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Status
Public on Jun 20, 2008
Title
UT/TH_all-8mer-v1
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
synthetic construct Manufacturer
Agilent Technologies
Manufacture protocol
In situ oligosynthesized array with proprietary synthetic sequences that target all possible 8-base sequences. The sequences shown in the below table are not the actual sequences that are printed on the array.
Description
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. A key feature is that the microarrays are composed of de Bruijn sequences that contain each 10-base sequence once and only once, providing an evenly balanced sequence distribution. Individual de Bruijn sequences have different properties, including representation of gapped patterns. The original Berger et al. array sequences are available via a EULA at http://the_brain.bwh.harvard.edu/UPBMseqn/UPBMseqn_agreement.html.
Web link
http://the_brain.bwh.harvard.edu/pbms/webworks2/ Citation(s)
16998473 Submission date
Apr 29, 2008
Last update date
Jan 28, 2009
Contact name
Lourdes Pena-Castillo
E-mail(s)
lourdes.pena@gmail.com Phone
416 946-7838
Fax
416 978-8528
Organization name
University of Toronto
Department
Banting and Best Department of Medical Research
Lab
Hughes Lab
Street address
160 College St. Room 1350
City
Toronto
State/province
Ontario
ZIP/Postal code
M5S 3E1
Country
Canada
Samples (383)
GSM285364 , GSM285365 , GSM285366 , GSM285367 , GSM285368 , GSM285369
GSM285370 ,
GSM285371 ,
GSM285372 ,
GSM285373 ,
GSM285374 ,
GSM285375 ,
GSM285376 ,
GSM285377 ,
GSM285378 ,
GSM285379 ,
GSM285380 ,
GSM285381 ,
GSM285382 ,
GSM285383 ,
GSM285384 ,
GSM285385 ,
GSM285386 ,
GSM285387 ,
GSM285388 ,
GSM285389 ,
GSM285390 ,
GSM285391 ,
GSM285392 ,
GSM285393 ,
GSM285394 ,
GSM285395 ,
GSM285396 ,
GSM285397 ,
GSM285398 ,
GSM285399 ,
GSM285400 ,
GSM285401 ,
GSM285402 ,
GSM285403 ,
GSM285404 ,
GSM285405 ,
GSM285406 ,
GSM285407 ,
GSM285408 ,
GSM285409 ,
GSM285410 ,
GSM285411 ,
GSM285412 ,
GSM285413 ,
GSM285414 ,
GSM285415 ,
GSM285416 ,
GSM285417 ,
GSM285418 ,
GSM285419 ,
GSM285420 ,
GSM285421 ,
GSM285422 ,
GSM285423 ,
GSM285424 ,
GSM285425 ,
GSM285426 ,
GSM285427 ,
GSM285428 ,
GSM285429 ,
GSM285430 ,
GSM285431 ,
GSM285432 ,
GSM285433 ,
GSM285434 ,
GSM285435 ,
GSM285436 ,
GSM285437 ,
GSM285438 ,
GSM285439 ,
GSM285440 ,
GSM285441 ,
GSM285442 ,
GSM285443 ,
GSM285444 ,
GSM285445 ,
GSM285446 ,
GSM285447 ,
GSM285448 ,
GSM285449 ,
GSM285450 ,
GSM285451 ,
GSM285452 ,
GSM285453 ,
GSM285454 ,
GSM285455 ,
GSM285456 ,
GSM285457 ,
GSM285458 ,
GSM285459 ,
GSM285460 ,
GSM285461 ,
GSM285462 ,
GSM285463 ,
GSM285464 ,
GSM285465 ,
GSM285466 ,
GSM285467 ,
GSM285468 ,
GSM285469 ,
GSM285470 ,
GSM285471 ,
GSM285472 ,
GSM285473 ,
GSM285474 ,
GSM285475 ,
GSM285476 ,
GSM285477 ,
GSM285478 ,
GSM285479 ,
GSM285480 ,
GSM285481 ,
GSM285482 ,
GSM285483 ,
GSM285484 ,
GSM285485 ,
GSM285486 ,
GSM285487 ,
GSM285488 ,
GSM285489 ,
GSM285490 ,
GSM285491 ,
GSM285492 ,
GSM285493 ,
GSM285494 ,
GSM285495 ,
GSM285496 ,
GSM285497 ,
GSM285498 ,
GSM285499 ,
GSM285500 ,
GSM285501 ,
GSM285502 ,
GSM285503 ,
GSM285504 ,
GSM285505 ,
GSM285506 ,
GSM285507 ,
GSM285508 ,
GSM285509 ,
GSM285510 ,
GSM285511 ,
GSM285512 ,
GSM285513 ,
GSM285514 ,
GSM285515 ,
GSM285516 ,
GSM285517 ,
GSM285518 ,
GSM285519 ,
GSM285520 ,
GSM285521 ,
GSM285522 ,
GSM285523 ,
GSM285524 ,
GSM285525 ,
GSM285526 ,
GSM285527 ,
GSM285528 ,
GSM285529 ,
GSM285530 ,
GSM285531 ,
GSM285532 ,
GSM285533 ,
GSM285534 ,
GSM285535 ,
GSM285536 ,
GSM285537 ,
GSM285538 ,
GSM285539 ,
GSM285540 ,
GSM285541 ,
GSM310122 ,
GSM310123 ,
GSM310124 ,
GSM310125 ,
GSM310126 ,
GSM310127 ,
GSM310128 ,
GSM310129 ,
GSM310130 ,
GSM310131 ,
GSM310132 ,
GSM310133 ,
GSM310134 ,
GSM310135 ,
GSM310136 ,
GSM310137 ,
GSM310138 ,
GSM310139 ,
GSM310140 ,
GSM310141 ,
GSM310142 ,
GSM310143 ,
GSM310144 ,
GSM310145 ,
GSM310146 ,
GSM310147 ,
GSM310148 ,
GSM310149 ,
GSM310150 ,
GSM310151 ,
GSM310152 ,
GSM310153 ,
GSM310154 ,
GSM310155 ,
GSM310156 ,
GSM310157 ,
GSM310158 ,
GSM310159 ,
GSM310160 ,
GSM310161 ,
GSM310162 ,
GSM310163 ,
GSM310164 ,
GSM310165 ,
GSM310166 ,
GSM310167 ,
GSM310168 ,
GSM310169 ,
GSM310170 ,
GSM310171 ,
GSM310172 ,
GSM310173 ,
GSM310174 ,
GSM310175 ,
GSM310176 ,
GSM310177 ,
GSM310178 ,
GSM310179 ,
GSM310180 ,
GSM310181 ,
GSM310182 ,
GSM310183 ,
GSM310184 ,
GSM310185 ,
GSM310186 ,
GSM310187 ,
GSM310188 ,
GSM310189 ,
GSM310190 ,
GSM310191 ,
GSM310192 ,
GSM310193 ,
GSM310194 ,
GSM310195 ,
GSM310196 ,
GSM310197 ,
GSM310198 ,
GSM310199 ,
GSM310200 ,
GSM310201 ,
GSM310202 ,
GSM310203 ,
GSM310204 ,
GSM310205 ,
GSM310206 ,
GSM310207 ,
GSM310208 ,
GSM310209 ,
GSM310210 ,
GSM310211 ,
GSM310212 ,
GSM310213 ,
GSM310214 ,
GSM310215 ,
GSM310216 ,
GSM310217 ,
GSM310218 ,
GSM310219 ,
GSM310220 ,
GSM310221 ,
GSM310222 ,
GSM310223 ,
GSM310224 ,
GSM310225 ,
GSM310226 ,
GSM310227 ,
GSM310228 ,
GSM310229 ,
GSM310230 ,
GSM310231 ,
GSM310232 ,
GSM310233 ,
GSM310234 ,
GSM310235 ,
GSM310236 ,
GSM310237 ,
GSM310238 ,
GSM310239 ,
GSM310240 ,
GSM310241 ,
GSM310242 ,
GSM310243 ,
GSM310244 ,
GSM310245 ,
GSM310246 ,
GSM310247 ,
GSM310248 ,
GSM310249 ,
GSM310250 ,
GSM310251 ,
GSM310252 ,
GSM310253 ,
GSM310254 ,
GSM310255 ,
GSM310256 ,
GSM310257 ,
GSM310258 ,
GSM310259 ,
GSM310260 ,
GSM310261 ,
GSM310262 ,
GSM310263 ,
GSM310264 ,
GSM310265 ,
GSM310266 ,
GSM310267 ,
GSM310268 ,
GSM310269 ,
GSM310270 ,
GSM310271 ,
GSM310272 ,
GSM310273 ,
GSM310274 ,
GSM310275 ,
GSM310276 ,
GSM310277 ,
GSM310278 ,
GSM310279 ,
GSM310280 ,
GSM310281 ,
GSM310282 ,
GSM310283 ,
GSM310284 ,
GSM310285 ,
GSM310286 ,
GSM310287 ,
GSM310288 ,
GSM310289 ,
GSM847038 ,
GSM847039 ,
GSM847040 ,
GSM847041 ,
GSM847042 ,
GSM847043 ,
GSM847044 ,
GSM847045 ,
GSM847046 ,
GSM847047 ,
GSM847048 ,
GSM847049 ,
GSM847050 ,
GSM847051 ,
GSM847052 ,
GSM847053 ,
GSM847054 ,
GSM847055 ,
GSM847056 ,
GSM847057 ,
GSM847058 ,
GSM847059 ,
GSM847060 ,
GSM847061 ,
GSM847062 ,
GSM847063 ,
GSM847064 ,
GSM867163 ,
GSM867164 ,
GSM867165 ,
GSM867166 ,
GSM867167 ,
GSM867168 ,
GSM867169 ,
GSM867170 ,
GSM867171 ,
GSM867172 Series (4)
GSE11239 Variation in homeodomain DNA-binding revealed by high-resolution analysis of sequence preferences
GSE12349 A library of yeast transcription factor motifs
GSE34306 Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights
GSE35380 Molecular mechanism underlying the regulatory specificity of a Drosophila homeodomain protein that specifies myoblast identity
Data table header descriptions ID 8mer
SEQUENCE 8mer
SEQUENCE 8mer2 (complement strand)
Data table ID SEQUENCE SEQUENCE AAAAAAAA
AAAAAAAA
TTTTTTTT
AAAAAAAC
AAAAAAAC
GTTTTTTT
AAAAAAAG
AAAAAAAG
CTTTTTTT
AAAAAAAT
AAAAAAAT
ATTTTTTT
AAAAAACA
AAAAAACA
TGTTTTTT
AAAAAACC
AAAAAACC
GGTTTTTT
AAAAAACG
AAAAAACG
CGTTTTTT
AAAAAACT
AAAAAACT
AGTTTTTT
AAAAAAGA
AAAAAAGA
TCTTTTTT
AAAAAAGC
AAAAAAGC
GCTTTTTT
AAAAAAGG
AAAAAAGG
CCTTTTTT
AAAAAAGT
AAAAAAGT
ACTTTTTT
AAAAAATA
AAAAAATA
TATTTTTT
AAAAAATC
AAAAAATC
GATTTTTT
AAAAAATG
AAAAAATG
CATTTTTT
AAAAAATT
AAAAAATT
AATTTTTT
AAAAACAA
AAAAACAA
TTGTTTTT
AAAAACAC
AAAAACAC
GTGTTTTT
AAAAACAG
AAAAACAG
CTGTTTTT
AAAAACAT
AAAAACAT
ATGTTTTT
32896 867 Kbytes .Supplementary data files not provided
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