[BioRuby-cvs] bioruby/test/data/soft GDS100_partial.soft, NONE, 1.1 GSE3457_family_partial.soft, NONE, 1.1
Trevor Wennblom
trevor at dev.open-bio.org
Fri Feb 2 06:14:37 UTC 2007
Update of /home/repository/bioruby/bioruby/test/data/soft
In directory dev.open-bio.org:/tmp/cvs-serv12749/soft
Added Files:
GDS100_partial.soft GSE3457_family_partial.soft
Log Message:
Bio::SOFT data for unit test
--- NEW FILE: GSE3457_family_partial.soft ---
^DATABASE = GeoMiame
!Database_name = Gene Expression Omnibus (GEO)
!Database_institute = NCBI NLM NIH
!Database_web_link = http://www.ncbi.nlm.nih.gov/projects/geo
!Database_email = geo at ncbi.nlm.nih.gov
!Database_ref = Nucleic Acids Res. 2005 Jan 1;33 Database Issue:D562-6
^SERIES = GSE3457
!Series_title = Poplar flowering and maturation GeneXp arrays
!Series_geo_accession = GSE3457
!Series_status = Public on Oct 11 2006
!Series_submission_date = Oct 14 2005
!Series_last_update_date = Oct 17 2005
!Series_summary = To identify candidate genes involved in maturation and flowering, we conducted microarray expression studies using two poplar genotypes (Populus trichocarpa x P. deltoides hybrids) represented in continuous age gradients of one to six years. We designed 70-mers for 228 poplar genes and microarray studies were carried out using the microplate-based 96-well BioGridArray platform (GeneXP Biosciences). Floral buds, vegetative buds and shoot tips were collected at different seasonal time points from juvenile and adult trees and from both basal and upper branches of mature trees.
!Series_overall_design = The experiment was carried out using the microplate-based 96-well BioGridArray platform (GeneXP Biosciences). Each of 228 oligonucletides were duplicated in each well. Two human genes, beta-actin and gapdh , were also printed on all arrays as negative controls. plus ten arabidopsis oligonucleotides selected by GeneXP and used to measure quality of hybridization. For each of 16 samples, two seperate RNA isolations were performed and were considered as biological replicates. Each biological replicate was labeled with Cy5, and hybridized to duplicated wells.
!Series_type = Maturation and Flowering
!Series_contributor = Jingyi,,Li
!Series_contributor = Olga,,Shevchenko
!Series_contributor = Ove,,Nilsson
!Series_contributor = Steve,H,Strauss
!Series_contributor = Amy,M,Brunner
!Series_sample_id = GSM77557
!Series_sample_id = GSM77558
!Series_sample_id = GSM77559
!Series_sample_id = GSM77560
!Series_sample_id = GSM77561
!Series_sample_id = GSM77562
!Series_sample_id = GSM77563
!Series_sample_id = GSM77564
!Series_sample_id = GSM77565
!Series_sample_id = GSM77566
!Series_sample_id = GSM77567
!Series_sample_id = GSM77568
!Series_sample_id = GSM77569
!Series_sample_id = GSM77570
!Series_sample_id = GSM77571
!Series_sample_id = GSM77572
!Series_sample_id = GSM77573
!Series_sample_id = GSM77574
!Series_sample_id = GSM77575
!Series_sample_id = GSM77576
!Series_sample_id = GSM77577
!Series_sample_id = GSM77578
!Series_sample_id = GSM77579
!Series_sample_id = GSM77580
!Series_sample_id = GSM77581
!Series_sample_id = GSM77582
!Series_sample_id = GSM77583
!Series_sample_id = GSM77584
!Series_sample_id = GSM77585
!Series_sample_id = GSM77586
!Series_sample_id = GSM77587
!Series_sample_id = GSM77588
!Series_sample_id = GSM77589
!Series_sample_id = GSM77590
!Series_sample_id = GSM77591
!Series_sample_id = GSM77592
!Series_sample_id = GSM77593
!Series_sample_id = GSM77594
!Series_sample_id = GSM77595
!Series_sample_id = GSM77596
!Series_sample_id = GSM77597
!Series_sample_id = GSM77598
!Series_sample_id = GSM77599
!Series_sample_id = GSM77600
!Series_sample_id = GSM77601
!Series_sample_id = GSM77602
!Series_sample_id = GSM77603
!Series_sample_id = GSM77604
!Series_sample_id = GSM77605
!Series_sample_id = GSM77606
!Series_sample_id = GSM77607
!Series_sample_id = GSM77608
!Series_sample_id = GSM77609
!Series_sample_id = GSM77610
!Series_sample_id = GSM77611
!Series_sample_id = GSM77612
!Series_sample_id = GSM77613
!Series_sample_id = GSM77614
!Series_sample_id = GSM77615
!Series_sample_id = GSM77616
!Series_sample_id = GSM77617
!Series_sample_id = GSM77618
!Series_sample_id = GSM77619
!Series_sample_id = GSM77620
!Series_sample_id = GSM77621
!Series_sample_id = GSM77622
!Series_sample_id = GSM77623
!Series_sample_id = GSM77624
!Series_sample_id = GSM77625
!Series_sample_id = GSM77626
!Series_sample_id = GSM77627
!Series_sample_id = GSM77628
!Series_sample_id = GSM77629
!Series_sample_id = GSM77630
!Series_contact_name = Jingyi,,Li
!Series_contact_email = JINGYI.LI at OREGONSTATE.EDU
!Series_contact_phone = 541-737-8496
!Series_contact_institute = Oregon State University
!Series_contact_address =
!Series_contact_city = Corvallis
!Series_contact_zip/postal_code = 97331
!Series_contact_country = USA
!Series_platform_id = GPL2092
^PLATFORM = GPL2092
!Platform_title = GeneXp BioGrid_poplar maturation
!Platform_geo_accession = GPL2092
!Platform_status = Public on Dec 31 2005
!Platform_submission_date = May 17 2005
!Platform_last_update_date = Jun 16 2005
!Platform_technology = spotted oligonucleotide
!Platform_distribution = non-commercial
!Platform_organism = Populus
!Platform_description = Single channel oligonucletide array for comparing gene expression among 16 tissue types to explore maturation and flowering in poplar
!Platform_description = Keywords = poplar maturation
!Platform_contributor = Jingyi,,Li
!Platform_contributor = Olga,,Shevchenko
!Platform_contributor = Steve,H,Strauss
!Platform_contributor = Amy,M,Brunner
!Platform_contact_name = Jingyi,,Li
!Platform_contact_email = JINGYI.LI at OREGONSTATE.EDU
!Platform_contact_phone = 541-737-8496
!Platform_contact_institute = Oregon State University
!Platform_contact_address =
!Platform_contact_city = Corvallis
!Platform_contact_zip/postal_code = 97331
!Platform_contact_country = USA
!Platform_data_row_count = 240
#ID =
#GB_ACC = Gene bank accession number
#SPOT_ID =
#Function/Family = gene functions and family
#ORGANISM = sequence sources
#SEQUENCE = oligo sequence used
!platform_table_begin
ID GB_ACC SPOT_ID Function/Family ORGANISM SEQUENCE
A001P54Um AI161490 TF, MADS-box P. tremula x P. tremuloides CATGGGTTATGTTTAGATTGTAAGCAATGATTGGTTACATAATCATGTGTGTTGCATAAGTAACAAACTT
A003P34U AI161604 TF, Homeodomain(Knox class) P. tremula x P. tremuloides CATTAATCAAAGGAAGCGACATTGGAAACCATCTGAAGATATGCAATTCATGGTGATGGATGGCCTTCAT
A009P50U AI161918 TF, NAC(no apical meristem) P. tremula x P. tremuloides AGAGCCCCAATGGGCAGAAAACTGACTGGATCATGCATGAATACCGGCTTGAATCCGATGAGATGGTCCT
A010P29U AI161962 TF, MADS-box P. tremula x P. tremuloides ACCAAGACGCCACAAATATTACAAGACCGGCAAATTATCGAGGTGGAGACAGAATTGTTCATAGGTCCAC
A031P05U AI163047 Transcriptional regulation, SNF2 subfamily P. tremula x P. tremuloides GTCATATATGATCCTGATCCGAATCCTAAGAATGAGGAACAGGCAGTTGCTAGAGCCCACCGGATTGGCA
A039P68U AI163321 TF, flowering protein CONSTANS P. tremula x P. tremuloides AGAAAATTCGATATACTGTCCGTAAAGAGGTAGCACTTAGAATGCAACGGAATAAAGGGCAGTTCACCTC
A047P36U AI163743 Polycomb transcriptional repressor P. tremula x P. tremuloides TTATTTATGATCAAACTGTGGAATCACGGACTACTTGATGCACGGACGATGAACATGTGTAATATGATTC
A069P31U AI164824 TF, MADS-box P. tremula x P. tremuloides AGGAGTTGAACAATACCATTGTGTGATGAGTTAAAATATCTGTTGGAAGATTACTGTACCATATTGTAAT
AF240445 AF240445 Ubiquitin P. tremula x P. tremuloides AGGCTTAGGGGAGGAACTATGATCAAGGTGAAGACTCTCACTGGAAAAGAAATTGAAATTGACATTGAAC
B014P39U(UB21CPA06) BU821251 curlyleaf-like 1 homeotic protein; polycomb; set domain P. tremula TGCTGGACGCGAATGTGACCCAGATGTTTGTAGGAATTGCTGGGTTAGTTGCGGAGATGGCTCATTAGGA
B016P21Um TF, MADS-box TF, MADS-box P. tremula CCAGTAGAATCTTGCGAGGAACAGATCTGCTATCGCTGGAAGATCGACTTATCCCTTGAGATACTGGTAT
B020P33U Post-transc. regulation/ RNA-binding, C3H zincfinger Post-transc. regulation/ RNA-binding, C3H zincfinger P. tremula TATCAAACTATTGACTCCAGATTGTCTATGCTGGGAGTGGGACCGACCTTCTACCCTCAACGACCTGGAC
C025P36U BI068662 Putative signal transduction, DENN domain, WD-40 repeat P. tremula x P. tremuloides CAGATCACAAGCTTTAGGGACACAAATGGATTCGGCAATAGAATGGTGGAGACCACTGATCTGGAGTGAT
C025P42U BI068668 Transcriptional regulation, putative helicase P. tremula x P. tremuloides AAACCAGCTATTCCTGACCTGCCACCCACTGTATCAGCAATAGCTCAATCAGTTCGTGTGCTATATGGAG
C036P25U BI069375 TF, salt-tolerance protein, CO P. tremula x P. tremuloides AAGACAGAGCCCTCTTTTGCCAGGATTGTGATGAACCAATCCATTCAGCTGGTAACCTTTCTGCGAATCA
C054P45U BI071264 transcriptional. regulation, peroxiredoxin P. tremula x P. tremuloides AATCAGCTTCATTACATTGTGAGCGCGAGGAACAGATAGGAAGATGGGGTCCACAGACTGTCGGACCTAC
C061P33U BI071641 Post-translational regulation, F-box protein P. tremula x P. tremuloides TATTGATGTTTGGGGGTTTGCTAAGAGAGGCCCCTTCGTTCCGCTCCAGCGATGTGTTACCATGGATCTA
C067P63U BI072011 TF, GIA/RGA-like gibberellin response modulator P. tremula x P. tremuloides TCAGTGGAGAACTCGGTCGATTCGCTGGTTTGACCGGTTCATCTAGGGCGAATGCCTTAAACAAGCTACA
C092P78U BI073104 reduced vernalization response 1 P. tremula x P. tremuloides ATGGGAAACAGTGGCCTGTTCGATGCCTTTACAGGGGAGGCAGAGCTAAATTTAGTCAGGGATGGTATGA
F003P03Y BI119647 TF, MYB P. trichocarpa ATGAAGAGGACCTCATTATCAAGCTACATGCCCTCCTTGGAAATAGGTGGTCATTGATAGCAGGAAGATT
F011P01Y BI120134 Transcriptional regulation, Bromodomain, WD-40 repeats P. trichocarpa AAGAAGCAGGCCCTTGGAAAATAATGAAGGGAAACATTAGGGCGGTCGAGTTCTGTAAGGTTGAAGCCCT
F012P39Y BI120241 Transc. Reg.--Nucleosome/ chromatin assembly factor group B, CAF1 sbunit p150 P. trichocarpa TGATGGAACGCTTTCTAAAAAGAAGCAAAAGTAGTTCCCCATGTCAGAATGACCAGAGTTTAACTAAAGC
F027P14Y BI121043 TF, Homeodomain-Leucine Zipper (HD-ZIP) P. trichocarpa ACCACCACCAACCCATCCACCACACACACACACACACATAGCACCACCAACTCTAAACCATTGTCACTAC
F028P06Y BI121069 Transcriptional regulator, SET-domain P. trichocarpa TACCATACCTGTCACGTCTATCGTTATGCCTCCTGTTCATCTAAAACCTCCCCAATGTACTCACATATAA
F044P04Y BI121667 RNA processing/post-transcriptional regulation, DEAD/DEAH box RNA helicase P. trichocarpa TGGTTTTGGGCAAACCGGCTCCTCTTGTTAGTACTTTCAGACTGAGCTACTATTCGATATTAAATCTAAT
F052P94Y BI135499 Transcriptional regulation, zinc-finger helicase P. trichocarpa TCCTGAGGGAATGATGACACGGGCTTTGCATGGAAGCAGACCGTCAAAGTTTCAATCGCATCTGACAGAC
F066P33Y BI136301 TF, MADS-box P. trichocarpa CGAGCAAGCACAATGGGAGCAGCAAAACCTTGGCCAGAACTCATCCTCTTTTATGCTACCACAAGCACAA
F068P73Y BI136466 CYCLIN D P. trichocarpa GCTCGTCAAGAAGCTGTGGAGTGGATGCTTAAGGTCATTGCTCATCATGGATTTTCAGCTCTCACATCAA
F070P70Y BI136615 TF, MYB P. trichocarpa GGTTCTCTCCCTCGGGTCTGTTTGGATGAACCCCGGTTCAAACTTTGTCATCTTCAACTAGCACCACAGT
F093P10Y BI137760 transcriptional corepressor, regulates AGAMOUS P. trichocarpa AGCAGCAACAGCTTCAGCAGCACGTGCTTTCAAATCAGCAATCACAGAGTTCAAGTCACAATCTTCACCC
F098P59Y BI138094 TF, homeodomain P. trichocarpa AGGAGATCCAAAGGCTGTCAGACCGTATTGATGGGGTTCCACTAATAGTCCTAGTTCATCCTTGTCGATG
F099P36Y BI138136 Transcriptional regulation, p300/CBP acetyltransferase-related P. trichocarpa CATTCTAGGAATGCGCAGAATCCCCCTCATCCAGACCGACAGCATGACATGAGCTCATCATTGACCACAA
F099P51Y BI138143 Signal transduction, ovule/fiber cell elongation P. trichocarpa GATTCATTGGGACACTCGCCCTGCTAATCTGTCCCATATTTACAAGTGGCTCAACTCTTGCAACCATTCT
F100P70Y BI138195 RNA processing, post-transcriptional regulation, DEAD/DEAH box helicase carpel factory (CAF P. trichocarpa GAGATGCCTTCGTTATCATGGTTCGAGCGATAAATAGATCCATCGACATCGATAAGACCTCTGCATCCAG
F101P21Y BI138212 SWI/SNF-related matrix-associated actin-dependent regulator P. trichocarpa AAATTGCAGAACATGTTGGAACCAAGTCAAAAGCACAATGCATCCTTCACTTTCTGCGTCTGCCTGTAGA
F101P86Y BI138245 TF, C2H2 zinc-finger P. trichocarpa CTCTAAGCGTCCACGTCTCGACCACCAGCCTACTGAAGAAGAATATCTCGCTCTCTGTCTTGTCATGCTA
F103P52Y BI138326 TF, MYB P. trichocarpa CACATGGTACAATGGGAGAGTGCTAGAGTTGAGGCTGAGGCCCGTTTGTCAAAGCAGTCATTGCTTATTA
F103P87Y BI138344 Transcriptional regulation, histone deacetylase, plant specific HD2 type P. trichocarpa GGTTTTTCAGGCTTGGCAGCTTTATCCTTAGCGGTAGCAGCTTTCATAATATCAGCTTTCGCAAATTCAA
F106P90Y BI138460 TF, auxin response factor P. trichocarpa TGTTGCGGGTGATGCGTTTATATTTCTAAGAGGTGAGAATGGAGAACTTCGAGTTGGTGTTAGACGTGCA
F110P74Y BI138617 AMP-binding protein P. trichocarpa AGAACTTGAGTAGTGTAGAGGTTGAGTCAGTGCTATACACGTTTCCAGATATTAACGAGGCGGCGGTTGT
F115P67Y BI138781 TF, homeodomain P. trichocarpa TCCACTTGTTCCTACTCGTGAAAGTTACTATGTCAGGTACTGTAAACAACATGCTGATGGGACTTGGGCT
F117P40Y BI138846 Signal transduction, HPt phosphotransmitter P. trichocarpa GTGTGGATCGGTTACGAGCCGATATGAGCCGTTTGCTGGCAATACTATTCCACCAGGTTTGCTGTGTTAG
F117P48Y BI138849 Signal transduction, receptor protein kinase P. trichocarpa CAAGCTCCACCTGCCCCACTCCCATCTGCGAAAGTCCCATGCTATATCGATGAGTATGCGAATATCAAGT
F118P50Y BI138891 TF, squamosa-promoter binding protein (SPB) P. trichocarpa ACAAATGCTAATGTCACATTGTGTGACAACCATGCATGGTGTCAGGATTGCTAGCTGTGGCACTAGGCAT
F119P13Y BI138915 Signal transduction, cryptochrome P. trichocarpa TTTTCCGTGGAATGACAATCAGGTCCATTTTAAGGCTTGGAGACAGGGGCGGACTGGTTACCCATTAGTT
F119P74Y BI138950 nucleosome/ chromatin assembly, histone P. trichocarpa TTGCTAATGGCAAGCTTGTTAAGGTGAAGAACTCCTTCAAGCTCCCTCCTAAATCTCCCGCTGCTGGTGC
F121P83Y BI139042 Transcriptional regualtion, chromomethylase P. trichocarpa TGTCGGGAAGCTATAAAGAACTTTGTCATGCATGGCTACCTGTCAAATATTCTACCATTACCCGGTGATG
F128P16Y BI139280 SET domain P. trichocarpa TTTCGTGCAGCATACCTGTATCCACTTCTCAGCAACAAGTGGTAGGTACACTGTCTTGGCTAATCCCTCT
F129P24Y BI139316 Transcriptional regualtion, chromomethylase P. trichocarpa GGCAAAAGCTATGCAAACGGTATGCGGTCAATGATGTAGGAAGGACACATAAGTCACGGTCAATGGCATC
F131P79Y BI139444 TF, C2H2 zinc-finger P. trichocarpa ACAATGTTTGATACTTTCGGAGGACAAGGCATCCGTGTACCTCCTCCTTTCCCCTCAGATATAGCTCCTC
G070P72Y BI128093 squamosa-promoter binding(SPB) P. tremula x P. tremuloides ATGGTTGCAACTCTGACCTCAGTACTTGCAGGGACTACCATAGGCGCCATAAGGTCTGTGAGCTTCATTC
G074P09Y BI128315 Signal transduction, gigantea P. tremula x P. tremuloides GGAGACAGGTTGTTGACGCACTATGCAATGTTGTATCAGCATCACCAACAATAGCAGCCACAGCAGTTGT
G095P48Y BI129777 TF, homeodomain P. tremula x P. tremuloides AGCATGCATGGAGGCCACAAAGGGGTCTGCCTGAAAGCTCTGTTTCAATTCTTCGTGCTTGGCTGTTTGA
G105P48Y BI130427 TF, B3 DNA binding, PEST domains P. tremula x P. tremuloides AAGATACTATGCGGTTGACAAAGGGTTCTAACATTTCACAAGTTGCTAATGAATCAGCACGGAATGTAGG
G126P33Y BI131829 TF, homeodomain P. tremula x P. tremuloides GTGCTGGGACCTCAGGGATAACAAAAGGTGAGACACCGAGGCTTAAGTTATTAGAGCAAAGTCTAAGACA
G134P12Y BI132257 TF, MADS-box P. tremula x P. tremuloides AAAACTGAGCGAGCTTATCACTTTAACGGGGACGGAAGCTGCGTATCTCGTCTTTTCACCTGGGGGTAAG
GA20-OX CAC00709 GA biosynthesis, gibberellin 20-oxidase P. tremula x P. tremuloides CGAGGAATACTTTCACAACAGAATGGGGGAAGATTTCGCTGAGTTCGGGACGGTGTATCAGGACTACTGT
HB1 CAA09366 TF, Homeodomain P. tremula x P. tremuloides GAACTTACATTCACAAGGCTCATTAGGGCTTAGGACTATCGTTGTGGCATGCATTTTACTGATTGCCTAA
HB2 CAA09367 TF, homeodomain P. tremula x P. tremuloides GGATCTTTTGTATGTGTTCATAGAGTATACAAATTTGCGGAGAAAAACCGATGGTATGTTAAGGGTGTGG
I012P09P BI122720 TF, homeodomain P. tremula x P. tremuloides TGAGCTGTCCTATTTAGTGAGTATTGTGTTAGTTTATAAATTTTATCATGGCTGTGTCGGGTCTGTGAAT
I017P76P BI123112 TF, MADS-box P. tremula x P. tremuloides CAACTGGAGCGACAGTTAAAGACAGGGGTTGAACGTATCCGCTGTAAGAAGAAACGAGCCATCTCAGAGC
M101C08 BU867525 post-transcriptional regulation, E3 ubiquitin ligase, Skp1 P. trichocarpa AAGGAAAGGGGTTTAATCTATTTCTATAATTGCCTTTTTCTGTTGGACGTGGATTGATGTTAAGGTTTTA
M101C11 BU867528 histone H1C P. trichocarpa CTACTGCTTAGATGTATAAATTTTGTACTAGCAGAACGGCAGTAGTTAGTTTCTGATGCTCTACGTTGGG
M102E03 BU867630 putative LRP(lateral root primordia) 1 P. trichocarpa TTGGCTTAAATGCAGAAGGCGTGAACCCCACTTTTGTCCTAAATTCTACTACCATAAATGGCATGCCATT
M102E09 BU867635 AP2 domain P. trichocarpa AGCTGCAAGGGCGTATGATGCTGAGGCGCGTAGAATTCGTGGCAAGAAAGCTAAGGTGAACTTTCCTGAT
M103H01 BU867748 nucleosome/ chromatin assembly, histone H1 P. trichocarpa TTTAGGGCGTGTAGATGGGGGGTAGTGATTGTAAATTTGAAAGAAAAGGGAGGGTGCTAATGGTAGTTAG
M104E08 BU867803 TF, MADS-box, YABBY P. trichocarpa GAATGACTTTAGCGTTACAGTTCGAGGAATGGCTGATCATGAACTTCCTAGGCCACCCGTTATCCACAGA
M105A07 BU867841 Post-trasnlational regulation, HSP90; heat shock superfamily P. trichocarpa AACCACCAAGTCGGATGGTAAGTTGACATCACTTGATCAGTACATATCAAGAATGAAATCTGGGCAAAAG
M111B12 BU868098 Post-translational regulation, E3 ubiquitin ligase subunit, SKP1 P. trichocarpa GCAAGAAACACGTTGAGACTCCAAAACCCGAGGATCGAGGAACTAACAGCGGCGATGATGAGCTTAAGAA
M112C09 BU868189 TF, MADS-box P. trichocarpa AATGATGATCCCGAAAACCATGGTAGCTGGACTTTGGAATATGCGAAGCTCAAAGCTCGGGTAGATGTTC
M116D03 BU868480 TF, MYB P. trichocarpa ATCATCGTCTGCTCCCCTTGAACCTGGATATGTCTTGAGGCCTGATTCGTCTTCAATACCTATGAACCCC
M116E04 BU868491 TF, NAC P. trichocarpa AAACTTTAATGGGTTATTACAACTATAAGAAGTGTGCATGAGTTTTTAGACTTTGAGCTAGAATTGCGCA
M118F07 BU868664 TF, MYB P. trichocarpa AGAATTCTGTACCAACACTAGATATTCTCAAAAAGGCTAGCCCTTTCAGGGAGTTCGTATCTTCACCGAA
M120B06 BU868703 Ubiquitin P. trichocarpa AGAGCTAATCTACTAGGGCATGCGGTGGTAGTAGGGTCATAGGATTGTTGGCAGTGAACATATCTATTCG
M122B12 BU868794 translation initiation, eIF-5A P. trichocarpa CTGGGTTTTTTTTATTGTTAGTGTTTTCTAGTTCTCTTGATCCATCGCCGCCATGTCTGATGAGGAGCAT
M124B09 BU868951 TF, 1B3 DNA binding, PEST domains P. trichocarpa GCTAATGTTTCACAAGTGGCCAATGAATCGGCACGAAATGTATTTGCTCAATACAACGAGCATAAGAATT
M125D02 BU869042 TF, homeodomain P. trichocarpa AAGTCTAAGCAACTCGAAAGAGACTACAGCATGCTACGAGCTAATTACAACAGCTTGGCTTCCCGGTTTG
M127F08 BU869233 translation elongation factor eEF1Balpha P. trichocarpa ATGGGATGATGAGACAGACATGGTGGCGTTGGAGAAGGCAGTTAGGAGTATTGAGATGCCCGGTCTCTTT
M129E09 BU869391 TF, MADS box P. trichocarpa TCCAGGATGGATGCTTTGAGTTTCGTGCTCTTCATTGCTCATAAAGGAACACCTACTATGTAACTTTCTC
PCEN-L Signal transduction, PBP Signal transduction, PBP P. trichocarpa GTCATGACAGACCCTGATGTTCCTGGTCCTAGTGATCCATACCTCAGGGAGCACCTACACTGGATAGTAA
PHYA AF024544 Signal transduction (red light receptor), Phytochrome P. trichocarpa AGAACTTGAAGCAGTGACTAGTGAGATGGTCCGTTTAATTGAAACAGCTACAGTGCCAATTTTGGCAGTT
PHYB1 AF024545 Signal transduction, Phytochrome P. trichocarpa GCATATGGAGTTCAAGTATGCTCTCCTCAACTCTTTTGCATGTCTTCCTCCTGAATTAGTTCAAGACATG
PHYB2 AF024546 Signal transduction, Phytochrome P. trichocarpa ACAGATATTGAAGATCATACGAGACATTGATCTTGAGAGCATTGAAAATGGTTCACTGGAGCTTGAGAAG
PMFT Signal transduction, PBP, Phosphatidylethanolamine-binding Signal transduction, PBP, Phosphatidylethanolamine-binding P. trichocarpa TCATTTCAACACTCGACTCTATGCTGCTCATTTGGACCTGGGCCTGCCTGTTGCCACCGTCTACTTCAAT
PTAG1 AAC06237 TF, MADS-box, AGAMOUS homolog P. trichocarpa GCTACATGTATGCTAAAAAACCTGAAGTAGCGTAAATCATATTTGTCTGGGTGGGAGGGCCTAGTACTCT
PTAG2 AAC06238 TF, MADS-box, AGAMOUS homolog P. trichocarpa CAACCATTTGACTCTCGGAACTATTCTCAAGTTAATGGATTGCCGCCTGCCAATCATTACCCTCATGAAG
PTAP1-1B AY615964 TF, MADS-box P. trichocarpa TGCTAAAAATGTAGTTTTTGGTTCGTTATGAAATTAGATTATATATATATACGCACCTTGTTATAACTAA
PTAP1-2A AY615966 TF, MADS-box P. trichocarpa TGTTGTTGTTAAAAGTTGTATCTGAATCAATTAAGAAGACTCCTACAGCTATATAATTTTCATAATATAT
PTB2 AAG45501 TF, teosinte-branched-like P. trichocarpa AATTTCATGACCACCCCGCATGCCCTAGAACCAAACTTAAGTACAATGATCATGACAACATTAAACGCCC
PTBF1 AF288616 TF, leucine zipper P. trichocarpa x P. deltoides TCTTCCCACTAAAGACGCTGGGATGTTGGGACAGATAAATGCGAGTGAAATAGCATTTTCTAGTCTTTTT
PTCO11 TF, CO(C2C2 zinc-finger, B-box) TF, CO(C2C2 zinc-finger, B-box) P. trichocarpa AAGGTTCGCTAAACGTACAGATACTGAAGTCGAGGTTGATCGAAGCAGTCTTTATGGATTCGGTGTCGTT
PTCO12 TF, CO TF, CO P. trichocarpa AATGTTGTTGTATATAATTAAGGTGGAAGCCTTGAATTTGTACACGTTTTTATGCAGTAATGAGTTTTGT
PTCRY1D Signal transduction (blue light receptor), cryptochrome Signal transduction (blue light receptor), cryptochrome P. trichocarpa GAGGGTTACAAATTTGACCTAAATGGAGAATATGTACGCCGGTGGCTTCCTGAACTTGCTAGGCTACCAA
PTD AAC13695 TF, MADS-box P. trichocarpa GAGGTCGACCTTCCAGCTCTTCAGACATCTTATCTAAATGCGTGTGCTAACTAGAGATGCTATCTAATAT
PTID1L1A TF, C2H2 zinc-finger TF, C2H2 zinc-finger P. trichocarpa TATGTTTGTCCAGAACCTTCATGTGTCCATCACAATCCGGCTCGAGCATTAGGCGATCTTACAGGGATTA
PTID1L3 TF, C2H2 zinc-finger TF, C2H2 zinc-finger P. trichocarpa ATCTATGCCGTTCAATCAGATTGGAAGGCTCACTCTAAAACCTGTGGAACAAGAGAGTATAGATGTGACT
PTID1L4 TF, C2H2 zinc-finger TF, C2H2 zinc-finger P. trichocarpa GTTCAATCAGACTGGAAAGCTCACTCTAAAATTTGTGGCACAAGAGAGTATAGATGTGATTGCGGTACTC
PTIR1 AF139835 Post-translational regulation, F-box P. tremula x P. tremuloides CCTTGAAAACGTCTTAGAAAACGTTCTCTGGTTCCTAACCTCACGTAAGGACCGAAACGCTGCGTCATTG
PTLF O04064 TF, unique P. trichocarpa AGGCAATTGCTCTCTGGTGATAATAATACAAATACTCTTGATGCTCTCTCCCAAGAAGGTTTCTCTGAGG
PTPGM Starch metabolism, phospho-glucomutase Starch metabolism, phospho-glucomutase P. tremula x P. tremuloides TTTTCTTTTTGTCGCCTTACCAAAAAAGGCAGGAGTACGATTTACTAAAACACGCCGATCCAAAGTTTTG
PttGA2-OX P. tremula x P. alba P. tremula x P. alba CAGCGAGAGACTAGTAGCTTGGGGGGGGGGGGTAATGGTAGCACTGTAGTTTAGCCGTTAGTGTAAAATT
PttIAA1 AF373100 Signal transduction, AUX/IAA gene family P. tremula x P. tremuloides TATTGTCTTGCTTAATAATGACCATCATTATTGTTTCTAGCTGGCTAGGTTGTCGAGAGCGTGTTCTGTC
PttIAA2 CAC84706 Signal transduction, AUX/IAA P. tremula x P. tremuloides TTGGGAGTGCAACTGCAATTCTATGCGTCGAGAGTCTGGATCGTTTCCTGTTTCGCACAGGACTTCAGTT
PttIAA3 CAC84707 Signal transduction,aux/IAA P. tremula x P. tremuloides TGTTGAGGATGATAGAACAAAAGTTGGTCTTTTGTTGTAAATTAAGGATTTTCAGAGTTCATCAAAAAAA
PttIAA4 CAC84708 Signal transduction,AUX/IAA P. tremula x P. tremuloides TTGACACATATATAATATGGCGAGTCGAAAATAAATAGGTAGTGGATAGCTAGGTAAACTCTATATCAAG
PttIAA5 CAC84709 Signal transduction,AUX/IAA P. tremula x P. tremuloides AAAGTAATTAACGGTCCTCAGCGGCTTTGTGTTGGATTTTGGTTGCTGTATGGTCTTATTATACTATTTG
PttIAA6 CAC84710 Signal transduction, AUX/IAA P. tremula x P. tremuloides GCCTTGCATCCATGTATGAAGACTAGCAGGCAAGGCACTTGCGCAACATGGATGGATCAGTAGTGGTGTT
PTTPIN1 AF190881 Signal transduction, polar auxin efflux carrier, PIN1 P. tremula x P. tremuloides AGAAAAACACCTATGATATTGGAATCCATGGAGACCCTATTTAGGCTACTAGGTAGCGCATGGAAAAGTT
PTTPIN2 AF515435 Signal tranduction, auxin efflux carrier, PIN1 P. tremula x P. tremuloides GAGCTCCGACGAGCATGGCATCGCAGGAGCTGATGAGCAACAATTAGTTATTACAGTAGTAGTACCTAAC
PTTPIN3 AF515434 Signal transduction, auxin efflux carrier, PIN1 P. tremula x P. tremuloides TGCTGGTCGTGTGTCACATCTGGCAGTAGCATTGATTACTGCGCCAAAATATATGTTCTTATAACAAGAG
R01B05 CA821929 Transcriptional regluation, DNA (cytosine-5-)-methyltransferase P. trichocarpa x P. deltoides TTCAGACCAGATGATATTTCACCTGAAAAGGCATATTGTTCTGATATTCCGTGAGATATATTATAGTGAA
R02H01 CA822027 ELONGATION FACTOR 1-ALPHA P. trichocarpa x P. deltoides GTTTGGAACGGTCCCAATTGGTCATGTGGAACTGGTGCATCAAGCCTGGACCAATTGGAAATTTCAGGCC
R07C07 CA822366 TF, chitin-inducible gibberellin-responsive protein; GRAS protein/scarecrow-like P. trichocarpa x P. deltoides AGAGTCATCAGGCGCTAATATTTATCGTACCCTTAAGTGCAGGGAGCCTGAAGGCAAGGACTTGCTGTCT
R08A10 CA822419 TF, AP2 P. trichocarpa x P. deltoides AGAGAAGTGAATTTGAAACGGAAATGGGGAAAGACAATGAGTTCTTGGATAATATTGTAGACGAAGAGTT
R15C07 CA822886 TF, GRAS/SCARECROW P. trichocarpa x P. deltoides CAATGAGTGGAAACTCGATGGCTCAAGCACAACTTATATTGAACATGTTCCCTCCTGCTCATGGCTATAA
R22G04 CA823228 Argonaute (AGO1)-like protein P. trichocarpa x P. deltoides TTTTCAGCAGATGATCTGCAGGAACCTGTGCATTCCCTCTCATATGTATACCAAAGAAGCACGACTGCCA
R22G10 CA823232 FPF1 P. trichocarpa x P. deltoides AGAACCGTAATATGTTTGAAGTAAGGGATATGTAGTACGTTGATTACGTACGTCCTCATATATAGTCCTT
R24E07 CA823338 TF, GRAS/Scarecrow P. trichocarpa x P. deltoides TGATCTATGATGCTACCTAGCTCGAGAGGAACCTTATGGAGTTTTAGACTTGCAGTTGGTAACTACCATC
R26F09 CA823471 TF, AP2 P. trichocarpa x P. deltoides GGAAAAATCTATACAGAGGTATAAGGGCAACGACCTTGGGGTAAATGGGCAGCTGAGATTCGTGACCCAA
R29F11 CA823676 FPF1 P. trichocarpa x P. deltoides AGTGAGGGATATGTAGTGCGTTAAGTACTCATATATAGCCCTTTATTCATGTTTGTCTGCATTTTAGTCC
R33C03 CA823904 polyubiquitin P. trichocarpa x P. deltoides CTCCGTCTTCGTGGAGGCATGCAGATATTTGTCAAGACCTTAACAGGGAGGACCATTACTCTAGAGGTGG
R34B09 CA823967 TF, homeodomain P. trichocarpa x P. deltoides ACAATCTCTACAAAGTTTGACTGGCGTATCTCCTGGGGAAGGCACCGGTGCAACTATGTCTGATGACGAA
R34G04 CA824001 Actin P. trichocarpa x P. deltoides TTATGGCCGGGGACAGCGAATGAAGAAAGAAACACAAAGAACAATTACAGTTATTCTGAACGGTGAGAGG
R35H10 CA824066 TF, GRAS/Scarecrow P. trichocarpa x P. deltoides TGGAGGTAGGATATACTATATAGTTGTATTAATTACATATACTTTTCATAGGTGGGGATGGTGCATTACC
R43C04 CA824489 Transcriptional regualtion, WD-40 repeat P. trichocarpa x P. deltoides GATCATGTGTATGCCTCTTGTTCTGTGGATGGGCATATTGCAATATGGGATGCGCGTCTGGGGAAGTCAC
R43G01 CA824511 TF, AP2 P. trichocarpa x P. deltoides AAGGCGATGGGGCGGAAAGTTTACAGGGAGTTTCGAGTGGGGTATGTTATCAAACATCTGGTGTGTGGAC
R46E01 CA824677 TF, GRAS P. trichocarpa x P. deltoides ATTCAATATGCTGATTCGAGATATGATGCGTGATCTAGTGAAGCAGGTGGGCAGTGGACTGTCTTCCAAG
R48C03 CA824775 Argonaute (AGO1)-like protein P. trichocarpa x P. deltoides AAGGCGATACGAGAGGCATGTGGCACCCTGGAAGAAGGATATAAGTGCCTCGGGTTACCTTTGTGGTATT
R49E04 CA824857 Post-transcriptional regulation/ RNA-binding, CCHC zinc fingern P. trichocarpa x P. deltoides TGATCAATTTGTACATAAGGTGGAGCAAGTTGCCGCTACGAAACGTGCGAAGATGTGTGTACGAGAATTG
R50C10 CA824915 Transcriptional regulation. nucleosome/ chromatin assembly factor group C, WD-40 repeat P. trichocarpa x P. deltoides TTTCTCTATGACTTCGTTATCTCTCACCCTCTCGAGTGGCCATCTCTAACCGTCCAATGGGTACCTCTCG
R51DF126P TF, Bzip TF, Bzip P. trichocarpa x P. deltoides ATCCTGATGATATTGTCTCCAAGAAACGGAGAAGGCAGTTGAGAAATAAGGACGCGGCAGTGAGATCAAG
R54A05 CA825137 TF, C2H2 zinc finger P. trichocarpa x P. deltoides ACCAAACTACTTCCTGTACAACTACTTCTGCCACGACAACACCCGTGTCTAACGGAAGTGGCAGGGTTCA
R56B07 CA825263 Translation initiation, eIF3p40 P. trichocarpa x P. deltoides TTGTTTTCAAACAGTGGAATTGATCGAGGCATTTATGAATTACCAGGAAAATATTAGTACGGTGTGTTTG
R59E12 CA825474 cyclophilin P. trichocarpa x P. deltoides GAATTTCATAAAGAAACATACTGGGCCTGGAATTCTATCTATGGCAAATTCTGGGCCTGGCACTAATGGG
R59F10 CA825478 TF, CONSTANS P. trichocarpa x P. deltoides ACAACCTATATAACTCTCCGAGCTCTGTCCCTTTCATGGCCGATACCCAATACGGTGTCGTTCCCTCGTT
R63D08 CA825614 Translation initiation, eIF-4b P. trichocarpa x P. deltoides TTCTCCGTTATAATTTTGCGAGTTTTGCCAGGACTCTTGCTATAGTAGAACAGTGTTGAGACAATTTTGG
R65B04 CA825708 TF, NAC-domain P. trichocarpa x P. deltoides TACAACATCCGGGTACTGGAAGGCCACAGGCTCTCCTGGTTATGTTTACTCGTCGGACAATCGTGTGATT
R67C05 CA825769 TF, AP2 P. trichocarpa x P. deltoides ATTGACGGAGAGTACTGGGTCAGGTGGATCTTCGCCTTTGTCGGATCTGACGTTTCCGGATTTTGAGGAA
R69F12 CA825916 TF, AP2 P. trichocarpa x P. deltoides AATAGATACGGGACATGCCATTTTTTGATATGGCAATGAGTACGAGTACGAGTAATCACCCCACAGAGTA
R70F11 CA825986 Post-transcriptional regulation/ RNA-binding, zinc finger P. trichocarpa x P. deltoides TGCATCAAGCTTTGTAGTGTTCTAGGATCAACAAAGCCTAAGACTTTTAAACTTTCTCATCAAAACATGG
R71A05 CA826000 FPF1 P. trichocarpa x P. deltoides TAATTTCCCAGTGTGTAGGAATAATAATTGGAACAAGGTTCAGGTCGTTCCTTCGTTGGGTATTTACTAA
R73H10 CA826180 transcriptional regulation, histone acetyltransferas P. trichocarpa x P. deltoides TGTTGGGTGTTTACTGCGGTGTATGCGTTTTTATCATTACCCCGACAGCACACGTATTGCGGCTCAGTCA
R74C06 CA826202 TF, homeodomain P. trichocarpa x P. deltoides AAGAAGAGAGGCATTGTCTCTTTGTACTCTATTTTCTGACTTGGAACCAAAGCTCCTTATCACTCTAGAA
R74E10 CA826218 TF, AP2 P. trichocarpa x P. deltoides GATGTGGGATGGGCCGTTTTTGGATATGTTAATGAATACGGGTACGTGTAATCACTCCACGGAATATGGG
R-AP2 TF, AP2 TF, AP2 P. trichocarpa x P. deltoides TGTAAATAATAAGGCTACATGTTAGGGAGTTTCATCTCTACCAAGATATTGGTTTACCTCTATTATGAAG
UA13CPF12 BU817168 Starch metabolism, pyruvate phosphate dikinase, PEP/pyruvate binding domain P. tremula AACTTAACAGAAGGCAGTCCTTCACCTATAAAGTTGGTCAGAAAGGAGTTCAGTGGCAGATATGCCATAT
UA35CPA11 BU818819 TF, GRAS P. tremula ATTCTTCAGATAACTTCTATGAGACCTGCCCTTATATGAAATTCGCTCACTTCACGGCCAATCAAGCAAT
UA35CPG02 BU818875 Polycomb P. tremula TGCGCGTCATCAATGCCAGCAATGAAGAGATACACAAGAGTGGTGTAGGGCATGGGGACTCGATAAATGA
UA52DPC04 BU820187 TF, C2H2 zinc finger P. tremula CGTGTCTATGTGTGTCCAGAGTCATCTTGTGTACATCACAACCCAGTTAGAGCTCTCGGGGACCTTACTG
UA52DPD03 BU820198 TF, C2H2 zinc finger P. tremula GAAGGTCTATATATGCCCAGAAAAGACCTGCGTGCACCACGATTCATCTAGAGCTCTCGGAGACTTAACT
UB10CPB06 BU820432 Signal transduction, LRR protein kinase P. tremula GATTCAGACCTTGGGCAGGATTAGGCACCGACACATTGTTAGATTGTTGGGGTTCTGCTCTAACCACGAG
UB10CPB07 BU820433 Transcriptional co-regulator, LIM-domain binding P. tremula ATGGTATGGCTAATGTAAATAACTCACTCAACACTGCATCTGCAACTACCTATGCCAGCGCCCGAGAAAC
UB10CPF10 BU820482 Transcriptional regualtion, ploycomb group; VEF P. tremula TTCATCGTTGTCTCATATCATTCGGTTGAGGGCAGGAAATGTGATTTTCAACTATAGGTATTACAATAAT
UB11CPH11 BU820600 TF, AP2 P. tremula GCTGCCCTCAAGTACTGGGGACCTTCAACCCATATAAATTTTCCGTTAGAAAATTACCCGGAAGAACTTG
UB18CPG04 BU821074 TF, MADS-box P. tremula CAAACTCAAGCATGGGGCAAGTGATTGAAAGGCGCAATCTGCATCCAAAGAACATCGACACGCTCGATCA
UB27CP09(F131P66Y) BI139437 unknown P. trichocarpa AATGAAACACCGTGGGGAAACAAACTTTTACTTGTGTGAAATCAATCGCAATATGGTAATTGATGCTACT
UB28CPA08 BU821799 Signal transduction, pseudo-response regulator P. tremula ATCTTGTTTTAACTGAGGTGGCCATGCCTTGTTTATCAGGCATTGGCCTTTTAAGCAAGATTATGAGCCA
UB28CPB01 BU821803 TF, auxin response factor(ARF) P. tremula AAGTTAGTTGCGGGTGATGCATTCATCTTCCTAAGGGGAGAAAATGGCGAGCTTCGTGTGGGAGTAAGGA
UB36DPH07 BU822399 Transcriptional reglation, p300/CBP acetyltransferase P. tremula CTTCATATCTACCGGTGAATGTAAGGCAAAGGTCACAGCGGCTAGGCTACCCTACTTTGATGGGGATTAT
UB53CPD11 BU823521 Signal transduction, Ser/Thr protein kinase P. tremula TTTGCGTGAGAGAGACCGCTATGAACTGGAAAAGGGACGGCTTATACGTGAATTGAAAAGGATACGAGAT
UB53CPE02 BU823524 Transcriptional regulation, nucleosome/ chromatin assembly factor group C, WD-40 repeat P. tremula TAAGATAGTGGCCACTCATACTGACAGCCCTGATGTTCTTATATGGGATGTCGAAGCACAGCCTAACCGC
UB60BPD08 BU824105 TF, squamosa-promoter binding (SPB) P. tremula AGCAGATAATTGCACCTCTGATCTGACTGATGCCAAGCGATACCATAGACGCCATAAGGTTTGTGAGTTC
UM37TC05 BU879772 Transcriptional regulation, N-acetyatranferase, silencing group B P. trichocarpa GAATCTACCGAATGTCACGGTCATATAACTTCTCTAGCTGTCCTCCGTACTCATCGTAAGCTTGGCCTCG
UM42TF11 BU880195 TF, AP2 P. trichocarpa ACGTGCCTACGATACTGCCGCACGTGAGTTCCGTGGCTCTAAGGCAAAGACTAACTTTCCATATCCATCA
UM43TE12 BU880261 TF, CONSTANS P. trichocarpa GCTGCCTTGTTATGCAAAGCAGATGCGGCATCTCTGTGTACTGCCTGTGATGCAGATATTCACTCTGCAA
UM44TA01 BU880290 TF, homeodomain leucine zipper P. trichocarpa GATGGGGTACATTCCTCACTCTTAGAGGCAGGTGATACTTCACATGTCTTCGAGCCCGACCAATCGGATT
UM53TE12 BU880682 Translation initiation, eIF-6a P. trichocarpa AAATGGGCTTCTTGTGCCTCACACCACCACTGATCAAGAGCTCCAGCATTTGAGAAACAGCCTACCTGAT
UM54TA09 BU880731 Translation inititation, elongation factor 2 (EF-2). P. trichocarpa TCATCAAGTCTGACCCTGTTGTGTCGTTCCGTGAGACTGTCATAGATAAGTCCTGCCGTGTGGTGATGAG
UM54TC12 BU880748 TF, NAC P. trichocarpa AAGCACTTGTATTTTACGCCGGCAAAGCTCCCAGAGGAATCAAAACCAATTGGATCATGCACGAATACCG
UM54TF05 BU880770 ATP synthase beta chain, mitochondrial precursor P. trichocarpa GTTCTTAACACTGGATCTCCAATTACTGTGCCCGTGGGCAGGGCCACTCTTGGTCGCATAATCAATGTCA
UM57TC10 BU880985 Signal transduction, guanine nucleotide-binding protein beta subunit 2. P. trichocarpa GATTTGGGCTTTTGGAGGGCACAGGCAGGTAATCTGATTCGAGCAGAAGGATCGAATCACATGTCTCATT
UM61TC08 BU881322 Transcriptioanl regulation, WD-40 repeat, MSI type nucleosome/chromatin assembly factor C P. trichocarpa TGAATAGGGCACGGTATATACCACAAAACCCATTTATGATAGCTACCAAGACTGTTAGTGCTGAGGTATA
UM62TB07 BU881396 Transcriptional regulation, histone deacetylase P. trichocarpa TGCTATTTCTACGATCCAGAAGTCGGCAATTACTATTATGGCCAAGGTCACCCCATGAAGCCCCACCGCA
UM65TE06 BU881637 TF, AP2 P. trichocarpa TAAGGGGTCAGTCAGTTTTAGATTCTAAGTACTATTAATTATGCTGTCGATATGTATAGTAAGTCGCTCT
UM66TB05 BU881681 Transcriptioanl regulation, PHD-type zinc finger P. trichocarpa CTTTAACGTTTTAAAGTTGATCAGAGCCAGTTGCCTACTTTAGTCAATGAATTCGAATGACTGCAGATTG
UM67TB05 BU881759 translation initiation, eIF-1A P. trichocarpa CGGCGGGGCCTGATTGATTTTCTTTTTCTATCTATCTATCTATCAGCTTCCTCGCTCCTCTCTCACCTTA
UM67TE05 BU881786 TF, homeobox-leucine zipper P. trichocarpa GCTATTTGGTTTCAAAACAGGAGGGCTAGATGGAAGACTAAGCAGTTAGAGAAAGACTACGAGGTCTTAA
UM69TD03 BU881923 TF, MYB P. trichocarpa AAGTGTCAGGAATTGAATCTTGAGCTGAGGATATGCCCTCCCTATCAGCACCCAACTCAGTCAATGGAGA
UM69TF07 BU881946 TF, NAC (no apical meristem) P. trichocarpa CTCCACGAGGGAGCAAAACGGATTGGGTCATGAATGAGTACAGATTGCCTAGCAACTGCTATTTATCGAA
UM77TC04 BU882460 Post-transcriptioal regulation/ RNA-binding, C3H zinc finger P. trichocarpa TGATGAGCCTGATGTATCTTGGGTTAATACATTGGTTAAAGATGTCCCCCCTGCTGGAAGCACATTTTTT
UM82TH11 BU882839 TF, MYB P. trichocarpa AAGCTGATTCTTTCGGCTCAGGAAGTGGCCATTCTAAGGGTGCTGCCCATATAAGCCACATGGCTCAATG
UM83TC03 BU882863 TF, AP2 P. trichocarpa CTCTAGATATCTTCTAAATGTACAGACACTCGGATGGCACAATGCATGGACTGTGGACTTCATGACTCCC
UM83TF04 BU882889 TF, MADS-box P. trichocarpa AATGCTACAGAATTCTAACAGGCACTTAATGGGCGATGCTGTAAGTAATTTATCTGTGAAAGAGCTTAAG
UM89TG10 BU883381 TF, MADS-box P. trichocarpa ATGTATTTTCTAGATATTCTATGTTTATTTCGCTAGCAGAGACGTTTATTATCCTCTTATGTCTAACATT
UM91TD06 BU883487 TF, AP2 P. trichocarpa TGGAGAAGTATCCTTCAGTTGAGATTGACTGGTCATCTATCTAAGTTCTAAATTATGATTATGTAATCTT
UM93TD04 BU883572 TF, MYB P. trichocarpa CAATTAAATAGTACTGTACAACAGCTACAGTTTATACGATTTTCTTAGACATGAGGCAGGAATTCAGTTC
V001E09 BU875027 cyclophilin; peptidyl-prolyl cis-trans isomerase P. trichocarpa TGTTGCTGACTGTGGTCAACTCTCTTAGAGTCCCTTGGTTGACATGTCGTTCGGGTGGTGTCTTTGTTTC
V001G07 BU875049 nucleosome/ chromatin assembly, histone 3 P. trichocarpa TAGATATTTCTGGGTAGATGGACAACTCTTATCTCTGTTTGTATCTTCTAGGTATCATAAGTCTATTTCC
V002G11 BU875143 S-adenosylmethionine synthetase P. trichocarpa GACAAGAAGAGGAACATCATTTTCTTTCAAGCAGAGCAGCAACTCTACTCTTTCTCCCTAATCTCTCAAG
V003A12 BU875165 TF, MADS-box P. trichocarpa AGTATCCACAGGCAAGTTGGGGATTCAAACTTCGAGGAGCTGACCTTAAGCGACCTAGAACAAACGGAGA
V006H03 BU875423 Polycomb transcriptional repressor, enhancer of polycomb-like protein P. trichocarpa CAGCTGTAACCGTGAAGCAAGAGTTTAGACGGCGGCATACACCACTTGGATGGCTCAATAAAATGGACCC
V006H09 BU875429 nucleosome/ chromatin assembly, histone 2A P. trichocarpa CTCACATTTCGGTTCGACTATTTGTTCGAAAAGGGGCAATCAATGGCTGGCAGAGGCAAAACCCTAGGAT
V007C11 BU875452 TF, MADS-box P. trichocarpa CTTACGGCCGGGGACTCCTTTAAACTTCTAACTTTCTCTTTCTTCAAACTTTTGTTGTTCTCTCTATTAT
V007E07 BU875471 TF, PHD zinc finger P. trichocarpa GCTCCCCACAATATTCGAGGCCGTGTCTGGAAATGTTAAGCAACCTAAGGACCAAACTGCCACTCACAAC
V008A10 BU875511 Transcriptional regulation, nucleosome assembly factor group A, NAP1 P. trichocarpa GCTACAGAGTTTGACTGGACAGCACTCTGAATTGCTCGAGAACCTATCTCCGACTGTTAGGAAGCGTGTT
V008B11 BU875524 Post-translational regulation,ubiquitin activating enzyme, ThiF P. trichocarpa ACCAAATACGATCGCCAACTCAGTTGGCGGAAGACTCGATGATAAAGCTCGATAAAATCTGCAGGGAGGC
V009A10 BU875600 tubulin beta-6 chain P. trichocarpa CTATGGACAGTATCAGGACCGGTCCATATGGGCAGATTTTCCGGCCTGATAACTTCGTTTTTGGGCAATC
V009B10 BU875611 Transcriptional regulation, histone deacetylase HD2 P. trichocarpa ATGATGAATCTGACGATGACGATTCTGATGACGATTCTGATGAGGATGATTCAGGCGATGGATCCGAGGG
V009G10 BU875666 TF, MADS-box P. trichocarpa GCAACACAAACAAGCAGACAAGCGAACTGAACATGGAGCAACTGAAGGGCGAAGCAGCTAGCATGATAAA
V012F11 BU875887 TF, MYB P. trichocarpa GCTCATGCCAAGTATGGTAATAAATGGGCTACCATAGCAAGACTCCTCGATGGACGTACGGACAACGCAA
V012H04 BU875916 Transcriptional regulation, arginine methyltransferase P. trichocarpa AAACCAGCGCCGATTATTACTTCGATTCTTACTCTCACTTTGGTATTCATGAACAAATGCTGAACGATGT
V012H06 BU875918 TF, homeodomain P. trichocarpa CAAGACAAGTCGCTGTTTGGTTCCAAAACCGCCGTGCCCGGTGGAAAACCAAGCAATTGGAGAGAGATTA
V015E04 BU876053 Transcriptional regulation, arginine methyltransferase P. trichocarpa TGGTGGGCTGACATCGATGCTCAAACTGCTACCTGTTAGCAGGATGTATTTGGAAACCTGCATCTATTTC
V016C11 BU876112 TF, MYB P. trichocarpa GCAAAAGTTGCAGGCTTAGATGGACTAACTACCTCAGACCAGGAATTAAGCGAGGCAACTTCACACCCCA
V016F11 BU876142 TF, SEP3-related MADS-box P. trichocarpa AGAAAGGTTGATGGAAGGTTACGAAGTAAATTCACTCCAGTTGAATCTAAGTGCAGAAGATGTGGGTTTT
V017G04 BU876211 TF, AP2 P. trichocarpa CAGTGATACAACCGTTGGATCTTAATCTCGGTCCTGCTGTATCCACCGTGAGATTGCCGTTTCAGCCGAT
V020F08 BU876433 Transcriptional regulation, histone deacetylase P. trichocarpa TGTTGTTGAGAGAATTGACTAGTCTAATGTGCTTGACCTTGTGAAGTCTGGGGCATGACTCGACATGAAT
V021F11 BU876515 TF, MADS-box ; AGL20 P. trichocarpa AGCTCTATGAATTTGCAAGCACAAGCATGCAGGAGACCATTGAACGTTATCGAAGGCACGTGAAAGAAAA
V025A02 BU876760 Transcriptional regulation, SNF5 P. trichocarpa CAATCCATACAGACACAATTGGCCGAGTTTCGATCCTATGAAGGTCAAGATATGCTGTACACTGGAGACA
V025E01 BU876802 Transcriptional regulation, DEMETER; DNA Glycosylase Domain P. trichocarpa AGAGCACCCCGACCTCTCAAGGCCAGATTACACTTTCCAGTAAGTAGGTTGGTAAAGACAAAGAACGAGA
V031H01 BU877253 Signal transduction, response regulator P. trichocarpa CATTGAAATTAACATGATCATTACAGATTACTGTATGCCAGGAATGACAGGCTACGATCTCCTAAAAAAG
V032H12 BU877347 Alpha-3 tubulin P. trichocarpa TGGTTTGGGGTCTTTGCTGTTAGAACGCTTGTCTGTTGATTACGGAAAGAAGTTAAAGCTTGGATTCACC
V037B10 BU877632 Transcriptional regualtionm PHD zinc finger P. trichocarpa AGGAAAAGGCTGTTCAGCCTGATCAATGATCTGCCTACTGTCTTTGAAGTTGTAACAGAAAGGAAGCCTG
V037D09 BU877646 TF, C2H2 zinc finger P. trichocarpa GCAAGCCACCCGCCGCCTGGCTTTAGCTTCCTATGTTACCATACCAAATTCCATGTTCTCGACGTTTATT
V039F10 BU877824 Transcriptional regualtion, polycomb, ESC P. trichocarpa CTTTAGTTGACTGGTTTAAGGCTAATGTAACTTATTTGGAATTCTAACAGCTATTTGACCCGTGATTAGT
V041C10 BU877951 Transcriptional regualtion, helicase, SNF2-N P. trichocarpa AAACTCGAACCAGCATTTACTGCCACACCCCAAGTTGATTCATCGCAGATGCAATATCCACATGCAAATA
V047A09 BU878423 Signal transduction, G-proein beta family P. trichocarpa TTGTTAAATTCTCGCCTAATGGAAAGTTCATTCTCGTTGCTACTCTTGATAGCACTCTTAAACTTTGGAA
V049F05 BU878632 Transcriptional regulation, PHD zinc finger protein P. trichocarpa GAACTTACAGGATGCGCATTATGCAGAGGTTATGATTTTATGAGATCTGGATTTGGTCCACGCACAATTA
V049F07 BU878634 Signal transduction, pseudo-response regulator P. trichocarpa AATTCCTTCGGAAACCACTCTCTGAAGATAAACTGAGGAATATATGGCAGCACGTCGTTCATAAGGCATT
V053C07 BU878904 TF, MYB P. trichocarpa TCTACACTTGAACCCGAGTAGCCCATCCGGATCCGATTTGAGCGATTCAAGTATACCCGGCGTGAATTCA
V056C05 BU879121 SET domain P. trichocarpa TTGCAAGTGTTCCACTTATTACCATGCAATGCGTGCTTCGAGGGCAGGATATCGCATGGAGTTGCACTGC
V057G12 BU879250 TF, NAC P. trichocarpa TGATTGGTATTTCTTTAGTCACAAAGACAAGAAATATCCCACAGGGACTAGAACAAATCGAGCTACGGCT
V059D02 BU879372 TF, MADS-box P. trichocarpa CTAGTTCTGGAAGGATGCATGAGTACTGCAGCCCTTCCACTACGGTGGTCGATCTGTTGGACAAGTATCA
V060H07 BU879493 Transcriptional regulation, methyl-CpG binding P. trichocarpa AGATCGGATTAGGACCTCTGGCGTGACAGCTGGCACCGTAGATAAGTATTACATTGATCCTGCCTCAGGT
V061D11 BU879538 nucleosome/ chromatin assembly, histone 4 P. trichocarpa TGAGGGATCGGGTTTAGATTTGCTAATCAGGTTTATTTTAGGTACTGTTTTGTAAGTATAAGTGCGTGAT
V063A06 BU879671 SET domain P. trichocarpa AAAATTTGGCTGTTACACTTGACAAGGTGAGATATGTAATGAGGTGTATATTTGGTGACCCAAAGCTGGC
V063C08 BU879695 Actin P. trichocarpa CCTCTGTCTCCGACTTCAAAAGAATTTGTAGAAAATGGCCGATGCCGAGGATATTCAACCCCTTGTCTGT
V063H06 BU879746 Transcriptional regulation, methyl-binding P. trichocarpa GATGCTAGACCTCTTGAACCTGGTGAAGCAAATCCCCTTAAATGGGTTGGTCCAGGTGATTGTACAGAAC
SR001 X56062 Photosystem I chlorophyll a/b-binding protein A. Thaliana from stratagen
SR002 X14212 RUBISCO activase A. Thaliana from stratagen
SR003 U91966 RUBISCO large subunit A. Thaliana from stratagen
SR004 AF159801 lipid transfer protein 4 A. Thaliana from stratagen
SR005 AF159803 lipid transfer protein 6 A. Thaliana from stratagen
SR006 AF191028 papain-type cysteine endopenptidase A. Thaliana from stratagen
SR007 AF168390 root cap 1 A. Thaliana from stratagen
SR008 AF198054 NAC1 A. Thaliana from stratagen
SR009 AF247559 triosphosphate isomerase A. Thaliana from stratagen
SR010 X58149 PRKase gene for ribulose-5-phosphate kinase A. Thaliana from stratagen
B.Actin X63432 ?-actin Human from stratagen
GapDh NM_002046 Glyseraldehyde-3-phosphate dehydrogenase Human from stratagen
!platform_table_end
^SAMPLE = GSM77557
!Sample_title = fb6a1
!Sample_geo_accession = GSM77557
!Sample_status = Public on Oct 11 2006
!Sample_submission_date = Oct 11 2005
!Sample_last_update_date = Oct 17 2005
!Sample_type = RNA
!Sample_channel_count = 1
!Sample_source_name_ch1 = floral bud from six year old poplar
!Sample_organism_ch1 = Populus trichocarpa
!Sample_organism_ch1 = Populus deltoides
!Sample_characteristics_ch1 = floral bud at age six
!Sample_molecule_ch1 = total RNA
!Sample_label_ch1 = cy5
!Sample_description = wild type poplar floral bud at age six
!Sample_data_processing = GeneXp
!Sample_platform_id = GPL2092
!Sample_contact_name = Jingyi,,Li
!Sample_contact_email = JINGYI.LI at OREGONSTATE.EDU
!Sample_contact_phone = 541-737-8496
!Sample_contact_institute = Oregon State University
!Sample_contact_address =
!Sample_contact_city = Corvallis
!Sample_contact_zip/postal_code = 97331
!Sample_contact_country = USA
!Sample_series_id = GSE3457
!Sample_data_row_count = 217
#ID_REF =
#VALUE = normalized signal intensities
!sample_table_begin
ID_REF VALUE
A001P54Um 5.31
A003P34U 8.62
A009P50U 9.09
A010P29U 4.84
A031P05U 4.45
A039P68U 5.36
A047P36U 9.35
A069P31U 5.81
AF240445 10.54
B014P39U(UB21CPA06) 8.9
B016P21Um 7.96
B020P33U 8.31
C025P36U 7.48
C025P42U 8.74
C036P25U 10.31
C061P33U 8.04
C067P63U 5.54
C092P78U 8.9
F003P03Y 7.97
F011P01Y 6.7
F012P39Y 5.66
F027P14Y 10.57
F028P06Y 6.23
F044P04Y 7.83
F052P94Y 7.67
F066P33Y 9.01
F068P73Y 10.3
F070P70Y 8.62
F093P10Y 8.45
F098P59Y 9.44
F099P36Y 6.74
F100P70Y 4.77
F101P21Y 9.51
F101P86Y 9.86
F103P52Y 4.04
F103P87Y 5.41
F106P90Y 9.47
F110P74Y 9.95
F115P67Y 7.55
F117P40Y 5.1
F117P48Y 10.87
F118P50Y
F119P13Y 8.66
F119P74Y 10.45
F121P83Y 7.11
F128P16Y 5.21
F129P24Y 5.36
F131P79Y 10.04
G070P72Y 6.6
G074P09Y 8.87
G095P48Y 8.83
G105P48Y 8.06
G126P33Y 7.37
G134P12Y 5.1
GA20-OX 4.84
HB1 7.83
HB2 9.34
I012P09P 9.5
I017P76P 8.27
M101C08 12.67
M101C11 13.32
M102E03 7.18
M102E09 11.57
M103H01 11.84
M104E08 9.41
M111B12 11.14
M112C09 10.76
M116D03 11.9
M116E04 8.34
M118F07 7.38
M120B06 11.76
M122B12 11.32
M124B09 7.47
M125D02 9.84
M127F08 12.91
M129E09 12.37
PCEN-L 6.74
PHYA 6.26
PHYB1 8.12
PHYB2 6.99
PMFT 7.75
PTAG1 10.85
PTAG2 10.97
PTAP1-1B 11.38
PTAP1-2A 13.85
PTB2 6.7
PTBF1 5.36
PTCO11 13.09
PTCO12 12.72
PTCRY1D 8.35
PTD 8
PTID1L1A 9.2
PTID1L3 7.07
PTID1L4 9.21
PTIR1 4.45
PTLF 10.62
PTPGM 11.01
PttGA2-OX 7.71
PttIAA1 9.14
PttIAA2 11.8
PttIAA4 6.86
PttIAA5 9.98
PttIAA6 6.54
PTTPIN1 7.69
PTTPIN2 8.72
PTTPIN3 5.54
R01B05 5.94
R02H01 7.87
R07C07 8.25
R15C07 7.58
R22G04 10.36
R22G10 4.36
R24E07 9.95
R26F09 10.48
R29F11 5.58
R33C03 12.59
R34B09 9.04
R35H10 8.98
R43C04 9.36
R43G01 7.72
R46E01 4.91
R48C03 6.04
R49E04 6.12
R50C10 7.96
R51DF126P 10.29
R54A05 8.69
R56B07 9.62
R59E12 12
R59F10 10.93
R63D08 11.03
R65B04 7.02
R67C05 9.34
R70F11 10.31
R71A05 5.58
R73H10 8.64
R74E10 4.91
R-AP2 12.43
UA13CPF12 9.34
UA35CPA11 8.42
UA35CPG02 5.54
UA52DPC04 8.55
UA52DPD03 8.02
UB10CPB06 9.02
UB10CPB07 9.04
UB10CPF10 7.99
UB11CPH11 8.74
UB18CPG04 8.51
UB27CP09(F131P66Y) 8.84
UB28CPA08 7.31
UB28CPB01 8.42
UB36DPH07 5.45
UB53CPE02 8.99
UB60BPD08 7.94
UM37TC05 9.6
UM42TF11 8.54
UM43TE12 9.33
UM44TA01 8.96
UM53TE12 9.54
UM54TA09 12.36
UM54TC12 10.19
UM54TF05 8.19
UM57TC10 8.17
UM61TC08 9.51
UM62TB07 9.12
UM65TE06 11.15
UM66TB05 10.42
UM67TB05 10.24
UM67TE05 7.85
UM69TD03 7.68
UM69TF07
UM77TC04 9.76
UM82TH11 5.91
UM83TC03 8.23
UM83TF04 4.04
UM89TG10 10.73
UM91TD06 8.54
UM93TD04 8.88
V001E09 13.39
V001G07 10.17
V002G11 11.51
V003A12 6.36
V006H03 7.64
V006H09 9.09
V007E07 11.16
V008A10 7.58
V009A10 7.74
V009B10 12.04
V009G10 7.79
V012F11 6.43
V012H04 9.41
V012H06 8.46
V015E04 8.06
V016C11 6.94
V016F11 9.46
V017G04 8.58
V020F08 4.7
V021F11 7.73
V025A02 9.54
V025E01 8.81
V031H01 5.88
V032H12 11.6
V037B10 10.1
V037D09 7.72
V039F10 9.18
V041C10 8.43
V047A09 8.85
V049F05 9.08
V049F07 9.71
V053C07 9.33
V056C05 6.58
V057G12 3.04
V059D02 11.35
V060H07 6.72
V061D11 12.81
V063A06 8.83
V063C08 10.53
V063H06 7.73
!sample_table_end
^SAMPLE = GSM77558
!Sample_title = fb6a2
!Sample_geo_accession = GSM77558
!Sample_status = Public on Oct 11 2006
!Sample_submission_date = Oct 11 2005
!Sample_last_update_date = Oct 17 2005
!Sample_type = RNA
!Sample_channel_count = 1
!Sample_source_name_ch1 = floral bud from six year old poplar
!Sample_organism_ch1 = Populus trichocarpa
!Sample_organism_ch1 = Populus deltoides
!Sample_characteristics_ch1 = floral bud at age six
!Sample_molecule_ch1 = total RNA
!Sample_label_ch1 = cy5
!Sample_description = wild type poplar floral bud at age six
!Sample_data_processing = GeneXp
!Sample_platform_id = GPL2092
!Sample_contact_name = Jingyi,,Li
!Sample_contact_email = JINGYI.LI at OREGONSTATE.EDU
!Sample_contact_phone = 541-737-8496
!Sample_contact_institute = Oregon State University
!Sample_contact_address =
!Sample_contact_city = Corvallis
!Sample_contact_zip/postal_code = 97331
!Sample_contact_country = USA
!Sample_series_id = GSE3457
!Sample_data_row_count = 217
#ID_REF = latform]
#VALUE = normalized signal intensities
!sample_table_begin
ID_REF VALUE
A001P54Um 4.89
A003P34U 8.01
A009P50U 9.16
A010P29U 5.02
A031P05U 5.7
A039P68U 5.99
A047P36U 9.18
A069P31U 5.49
AF240445 10.88
B014P39U(UB21CPA06) 8.56
B016P21Um 7.96
B020P33U 8.4
C025P36U 7.8
C025P42U 9.14
C036P25U 10.27
C061P33U 7.78
C067P63U 6.54
C092P78U 10.17
F003P03Y 8.44
F011P01Y 6.43
F012P39Y 5.62
F027P14Y 10.32
F028P06Y 6.52
F044P04Y 7.73
F052P94Y 7.51
F066P33Y 9.24
F068P73Y 9.14
F070P70Y 8.5
F093P10Y 8.53
F098P59Y 8.96
F099P36Y 6.68
F100P70Y 4.66
F101P21Y 8.64
F101P86Y 10.14
F103P52Y 4.49
F103P87Y 5.14
F106P90Y 9.48
F110P74Y 9.64
F115P67Y 8.18
F117P40Y 4.3
F117P48Y 10.64
F118P50Y 7.44
F119P13Y 8.63
F119P74Y 9.94
F121P83Y 7.61
F128P16Y 5.92
F129P24Y 6.54
F131P79Y 9.96
G070P72Y 6.56
G074P09Y 9.08
G095P48Y 8.84
G105P48Y 8.33
G126P33Y 7.17
G134P12Y 5.62
GA20-OX 5.25
HB1 7.92
HB2 9.27
I012P09P 9.47
I017P76P 8.29
M101C08 12.44
M101C11 13.51
M102E03 7.4
M102E09 11.38
M103H01 11.97
M104E08 9.51
M111B12 10.88
M112C09 11.16
M116D03 11.95
M116E04 8.83
M118F07 7.18
M120B06 11.85
M122B12 11.08
M124B09 6.66
M125D02 9.71
M127F08 12.09
M129E09 12.45
PCEN-L 6.33
PHYA 5.85
PHYB1 8.48
PHYB2 7.53
PMFT 7.91
PTAG1 11.19
PTAG2 10.9
PTAP1-1B 11.37
PTAP1-2A 14.15
PTB2 7.02
PTBF1 5.58
PTCO11 13.22
PTCO12 12.42
PTCRY1D 8.3
PTD 10.43
PTID1L1A 9.38
PTID1L3 6.99
PTID1L4 9.06
PTIR1 3.49
PTLF 10.63
PTPGM 11
PttGA2-OX 7.82
PttIAA1 9.2
PttIAA2 11.91
PttIAA4 6.45
PttIAA5 9.91
PttIAA6 7.39
PTTPIN1 7.9
PTTPIN2 8.61
PTTPIN3 5.25
R01B05 6.14
R02H01 7.68
R07C07 7.99
R15C07 7.89
R22G04 10.53
R22G10 5.4
R24E07 9.86
R26F09 10.67
R29F11 6.02
R33C03 12.75
R34B09 9.15
R35H10 8.78
R43C04 9.23
R43G01 7.68
R46E01 3.08
R48C03 6.33
R49E04 6.66
R50C10 7.95
R51DF126P 10.39
R54A05 8.61
R56B07 9.86
R59E12 12.14
R59F10 10.71
R63D08 11.46
R65B04 7.11
R67C05 9.54
R70F11 10.02
R71A05 4.95
R73H10 8.64
R74E10 5.14
R-AP2 12.44
UA13CPF12 9.45
UA35CPA11 8.51
UA35CPG02 5.08
UA52DPC04 9.02
UA52DPD03 7.83
UB10CPB06 9.26
UB10CPB07 9.03
UB10CPF10 7.86
UB11CPH11 8.93
UB18CPG04 8.57
UB27CP09(F131P66Y) 8.82
UB28CPA08 7.67
UB28CPB01 8.92
UB36DPH07 4.82
UB53CPE02 9.03
UB60BPD08 7.87
UM37TC05 9.35
UM42TF11 8.79
UM43TE12 9.23
UM44TA01 8.87
UM53TE12 9.93
UM54TA09 12.56
UM54TC12 10.51
UM54TF05 8.24
UM57TC10 8.32
UM61TC08 9.61
UM62TB07 9.58
UM65TE06 11.05
UM66TB05 10.17
UM67TB05
UM67TE05 7.85
UM69TD03 7.55
UM69TF07 5.89
UM77TC04 10
UM82TH11 5.82
UM83TC03 8.35
UM83TF04 4.74
UM89TG10 10.73
UM91TD06 8.99
UM93TD04 9.03
V001E09 13.43
V001G07 10.04
V002G11 11.22
V003A12 5.7
V006H03 7.34
V006H09 9.08
V007E07 11
V008A10 7.57
V009A10 8.22
V009B10 12.01
V009G10 7.99
V012F11 5.74
V012H04 9.23
V012H06 8.17
V015E04 7.97
V016C11 5.62
V016F11 9.51
V017G04 8.33
V020F08 5.49
V021F11 8.06
V025A02 9.77
V025E01 8.65
V031H01 6.49
V032H12 11.74
V037B10 10.47
V037D09 7.91
V039F10 9.48
V041C10 8.43
V047A09 9.08
V049F05 9.32
V049F07 9.93
V053C07 9.59
V056C05 6.14
V057G12 3.82
V059D02 11.53
V060H07 7.02
V061D11 11.67
V063A06 8.76
V063C08 10.07
V063H06 7.3
!sample_table_end
--- NEW FILE: GDS100_partial.soft ---
^DATABASE = Geo
!Database_name = Gene Expression Omnibus (GEO)
!Database_institute = NCBI NLM NIH
!Database_web_link = http://www.ncbi.nlm.nih.gov/projects/geo
!Database_email = geo at ncbi.nlm.nih.gov
!Database_ref = Nucleic Acids Res. 2005 Jan 1;33 Database Issue:D562-6
^DATASET = GDS100
!dataset_title = UV exposure time course (ecoli_8.0)
!dataset_description = Time course of UV-responsive genes and their role in cellular recovery. lexA SOS-deficient strains analyzed.
!dataset_type = gene expression array-based
!dataset_pubmed_id = 11333217
!dataset_platform = GPL18
!dataset_platform_organism = Escherichia coli
!dataset_platform_technology_type = spotted DNA/cDNA
!dataset_feature_count = 5764
!dataset_sample_organism = Escherichia coli
!dataset_sample_type = RNA
!dataset_channel_count = 2
!dataset_sample_count = 8
!dataset_value_type = log ratio
!dataset_reference_series = GSE9
!dataset_order = none
!dataset_update_date = Apr 06 2003
^SUBSET = GDS100_1
!subset_dataset_id = GDS100
!subset_description = irradiated
!subset_sample_id = GSM544,GSM545,GSM546,GSM547,GSM548
!subset_type = protocol
^SUBSET = GDS100_2
!subset_dataset_id = GDS100
!subset_description = not irradiated
!subset_sample_id = GSM542,GSM543,GSM549
!subset_type = protocol
^SUBSET = GDS100_3
!subset_dataset_id = GDS100
!subset_description = 5 minute
!subset_sample_id = GSM547
!subset_type = time
^SUBSET = GDS100_4
!subset_dataset_id = GDS100
!subset_description = 10 minute
!subset_sample_id = GSM544
!subset_type = time
^SUBSET = GDS100_5
!subset_dataset_id = GDS100
!subset_description = 20 minute
!subset_sample_id = GSM545,GSM542
!subset_type = time
^SUBSET = GDS100_6
!subset_dataset_id = GDS100
!subset_description = 40 minute
!subset_sample_id = GSM546
!subset_type = time
^SUBSET = GDS100_7
!subset_dataset_id = GDS100
!subset_description = 60 minute
!subset_sample_id = GSM548,GSM543
!subset_type = time
^SUBSET = GDS100_8
!subset_dataset_id = GDS100
!subset_description = 0 minute
!subset_sample_id = GSM549
!subset_type = time
^DATASET = GDS100
#ID_REF = Platform reference identifier
#IDENTIFIER = identifier
#GSM549 = Value for GSM549: lexA vs. wt, before UV treatment, MG1655; src: 0' wt, before UV treatment, 25 ug total RNA, 2 ug pdN6; src: 0' lexA, before UV 25 ug total RNA, 2 ug pdN6
#GSM542 = Value for GSM542: lexA 20' after NOuv vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 20 min after NOuv, 25 ug total RNA, 2 ug pdN6
#GSM543 = Value for GSM543: lexA 60' after NOuv vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 60 min after NOuv, 25 ug total RNA, 2 ug pdN6
#GSM547 = Value for GSM547: lexA 5' after UV vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 5 min after UV treatment, 25 ug total RNA, 2 ug pdN6
#GSM544 = Value for GSM544: lexA 10' after UV vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 10 min after UV treatment, 25 ug total RNA, 2 ug pdN6
#GSM545 = Value for GSM545: lexA 20' after UV vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 20 min after UV treatment, 25 ug total RNA, 2 ug pdN6
#GSM546 = Value for GSM546: lexA 40' after UV vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 40 min after UV treatment, 25 ug total RNA, 2 ug pdN6
#GSM548 = Value for GSM548: lexA 60' after UV vs. 0', MG1655; src: 0', before UV treatment, 25 ug total RNA, 2 ug pdN6; src: lexA 60 min after UV treatment, 25 ug total RNA, 2 ug pdN6
!dataset_table_begin
ID_REF IDENTIFIER GSM549 GSM542 GSM543 GSM547 GSM544 GSM545 GSM546 GSM548
1 EMPTY 0.211 0.240 0.306 0.098 0.101 0.208 0.167 0.190
2 EMPTY 0.045 0.097 0.142 0.107 0.074 0.202 0.019 0.266
3 EMPTY 0.191 0.243 0.312 0.023 0.158 0.261 0.255 0.128
4 EMPTY -0.013 -0.041 0.112 -0.028 0.175 0.111 0.139 0.137
5 EMPTY 0.046 0.101 0.183 0.052 0.115 0.225 0.092 0.051
6 EMPTY 0.097 0.217 0.242 0.067 0.104 0.162 0.104 0.154
7 EMPTY 0.699 1.789 null null null null null null
8 EMPTY 1.026 1.509 -0.585 0.813 0.105 -0.280 1.242 0.336
9 EMPTY 0.816 null -1.322 null 1.327 null 1.242 null
10 EMPTY -0.756 null 2.585 -0.234 2.564 -3.087 0.444 null
11 EMPTY 0.157 -1.036 2.000 1.877 -0.813 3.115 null 0.599
12 EMPTY -1.084 2.608 null 1.614 -1.033 1.138 1.564 1.599
13 EMPTY null null 0.166 null null 1.322 -0.758 null
14 EMPTY -0.406 null 0.628 null -3.802 null 0.757 1.216
15 EMPTY null -1.714 1.794 null null 1.858 2.049 0.932
!dataset_table_end
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