GEO help: Mouse over screen elements for information.
Status
Public on Jan 21, 2011
Title
NimbleGen Mouse 385kb array [2006-07-26_MM8_WG_CGH]
Technology type
in situ oligonucleotide
Distribution
commercial
Organism
Mus musculus Manufacturer
NimbleGen
Manufacture protocol
Probes selected from mm8_tiling database using 5250 bp interval and 500 bp window. Isothermal probes with min length of 50 bp and max length of 75 bp and target Tm of 76C. Cycle restricted to 148 synthesis cycles. Interval spacing: 5756 bp (mean); 5782 bp (median). N random probes added. chrY_random added since the majority of sequence for chrY is found there.
Description
CGH design for whole mouse genome (mm8; NCBI Build 36).
Submission date
Jan 19, 2011
Last update date
Jul 15, 2011
Contact name
Rinske Drost
E-mail(s)
r.drost@nki.nl Organization name
The Netherlands Cancer Institute
Street address
Plesmanlaan 121
City
Amsterdam
ZIP/Postal code
1066 CX
Country
Netherlands
Samples (119)
GSM657973 , GSM657974 , GSM657975 , GSM657976 , GSM657977 , GSM657978
GSM657979 ,
GSM657980 ,
GSM657981 ,
GSM657982 ,
GSM657983 ,
GSM657984 ,
GSM657985 ,
GSM657986 ,
GSM657987 ,
GSM657988 ,
GSM657989 ,
GSM657990 ,
GSM657991 ,
GSM657992 ,
GSM657993 ,
GSM657994 ,
GSM657995 ,
GSM657996 ,
GSM657997 ,
GSM657998 ,
GSM702594 ,
GSM702595 ,
GSM702596 ,
GSM702597 ,
GSM702598 ,
GSM702599 ,
GSM702600 ,
GSM702601 ,
GSM702602 ,
GSM702603 ,
GSM702604 ,
GSM702605 ,
GSM702606 ,
GSM702607 ,
GSM702608 ,
GSM702609 ,
GSM702610 ,
GSM702611 ,
GSM702612 ,
GSM702613 ,
GSM702614 ,
GSM702615 ,
GSM702616 ,
GSM702617 ,
GSM702618 ,
GSM702619 ,
GSM702620 ,
GSM702621 ,
GSM702622 ,
GSM702623 ,
GSM702624 ,
GSM702625 ,
GSM702626 ,
GSM702627 ,
GSM702628 ,
GSM702629 ,
GSM702630 ,
GSM702631 ,
GSM702632 ,
GSM702633 ,
GSM702634 ,
GSM702635 ,
GSM702636 ,
GSM702637 ,
GSM702638 ,
GSM702639 ,
GSM702640 ,
GSM702641 ,
GSM702642 ,
GSM702643 ,
GSM702644 ,
GSM702645 ,
GSM702646 ,
GSM702647 ,
GSM702648 ,
GSM702649 ,
GSM702650 ,
GSM702651 ,
GSM702652 ,
GSM702653 ,
GSM702654 ,
GSM702655 ,
GSM702656 ,
GSM702657 ,
GSM702658 ,
GSM702659 ,
GSM702660 ,
GSM914217 ,
GSM914218 ,
GSM914219 ,
GSM914220 ,
GSM914221 ,
GSM914222 ,
GSM942932 ,
GSM1112425 ,
GSM1112426 ,
GSM1254436 ,
GSM1254437 ,
GSM1254438 ,
GSM1254439 ,
GSM1254440 ,
GSM1254441 ,
GSM1254442 ,
GSM1254443 ,
GSM1254444 ,
GSM1254445 ,
GSM1254446 ,
GSM1254447 ,
GSM1254448 ,
GSM1254449 ,
GSM1335856 ,
GSM1335857 ,
GSM1422103 Series (11)
GSE18019 Genome-Wide Dynamics of Replication Timing Revealed by In Vitro Models of Mouse Embryogenesis
GSE26723 aCGH analysis of Palb2GT/+;p53-/- and Palb2+/+;p53-/- lymphomas
GSE28432 Yap1/Birc, c-Met and N-ras DNA amplifications are mutually exclusive in mouse mammary tumors.
GSE37233 DNA copy number analysis from mice with radiation-induced acute myeloid leukemia
GSE38472 Replication-Timing Boundaries Facilitate Cell-type and Species-specific Regulation of a Rearranged Human Chromosome in Mouse
GSE45716 Replication timing profiling by Repli-chip in Mus musculus
GSE49847 A comparative encyclopedia of DNA elements in the mouse genome
GSE51334 DNA replication-timing boundaries separate stable chromosome domains with cell-type-specific functions
GSE51876 Haploinsufficiency of an RB-E2F1-Condensin II complex causes replication stress and contributes to mesenchymal cancers [CGH]
GSE55416 Replication timing in Suz12 knockout ESCs
GSE58900 Dual Mechanisms by which MiR-125b Represses IRF4 to Induce Myeloid and B cell Leukemias
Data table header descriptions ID SEQ_ID CHROMOSOME The chromosome or parent sequence on which the probe is located. This column can be different from the chromosome indicated by SEQ_ID and/or PROBE_ID.
GB_RANGE Genome accession[start..end] based on NCBI build 36
SEQUENCE
Data table ID SEQ_ID CHROMOSOME GB_RANGE SEQUENCE CHR01FS003001832
chr1
chr1
NC_000067.4[3001832..3001885]
TTCTGCTTGAGCTGACTCTCTAGACAGCTATGTGGATATTTCAACTCTGTAAGA
CHR01FS003018759
chr1
chr1
NC_000067.4[3018759..3018808]
GATGCTGGAATGTTACAACAATATCAGGGTAAGGGTTTTGGTTCCACCCA
CHR01FS003036253
chr1
chr1
NC_000067.4[3036253..3036304]
ATCAAAAGATTGACCTTCCATTGTAGGGCCAAGTAACCTTATGCTAAGGCCT
CHR01FS003041992
chr1
chr1
NC_000067.4[3041992..3042041]
TATCAAAGCAAGTCTGTTTTAGTAGGAGCGGCAGTGACCTCCTGGTTTTT
CHR01FS003053606
chr1
chr1
NC_000067.4[3053606..3053655]
AGCCCAATGATCTAGACTCTTAAGCATTGTCTCCAACATGTGGCAGACTT
CHR01FS003065156
chr1
chr1
NC_000067.4[3065156..3065205]
TGCACGTGGGACGGCTCAGGATGTTGGTATGATGAATTACTAACTCAAGA
CHR01FS003076536
chr1
chr1
NC_000067.4[3076536..3076598]
TAATCAAATAGACATTGTACCAGAATTTCCAGCTACATGGGTTGTTCTATGCTCACCATCAGA
CHR01FS003087994
chr1
chr1
NC_000067.4[3087994..3088051]
TCAATGCAAGGAGTACCCATATTGTATCATACATTCATTGAAGGGAGGTTTCGGTCAT
CHR01FS003093673
chr1
chr1
NC_000067.4[3093673..3093722]
GAGAATGAGACGGGTTCGTGAGACTACAGTCAAGCACAAGACAATATATG
CHR01FS003105423
chr1
chr1
NC_000067.4[3105423..3105472]
AGTGAAGCAATTGGCGATAAGGGTCATGCTGGGACCTCTTGCAGTTAATT
CHR01FS003110919
chr1
chr1
NC_000067.4[3110919..3110968]
ACCAGGACACCTTTTCCATACAACTTACCAGTGCAGGCTTATTGCCTAGT
CHR01FS003116559
chr1
chr1
NC_000067.4[3116559..3116608]
TTTCATCTAGGGTCCTGCACTTTGAGTCCTATGAGTCCCTCACCTCCTAG
CHR01FS003122452
chr1
chr1
NC_000067.4[3122452..3122504]
GAGTGTTCTCCACGTTGTACAACTCCAATCAAACTCTTTGATATGGGCCTTAA
CHR01FS003134224
chr1
chr1
NC_000067.4[3134224..3134273]
TATAGAACGCCTATCTGTTCCTCCACCAGGAAAAGGCGCTGATCCAAAAT
CHR01FS003156928
chr1
chr1
NC_000067.4[3156928..3156984]
TGAACTCAAGAACTGCTACTGATAGTTAAGACACTTAGACAGTGAAAAGGCTGGGAT
CHR01FS003162762
chr1
chr1
NC_000067.4[3162762..3162816]
CAGGAACTATACAAGGTGGCCCACTCTTTCCATACCTTTTCGAAATAATAATTGA
CHR01FS003174487
chr1
chr1
NC_000067.4[3174487..3174549]
GAGCAGCAATAAACGTGGATGTATAGGTATCTCTGTGATAGGCTATAGAATCTTTATAGTAAG
CHR01FS003180251
chr1
chr1
NC_000067.4[3180251..3180305]
GCAGTGTTTCCACTAAAATTCCCTCTACTAGTTTCAAGGTTTTTGAGGTCATTGA
CHR01FS003185980
chr1
chr1
NC_000067.4[3185980..3186031]
ACTCTACCAAGTGGTGTAGGTTCTTAGACGCAAGAAATCTCAGGTAGAGTTT
CHR01FS003191525
chr1
chr1
NC_000067.4[3191525..3191580]
GGCCTAAATGAACTGTTGGACATCAGGTTCATGAAAACGGTTTTGTGAAGGTAATA
385079 43126 Kbytes .Supplementary file Size Download File type/resource GPL11620_2006-07-26_MM8_WG_CGH.ndf.gz
20.6 Mb
(ftp) (http) NDF
GPL11620_2006-07-26_MM8_WG_CGH.pos.gz
3.0 Mb
(ftp) (http) POS
GPL11620_2006-07-26_MM8_WG_CGH_probe_locations.gff.gz
3.0 Mb
(ftp) (http) GFF
Less...
More...