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Status
Public on Feb 11, 2011
Title
Nimblegen Maize Whole-Genome Microarray 385K (VersionV1_4a.53)
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Zea mays Manufacturer
NimbleGen Systems Inc.
Manufacture protocol
http://www.nimblegen.com/products/chip/index.html
Description
This platform version is based on gene-models (probe-sets) from Maize RefGen V1(4a.53) using the expression probes only. The original design is a custom NimbleGen design which used 385k probes. The array design has 330803 expression probes and 58339 tiling probes. Zea maize design from customer-provided regions with expression and tiling probes were placed into two different containers: 330803 expression probes (5 probes per gene, no additional replicates) and 58339 tiling probes (probe spacing of 45bp).
Web link
http://www.nimblegen.com Contributor(s)
Sekhon R , Kaeppler S , VanHemert(PLEXdb Staff) J , Dash(PLEXdb Curator) S Submission date
Feb 01, 2011
Last update date
Feb 11, 2011
Contact name
PLEXdb Curator, Sudhansu Dash
Organization name
Iowa State University
Department
Virtual Reality Application Center
Lab
PLEXdb
Street address
1023 Crop Genomes Informatics Lab (Iowa State University)
City
Ames
State/province
IA
ZIP/Postal code
50011
Country
USA
Samples (180)
GSM665151 , GSM665152 , GSM665153 , GSM665154 , GSM665155 , GSM665156
GSM665157 ,
GSM665158 ,
GSM665159 ,
GSM665160 ,
GSM665161 ,
GSM665162 ,
GSM665163 ,
GSM665164 ,
GSM665165 ,
GSM665166 ,
GSM665167 ,
GSM665168 ,
GSM665169 ,
GSM665170 ,
GSM665171 ,
GSM665172 ,
GSM665173 ,
GSM665174 ,
GSM665175 ,
GSM665176 ,
GSM665177 ,
GSM665178 ,
GSM665179 ,
GSM665180 ,
GSM665181 ,
GSM665182 ,
GSM665183 ,
GSM665184 ,
GSM665185 ,
GSM665186 ,
GSM665187 ,
GSM665188 ,
GSM665189 ,
GSM665190 ,
GSM665191 ,
GSM665192 ,
GSM665193 ,
GSM665194 ,
GSM665195 ,
GSM665196 ,
GSM665197 ,
GSM665198 ,
GSM665199 ,
GSM665200 ,
GSM665201 ,
GSM665202 ,
GSM665203 ,
GSM665204 ,
GSM665205 ,
GSM665206 ,
GSM665207 ,
GSM665208 ,
GSM665209 ,
GSM665210 ,
GSM665211 ,
GSM665212 ,
GSM665213 ,
GSM665214 ,
GSM665215 ,
GSM665216 ,
GSM665217 ,
GSM665218 ,
GSM665219 ,
GSM665220 ,
GSM665221 ,
GSM665222 ,
GSM665223 ,
GSM665224 ,
GSM665225 ,
GSM665226 ,
GSM665227 ,
GSM665228 ,
GSM665229 ,
GSM665230 ,
GSM665231 ,
GSM665232 ,
GSM665233 ,
GSM665234 ,
GSM665235 ,
GSM665236 ,
GSM665237 ,
GSM665238 ,
GSM665239 ,
GSM665240 ,
GSM665241 ,
GSM665242 ,
GSM665243 ,
GSM665244 ,
GSM665245 ,
GSM665246 ,
GSM665247 ,
GSM665248 ,
GSM665249 ,
GSM665250 ,
GSM665251 ,
GSM665252 ,
GSM665253 ,
GSM665254 ,
GSM665255 ,
GSM665256 ,
GSM665257 ,
GSM665258 ,
GSM665259 ,
GSM665260 ,
GSM665261 ,
GSM665262 ,
GSM665263 ,
GSM665264 ,
GSM665265 ,
GSM665266 ,
GSM665267 ,
GSM665268 ,
GSM665269 ,
GSM665270 ,
GSM665271 ,
GSM665272 ,
GSM665273 ,
GSM665274 ,
GSM665275 ,
GSM665276 ,
GSM665277 ,
GSM665278 ,
GSM665279 ,
GSM665280 ,
GSM665281 ,
GSM665282 ,
GSM665283 ,
GSM665284 ,
GSM665285 ,
GSM665286 ,
GSM665287 ,
GSM665288 ,
GSM665289 ,
GSM665290 ,
GSM665291 ,
GSM665292 ,
GSM665293 ,
GSM665294 ,
GSM665295 ,
GSM665296 ,
GSM665297 ,
GSM665298 ,
GSM665299 ,
GSM665300 ,
GSM665301 ,
GSM665302 ,
GSM665303 ,
GSM665304 ,
GSM665305 ,
GSM665306 ,
GSM665307 ,
GSM665308 ,
GSM665309 ,
GSM665310 ,
GSM665311 ,
GSM665312 ,
GSM665313 ,
GSM665314 ,
GSM665315 ,
GSM665316 ,
GSM665317 ,
GSM665318 ,
GSM665319 ,
GSM665320 ,
GSM665321 ,
GSM665322 ,
GSM665323 ,
GSM665324 ,
GSM665325 ,
GSM665326 ,
GSM665327 ,
GSM665328 ,
GSM665329 ,
GSM665330 Series (1)
GSE27004 Genome-wide gene expression atlas of maize inbred line B73
Data table header descriptions ID The identifier for the summarized expression unit.
CHROMOSOME The chromosome the experessin unit is found on.
RANGE_START The start position of #ID
RANGE_END The stop position of #ID
STRAND The strand #ID is found on #CHROMOSOME
MEMBER_PROBES A list of the chip probes which are members of #ID. Refer to .ndf file for probe details.
SPOT_ID
Data table ID CHROMOSOME RANGE_START RANGE_END STRAND MEMBER_PROBES SPOT_ID GRMZM2G434425_T01
8
170964210
170965892
-
Zea_maysP00791773 Zea_maysP00791764 Zea_maysP00791767 Zea_maysP00117849 Zea_maysP00791776 Zea_maysP00117858 Zea_maysP00117844 Zea_maysP00791778 Zea_maysP00117853 Zea_maysP00117862
GRMZM2G434425_T01
AC208861_2_FGENESH_2
Zea_maysP00494087 Zea_maysP00494085 Zea_maysP00494081 Zea_maysP00494096 Zea_maysP00494092
AC208861_2_FGENESH_2
PUT_163A_ZEA_MAYS_5785
Zea_maysP01267411 Zea_maysP01267403 Zea_maysP01267415 Zea_maysP01267407 Zea_maysP01267417
PUT_163A_ZEA_MAYS_5785
GRMZM2G703423_T01
2
228971680
228971964
+
Zea_maysP00489505 Zea_maysP00489519 Zea_maysP00489523 Zea_maysP00489520 Zea_maysP00489521
GRMZM2G703423_T01
AC208861_2_FGENESH_1
Zea_maysP00494076 Zea_maysP00494058 Zea_maysP00494075 Zea_maysP00494069 Zea_maysP00494077
AC208861_2_FGENESH_1
GRMZM2G012242_T01
4
157676947
157679790
-
Zea_maysP01000820 Zea_maysP01000831 Zea_maysP01000825 Zea_maysP00036448 Zea_maysP01000813 Zea_maysP01000815 Zea_maysP00036442 Zea_maysP00036434 Zea_maysP00036440
GRMZM2G012242_T01
PUT_163A_ZEA_MAYS_014184
Zea_maysP00759610 Zea_maysP00759628 Zea_maysP00759613 Zea_maysP00759624 Zea_maysP00759619
PUT_163A_ZEA_MAYS_014184
PUT_163A_ZEA_MAYS_014182
Zea_maysP00759592 Zea_maysP00759605 Zea_maysP00759599
PUT_163A_ZEA_MAYS_014182
GRMZM2G074015_T03
4
245265202
245272988
-
Zea_maysP00874112 Zea_maysP00874110 Zea_maysP00874108 Zea_maysP00874102 Zea_maysP00874099
GRMZM2G074015_T03
GRMZM2G074015_T02
4
245265206
245272854
-
Zea_maysP00874112 Zea_maysP00874110 Zea_maysP00874108 Zea_maysP00874102 Zea_maysP00874099
GRMZM2G074015_T02
GRMZM2G074015_T01
4
245265197
245273054
-
Zea_maysP00874112 Zea_maysP00874108 Zea_maysP00874102 Zea_maysP00874099
GRMZM2G074015_T01
GRMZM2G152411_T01
9
5471536
5472426
+
Zea_maysP00171247 Zea_maysP00171251 Zea_maysP00171244 Zea_maysP00171249 Zea_maysP00171259
GRMZM2G152411_T01
GRMZM2G039648_T01
2
136975577
136978324
+
Zea_maysP00128007
GRMZM2G039648_T01
PUT_163A_ZEA_MAYS_0106990
Zea_maysP00677284 Zea_maysP00677268 Zea_maysP00677272 Zea_maysP00677286 Zea_maysP00677276
PUT_163A_ZEA_MAYS_0106990
PUT_163A_ZEA_MAYS_058937
Zea_maysP00971636 Zea_maysP00971640 Zea_maysP00971648 Zea_maysP00971647 Zea_maysP00971646
PUT_163A_ZEA_MAYS_058937
PUT_163A_ZEA_MAYS_058935
Zea_maysP00971621 Zea_maysP00971610 Zea_maysP00971612 Zea_maysP00971624 Zea_maysP00971617
PUT_163A_ZEA_MAYS_058935
GRMZM2G130425_T02
5
136659275
136662787
+
Zea_maysP00343641 Zea_maysP00343637 Zea_maysP00343644 Zea_maysP00343633
GRMZM2G130425_T02
GRMZM2G137868_T05
1
184753353
184755039
+
Zea_maysP00861414 Zea_maysP00861428 Zea_maysP00861420
GRMZM2G137868_T05
GRMZM2G137868_T04
1
184753353
184756042
+
Zea_maysP00861433 Zea_maysP00861431
GRMZM2G137868_T04
GRMZM2G137868_T01
1
184753353
184756042
+
Zea_maysP00861433 Zea_maysP00861431
GRMZM2G137868_T01
92492 13824 Kbytes .Supplementary file Size Download File type/resource GPL12620_090319_Zea_KR_Exp_v1_4a53.ndf.gz
23.3 Mb
(ftp) (http) NDF
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