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| Status |
Public on Mar 01, 2009 |
| Title |
Babesia Infected/Control LongSAGE libraries for Boophilus microplus ovary tissue |
| Organism |
Rhipicephalus microplus |
| Experiment type |
Expression profiling by SAGE
|
| Summary |
Babesia infected (and control) ovary tissue was used to construct LongSAGE libraries. The intent was to find differential gene expression in both libraries.
Details:
The extraction was done using Ambion's ToTALLY RNA kit, and the concatemers where constructed using Invitrogen's I-SAGE Long kit. The concatmer files (multiple fasta sequence files) were processed using in-house perl scripts to extract the 17bp LongSAGE tags.
**Note: contact person: Felix D. Guerrero. email: [email protected]
Keywords: LongSAGE
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| Overall design |
1 control and 1 treatment library was constructed. Besides the ovary, gut was also looked at but the data was un-analyzable.
************** Analysis Results **********
Ovary Infected:
Project tags: 8750
Project files(concatemers/sequences): 703
Project Duplicate Dimers(ditags): 1612
Unique tags 5315
Total tags inc. ditags 11974
% of tags in duplicate ditags 36%
Ovary Control:
Project tags: 6764
Project files(concatemers/sequences): 368
Project Duplicate Dimers(ditags): 846
Unique tags 3937
Total tags inc. ditags 8456
% of tags in duplicate ditags 25%
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| |
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| Contributor(s) |
Guerrero FD, Scoles GA, Saldivar L, Bendele KG |
| Citation missing |
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| |
| Submission date |
Dec 13, 2007 |
| Last update date |
Mar 17, 2012 |
| Contact name |
Leonel (Leo) Saldivar |
| E-mail(s) |
[email protected]
|
| Phone |
830.792.0366
|
| Organization name |
USDA
|
| Department |
Agriculture
|
| Lab |
Agriculture Research Service
|
| Street address |
2700 Fredericksburg Rd.
|
| City |
Kerrville |
| State/province |
TX |
| ZIP/Postal code |
78028 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL6274 |
SAGE:17:NlaIII:Rhipicephalus microplus |
|
| Samples (2) |
| GSM249490 |
Ovary control(time zero) B. microplus |
| GSM249492 |
Ovary Babesia Infected (6 hours) B. microplus |
|
| Relations |
| BioProject |
PRJNA103873 |
