sybil: strepneumo: home [db=strepneumo_v10]
Welcome to the Streptococcus Pneumoniae Comparative System powered by Sybil

This website is built on top of a Chado comparative database and provides a number of tools for analyzing an visualizing the data.

Sybil relies on precomputed searches-- primarily BLASTP searches and protein clustering analyses--the results of which are stored in the comparative database and queried as needed.

Here is a summary of where you can go from this page and how to move around Sybil:
  • Click on the thumbnails below to generate visualizations of the data. From these visualizations you can drill down further by clicking on the features displayed in the images.
  • To find a specific gene use the "Search for genes/proteins" tool below.
  • You will find a summary of the analyses and organisms loaded at the bottom of the page
  • Click on the "help" link at the top-right of any section to get more information.
  • Click on the "strepneumo_v10" link in the top-right corner of any page to return to this page.
  • For help or to report bugs use the e-mail link in the bottom-right corner of every page.

More detailed description of Sybil's capability can be found at the sourceforge site: sybil.sourceforge.net

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Note: This site has only been tested fully with the Mozilla Firefox browser. Some features will not work properly in other browsers.
Version/News

Sybil site release 17 on 10/31/2009

Download from Sourceforge

Current Sybil Version: strepneumo-1.13.0

Current Data Version: 10

[Updates] - View all of the changes/updates to the strepneumo data and code here. This page will be updated every time there is a new Sybil release.

[Previous Version] - Click here to view the previous version of strepneumo. This version will be kept for a few months after a new release.

Support

Funding for this project provided by PATH, an international nonprofit organization that improves the health of people around the world.
Downloads

Right click and select 'download' or 'Save Link As' to download the files

[Download Polypeptides] - Download all of the polyeptide sequences in fasta format

[Download Gene Nucleotides] - Download all of the gene nucleotide sequences in fasta format

[Download Genomic Sequence] - Download all of the Genomic sequences in fasta format
Organisms/genomes all organisms/genomes loaded into chado [help]
serotype strain MLST status sequencing strategy
NT BS455 2011 draft 454
NT BS293 13 draft 454
all capsular_loci n/a n/a Sanger
NT BS457 13 draft 454
NT BS397 13 draft 454
NT R6 128 complete Sanger
1 P1031 303 complete Sanger/454
2 D39 595(unverified) complete Sanger
3 SP3-BS71 180 draft 454
4 TIGR4 205 complete Sanger
5 70585 289 complete Sanger/454
6 SP6-BS73 460 draft 454
6A CDC1873-00 376 draft Sanger/454
6 SP18-BS74 new draft 454
6B 670 90 complete Sanger
7F CDC1087-00 191 draft Sanger/454
9V SP195 156 draft Sanger/454
9 SP9-BS68 1269 draft 454
11 SP11-BS70 62 draft 454
11A MLV-016 62 draft Sanger/454
12F CDC0288-04 220 draft Sanger/454
14 SP14-BS69 124 draft 454
14 CGSP14 15(unverified) complete Sanger
14 BS458 13 draft 454
14 JJA 66 compete Sanger/454
14 BS292 13 draft 454
19A CDC3059-06 199 draft Sanger/454
19F Taiwan19F-14 236 complete Sanger/454
19F G54 63(unverified) complete Sanger
19 SP19-BS75 485 draft 454
19A Hungary19A-6 168 complete Sanger/454
23 SP23-BS72 37 draft 454
23F 700669 2 complete Sanger
Analyses/computes all analyses/computes loaded into chado [help]
program / version date description
pipeline_summary / 2.0 2009-10-30 10:52:00 pipeline_summary / 2.0
pipeline_summary / 2.0 2009-10-30 10:52:00 pipeline_summary / 2.0
hmmpfam / $Name$ 2009-10-30 18:14:00 hmmpfam / $Name$
hmmpfam / $Name$ 2009-10-30 19:42:00 hmmpfam / $Name$
hmmpfam / $Name$ 2009-10-30 21:48:00 hmmpfam / $Name$
hmmpfam / $Name$ 2009-10-30 23:31:00 hmmpfam / $Name$
lipoprotein_motif / current 2009-10-31 01:13:00 lipoprotein_motif / current
signalp_nn / $Name$ 2009-10-31 02:55:00 signalp_nn / $Name$
signalp_hmm / $Name$ 2009-10-31 02:55:00 signalp_hmm / $Name$
tmhmm / $Name$ 2009-10-31 04:39:00 tmhmm / $Name$
hmmls / $Name$ 2009-10-31 07:13:00 hmmls / $Name$
hmmls / $Name$ 2009-10-31 08:07:00 hmmls / $Name$
hmmls / $Name$ 2009-10-31 09:01:00 hmmls / $Name$
hmmls / $Name$ 2009-10-31 09:55:00 hmmls / $Name$
fuzznuc / na 2009-10-31 10:48:00 fuzznuc / na
j_ortholog_clusters / 2.0 2009-10-30 11:43:00 Ortholog Clusters
jaccard / $Name$ 2009-10-30 11:28:00 Paralog Clusters
wu-blastp / 2.0 2009-10-30 00:05:00 All vs. All wu-blastp
sybil web site: sybil.sourceforge.net e-mail: driley@som.umaryland.edu