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Sample GSM154042 Query DataSets for GSM154042
Status Public on Dec 31, 2007
Title LongSAGE of Phanerochaete chrysosporium, day 2 culture
Sample type SAGE
Anchor NlaIII
Tag Count 12402
Tag Length 17
 
Source name Mycelium grown on defined medium
Organism Phanerodontia chrysosporium
Characteristics Strain: RP78
Mycelium grown on defined medium, day 2 culture
Biomaterial provider Dr. Gaskell and Dr. Cullen, USDA Forest Products Laboratory, One Gifford Pinchot Drive, Madison, WI 53726, USA
Growth protocol Phanerochaete chrysosporium RP78 was grown statically in a liquid medium (1% (v/v) Basal III medium, 1% (w/v) glucose, 20 mM Na-2,2-dimethylsuccinate (pH 4.5), 0.0001% thiamine, and 1.2 mM ammonium tartrate) at 37ÂșC.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated with NucleoSpin RNA L (MACHEREY-NAGEL).
 
Description Day 2 culture was selected as control SAGE library.
Data processing Sequence data were analyzed using the SAGE2000 version 4.5 software (http://www.invitrogen.com/sage) to extract, count, and catalogue the tag sequences.
 
Submission date Jan 04, 2007
Last update date Nov 19, 2008
Contact name Masahiko Minami
E-mail(s) n14mminami@ec.usp.ac.jp
Organization name University of Shiga Prefecture
Department Department of Biological Resources Management
Street address 2500, Hassaka-cho
City Hikone-City
State/province Shiga
ZIP/Postal code 522-8533
Country Japan
 
Platform ID GPL4722
Series (1)
GSE6649 LongSAGE during the initiation of ligninolytic enzymes production in Phanerochaete chrysosporium

Data table header descriptions
TAG
COUNT
TPM tags per million

Data table
TAG COUNT TPM
TACGGTCCGCTTGTATA 228 18384.13
CCACTCGCTAGTTTGCT 163 13143.04
TACTACCATCGATCGCT 145 11691.66
TATTATTTGGGTATAAC 128 10320.92
TAGACAGCACGTATTTG 84 6773.10
GCCCCTGCACAAGGATG 56 4515.40
TATAAGGCTTTCACGTG 52 4192.87
GAGGATTGTACAAATAC 46 3709.08
TATAATACCAGCATCCG 45 3628.45
ATATCTCGCACACGCTG 44 3547.81
TTGTCGGCGTTGCACTA 44 3547.81
AACGCGAACAAGGGCGC 43 3467.18
TAACATAGTACCTTGTA 41 3305.92
TACTCATTGATGTAGCC 40 3225.29
ATGACCGTTGACGTCTT 38 3064.02
GTACCTCGACGCAAGCT 37 2983.39
GCTGGCCTTGCAACATC 33 2660.86
TAGAATCAATGGTGTAT 33 2660.86
AAGGCTGGCCACACGCA 32 2580.23
CAATCGAGATGTCTTTT 32 2580.23

Total number of rows: 6396

Table truncated, full table size 164 Kbytes.




Supplementary data files not provided

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