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BlastKOALA

Step-by-step Instructions



Step 1. Query data input

Enter four items: query sequence data, taxonomy group information, database file to be searched, and your email address. Then click on "Request for email confirmation".
When your request is successfuly uploaded, a message of "Requested accepted" will appear. Check that your email address is correctly entered.
Request accepted

An email has been sent to xxxxxx@xxxx.xxx.xx for confirmation.

Please click on the link in the email to submit your BlastKOALA job.

Step 2. Job submission

Check your mailbox. You should immediately receive an email from the BlastKOALA server located at the Supercomputer Facility in the Institute for Chemical Research, Kyoto University (scl.kyoto-u.ac.jp).

Your BlastKOALA job request
  Query dataset: 3123 entries
  Taxonomy group: Prokaryotes,Archaea,Thaumarchaeota
  KEGG database to be searched: genus_prokaryotes.pep


Please click on the link below to either submit or cancel your job.

http://www.kegg.jp/kegg-bin/blastkoala_submit?id=xx..&type=blastkoala (Submit)

http://www.kegg.jp/kegg-bin/blastkoala_cancel?id=xx..&mode=cancel&type=blastkoala (Cancel)

If no action is taken within 24 hours, your request will be deleted.

Click the submit link in the message to submit your job. Your job will be queued on the BlastKOALA server. The execution time varies depending on how many other jobs are running. Typically, it takes several hours for a search of five thousand sequences against a dataset (such as genus_prokaryotes) of two to three million sequences.

Step 3. Accessing result data

When your job is completed, you will receive a notification email.
Your BlastKOALA job was completed.

Please click on the following link to view the result of annotation.

http://www.kegg.jp/kegg-bin/blastkoala_result?id=xx..&type=blastkoala

Your result data will be removed after seven days.
Click on the link in the message to access your result summary page. You can then view or download the annotation data (K number assingments) and perform KEGG Mapper analysis. The pie chart shows the functional category defined by the KEGG Orthology system.
Your BlastKOALA job
Query dataset: 1493 entries
Taxonomy group: Prokaryotes,Bacteria
KEGG database searched: species_prokaryotes.pep
Job submitted: Mon Oct 6 12:13:57 JST 2014
Job completed: Mon Oct 6 12:53:46 JST 2014

Annotation dataView | Download
Summary
1021 entries (68.4%) annotated
Functional
category
(Pie chart)
KEGG MapperReconstruct Pathway
Reconstruct Brite
Reconstruct Module
Click on "View" in the summary page to open a new page showing your gene list with assigned K numbers, their definitions and the KOALA scores used for the assignments. The second best column contains possible alternatives (K numbers and associated scores), but the interpretation of this column is left to the user.
QueryKODefinitionScoreSecond best
HIMB59_00000010199K05845/K058461
HIMB59_00000020K00820glmS; glucosamine--fructose-6-...257
HIMB59_00000030K04042glmU; bifunctional UDP-N-glucosamine ...170
HIMB59_00000040K07566tsaC; L-threonylcarbamoyladenylate ...109
HIMB59_00000050164
The details of K number assignment can be examined for each query gene by clicking on its name in the table. For example, HIMB59_00000020 is linked to the following table containing BLAST hits in the KEGG database searched. This is a simplified version of the GFIT (Gene Function Identification Tool) table internally used by KEGG, here containing only the bit score, identity (%), and overlap (alignment) length, as well as the K number and its definition associated with each similar gene in the database.
Gene (Length)ScoreIdentOverlapKODefinition
bja:bll4607 (608)46640613K00820glmS; glucosamine--fructose-6-phosphate...
brs:S23_35090 (608)45940610K00820glmS; glucosamine--fructose-6-phosphate...
bju:BJ6T_50800 (608)45539610K00820glmS; glucosamine--fructose-6-phosphate...
pre:PCA10_56320 (611)45039616K00820glmS; glucosamine--fructose-6-phosphate...

Step 4. Feedback and citation

We welcome your comments and suggestions, especially on any addition or correction of gene/protein function annotation with relevant reference information. Please use the KEGG/GenomeNet Feedback Form.

Please cite the following reference when you make use of BlastKOALA/GhostKOALA.

Last updated: December 21, 2015

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