be moved to the list of articles above.

Tip: you can get an email notification when a question is being answered, but you have to register:

1. create an account or log in,
2. confirm your email address in your preferences,
3. watch the pages that interest you.

• (no questions so far)