There are some public bioinformatics sequence analysis databases and tools for life science researchers. Following list of online bioinformatics sequence analysis tools (suite and packages) are free to public after registration:
- Bioservers: Bioservers Custom Workspaces and Educational Databases for Bioinformatics is sponsored by Howard Hughes Medical Institute, National science Foundation, Department of Energy, Roche Molecular Systems, and Applied Biosystems. Users can perform sequence database searches, statistical analyses, population modeling from centralized workspace in the server. Its educational databases contains Alu insertion polymorphism on human chromosome 16, SNPs in human mitochondrial control region. Its DNA search service allows multiple sequence alignments, generate phylogentic trees, and search Genbank by BLAST and keywords with mitochondrial reference data.
- EMBOSS sequence analysis servers: EMBOSS is open source sequence analysis suite equivalent to the commercial GCG sequence analysis package for Unix system. This page contains list of publically accessible EMBOSS servers and manual documentations.
| Nucleic transcription | Transcription factors, promoters and terminator prediction |
| Nucleic translation | Translation of nucleotide sequence to protein sequence |
| Phylogeny consensus | Phylogenetic consensus methods |
| Phylogeny continuous characters | Phylogenetic continuous character methods |
| Phylogeny discrete characters | Phylogenetic discrete character methods |
| Phylogeny distance matrix | Phylogenetic distance matrix methods |
| Phylogeny gene frequencies | Phylogenetic gene frequency methods |
| Phylogeny molecular sequence | Phylogenetic tree drawing methods |
| Phylogeny tree drawing | Phylogenetic molecular sequence methods |
| Protein 2d structure | Protein secondary structure |
| Protein 3d structure | Protein tertiary structure |
| Protein composition | Composition of protein sequences |
| Protein motifs | Protein motif searches |
| Protein mutation | Protein sequence mutation |
| Protein profiles | Protein profile generation and searching |
| Test | Testing tools, not for general use. |
| Utils database creation | Database installation |
| Utils database indexing | Database indexing |
| Utils misc | Utility tools |
Here is the collection of apoptosis pathway illustrations. Some of them are available in poster when requested. Most of pathway illustrations give general overview of the apoptosis pathways. Read the rest of this entry »
The podcast is getting popular nowadays even among bioscience researchers. Here is a collection of life science biotechnology podcast subscription links. You can subscribe using iTune program and an ipod.
Nature Podcast
The scientist podcast:
Science Magazine Podcast:
Invitrogen web seminars - bringing the latest developments and research results live and direct to your desktop.
The New Scientist podcast:
Introduction to Molecular and Cellular Biology Podcast:
ITC Biotech podcast:
The bio.com also hosts Infocus online webcasting series and you can download mp3 files if you are registered (free). It would be much better if they can compile a podcast xml file for one click subscription.
This article is moved from the old version Blog.
Now you can blog any abstract in pubmed using free service provided by Hubmed.org. Apart from the full functionality of NCBI Pubmed, the hubmed allows you to write blog article to cite and remote comment on the abstract.
It’s perfect for an online journal club! How does it work? well it’s quite simple. When you write your blog article citing the pubmed abstract in Hubmed database you give a backtrack URI linking to the abstract’s pubmed ID. Your blog software will then ping the remote Hubmed server to let it know someone has written comment on that abastract. The remote Hubmed server will then attempt to fetch the comment, parse it and store it in its database. So lets assume ten people have written comments on a recently published hot paper and have given backtrack link to Hubmed, it will store excerpt of all remote comments in its database and comments will be shown as an extra reference tag for the abstract. This is a wonderful way of creating virtual journal club on the internet.
Some features of Hubmed are quoted bellow.
- RSS feeds of literature queries - updated daily.
- Drag the XML button from a page of search results into your newsreader:
- NewzCrawler (Windows), NetNewsWire (OS X) or Amphetadesk (cross-platform).
- Export checked abstracts in RIS format.
- Unzip this import filter into Endnote’s Filters folder for direct import into Endnote.
- Install the RIS Export plugin for direct import into ProCite, RefMan and older versions of Endnote.
- HubMed bookmarklet - drag into your toolbar.
- TrackBack-enabled remote comments.
- Citation Matcher
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