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Platform GPL11201 Query DataSets for GPL11201
Status Public on Feb 01, 2011
Title NimbleGen Daphnia pulex Whole-genome Tiling Array Set (2 of 2)
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Daphnia pulex
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 This is a Daphnia pulex whole-genome tiling array set (2 of 2) in HD2 1-plex format with 2.1M probes, manufactured by Roche NimbleGen.
Daphnia pulex annotated draft genome assembly GenBank accession number: ACJG00000000.
 
Contributor(s) Colbourne J, Choi J
Submission date Nov 12, 2010
Last update date Jun 25, 2012
Contact name Jacqueline Lopez
E-mail(s) jacqueline.ann.lopez@gmail.com
Phone 574-631-1902
Organization name University of Notre Dame
Department Biology
Lab Pfrender Laboratory
Street address 019 Galvin Life Science Center
City Notre Dame
State/province Indiana
ZIP/Postal code 46556
Country USA
 
Samples (9) GSM634881, GSM634882, GSM634883, GSM634928, GSM634929, GSM634930 
Series (4)
GSE25823 The Ecoresponsive Genome of Daphnia pulex: Empirical annotation of the Daphnia pulex genome
GSE25852 Empirical Annotation of the Daphnia pulex genome; Experiment B
GSE25855 Empirical Annotation of the Daphnia pulex genome; Experiment A

Data table header descriptions
ID
DESIGN_ID NIMBLEGEN DESIGN REFERENCE
PROBE_DESIGN_ID NG DESIGN REFERENCE WITH POSITION ID
SEQ_ID CUSTOM SEQUENCE ID
SEQUENCE PROBE SEQUENCE
CHROMOSOME
POSITION
LENGTH

Data table
ID DESIGN_ID PROBE_DESIGN_ID SEQ_ID SEQUENCE CHROMOSOME POSITION LENGTH
SCAFFOLD_9921FS000001034 5724 5724_1_1 SCAFFOLD_9921:1-1248 GATGTTGTTGCTCGTCAGACTCTTATTTTTGCTGTTGCTTCTGTTGTTCTTGATCTTG SCAFFOLD_9921:1-1248 1034 58
SCAFFOLD_70FS000474055 5724 5724_1_3 SCAFFOLD_70:1-733211 GCCCGATACTGGCTATGGAGCAATCTGTTATCCGGATTATATCATATAGTCAT SCAFFOLD_70:1-733211 474055 53
SCAFFOLD_85FS000357910 5724 5724_1_5 SCAFFOLD_85:1-551187 AAATGCATAATTACAAAAATCAAGCATCAAAAATACGAATTTTCCTTCCCAGGCTC SCAFFOLD_85:1-551187 357910 56
SCAFFOLD_74FS000160602 5724 5724_1_7 SCAFFOLD_74:1-640712 AAATTATATTCATTTCCCACCTCTCCCCGAAGATTTCGTGAAATTCAAGAAAA SCAFFOLD_74:1-640712 160602 53
SCAFFOLD_605FS000015035 5724 5724_1_9 SCAFFOLD_605:1-40495 AATCACGAAATTTGTAATCGAAATCAGGCTTAGGAACACACAAGTTTGCCACTACG SCAFFOLD_605:1-40495 15035 56
SCAFFOLD_87FS000412376 5724 5724_1_11 SCAFFOLD_87:1-522205 CAAAAGGCTGGGAAAAAGATCAGGCCGAGAGGCGAGAACGTCGCATTCAG SCAFFOLD_87:1-522205 412376 50
SCAFFOLD_3628FS000000906 5724 5724_1_13 SCAFFOLD_3628:1-6921 AGGGCGGTGTACGCGCGTCGCCGTGCGGCTTCTGTCGACCGTCGATCCAG SCAFFOLD_3628:1-6921 906 50
SCAFFOLD_99FS000018155 5724 5724_1_15 SCAFFOLD_99:1-475394 CTTTTCAACGTGATTTAATTTATGCAAACGGAAACGATTGGCCACCTCCGTCA SCAFFOLD_99:1-475394 18155 53
SCAFFOLD_89FS000028984 5724 5724_1_17 SCAFFOLD_89:1-666227 GACGAGATTTTCACAAGAGTCAAATCGCCAGCATTCCTTACGTGACTCAG SCAFFOLD_89:1-666227 28984 50
SCAFFOLD_89FS000085405 5724 5724_1_19 SCAFFOLD_89:1-666227 AAGTATTTTTTTGACGAACAAATACGAACAAGCAAGTAGAGAAGAAACTCGATA SCAFFOLD_89:1-666227 85405 54
SCAFFOLD_82FS000378377 5724 5724_1_23 SCAFFOLD_82:1-564057 CTTTTCTTCGATGAGCTTTCTTCTAGAATAATTTTGTATGAGGCATTTGCCCCACCG SCAFFOLD_82:1-564057 378377 57
SCAFFOLD_97FS000240859 5724 5724_1_25 SCAFFOLD_97:1-482554 TTTGGGGTATCATTTTATAAATATAAATACAATGCACCCGTTTGTACTTATTGGC SCAFFOLD_97:1-482554 240859 55
SCAFFOLD_80FS000416886 5724 5724_1_27 SCAFFOLD_80:1-560210 CTTTCAAACGATTCATTTTACTAATTGTAAGATGCCACCAATCCATTTTTGACGTGC SCAFFOLD_80:1-560210 416886 57
SCAFFOLD_4658FS000000851 5724 5724_1_29 SCAFFOLD_4658:1-4235 GAAAGGACCCGTCGGGACTCGATGTTGGTCGGTGGTCCATTTGTCTCTCT SCAFFOLD_4658:1-4235 851 50
SCAFFOLD_94FS000286833 5724 5724_1_31 SCAFFOLD_94:1-501917 TTGCATTCTGGACATAATTCAGGAAACGGACACAGCAAACCCGGAGGAGA SCAFFOLD_94:1-501917 286833 50
SCAFFOLD_86FS000313136 5724 5724_1_33 SCAFFOLD_86:1-533890 CCGTCGAGCAGCATTTCTACCAGCTGCAGCAGGTCCAGTCAGCCAAAGAG SCAFFOLD_86:1-533890 313136 50
SCAFFOLD_450FS000000161 5724 5724_1_35 SCAFFOLD_450:1-39900 CGCCAAACGATTTGCCCAGACCGGTGACTTTGAGGAGGCTCATGCCGTGC SCAFFOLD_450:1-39900 161 50
SCAFFOLD_7579FS000000928 5724 5724_1_37 SCAFFOLD_7579:1-1562 GTGATGCCCGACGGCACCACGCGCTTCAGCTACAACGGCCAGCCCATCTA SCAFFOLD_7579:1-1562 928 50
SCAFFOLD_4358FS000031886 5724 5724_1_41 SCAFFOLD_4358:1-35084 GCTGCAGCACCCGCCGGCCTGGATGGGCACGGACGATGCGCAGGAGCTGC SCAFFOLD_4358:1-35084 31886 50
SCAFFOLD_6341FS000033802 5724 5724_1_43 SCAFFOLD_6341:1-34166 ATACTGCGATGGCTCGATGCGATTGGCGGCAAACAGGGCCGCCGTCACGG SCAFFOLD_6341:1-34166 33802 50

Total number of rows: 2060901

Table truncated, full table size 298607 Kbytes.




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Supplementary file Size Download File type/resource
GPL11201_Daphnia_tiling2_HX1.ncd.gz 268 b (ftp)(http) NCD
GPL11201_Daphnia_tiling2_HX1.ndf.gz 120.1 Mb (ftp)(http) NDF
GPL11201_Daphnia_tiling2_HX1.pos.gz 15.9 Mb (ftp)(http) POS

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