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Status
Public on Dec 02, 2010
Title
Agilent custom ME and HK design array [8mer]
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
synthetic construct
Manufacturer
Agilent Technologies
Manufacture protocol
This protein binding microarray (PBM) involved binding GST-tagged proteins to custom-designed, double-stranded 44K Agilent microarrays in order to determine their sequence preferences. The method is described in Berger et al., Nature Biotechnology 2006.
Description
8mer sequence depicted below is not the sequence represented on the array, but the targeted sequence. Please see the two array design files attached below for array probe sequences.
Submission date
Dec 01, 2010
Last update date
Jun 10, 2014
Contact name
Harm van Bakel
E-mail(s)
harm.vanbakel@mssm.edu
Organization name
Mount Sinai School of Medicine
Department
Genetics and Genomic Sciences
Lab
Bakel Lab
Street address
One Gustave L. Levy Place, Box 1498
City
New York
State/province
New York
ZIP/Postal code
10029
Country
USA
Samples (4703)
GSM632125 , GSM632126 , GSM632127 , GSM632128 , GSM632129 , GSM632130
GSM632131 ,
GSM632132 ,
GSM632133 ,
GSM632134 ,
GSM632135 ,
GSM632136 ,
GSM632137 ,
GSM632138 ,
GSM632139 ,
GSM632140 ,
GSM632141 ,
GSM632142 ,
GSM632143 ,
GSM632144 ,
GSM632145 ,
GSM632146 ,
GSM632147 ,
GSM632148 ,
GSM632149 ,
GSM632150 ,
GSM632151 ,
GSM632152 ,
GSM632153 ,
GSM632154 ,
GSM632155 ,
GSM632156 ,
GSM632157 ,
GSM632158 ,
GSM632159 ,
GSM632160 ,
GSM632161 ,
GSM632162 ,
GSM632163 ,
GSM632164 ,
GSM768319 ,
GSM768320 ,
GSM768321 ,
GSM768322 ,
GSM768323 ,
GSM768324 ,
GSM1052241 ,
GSM1052242 ,
GSM1052243 ,
GSM1052244 ,
GSM1052245 ,
GSM1052246 ,
GSM1052247 ,
GSM1052248 ,
GSM1052249 ,
GSM1052250 ,
GSM1052251 ,
GSM1052252 ,
GSM1052253 ,
GSM1052254 ,
GSM1052255 ,
GSM1052256 ,
GSM1052257 ,
GSM1052258 ,
GSM1052259 ,
GSM1052260 ,
GSM1052261 ,
GSM1052262 ,
GSM1052263 ,
GSM1052264 ,
GSM1052265 ,
GSM1052266 ,
GSM1052267 ,
GSM1052268 ,
GSM1052269 ,
GSM1052270 ,
GSM1052271 ,
GSM1052272 ,
GSM1052273 ,
GSM1052274 ,
GSM1052275 ,
GSM1052276 ,
GSM1052277 ,
GSM1052278 ,
GSM1052279 ,
GSM1052280 ,
GSM1052281 ,
GSM1052282 ,
GSM1052283 ,
GSM1052284 ,
GSM1052285 ,
GSM1052286 ,
GSM1052287 ,
GSM1052288 ,
GSM1052289 ,
GSM1052290 ,
GSM1052291 ,
GSM1052292 ,
GSM1052293 ,
GSM1052294 ,
GSM1052295 ,
GSM1052296 ,
GSM1052297 ,
GSM1052298 ,
GSM1052299 ,
GSM1052300 ,
GSM1052301 ,
GSM1052302 ,
GSM1052303 ,
GSM1052304 ,
GSM1052305 ,
GSM1052306 ,
GSM1052307 ,
GSM1052308 ,
GSM1052309 ,
GSM1052310 ,
GSM1052311 ,
GSM1052312 ,
GSM1052313 ,
GSM1052314 ,
GSM1052315 ,
GSM1052316 ,
GSM1052317 ,
GSM1052318 ,
GSM1052319 ,
GSM1052320 ,
GSM1052321 ,
GSM1052322 ,
GSM1052323 ,
GSM1052324 ,
GSM1052325 ,
GSM1052326 ,
GSM1052327 ,
GSM1052328 ,
GSM1052329 ,
GSM1052330 ,
GSM1052331 ,
GSM1052332 ,
GSM1052333 ,
GSM1052334 ,
GSM1052335 ,
GSM1052336 ,
GSM1052337 ,
GSM1052338 ,
GSM1052339 ,
GSM1052340 ,
GSM1052341 ,
GSM1052342 ,
GSM1052343 ,
GSM1052344 ,
GSM1052345 ,
GSM1052346 ,
GSM1052347 ,
GSM1052348 ,
GSM1052349 ,
GSM1052350 ,
GSM1052351 ,
GSM1052352 ,
GSM1052353 ,
GSM1052354 ,
GSM1052355 ,
GSM1052356 ,
GSM1052357 ,
GSM1052358 ,
GSM1052359 ,
GSM1052360 ,
GSM1052361 ,
GSM1052362 ,
GSM1052363 ,
GSM1052364 ,
GSM1052365 ,
GSM1052366 ,
GSM1052367 ,
GSM1052368 ,
GSM1052369 ,
GSM1052370 ,
GSM1052371 ,
GSM1052372 ,
GSM1052373 ,
GSM1052374 ,
GSM1052375 ,
GSM1052376 ,
GSM1052377 ,
GSM1052378 ,
GSM1052379 ,
GSM1052380 ,
GSM1052381 ,
GSM1052382 ,
GSM1052383 ,
GSM1052384 ,
GSM1052385 ,
GSM1052386 ,
GSM1052387 ,
GSM1052388 ,
GSM1052389 ,
GSM1052390 ,
GSM1052391 ,
GSM1052392 ,
GSM1052393 ,
GSM1052394 ,
GSM1052395 ,
GSM1052396 ,
GSM1052397 ,
GSM1052398 ,
GSM1052399 ,
GSM1052400 ,
GSM1052401 ,
GSM1052402 ,
GSM1052403 ,
GSM1052404 ,
GSM1052405 ,
GSM1052406 ,
GSM1052407 ,
GSM1052408 ,
GSM1052409 ,
GSM1052410 ,
GSM1052411 ,
GSM1052412 ,
GSM1083484 ,
GSM1083485 ,
GSM1083486 ,
GSM1083487 ,
GSM1083488 ,
GSM1083489 ,
GSM1083490 ,
GSM1083491 ,
GSM1083492 ,
GSM1083493 ,
GSM1083494 ,
GSM1083495 ,
GSM1083496 ,
GSM1083497 ,
GSM1083498 ,
GSM1083499 ,
GSM1083500 ,
GSM1083501 ,
GSM1083502 ,
GSM1083503 ,
GSM1291226 ,
GSM1291227 ,
GSM1291228 ,
GSM1291229 ,
GSM1291230 ,
GSM1291231 ,
GSM1291232 ,
GSM1291233 ,
GSM1291234 ,
GSM1291235 ,
GSM1291236 ,
GSM1291237 ,
GSM1291238 ,
GSM1291239 ,
GSM1291240 ,
GSM1291241 ,
GSM1291242 ,
GSM1291243 ,
GSM1291244 ,
GSM1291245 ,
GSM1291246 ,
GSM1291247 ,
GSM1291248 ,
GSM1291249 ,
GSM1291250 ,
GSM1291251 ,
GSM1291252 ,
GSM1291253 ,
GSM1291254 ,
GSM1291255 ,
GSM1291256 ,
GSM1291257 ,
GSM1291258 ,
GSM1291259 ,
GSM1291260 ,
GSM1291261 ,
GSM1291262 ,
GSM1291263 ,
GSM1291264 ,
GSM1291265 ,
GSM1291266 ,
GSM1291267 ,
GSM1291268 ,
GSM1291269 ,
GSM1291270 ,
GSM1291271 ,
GSM1291272 ,
GSM1291273 ,
GSM1291274 ,
GSM1291275 ,
GSM1291276 ,
GSM1291277 ,
GSM1291278 ,
GSM1291279 ,
GSM1291280 ,
GSM1291281 ,
GSM1291282 ,
GSM1291283 ,
GSM1291284 ,
GSM1291285 ,
GSM1291286 ,
GSM1291287 ,
GSM1291288 ,
GSM1291289 ,
GSM1291290 ,
GSM1291291 ,
GSM1291292 ,
GSM1291293 ,
GSM1291294 ,
GSM1291295 ,
GSM1291296 ,
GSM1291297 ,
GSM1291298 ,
GSM1291299 ,
GSM1291300 ,
GSM1291301 ,
GSM1291302 ,
GSM1291303 ,
GSM1291304 ,
GSM1291305 ,
GSM1291306 ,
GSM1291307 ,
GSM1291308 ,
GSM1291309 ,
GSM1291310 ,
GSM1291311 ,
GSM1291312 ,
GSM1291313 ,
GSM1291314 ,
GSM1291315 ,
GSM1291316 ,
GSM1291317 ,
GSM1291318 ,
GSM1291319 ,
GSM1291320 ,
GSM1291321 ,
GSM1291322 ,
GSM1291323 ,
GSM1291324 ,
GSM1291325 ,
GSM1291326 ,
GSM1291327 ,
GSM1291328 ,
GSM1291329 ,
GSM1291330 ,
GSM1291331 ,
GSM1291332 ,
GSM1291333 ,
GSM1291334 ,
GSM1291335 ,
GSM1291336 ,
GSM1291337 ,
GSM1291338 ,
GSM1291339 ,
GSM1291340 ,
GSM1291341 ,
GSM1291342 ,
GSM1291343 ,
GSM1291344 ,
GSM1291345 ,
GSM1291346 ,
GSM1291347 ,
GSM1291348 ,
GSM1291349 ,
GSM1291350 ,
GSM1291351 ,
GSM1291352 ,
GSM1291353 ,
GSM1291354 ,
GSM1291355 ,
GSM1291356 ,
GSM1291357 ,
GSM1291358 ,
GSM1291359 ,
GSM1291360 ,
GSM1291361 ,
GSM1291362 ,
GSM1291363 ,
GSM1291364 ,
GSM1291365 ,
GSM1291366 ,
GSM1291367 ,
GSM1291368 ,
GSM1291369 ,
GSM1291370 ,
GSM1291371 ,
GSM1291372 ,
GSM1291373 ,
GSM1291374 ,
GSM1291375 ,
GSM1291376 ,
GSM1291377 ,
GSM1291378 ,
GSM1291379 ,
GSM1291380 ,
GSM1291381 ,
GSM1291382 ,
GSM1291383 ,
GSM1291384 ,
GSM1291385 ,
GSM1291386 ,
GSM1291387 ,
GSM1291388 ,
GSM1291389 ,
GSM1291390 ,
GSM1291391 ,
GSM1291392 ,
GSM1291393 ,
GSM1291394 ,
GSM1291395 ,
GSM1291396 ,
GSM1291397 ,
GSM1291398 ,
GSM1291399 ,
GSM1291400 ,
GSM1291401 ,
GSM1291402 ,
GSM1291403 ,
GSM1291404 ,
GSM1291405 ,
GSM1291406 ,
GSM1291407 ,
GSM1291408 ,
GSM1291409 ,
GSM1291410 ,
GSM1291411 ,
GSM1291412 ,
GSM1291413 ,
GSM1291414 ,
GSM1291415 ,
GSM1291416 ,
GSM1291417 ,
GSM1291418 ,
GSM1291419 ,
GSM1291420 ,
GSM1291421 ,
GSM1291422 ,
GSM1291423 ,
GSM1291424 ,
GSM1291425 ,
GSM1291426 ,
GSM1291427 ,
GSM1291428 ,
GSM1291429 ,
GSM1291430 ,
GSM1291431 ,
GSM1291432 ,
GSM1291433 ,
GSM1291434 ,
GSM1291435 ,
GSM1291436 ,
GSM1291437 ,
GSM1291438 ,
GSM1291439 ,
GSM1291440 ,
GSM1291441 ,
GSM1291442 ,
GSM1291443 ,
GSM1291444 ,
GSM1291445 ,
GSM1291446 ,
GSM1291447 ,
GSM1291448 ,
GSM1291449 ,
GSM1291450 ,
GSM1291451 ,
GSM1291452 ,
GSM1291453 ,
GSM1291454 ,
GSM1291455 ,
GSM1291456 ,
GSM1291457 ,
GSM1291458 ,
GSM1291459 ,
GSM1291460 ,
GSM1291461 ,
GSM1291462 ,
GSM1291463 ,
GSM1291464 ,
GSM1291465 ,
GSM1291466 ,
GSM1291467 ,
GSM1291468 ,
GSM1291469 ,
GSM1291470 ,
GSM1291471 ,
GSM1291472 ,
GSM1291473 ,
GSM1291474 ,
GSM1291475 ,
GSM1291476 ,
GSM1291477 ,
GSM1291478 ,
GSM1291479 ,
GSM1291480 ,
GSM1291481 ,
GSM1291482 ,
GSM1291483 ,
GSM1291484 ,
GSM1291485 ,
GSM1291486 ,
GSM1291487 ...
Accession list truncated, click here to browse through all related public accessions You can also download a list of all accessions here
Series (29)
GSE25723
Sequence specificity is obtained from the majority of modular C2H2 zinc-finger arrays
GSE30992
An Alternative Splicing Switch Regulates Embryonic Stem Cell Pluripotency and Reprogramming
GSE31007
An Alternative Splicing Switch Regulates Embryonic Stem Cell Pluripotency and Reprogramming [protein binding microarray]
GSE42864
Evaluation of methods for modeling transcription factor sequence specificity
GSE44338
CG methylated microarrays identify novel methylated sequence bound by the CEBPB|ATF4 heterodimer that are active in vivo
GSE52520
Evaluation of DNA-binding preferences of C2H2 zinc finger domains by PBM
GSE52523
Large-scale characterization of DNA binding landscape of eukaryotic C2H2 zinc fingers
GSE53348
Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity
GSE65719
Mapping and Analysis of Caenorhabditis elegans Transcription Factor Binding Specificities
GSE73117
Evaluation of DNA-binding preferences of non-metazoan C2H2 zinc finger proteins by PBM
GSE88897
5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) increase CREB1 binding to the C/EBP half-site GCAA
GSE94634
Impact of cytosine methylation on DNA binding specificities of human transcription factors.
GSE100869
The Epstein-Barr virus B-ZIP protein Zta recognizes specific DNA sequences containing 5-methylcytosine and 5-hydroxymethylcytosine [Zta_5mCG]
GSE100870
The Epstein-Barr virus B-ZIP protein Zta recognizes specific DNA sequences containing 5-methylcytosine and 5-hydroxymethylcytosine [Zta_5mC_5hmC]
GSE100871
The Epstein-Barr virus B-ZIP protein Zta recognizes specific DNA sequences containing 5-methylcytosine and 5-hydroxymethylcytosine
GSE108273
Replacing C189 in the bZIP domain of Zta to S, T, V, and A changes DNA binding specificity to four types of double-stranded DNA (mCG)
GSE112018
The bZIP mutant CEBPB(V285A) has DNA binding propensities similar to CREB1 [CEBPMut_5mC_5hmC]
GSE112019
The bZIP mutant CEBPB(V285A) has sequence specific DNA binding propensities similar to CREB1 [CEBPMut_5mCG]
GSE112020
The bZIP mutant CEBPB(V285A) has sequence specific DNA binding propensities similar to CREB1
GSE115352
Mutating Zta (182N) changes sequence specific DNA binding (5mCG)
GSE121420
Similarity Regression predicts evolution of transcription factor sequence specificity
GSE126588
Mutating Zta(N182) to S, Q, T, I, and V changes sequence specific DNA binding to four types of DNA (65k data set)
GSE126589
Mutating Zta(N182) to S, Q, T, I, and V changes sequence specific DNA binding to four types of DNA (32k data set)
GSE126590
Mutating Zta(N182) to S, Q, T, I, and V changes sequence specific DNA binding to four types of DNA
GSE157085
Diverse CGG binding proteins across eukaryotes produced by independent domestications of hAT transposons
GSE218851
Chromatin accessibility in the Drosophila embryo is determined by transcription factor pioneering and enhancer activation [PBM]
GSE218852
Chromatin accessibility in the Drosophila embryo is determined by transcription factor pioneering and enhancer activation
GSE270411
Binding specificities of transcription factors of the oomycete Phytophthorainfestans reflect conserved and divergent evolutionary patterns and function
GSE275577
Perspectives on Codebook: sequence specificity of uncharacterized human transcription factors
Relations
Alternative to
GPL11261
Data table header descriptions
ID
8mer
SEQUENCE
8mer sequence
Data table
ID
SEQUENCE
AAAAAAAA
AAAAAAAA
AAAAAAAC
AAAAAAAC
AAAAAAAG
AAAAAAAG
AAAAAAAT
AAAAAAAT
AAAAAACA
AAAAAACA
AAAAAACC
AAAAAACC
AAAAAACG
AAAAAACG
AAAAAACT
AAAAAACT
AAAAAAGA
AAAAAAGA
AAAAAAGC
AAAAAAGC
AAAAAAGG
AAAAAAGG
AAAAAAGT
AAAAAAGT
AAAAAATA
AAAAAATA
AAAAAATC
AAAAAATC
AAAAAATG
AAAAAATG
AAAAAATT
AAAAAATT
AAAAACAA
AAAAACAA
AAAAACAC
AAAAACAC
AAAAACAG
AAAAACAG
AAAAACAT
AAAAACAT
Total number of rows: 32896 Table truncated, full table size 578 Kbytes .
Supplementary file
Size
Download
File type/resource
GPL11260_HK_design.txt.gz
878.3 Kb
(ftp) (http)
TXT
GPL11260_ME_design.txt.gz
802.7 Kb
(ftp) (http)
TXT