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Status
Public on Dec 13, 2012
Title
NimbleGen custom IRHS_Medtr_102K_v1
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Medicago truncatula Manufacturer
NimbleGen
Manufacture protocol
High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology. See manufacturer's website at http://www.nimblegen.com/
Description
A dataset of 119,780 quality-filtered unigenes were submitted for probe design and production of the high-density microarray. One oligoprobe was selected for each sequence, based on highest hybridization specicifity. The Medtr_v1.0 chip contains a total of 102,123 predicted coding genes, transposons and microRNA genes. Annotation is based on the Mt3.5.1 version.
Contributor(s)
Pelletier S Submission date
Dec 12, 2012
Last update date
Dec 13, 2012
Contact name
Sandra Pelletier
E-mail(s)
sandra.pelletier@inra.fr Organization name
INRA
Lab
IRHS
Street address
42, rue Georges Morel - BP 60057
City
BEAUCOUZE
ZIP/Postal code
49045
Country
France
Samples (276)
GSM1082456 , GSM1082457 , GSM1082458 , GSM1082459 , GSM1082460 , GSM1082461
GSM1197702 ,
GSM1197703 ,
GSM1197704 ,
GSM1197705 ,
GSM1197706 ,
GSM1197707 ,
GSM1197708 ,
GSM1197709 ,
GSM1197710 ,
GSM1197711 ,
GSM1197712 ,
GSM1197713 ,
GSM1197714 ,
GSM1197715 ,
GSM1197716 ,
GSM1197717 ,
GSM1197718 ,
GSM1197719 ,
GSM1197720 ,
GSM1197721 ,
GSM1197722 ,
GSM1197723 ,
GSM1197724 ,
GSM1197725 ,
GSM1197794 ,
GSM1197795 ,
GSM1197796 ,
GSM1197797 ,
GSM1197798 ,
GSM1197799 ,
GSM1197800 ,
GSM1197801 ,
GSM1197802 ,
GSM1197803 ,
GSM1197804 ,
GSM1197805 ,
GSM1197806 ,
GSM1197807 ,
GSM1197808 ,
GSM1197809 ,
GSM1197810 ,
GSM1197811 ,
GSM1197812 ,
GSM1197813 ,
GSM1197814 ,
GSM1197815 ,
GSM1197816 ,
GSM1197817 ,
GSM1197818 ,
GSM1197819 ,
GSM1197820 ,
GSM1197821 ,
GSM1197822 ,
GSM1197823 ,
GSM1197824 ,
GSM1197825 ,
GSM1253420 ,
GSM1253421 ,
GSM1253422 ,
GSM1253423 ,
GSM1253424 ,
GSM1253425 ,
GSM1253426 ,
GSM1253427 ,
GSM1253428 ,
GSM1253429 ,
GSM1253430 ,
GSM1253431 ,
GSM1253432 ,
GSM1253433 ,
GSM1253434 ,
GSM1253435 ,
GSM1253436 ,
GSM1253437 ,
GSM1276804 ,
GSM1276805 ,
GSM1276806 ,
GSM1276807 ,
GSM1276808 ,
GSM1276809 ,
GSM1276810 ,
GSM1276811 ,
GSM1276812 ,
GSM1276813 ,
GSM1276814 ,
GSM1276815 ,
GSM1276816 ,
GSM1276817 ,
GSM1276818 ,
GSM1276819 ,
GSM1276820 ,
GSM1276821 ,
GSM1276822 ,
GSM1276823 ,
GSM1276824 ,
GSM1276825 ,
GSM1276826 ,
GSM1276827 ,
GSM1276828 ,
GSM1276829 ,
GSM1276830 ,
GSM1276831 ,
GSM1276832 ,
GSM1276833 ,
GSM1276834 ,
GSM1276835 ,
GSM1276836 ,
GSM1276837 ,
GSM1276838 ,
GSM1276839 ,
GSM1280027 ,
GSM1280028 ,
GSM1280029 ,
GSM1280030 ,
GSM1280031 ,
GSM1280032 ,
GSM1280033 ,
GSM1280034 ,
GSM1280035 ,
GSM1280036 ,
GSM1280037 ,
GSM1280038 ,
GSM1280039 ,
GSM1280040 ,
GSM1280041 ,
GSM1280042 ,
GSM1280043 ,
GSM1280044 ,
GSM1280045 ,
GSM1280046 ,
GSM1280047 ,
GSM1280048 ,
GSM1280049 ,
GSM1280050 ,
GSM1280051 ,
GSM1280052 ,
GSM1280053 ,
GSM1280054 ,
GSM1280055 ,
GSM1280056 ,
GSM1280057 ,
GSM1280058 ,
GSM1280059 ,
GSM1280060 ,
GSM1280061 ,
GSM1280062 ,
GSM1383079 ,
GSM1383080 ,
GSM1383081 ,
GSM1383082 ,
GSM1383083 ,
GSM1383084 ,
GSM1383085 ,
GSM1383086 ,
GSM1383087 ,
GSM1383088 ,
GSM1383089 ,
GSM1383090 ,
GSM2327666 ,
GSM2327667 ,
GSM2327668 ,
GSM2327669 ,
GSM2327670 ,
GSM2327671 ,
GSM2327672 ,
GSM2327673 ,
GSM2327674 ,
GSM2327675 ,
GSM2327676 ,
GSM2327677 ,
GSM2327678 ,
GSM2327679 ,
GSM2327680 ,
GSM2327681 ,
GSM2327682 ,
GSM2327683 ,
GSM2327684 ,
GSM2327685 ,
GSM2327686 ,
GSM2327687 ,
GSM2327688 ,
GSM2327689 ,
GSM2327690 ,
GSM2327691 ,
GSM2327692 ,
GSM2327693 ,
GSM2327694 ,
GSM2327695 ,
GSM2327696 ,
GSM2327697 ,
GSM2327698 ,
GSM2327699 ,
GSM2327700 ,
GSM2327701 ,
GSM4072409 ,
GSM4072410 ,
GSM4072411 ,
GSM4072412 ,
GSM4072413 ,
GSM4072414 ,
GSM4072415 ,
GSM4072416 ,
GSM4072417 ,
GSM4072418 ,
GSM4072419 ,
GSM4072420 ,
GSM4072421 ,
GSM4072422 ,
GSM4072423 ,
GSM4072424 ,
GSM4559866 ,
GSM4559867 ,
GSM4559868 ,
GSM4559869 ,
GSM4559870 ,
GSM4559871 ,
GSM4559872 ,
GSM4559873 ,
GSM5478401 ,
GSM5478402 ,
GSM5478403 ,
GSM5478404 ,
GSM5478405 ,
GSM5478406 ,
GSM5478407 ,
GSM5478408 ,
GSM5478409 ,
GSM5478410 ,
GSM5478411 ,
GSM5478412 ,
GSM5478413 ,
GSM5478414 ,
GSM5478415 ,
GSM5478416 ,
GSM5482011 ,
GSM5482012 ,
GSM5482013 ,
GSM5482014 ,
GSM5482015 ,
GSM5482016 ,
GSM5482017 ,
GSM5482018 ,
GSM5482019 ,
GSM5482020 ,
GSM5482021 ,
GSM5482022 ,
GSM5482023 ,
GSM5482024 ,
GSM5482025 ,
GSM5482026 ,
GSM5482027 ,
GSM5482028 ,
GSM5482029 ,
GSM5482030 ,
GSM5482031 ,
GSM5482032 ,
GSM5482033 ,
GSM5482034 ,
GSM5482035 ,
GSM5482036 ,
GSM5482037 ,
GSM5482038 ,
GSM5482039 ,
GSM5482040 ,
GSM5482041 ,
GSM5482042 ,
GSM5482043 ,
GSM5482044 ,
GSM5482045 ,
GSM5482046 Series (15)
GSE44291 Overexpression of MtABI3 in transgenic Medicago truncatula roots
GSE49347 Transmission of xanthomonads to Medicago truncatula seeds
GSE49350 Medicago truncatula seed development at 21-19°C
GSE51830 Re-establishment of desiccation tolerance in protruded radicles of Medicago truncatula Wt and abi5 seeds
GSE52832 Medicago truncatula seed development at 26/24°C 16 h light/dark
GSE52833 Medicago truncatula seed development at under greenhouse conditions
GSE53002 Medicago truncatula seed development at 14/11°C 16 light/dark
GSE53003 Medicago truncatula seed development at 20/18°C 16 h light/dark in osmotic stress conditions: -0.1 Mpa
GSE53526 Medicago truncatula seed development under different growth conditions
GSE57457 Medicago abi3 mutant analysis
GSE87313 Transcriptome of Medicago truncatula abi5 mutants during seed development
GSE137174 Medicago truncatula seed development under greenhouse conditions
GSE150862 Overexpression of MtHSFA9 in hairy roots of Medicago truncatula
GSE180917 Overexpression of MtABI3 splicing forms by ectopically expressing cDNA sequences in transgenic Medicago truncatula hairy roots generated from an abi3 mutant background (mutant NF6003)
GSE181013 Comparison of genes differentially expressed between Medicago R108 and abi3 mutants (NF3185 and NF6003) during different stages of seed development (16, 24, 32 and 40 DAP)
Data table header descriptions ID SEQUENCE Probe oligonucleotide sequence
SEQ_ID Annotation based on the Mt3.5.1 version
SELECTION_CRITERIA Nimblegen Quality control
Data table ID SEQUENCE SEQ_ID SELECTION_CRITERIA Medtr_v1_000001
GCGTAGAGGCATGCACACTGACCAAGTGTTGTTCCCCTTGAGAATCGAACCCGATATTCC
AC130806_10_1
rank:01;score:064;uniq:00;count:64;freq:08;rules:1;tm:81.1
Medtr_v1_000002
TGTTGCGGTGTTTGATATAAACATTTGGCATCATTATAGTAGTCAAAGTATATTATCTTA
AC130806_11_1
rank:01;score:162;uniq:00;count:65;freq:02;rules:1;tm:71.5
Medtr_v1_000003
TCCATTCTCTGCCCAATAGCATGTTGAAGTTTACCTTGGACGGAACGACCATGAACATGG
AC130806_12_1
rank:01;score:354;uniq:00;count:37;freq:01;rules:1;tm:79.0
Medtr_v1_000004
TTCAACCACAACATGTCATAATTCATCAATTAAGTATAATTTCACAACTACCCATTTTCA
AC130806_13_1
rank:01;score:104;uniq:00;count:64;freq:09;rules:1;tm:71.5
Medtr_v1_000005
GTTTCTGAAAAGGACTGCGCGCCACTGACACAGTCTGCAATGACCAGAAAATTCTGCACT
AC130806_14_1
rank:01;score:376;uniq:08;count:37;freq:01;rules:1;tm:79.7
Medtr_v1_000006
TGTGGGAGGGAGCTTGATCCTGTGCTTGCATAAGTCGAGTCAGCTGCTCCTCGTATAATC
AC130806_15_1
rank:01;score:372;uniq:00;count:37;freq:01;rules:1;tm:81.1
Medtr_v1_000007
TCACTCCATGATTGGATATGAAACTTATATCCATTTACGGAGTATGTATGATATTCAGTG
AC130806_16_1
rank:01;score:355;uniq:00;count:37;freq:02;rules:1;tm:73.6
Medtr_v1_000008
TACTGCAATTTGCAAGGGCCTTGCTCCTGGAAAATTGTCCAGTTTCTAATTGCAATTTGC
AC130806_17_1
rank:01;score:132;uniq:00;count:38;freq:01;rules:1;tm:77.0
Medtr_v1_000009
CAATCCAAGCAACTCAAGTCTCATAATGCACTAAAACAATCAATTCTGGAAGTGCTCGCG
AC130806_18_1
rank:01;score:251;uniq:00;count:37;freq:10;rules:0;tm:77.0
Medtr_v1_000010
TTTTCAGTGAATTGGACTTCAGTGACCATCATATCATCGAATTGATGATCTTCAACAACC
AC130806_19_1
rank:01;score:320;uniq:00;count:37;freq:01;rules:1;tm:74.9
Medtr_v1_000011
ACTTCAAAGCGTAGCACCCCTCGACATCATGACCCAACGCGCCTTGATGAAAATCACATT
AC130806_1_1
rank:01;score:067;uniq:00;count:248;freq:62;rules:1;tm:79.7
Medtr_v1_000012
GAGAACTTGGAAAATATTTCATTCATGTGTTCGATTTGGATTCATTAGTTTCACCAGCGA
AC130806_20_1
rank:01;score:314;uniq:00;count:37;freq:04;rules:1;tm:74.2
Medtr_v1_000013
TGGGTACCATGATCTGGTAGCAGATTGGCTTACACATTTGGGTTCAAGTCTCGAAAGACA
AC130806_21_1
rank:01;score:145;uniq:00;count:69;freq:02;rules:1;tm:78.3
Medtr_v1_000014
TAGAATCAACAAGGGTGTGTATATACGCCTGATCATGAAGTGGTTTGTACCTGCGGAAAA
AC130806_22_1
rank:01;score:415;uniq:04;count:37;freq:01;rules:1;tm:77.0
Medtr_v1_000015
GAATGGCTTCGGGATCGACGCCATTGCACTTAAGCGTATCAGCAAATTGCACGAACACGG
AC130806_23_1
rank:01;score:139;uniq:00;count:51;freq:02;rules:1;tm:81.1
Medtr_v1_000016
TAGCTCGAGGTGCTATCATTCGCTTTGCTTGGATGTTATGCTTCAATACACATTTCAACA
AC130806_24_1
rank:01;score:364;uniq:00;count:37;freq:01;rules:1;tm:76.3
Medtr_v1_000017
TGCGACGCTTTCATCTTCTCCCTGATCACCCTAACTTTCTCCGTAGTCTCATGAACCAAG
AC130806_25_1
rank:01;score:116;uniq:00;count:70;freq:16;rules:1;tm:79.7
Medtr_v1_000018
AACGTGACCTAAACTACAAAGTAGATAAAGGGGCATACACACACACGCACACACACATGC
AC130806_26_1
rank:01;score:347;uniq:00;count:37;freq:02;rules:1;tm:78.3
Medtr_v1_000019
ACTGGTGGATTGGTTGCTACTCCCGACGCAGTAGCGGCATTCGATGCCGCTGTGTTCGGA
AC130806_27_1
rank:01;score:249;uniq:00;count:37;freq:01;rules:1;tm:83.8
Medtr_v1_000020
CCATAGATGTCATGGTTGTAGGGCTCTCTATCTCAGTATTAAGCTCCACAACAGTGTTTT
AC130806_28_1
rank:01;score:358;uniq:00;count:37;freq:01;rules:1;tm:77.0
102123 15154 Kbytes .Supplementary file Size Download File type/resource GPL16373_110912_Medicago_SP_expr.ndf.gz
7.7 Mb
(ftp) (http) NDF
GPL16373_110912_Medicago_SP_expr.ngd.gz
846.3 Kb
(ftp) (http) NGD
GPL16373_110912_Medicago_SP_expr.pos.gz
106 b
(ftp) (http) POS
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