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Status
Public on Dec 31, 2011
Title
Agilent-018561 C. elegans 15k gene expression microarray
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Caenorhabditis elegans Manufacturer
Agilent
Manufacture protocol
Standard Agilent oligo in situ protocol
Catalog number
018560
Description
We designed a custom 15K C. elegans microarray which was then manufactured by Agilent. The 60-mer probes were determined using OligoWiz2 to target the coding region based the following factors: upon melting temperature, position along the transcript, folding potential, low-complexity in the sequence, and cross-hybridization to other coding sequences. The probes were also restricted against spanning splice junctions to avoid missing transcripts due to errors in gene structure predictions. For each gene, the best scoring probe with no significant match in other coding sequences (E-value < 0.001) was selected. This procedure yielded 16,831 gene-specific probes out of the total 20,074 genes searched. We then selected the 15,208 best scoring probes for the microarray.
Contributor(s)
Yanai I , Schott DH , Hunter CP Submission date
Apr 10, 2011
Last update date
Dec 31, 2011
Contact name
Itai Yanai
E-mail(s)
[email protected] Organization name
Technion - Israel Institute of Technology
Department
Biology
Lab
Yanai
Street address
Technion City
City
Haifa
ZIP/Postal code
30200
Country
Israel
Samples (90)
GSM852579 , GSM852580 , GSM852581 , GSM852582 , GSM852583 , GSM852584
GSM852585 ,
GSM852586 ,
GSM852587 ,
GSM852588 ,
GSM852589 ,
GSM852590 ,
GSM852591 ,
GSM852592 ,
GSM852593 ,
GSM852594 ,
GSM852595 ,
GSM852596 ,
GSM852597 ,
GSM852598 ,
GSM852599 ,
GSM852600 ,
GSM852601 ,
GSM852602 ,
GSM852603 ,
GSM852604 ,
GSM852605 ,
GSM852606 ,
GSM852607 ,
GSM852608 ,
GSM852609 ,
GSM852610 ,
GSM852611 ,
GSM852612 ,
GSM852613 ,
GSM852614 ,
GSM852615 ,
GSM852616 ,
GSM852617 ,
GSM852618 ,
GSM852619 ,
GSM852620 ,
GSM852621 ,
GSM852622 ,
GSM852623 ,
GSM852624 ,
GSM852625 ,
GSM852626 ,
GSM852627 ,
GSM852628 ,
GSM852629 ,
GSM852630 ,
GSM852631 ,
GSM852632 ,
GSM852633 ,
GSM852634 ,
GSM852635 ,
GSM852636 ,
GSM852637 ,
GSM852638 ,
GSM852639 ,
GSM852640 ,
GSM852641 ,
GSM852642 ,
GSM852643 ,
GSM852644 ,
GSM852645 ,
GSM852646 ,
GSM852647 ,
GSM852648 ,
GSM852649 ,
GSM852650 ,
GSM852651 ,
GSM852652 ,
GSM852653 ,
GSM852654 ,
GSM852655 ,
GSM852656 ,
GSM852657 ,
GSM852658 ,
GSM852659 ,
GSM852660 ,
GSM852661 ,
GSM852662 ,
GSM852663 ,
GSM852664 ,
GSM852665 ,
GSM852666 ,
GSM852667 ,
GSM852668 Series (1)
GSE34650 A genomic signature of gene-environment interactions in C. elegans
Data table header descriptions ID SPOT_ID WormBase ID
SEQUENCE Probe Sequence
Data table ID SPOT_ID SEQUENCE WBGene00022848
WBGene00022848 CTGTGGAAGGGGCAAAGTTCAATTCCAGCAATCACTTGGAGTGGACTATAAAGCTGGCTC
WBGene00012788
WBGene00012788 CCCAAACATGCAGATTTGTGTCAGTTGGTTCCAATTTGTGCGCAAGAGAGAACTTTGTAT
WBGene00009258
WBGene00009258 TGCTGTATTAGATATAAAGTCAAGAAGTTCAAGTCCGAGGCATGAACTCCCTCGAGATGA
WBGene00009282
WBGene00009282 TGACGAGTATCTGGAAGTAAGTAATGAAACCAATGTGTATTGTTCAGGTTTAGCGCGCGT
WBGene00008564
WBGene00008564 AGGAAAGTCCGTTGAACAAGACAGATGTTCTTCCGTCAGTGGATACATATTTGAAGCCAA
WBGene00011558
WBGene00011558 GCGATGCTCATGCTCGTCGTCCTCTTCCACTATCTCAACGCCAACCAGAAGAACAAGTAA
WBGene00018313
WBGene00018313 AAGTCCTCAGTGGCTAGCGCTGCCGGTTCAACATCTAACAAGTACGCTAAAGCTAACCGT
WBGene00012718
WBGene00012718 ATCAATCGTATGAAGAAGCTCTAGAAGAAGCATTACACGGCCCAGCGTCACCGGTCACAA
WBGene00004059
WBGene00004059 TTATCCAGATAGACCACTTGACATGATTAGAAAAGGTGTTAGTGATTCGGATTTAGAGCA
WBGene00006287
WBGene00006287 ACATGCTCCCTGAAGTTCAAAAGTGTCCAGCAGCAATTATTCCACGCATTGGTCTTTCAA
WBGene00019192
WBGene00019192 ATTATGTTATCAGGATACTGACAGTTTGATATATGAGGTAGAAACCGAGGATATTTATGA
WBGene00017099
WBGene00017099 TAATCAGACAGAGGTGAGCTCTATCAGCCCGCATCTTTATAAGGTGGACGCAGAGGAAAC
WBGene00011099
WBGene00011099 GAAAAAAGCTTTAACATTCTGCTCCGTGCGTCTTTTCCCGATGCAATTGTCTTGGTTAGC
WBGene00021852
WBGene00021852 CACAAATCTAACAAACGTTCGTCACTTTGGTCAGCCAGATGTCTGGAATTTTACCTATGT
WBGene00010574
WBGene00010574 GAGTGCTTTCCGTCCAGTCACCAAATCAATTGAATCGCAATACGCAATGCCGGAGCTCAA
WBGene00012948
WBGene00012948 AATCCATTTTACGCTGGATGCTTCAAGAGTTTTTTTGGAAGACTGTTCAAGTCCAGATTT
WBGene00001480
WBGene00001480 CGATCGGAGAGAGCTACGAATAGTAAAATCGCGAGGAAGAGTTTGGAGGGAAAGAAGCGA
WBGene00007008
WBGene00007008 GAGTAAAACGAAATGAGTCTGTACCGGCTCAAAGTGGTGATCAAGTCCTCGAGGAAGCGA
WBGene00005271
WBGene00005271 CGTATTCGTTCTCCCACTGGGAATATTTGCAATGGTTTTGACAACTGGATATAAGAATCA
WBGene00016370
WBGene00016370 ATGGATGGATACTGAAGGTTATGAGTTTCCAGTTCTAGAAATGATTCACAAAGAGGGACC
15208 1351 Kbytes .Supplementary data files not provided
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