Array Design Name Incyte Drosophila LifeArray v1.0 Provider Brian Oliver(Brian_Oliver@nih.gov) Comment[ArrayExpressAccession] A-GEOD-20 Comment[SecondaryAccession] GPL20 Comment[Description] Distribution: non-commercial, Technology: spotted DNA/cDNA, The array was assembled using amplicons representing approximately 93% of the genes predicted in version 1.0 of the Drosophila genome from sequences released by the Berkeley Drosophila Genome Project and Celera Genomics in March 2000. The amplicons represent approximately 75% of the genes predicted in the January 2003 release 3.1 Drosophila genome annotation update. Incyte in-house algorithms were used to develop gene-specific primers averaging 20 nucleotides in length that were used to PCR amplify one exon or exon fragment from every predicted gene in the fly genome. The regions amplified to build the array ranged in size from 150 to 600 bp with an average size of 410 bp. PCR fragments were amplified and each amplicon was quality control tested for DNA concentration, purity, and fragment size. A total of 13,856 unique Drosophila elements are included on the array. Each element was spotted in duplicate(some are spotted multiple times) for a total of 29,222 elements which were distributed on two separate glass slides designated subarrays A and B. In addition to the Drosophila elements, both halves of the array contain non-Drosophila controls elements that serve to orient the arrays, function to correct for background and to provide calibration standards. The total number of elements (Drosophila transcripts and controls) is 31,464. Each array element includes an area of 150 micron diameter with a center to center separation of 170 microns. Adhesion to glass was facilitated by UV crosslinking at 120,000 mj/cm2. Qualification of the arrays was examined by dying representatives of each print run with Syto 61 dye. Dyed slides were read with a GenePix 4000A scanner (Axon Instruments, Foster City, CA) at 535 nm. The April 2007 platform update is based on the Dmel_RELEASE 4.1 re-annotation result from DGRC (https://dgrc.cgb.indiana.edu/microarrays/annotation.html).
Comment[FLYBASE] = Flybase ID assigned by DGRC remapping
Comment[FLYBASE_SECONDARY] = Secondary Flybase ID assigned by DGRC remapping
Comment[RELEASE] = D.mel annotation version of DGRC remapping
Comment[GENE_NAME] = Dmel_RELEASE 4.1 Gene name assigned by DGRC remapping
Comment[GENE_SYMBOL] = Dmel_RELEASE 4.1 Gene symbol assigned by DGRC remapping
Comment[GENE_SYNONYMS] = Dmel_RELEASE 4.1 Gene synonyms assigned by DGRC remapping
Comment[DGRC.PROBE_ID] = Probe ID assigned by DGRC
Comment[CHROMOSOME] = Dmel_RELEASE 4.1 Chromsome location
Comment[TRANSCRIPTS] = Dmel_RELEASE 4.1 Transcript assigned by DGRC remapping
Comment[START_COORD] = Dmel_RELEASE 4.1 Start coordinate of predicted amplicon
Comment[STOP_COORD] = Dmel_RELEASE 4.1 Stop coordinate of amplicon
Comment[LENGTH] = Amplicon length
Comment[CYTO] = Dmel_RELEASE 4.1 Cytological location
Comment[GO_MOL_FUNC] = GO assignment, Molecular Function
Comment[GO_BIO_PROC] = GO assignment, Biological Process
Comment[GO_CELL_COMP] = GO assignment, Cellular Component
Comment[R3.1_GENE_NAME] = Gene name in Dmel_RELEASE 3.1 mapping
Comment[R1_GENE_NAME] = Gene name in Dmel_RELEASE 1 mapping
Comment[SUBARRAY] = Each array includes elements split into two chips designated A or B
Comment[LOCATION] = Location of element on the subarray
Comment[PLATEID] = Plate ID for amplicon source used for array elements
Comment[PLATEROW] = Row location of amplicons on plate
Comment[PLATECOLUMN] = Column location of amplicons on plate
Comment[INCYTECLONEID] = Incyte clone ID number used for array
Comment[CLONESOURCE] = Source of clone
Comment[PRIMERS] = Sequence of primers used for PCR amplification
Comment[STATUS] = 1 - PCR status, PCR products flagged by Incyte quality control that showed failed amplification, multiple bands, wrong size bands or primer problems, 2 - predicted amplicon not from dmelr3 or mitochondrial genome sequence, but heterochromatin scaffolds, 3 - multiple amplicons predicted, 4 - multiple BLAST hits for amplicon(s), 5 - amplicon(s) map to multiple genome features, 6 - FLAGGED_PROBLEMATIC by Flybase in D.mel annotations
Reporter Database Entry [clone_id] = Flybase ID assigned by DGRC remapping LINK_PRE:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=search&DB=nucleotide&cmd=search&term=
Comment[SPOT_ID] = identifies spots without FBgn number in CLONE_ID Comment[SubmittedName] Incyte Drosophila LifeArray v1.0 Comment[Organism] Drosophila melanogaster Printing Protocol Surface Type Substrate Type Term Source Name clone_id Comment[AdditionalFile:txt] A-GEOD-20_comments.txt [main] Reporter Name Reporter Database Entry [clone_id] 1 2 3 4 5 6 7 8 9 10 FBgn0030261 11 FBgn0052485 12 FBgn0028982 13 FBgn0023000 14 FBgn0045759 15 FBgn0038508 16 FBgn0034551 17 FBgn0035606 18 FBgn0036426 19 FBgn0014073 20 FBgn0035522 21 22 FBgn0038912 23 FBgn0037332 24 25 FBgn0034550 26 FBgn0030672 27 FBgn0038365 28 FBgn0020272 29 FBgn0031662 30 FBgn0052053 31 FBgn0037326 32 FBgn0036323 33 FBgn0036352 34 FBgn0052311 35 FBgn0036348 36 FBgn0037254 37 FBgn0015331 38 FBgn0030284 39 FBgn0035347 40 FBgn0025624 41 FBgn0029684 42 FBgn0036321 43 FBgn0037284 44 FBgn0032978 45 FBgn0037217 46 FBgn0030288 47 48 FBgn0031423 49 FBgn0053097 50 FBgn0037978 51 FBgn0041096 52 FBgn0038870 53 FBgn0037285 54 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FBgn0052413 124 FBgn0039709 125 FBgn0030653 126 FBgn0026602 127 FBgn0030879 128 FBgn0035793 129 FBgn0028789 130 FBgn0020647 131 FBgn0033705 132 FBgn0032783 133 FBgn0041150 134 FBgn0033866 135 FBgn0031820 136 FBgn0037807 137 FBgn0050412 138 FBgn0034405 139 FBgn0038957 140 FBgn0053144 141 FBgn0032497 142 143 FBgn0004430 144 FBgn0033235 145 FBgn0051302 146 FBgn0034143 147 FBgn0013756 148 FBgn0035830 149 FBgn0021767 150 FBgn0033246 151 FBgn0030304 152 FBgn0031390 153 FBgn0024987 154 FBgn0015615 155 FBgn0039492 156 FBgn0039541 157 FBgn0038149 158 FBgn0024277 159 FBgn0031247 160 FBgn0004428 161 FBgn0033248 162 FBgn0033158 163 FBgn0052389 164 FBgn0035753 165 166 167 168 169 170 171 172 173 174 175 FBgn0003515 176 FBgn0039151 177 FBgn0052190 178 FBgn0031258 179 FBgn0000644 180 FBgn0033224 181 FBgn0038547 182 FBgn0030895 183 FBgn0051619 184 FBgn0036375 185 FBgn0030815 186 FBgn0036824 187 FBgn0053520 188 FBgn0037138 189 FBgn0037860 190 FBgn0036402 191 FBgn0052407 192 FBgn0033473 193 194 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394 FBgn0014903 395 FBgn0025641 396 FBgn0036183 397 FBgn0020615 398 FBgn0035014 399 FBgn0010575 400 FBgn0036859 401 FBgn0050181 402 FBgn0034942 403 404 405 FBgn0004181 406 FBgn0034504 407 FBgn0035003 408 FBgn0035015 409 FBgn0035714 410 FBgn0036858 411 FBgn0036849 412 FBgn0029552 413 FBgn0032863 414 FBgn0034841 415 FBgn0040357 416 FBgn0032285 417 FBgn0030575 418 FBgn0036906 419 FBgn0034994 420 FBgn0033741 421 FBgn0027513 422 FBgn0023091 423 FBgn0034828 424 FBgn0004242 425 FBgn0035004 426 FBgn0003567 427 FBgn0034996 428 FBgn0033463 429 FBgn0034918 430 FBgn0032553 431 FBgn0031899 432 433 FBgn0010287 434 FBgn0027785 435 FBgn0035019 436 FBgn0034476 437 FBgn0003567 438 FBgn0065032 439 FBgn0037316 440 FBgn0015930 441 FBgn0038861 442 FBgn0038609 443 FBgn0037680 444 FBgn0036610 445 FBgn0030353 446 FBgn0030451 447 FBgn0032685 448 FBgn0038766 449 FBgn0013433 450 FBgn0028372 451 FBgn0029969 452 FBgn0001226 453 FBgn0039645 454 FBgn0011744 455 FBgn0039759 456 FBgn0031568 457 FBgn0038755 458 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FBgn0052603 598 FBgn0040887 599 FBgn0051187 600 FBgn0032768 601 FBgn0036425 602 FBgn0032733 603 FBgn0027074 604 FBgn0033063 605 FBgn0035702 606 FBgn0052306 607 FBgn0035193 608 FBgn0036751 609 FBgn0030093 610 FBgn0037431 611 FBgn0032283 612 FBgn0034921 613 FBgn0037242 614 FBgn0030642 615 FBgn0039594 616 FBgn0032935 617 FBgn0036877 618 FBgn0039808 619 FBgn0036599 620 FBgn0013591 621 FBgn0031466 622 FBgn0034846 623 FBgn0032374 624 FBgn0036148 625 FBgn0035520 626 FBgn0053249 627 FBgn0037381 628 FBgn0028374 629 FBgn0034840 630 FBgn0000527 631 FBgn0034500 632 FBgn0028633 633 FBgn0024957 634 FBgn0033951 635 FBgn0010263 636 FBgn0031410 637 FBgn0052656 638 FBgn0036139 639 FBgn0035293 640 FBgn0004045 641 FBgn0037001 642 FBgn0037726 643 FBgn0032503 644 FBgn0052560 645 646 FBgn0031527 647 FBgn0026758 648 FBgn0030759 649 FBgn0003075 650 FBgn0052533 651 FBgn0038069 652 653 654 FBgn0036555 655 FBgn0034312 656 FBgn0031307 657 658 659 660 661 662 663 664 665 666 FBgn0030261 667 FBgn0052485 668 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870 FBgn0036754 871 FBgn0026315 872 FBgn0033800 873 FBgn0000095 874 FBgn0032638 875 FBgn0032143 876 FBgn0032848 877 FBgn0039177 878 FBgn0003444 879 FBgn0035136 880 FBgn0023130 881 FBgn0053138 882 FBgn0030099 883 FBgn0052242 884 FBgn0037147 885 FBgn0034422 886 FBgn0035989 887 FBgn0033753 888 FBgn0039128 889 FBgn0028888 890 FBgn0033995 891 FBgn0030954 892 FBgn0038595 893 FBgn0033190 894 FBgn0001187 895 896 897 FBgn0001256 898 FBgn0030187 899 FBgn0030145 900 FBgn0063493 901 902 FBgn0035807 903 FBgn0031051 904 FBgn0036813 905 FBgn0034920 906 FBgn0039127 907 908 FBgn0036377 909 FBgn0015816 910 FBgn0046301 911 FBgn0000258 912 FBgn0034082 913 FBgn0039831 914 FBgn0038310 915 FBgn0035888 916 FBgn0030217 917 FBgn0051284 918 FBgn0034800 919 FBgn0034748 920 FBgn0004396 921 FBgn0005633 922 FBgn0032227 923 FBgn0032112 924 925 FBgn0035424 926 FBgn0039693 927 FBgn0023508 928 FBgn0036800 929 FBgn0038388 930 FBgn0033225 931 FBgn0038548 932 FBgn0025626 933 FBgn0031384 934 FBgn0039749 935 FBgn0023527 936 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FBgn0036849 1068 FBgn0029552 1069 FBgn0032863 1070 FBgn0034841 1071 FBgn0040357 1072 FBgn0032285 1073 FBgn0030575 1074 FBgn0036906 1075 FBgn0034994 1076 FBgn0033741 1077 FBgn0027513 1078 FBgn0023091 1079 FBgn0034828 1080 FBgn0004242 1081 FBgn0035004 1082 FBgn0003567 1083 FBgn0034996 1084 FBgn0033463 1085 FBgn0034918 1086 FBgn0032553 1087 FBgn0031899 1088 1089 FBgn0010287 1090 FBgn0027785 1091 FBgn0035019 1092 FBgn0034476 1093 FBgn0003567 1094 FBgn0065032 1095 FBgn0037316 1096 FBgn0015930 1097 FBgn0038861 1098 FBgn0038609 1099 FBgn0037680 1100 FBgn0036610 1101 FBgn0030353 1102 FBgn0030451 1103 FBgn0032685 1104 FBgn0038766 1105 FBgn0013433 1106 FBgn0028372 1107 FBgn0029969 1108 FBgn0001226 1109 FBgn0039645 1110 FBgn0011744 1111 FBgn0039759 1112 FBgn0031568 1113 FBgn0038755 1114 FBgn0039029 1115 FBgn0033486 1116 FBgn0011761 1117 FBgn0039798 1118 FBgn0030100 1119 FBgn0039201 1120 FBgn0030442 1121 FBgn0034100 1122 FBgn0030984 1123 FBgn0032746 1124 FBgn0033431 1125 FBgn0019886 1126 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