|
| Status |
Public on Feb 09, 2017 |
| Title |
Borrelia turicatae in blood rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
Borrelia turicatae in blood rep 1
|
| Organism |
Borrelia turicatae 91E135 |
| Characteristics |
strain: 91E135
|
| Growth protocol |
B. turicatae 91E135 cultured at 22 oC and 35 oC, infected and uninfected ticks, and murine blood five days after tick bite
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen) following the manufacturer’s instructions. RNA integrity numbers (RIN) were calculated using the Agilent RNA 6000 Pico kit and the 2100 Bioanalyzer (Agilent Technologies, Waldbroon, Germany).
|
| Label |
biotin
|
| Label protocol |
100 ng of input RNA with RIN values above 8.0 was used for a nonbiased amplification with Ambion’s MessageAmpTM II- Bacteria Prokaryotic RNA kit (Life Technologies, Foster City, CA, USA) following the manufacturer’s instructions. In vitro transcription was performed to incorporate biotin-11-CTP (PerkinElmer Life Sciences, Waltham, MA, USA) into the cDNA, and 3 µg of the sample was subsequently fragmented using Ambion’s 10x Fragmentation Reagent (Life Technologies) and used for each Affymetrix (Affymetrix, Santa Clara, CA, USA) GeneChip
|
| |
|
| Hybridization protocol |
All cRNAs were hybridized to a custom Affymetrix GeneChip
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 7GPlus.
|
| Description |
Gene expression data from_Borrelia turicatae in blood rep 1
|
| Data processing |
The data were analyzed with EC 1.4 using Affymetrix default RMA
|
| |
|
| Submission date |
May 19, 2015 |
| Last update date |
Feb 09, 2017 |
| Contact name |
Dan Sturdevant |
| E-mail(s) |
[email protected]
|
| Phone |
4063639248
|
| Organization name |
NIH
|
| Department |
NIAID
|
| Lab |
RTS
|
| Street address |
903 S 4th street
|
| City |
Hamilton |
| State/province |
MT |
| ZIP/Postal code |
59840 |
| Country |
USA |
| |
|
| Platform ID |
GPL7246 |
| Series (1) |
| GSE69041 |
Transcriptional profiling the 150 kb linear plasmid of Borrelia turicatae implicates an important role in vector colonization and establishing mammalian infection. |
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