NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM255665 Query DataSets for GSM255665
Status Public on May 14, 2008
Title San Roman_OP_treated
Sample type SAGE
Anchor NlaIII
Tag Count 21102
Tag Length 10
 
Source name San Roman_f18 generation_12-16 days old larvae
Organism Rhipicephalus microplus
Characteristics Placed in larval packet test papers treated with 0.4% coumaphos. This is approximately a LD25 dosage for each strain. For more details see: Insect Molecular Biology (2007) 16(1), 49-60.
Biomaterial provider Cattle Fever Tick Research Laboratory (CFTRL)
Treatment protocol Placed in larval packet test papers treated with 0.4% coumaphos. This is approximately a LD25 dosage for each strain. For more details see: Insect Molecular Biology (2007) 16(1), 49-60.
Growth protocol For more details see: Insect Molecular Biology (2007) 16(1), 49-60.
Extracted molecule total RNA
Extraction protocol Total RNA was prepared using the Totally RNA kit (Ambion, Inc., Austin, TX, USA), including aaLiCL precipitation step, according to the kit protocol. SAGE library was synthesized using the I-SAGE kit (Invitrogen, Carlsbad, CA, USA). For more details see: Insect Molecular Biology (2007) 16(1), 49-60.
 
Description For more details see: Insect Molecular Biology (2007) 16(1), 49-60.
Data processing Sequence data was processed to extract 14 bp tags using a pipeline of Perl scripts. Duplicate ditags, ditags not of length 28-38 bp, and linker sequences were removed.
For more details see: Insect Molecular Biology (2007) 16(1), 49-60.
 
Submission date Jan 08, 2008
Last update date Nov 19, 2008
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
 
Platform ID GPL6351
Series (1)
GSE10109 SAGE in Rhipicephalus (Boophilus) microplus following OP treatment of larvae from OP resistant/susceptible strains.

Data table header descriptions
TAG
COUNT
TPM tags per million

Data table
TAG COUNT TPM
ATCTGAGTTT 1763 83546.58
GGTCTCGGAG 263 12463.27
ATTTGAATCA 191 9051.27
GTTCAGGCTG 182 8624.77
GGTGTTTCTA 167 7913.94
AGCCTACTCT 167 7913.94
GTGCGCGTGG 163 7724.39
ACTTTCAACT 159 7534.83
TAGGAATTTA 149 7060.94
GTGCACCTGG 141 6681.83
ACGGACCCCA 124 5876.22
GGATTTGGTC 116 5497.11
GTTGCTTTGT 112 5307.55
CGATCGCAAT 110 5212.78
GCCGCACACT 103 4881.05
CAGAAGCTTC 103 4881.05
ACCTGGAATA 101 4786.28
TCGTGGTAAA 97 4596.72
TGCTGGTGTT 95 4501.94
ATATTGACAT 93 4407.17

Total number of rows: 7714

Table truncated, full table size 144 Kbytes.




Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap