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Platform GPL3353 Query DataSets for GPL3353
Status Public on Oct 24, 2006
Title FHCRC DMEL 4.2 Tiling 2 of 3
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Drosophila melanogaster
Manufacturer NimbleGen Systems Inc.
Manufacture protocol http://www.nimblegen.com/products/chip/index.html
 
Description Fly tiling array using NimbleGen platform (DesignID=2347), chip 2 of 3. FlyBase release 4.2. All of Chr 2R and Chr X with isothermal oligos averaging 50bp. Dense tiling of Chr 2L distal, Bithorax complex (BXC1) and GenBank entries M21017, X51967 and X51968.
 
Web link http://www.nimblegen.com
Contributor(s) Henikoff S, Mito Y
Submission date Jan 11, 2006
Last update date Oct 24, 2006
Contact name Jorja Henikoff
E-mail(s) jorja@fhcrc.org
Phone 206-667-4850
Organization name Fred Hutchinson Cancer Research Center
Department Basic Sciences
Lab Henikoff
Street address 1100 Fairview AV N, A1-162
City Seattle
State/province WA
ZIP/Postal code 98109-1024
Country USA
 
Samples (5) GSM93210, GSM93211, GSM144004, GSM144006, GSM144018
Series (2)
GSE4091 Histone turnover mediates epigenetic processes in Drosophila S2 cells
GSE6234 Histone turnover marks the boundaries of cis-regulatory domains

Data table header descriptions
ID NimbleGen PROBE_DESIGN_ID
CONTAINER Probes are arranged in sets in different containers
DESIGN_NOTE Comment field for data analysis
SELECTION_CRITERIA Information about how the probe was selected
SEQ_ID NimbleGen sequence identifier
SEQUENCE DNA sequence synthesized on the array
MISMATCH Number of mismatches in the PROBE_SEQUENCE. Generally 0 (for the perfect match probe) or 2 (for the corresponding mismatch probe)
MATCH_INDEX Integer number that ties probe pairs together
FEATURE_ID Unique number used to tie together multiple features that compose a feature cell
ROW_NUM Y coordinate of the feature within the CONTAINER holding the feature
COL_NUM X coordinate of the feature within the CONTAINer holding the feature
PROBE_CLASS Experimental or Control
PROBE_ID NimbleGen probe identifier
POSITION Position of the probe within the parent sequence
DESIGN_ID NimbleGen identifier for the desing
X Absolute X coordinate of the feature on the array
Y Absolute Y coordinate of the feature on the array

Data table
ID CONTAINER DESIGN_NOTE SELECTION_CRITERIA SEQ_ID SEQUENCE MISMATCH MATCH_INDEX FEATURE_ID ROW_NUM COL_NUM PROBE_CLASS PROBE_ID POSITION DESIGN_ID X Y
2434_0001_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.39 cluster:108923;probe:01 CHRX AATTTCAAAGTGCTTCGATCACTTGCACTTCCAATAAACTCCTCAATCTCACCTC 0 39746892 39746892 1 1 experimental CHRX00P014358989 14358989 2434 1 1
2434_0004_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000187 37331612 1 4 fiducial CPK6 0 2434 4 1
2434_0006_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000197 37331622 1 6 fiducial CPK6 0 2434 6 1
2434_0008_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000198 37331623 1 8 fiducial CPK6 0 2434 8 1
2434_0010_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000199 37331624 1 10 fiducial CPK6 0 2434 10 1
2434_0012_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000200 37331625 1 12 fiducial CPK6 0 2434 12 1
2434_0014_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000201 37331626 1 14 fiducial CPK6 0 2434 14 1
2434_0016_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000202 37331627 1 16 fiducial CPK6 0 2434 16 1
2434_0018_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000203 37331628 1 18 fiducial CPK6 0 2434 18 1
2434_0020_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000204 37331629 1 20 fiducial CPK6 0 2434 20 1
2434_0022_0001 NGS_CONTROLS upper left fiducial bright FIDUCIAL_UPPER_LEFT TGAGTTGTTTGATAGGATTATTCATAGAGGTCATTACAGCGAGAGGAANNNNNNNNN 0 2000205 37331630 1 22 fiducial CPK6 0 2434 22 1
2434_0025_0001 ISOTHERMAL target_tm:76.00;probe_tm:79.34 cluster:00261;probe:01 CHR2R CTGCAAGTGGCATTGCTCCAGACTGGTGCAGCGTATAGCAGCGAA 0 39267465 39267465 1 25 experimental CHR2R00P000035907 35907 2434 25 1
2434_0027_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.81 cluster:25675;probe:01 CHRX TTCCGCTCACTGACATAGAAACACAAAACAGAGGAAAATGGTAAAAGCAACACAAGAC 0 39663644 39663644 1 27 experimental CHRX00P003128673 3128673 2434 27 1
2434_0029_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.82 cluster:134076;probe:01 CHR2R TCAGGTGTTAGGGCTAGCACGCGCTTAAAGTTGGCCAAAATTAAGCTAATA 0 39401280 39401280 1 29 experimental CHR2R00P017051521 17051521 2434 29 1
2434_0031_0001 ISOTHERMAL target_tm:76.00;probe_tm:78.43 cluster:150037;probe:01 CHRX ATACGGCCATGGCATGGATGTGGGATGCGAATGTGGATGTGGATG 0 39788006 39788006 1 31 experimental CHRX00P019804651 19804651 2434 31 1
2434_0033_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.49 cluster:26990;probe:01 CHR2R CAGCGATGACGTAAAGTTTGAGAAGGTGTAATGCAGTAAGCAGAGGATTTTGAA 0 39294194 39294194 1 33 experimental CHR2R00P003517715 3517715 2434 33 1
2434_0035_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.57 cluster:100835;probe:01 CHR2R TACTGATACCAAAACCGATACCGATGTGCGCTGCAACCACGAATAT 0 39368039 39368039 1 35 experimental CHR2R00P012868755 12868755 2434 35 1
2434_0037_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.71 cluster:30831;probe:01 CHRX TTTTTTTTTTTGCCTCGCATTTCTTTTCTGCAGTGGTTGAGTGCAAATTGCAGTGTGGA 0 39668800 39668800 1 37 experimental CHRX00P003849588 3849588 2434 37 1
2434_0039_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.49 cluster:66530;probe:01 CHRX TAACTCGATTCCCGGACTGACTTTTAGCTAAGCACACATATAATGTTCCGCATT 0 39704499 39704499 1 39 experimental CHRX00P008481363 8481363 2434 39 1
2434_0041_0001 ISOTHERMAL target_tm:76.00;probe_tm:75.94 cluster:118167;probe:01 CHRX ACACGAGGATTGGGACTTTCTGCAACTTCATGTTGCCCTATATTTCCACA 0 39756136 39756136 1 41 experimental CHRX00P015597988 15597988 2434 41 1

Total number of rows: 391015

Table truncated, full table size 80414 Kbytes.




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Supplementary data files not provided

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