title: Control sample, Sample_ID = 137a, RNA

value: CEPH 1420

value: DAUGHTER


title: Pancreatic cancer sample, Sample_ID = 13a, RNA

status: Public on Jan 05 2008

type: RNA

city: Baltimore

first: Aik Choon

last: Tan

state: MD

address: 1650 Orleans Street, RM 1M86

department: The Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins

country: USA

institute: Johns Hopkins University

hyb_protocol: Array image processing and signal extraction were done as described previously (Fan JB et al, Illumina Universal bead arrays, 2006)

scan_protocol: Arrays were imaged using Illumina BeadArray Reader scanner (Illumina).

data_processing: Image analysis and data extraction software were as described previously (Oliphant, A., Barker, D.L., Stuelpnagel, J.R., and Chee, M.S. 2002. BeadArray technology: enabling an accurate, cost-effective approach to high-throughput genotyping. Biotechniques 32: S56-S61.; Galinsky, V.L. 2003. Automatic registration of microarray images II: Hexagonal grid. Bioinformatics 19: 1832-1836.). Each sequence type is represented by an average of thirty beads on the array. Bead signals are computed with weighted averages of pixel intensities, and local background is subtracted. Sequence-type signal is calculated by averaging corresponding bead signals with outliers removed (using median absolute deviation).

molecule: total RNA

organism: Homo sapiens

source_name: RNA from ASO1

label_protocol: GoldenGate® assay was done as described previously (Fan JB et al, Illumina Universal bead arrays, 2006)

extract_protocol: RNA was extracted from four to five 5-um sections using an RNA extraction kit (Roche High Pure RNA Paraffin kit), yielding 0.5 - 3 ug of total RNA.

source_name: RNA from ASO2


title: Pancreatic cancer sample, Sample_ID = 40a, RNA


title: Pancreatic cancer sample, Sample_ID = 40b, RNA


title: Pancreatic cancer sample, Sample_ID = 38a, RNA


title: Pancreatic cancer sample, Sample_ID = 38b, RNA


title: Pancreatic cancer sample, Sample_ID = 3a, RNA


title: Control sample, Sample_ID = 136b, RNA

tag: CEPH family

value: CEPH 1362

tag: CEPH pedigree

value: SON


title: Pancreatic cancer sample, Sample_ID = 43a, RNA


title: Control sample, Sample_ID = 135b, RNA

value: CEPH 1416


title: Control sample, Sample_ID = 137b, RNA


title: Pancreatic cancer sample, Sample_ID = 39b, RNA


title: Pancreatic cancer sample, Sample_ID = 41a, RNA


title: Control sample, Sample_ID = 136a, RNA


title: Control sample, Sample_ID = 138b, RNA

value: CEPH 1421


title: Pancreatic cancer sample, Sample_ID = 3b, RNA


title: Pancreatic cancer sample, Sample_ID = 39a, RNA


title: Control sample, Sample_ID = 135a, RNA


title: Control sample, Sample_ID = 134b, RNA

value: CEPH 1424

value: FATHER


title: Pancreatic cancer sample, Sample_ID = 37b, RNA


title: Control sample, Sample_ID = 133b, RNA

value: MOTHER


title: Pancreatic cancer sample, Sample_ID = 36a, RNA


title: Control sample, Sample_ID = 134a, RNA


title: Pancreatic cancer sample, Sample_ID = 35a, RNA


title: Pancreatic cancer sample, Sample_ID = 37a, RNA


title: Pancreatic cancer sample, Sample_ID = 36b, RNA


title: Control sample, Sample_ID = 131b, RNA

value: CEPH 1349


title: Control sample, Sample_ID = 133a, RNA


title: Pancreatic cancer sample, Sample_ID = 34a, RNA


title: Control sample, Sample_ID = 132a, RNA

value: CEPH 1413


title: Pancreatic cancer sample, Sample_ID = 35b, RNA


title: Pancreatic cancer sample, Sample_ID = 33b, RNA


title: Control sample, Sample_ID = 130b, RNA

value: CEPH 1341


title: Control sample, Sample_ID = 132b, RNA


title: Pancreatic cancer sample, Sample_ID = 34b, RNA


title: Pancreatic cancer sample, Sample_ID = 32a, RNA


title: Pancreatic cancer sample, Sample_ID = 33a, RNA


title: Pancreatic cancer sample, Sample_ID = 32b, RNA


title: Pancreatic cancer sample, Sample_ID = 31b, RNA


title: Pancreatic cancer sample, Sample_ID = 2b, RNA


title: Pancreatic cancer sample, Sample_ID = 31a, RNA


title: Control sample, Sample_ID = 129a, RNA


title: Control sample, Sample_ID = 131a, RNA


title: Control sample, Sample_ID = 130a, RNA


title: Pancreatic cancer sample, Sample_ID = 12b, RNA


title: Control sample, Sample_ID = 129b, RNA


title: Pancreatic cancer sample, Sample_ID = 12a, RNA


title: Control sample, Sample_ID = 128a, RNA

value: CEPH 1350


title: Pancreatic cancer sample, Sample_ID = 28b, RNA


title: Control sample, Sample_ID = 126a, RNA


title: Control sample, Sample_ID = 128b, RNA


title: Pancreatic cancer sample, Sample_ID = 27b, RNA


title: Pancreatic cancer sample, Sample_ID = 2a, RNA


title: Pancreatic cancer sample, Sample_ID = 27a, RNA


title: Pancreatic cancer sample, Sample_ID = 26a, RNA


title: Pancreatic cancer sample, Sample_ID = 25b, RNA


title: Control sample, Sample_ID = 125b, RNA

value: CEPH 1423


title: Control sample, Sample_ID = 125a, RNA


title: Control sample, Sample_ID = 123a, RNA


title: Pancreatic cancer sample, Sample_ID = 26b, RNA


title: Control sample, Sample_ID = 124b, RNA

value: CEPH 1418


title: Control sample, Sample_ID = 124a, RNA


title: Control sample, Sample_ID = 121b, RNA


title: Control sample, Sample_ID = 122a, RNA


title: Pancreatic cancer sample, Sample_ID = 28a, RNA


title: Pancreatic cancer sample, Sample_ID = 25a, RNA


title: Control sample, Sample_ID = 123b, RNA


title: Pancreatic cancer sample, Sample_ID = 24a, RNA


title: Control sample, Sample_ID = 120b, RNA


title: Control sample, Sample_ID = 126b, RNA


title: Pancreatic cancer sample, Sample_ID = 23b, RNA


title: Pancreatic cancer sample, Sample_ID = 23a, RNA


title: Control sample, Sample_ID = 121a, RNA


title: Pancreatic cancer sample, Sample_ID = 22b, RNA


title: Pancreatic cancer sample, Sample_ID = 24b, RNA


title: Pancreatic cancer sample, Sample_ID = 22a, RNA


title: Pancreatic cancer sample, Sample_ID = 20b, RNA


title: Pancreatic cancer sample, Sample_ID = 1b, RNA


title: Control sample, Sample_ID = 117a, RNA


title: Control sample, Sample_ID = 119b, RNA


title: Pancreatic cancer sample, Sample_ID = 17b, RNA


title: Control sample, Sample_ID = 117b, RNA


title: Pancreatic cancer sample, Sample_ID = 1a, RNA


title: Pancreatic cancer sample, Sample_ID = 19b, RNA


title: Pancreatic cancer sample, Sample_ID = 15b, RNA


title: Control sample, Sample_ID = 113b, RNA


title: Pancreatic cancer sample, Sample_ID = 15a, RNA


title: Control sample, Sample_ID = 116b, RNA


title: Control sample, Sample_ID = 114b, RNA

value: CEPH 1375


title: Pancreatic cancer sample, Sample_ID = 17a, RNA


title: Pancreatic cancer sample, Sample_ID = 16b, RNA


title: Control sample, Sample_ID = 118b, RNA


title: Pancreatic cancer sample, Sample_ID = 16a, RNA


title: Control sample, Sample_ID = 114a, RNA


title: Pancreatic cancer sample, Sample_ID = 21b, RNA


title: Control sample, Sample_ID = 112a, RNA


title: Control sample, Sample_ID = 118a, RNA


title: Control sample, Sample_ID = 156a, RNA


title: Control sample, Sample_ID = 112b, RNA


title: Control sample, Sample_ID = 156b, RNA


title: Control sample, Sample_ID = 120a, RNA


title: Control sample, Sample_ID = 155b, RNA

value: CEPH 1345


title: Control sample, Sample_ID = 113a, RNA


title: Control sample, Sample_ID = 111a, RNA


title: Control sample, Sample_ID = 154a, RNA

value: CEPH 1346


title: Control sample, Sample_ID = 110b, RNA


title: Control sample, Sample_ID = 153b, RNA

value: CEPH 1340


title: Pancreatic cancer sample, Sample_ID = 10b, RNA


title: Control sample, Sample_ID = 154b, RNA


title: Pancreatic cancer sample, Sample_ID = 11a, RNA


title: Control sample, Sample_ID = 151a, RNA


title: Control sample, Sample_ID = 155a, RNA


title: Control sample, Sample_ID = 110a, RNA


title: Pancreatic cancer sample, Sample_ID = 109b, RNA


title: Control sample, Sample_ID = 152a, RNA

value: DAUGHTER


title: Pancreatic cancer sample, Sample_ID = 108b, RNA


title: Pancreatic cancer sample, Sample_ID = 109a, RNA


title: Control sample, Sample_ID = 153a, RNA

value: SON


title: Control sample, Sample_ID = 152b, RNA


title: Pancreatic cancer sample, Sample_ID = 10a, RNA


title: Control sample, Sample_ID = 150b, RNA

value: CEPH 1344


title: Pancreatic cancer sample, Sample_ID = 107b, RNA


title: Control sample, Sample_ID = 150a, RNA


title: Control sample, Sample_ID = 149b, RNA


title: Pancreatic cancer sample, Sample_ID = 11b, RNA


title: Pancreatic cancer sample, Sample_ID = 14a, RNA


title: Control sample, Sample_ID = 149a, RNA


title: Pancreatic cancer sample, Sample_ID = 107a, RNA


title: Control sample, Sample_ID = 148a, RNA


title: Pancreatic cancer sample, Sample_ID = 104a, RNA


title: Pancreatic cancer sample, Sample_ID = 106b, RNA


title: Pancreatic cancer sample, Sample_ID = 103a, RNA


title: Control sample, Sample_ID = 147a, RNA


title: Pancreatic cancer sample, Sample_ID = 104b, RNA


title: Control sample, Sample_ID = 146b, RNA


title: Control sample, Sample_ID = 148b, RNA


title: Pancreatic cancer sample, Sample_ID = 19a, RNA


title: Control sample, Sample_ID = 151b, RNA


title: Pancreatic cancer sample, Sample_ID = 105b, RNA


title: Pancreatic cancer sample, Sample_ID = 102a, RNA


title: Pancreatic cancer sample, Sample_ID = 101b, RNA


title: Control sample, Sample_ID = 145a, RNA

value: CEPH 1362


title: Pancreatic cancer sample, Sample_ID = 102b, RNA


title: Control sample, Sample_ID = 111b, RNA


title: Control sample, Sample_ID = 144b, RNA


title: Control sample, Sample_ID = 144a, RNA


title: Control sample, Sample_ID = 146a, RNA


title: Pancreatic cancer sample, Sample_ID = 105a, RNA


title: Pancreatic cancer sample, Sample_ID = 101a, RNA


title: Pancreatic cancer sample, Sample_ID = 100a, RNA


title: Control sample, Sample_ID = 143b, RNA


title: Control sample, Sample_ID = 142b, RNA


title: Pancreatic cancer sample, Sample_ID = 9a, DNA

type: genomic

molecule: genomic DNA

source_name: genomic DNA from ASO1

source_name: genomic DNA from ASO2


title: Pancreatic cancer sample, Sample_ID = 106a, RNA


title: Pancreatic cancer sample, Sample_ID = 9b, DNA


title: Pancreatic cancer sample, Sample_ID = 98, DNA


title: Pancreatic cancer sample, Sample_ID = 21a, RNA


title: Control sample, Sample_ID = 141b, RNA


title: Control sample, Sample_ID = 142a, RNA


title: Pancreatic cancer sample, Sample_ID = 20a, RNA


title: Control sample, Sample_ID = 141a, RNA


title: Pancreatic cancer sample, Sample_ID = 13b, RNA


title: Pancreatic cancer sample, Sample_ID = 95, DNA


title: Pancreatic cancer sample, Sample_ID = 96, DNA


title: Pancreatic cancer sample, Sample_ID = 13a, RNA


title: Pancreatic cancer sample, Sample_ID = 94, DNA


title: Pancreatic cancer sample, Sample_ID = 99, DNA


title: Pancreatic cancer sample, Sample_ID = 93, DNA


title: Pancreatic cancer sample, Sample_ID = 97, DNA


title: Pancreatic cancer sample, Sample_ID = 92, DNA


title: Control sample, Sample_ID = 139a, RNA


title: Control sample, Sample_ID = 139b, RNA


title: Pancreatic cancer sample, Sample_ID = 91, DNA


title: Control sample, Sample_ID = 138a, RNA

value: CEPH 1421


title: Pancreatic cancer sample, Sample_ID = 8a, DNA


title: Control sample, Sample_ID = 137b, RNA

value: CEPH 1420


title: Pancreatic cancer sample, Sample_ID = 88, DNA


title: Pancreatic cancer sample, Sample_ID = 89, DNA


title: Control sample, Sample_ID = 136b, RNA


title: Control sample, Sample_ID = 136a, RNA


title: Control sample, Sample_ID = 137a, RNA


title: Control sample, Sample_ID = 143a, RNA

value: FATHER


title: Pancreatic cancer sample, Sample_ID = 87, DNA


title: Pancreatic cancer sample, Sample_ID = 86, DNA


title: Control sample, Sample_ID = 135b, RNA

value: CEPH 1416


title: Control sample, Sample_ID = 135a, RNA


title: Control sample, Sample_ID = 134a, RNA

value: CEPH 1424


title: Pancreatic cancer sample, Sample_ID = 8b, DNA


title: Pancreatic cancer sample, Sample_ID = 84, DNA


title: Pancreatic cancer sample, Sample_ID = 85, DNA


title: Control sample, Sample_ID = 134b, RNA


title: Control sample, Sample_ID = 133a, RNA

value: MOTHER


title: Control sample, Sample_ID = 133b, RNA


title: Control sample, Sample_ID = 132b, RNA

value: CEPH 1413


title: Pancreatic cancer sample, Sample_ID = 83, DNA


title: Pancreatic cancer sample, Sample_ID = 81, DNA


title: Control sample, Sample_ID = 132a, RNA


title: Control sample, Sample_ID = 130b, RNA

value: CEPH 1341


title: Control sample, Sample_ID = 131b, RNA

value: CEPH 1349


title: Control sample, Sample_ID = 131a, RNA


title: Pancreatic cancer sample, Sample_ID = 78, DNA


title: Pancreatic cancer sample, Sample_ID = 80, DNA


title: Pancreatic cancer sample, Sample_ID = 79, DNA


title: Pancreatic cancer sample, Sample_ID = 82, DNA


title: Pancreatic cancer sample, Sample_ID = 12b, RNA


title: Control sample, Sample_ID = 130a, RNA


title: Pancreatic cancer sample, Sample_ID = 76, DNA


title: Pancreatic cancer sample, Sample_ID = 77, DNA


title: Pancreatic cancer sample, Sample_ID = 108a, RNA


title: Pancreatic cancer sample, Sample_ID = 75, DNA


title: Pancreatic cancer sample, Sample_ID = 74, DNA


title: Control sample, Sample_ID = 129b, RNA


title: Control sample, Sample_ID = 128b, RNA

value: CEPH 1350


title: Pancreatic cancer sample, Sample_ID = 6b, DNA


title: Pancreatic cancer sample, Sample_ID = 71, DNA


title: Control sample, Sample_ID = 128a, RNA


title: Control sample, Sample_ID = 129a, RNA


title: Control sample, Sample_ID = 126b, RNA


title: Control sample, Sample_ID = 125a, RNA

value: CEPH 1423


title: Control sample, Sample_ID = 122b, RNA


title: Pancreatic cancer sample, Sample_ID = 6a, DNA


title: Pancreatic cancer sample, Sample_ID = 70, DNA


title: Control sample, Sample_ID = 116a, RNA


title: Pancreatic cancer sample, Sample_ID = 69, DNA


title: Pancreatic cancer sample, Sample_ID = 68, DNA


title: Control sample, Sample_ID = 126a, RNA


title: Control sample, Sample_ID = 125b, RNA


title: Pancreatic cancer sample, Sample_ID = 67, DNA


title: Control sample, Sample_ID = 124b, RNA

value: CEPH 1418


title: Pancreatic cancer sample, Sample_ID = 66, DNA


title: Control sample, Sample_ID = 124a, RNA


title: Pancreatic cancer sample, Sample_ID = 63, DNA


title: Pancreatic cancer sample, Sample_ID = 62, DNA


title: Pancreatic cancer sample, Sample_ID = 64, DNA


title: Control sample, Sample_ID = 123b, RNA


title: Pancreatic cancer sample, Sample_ID = 65, DNA


title: Control sample, Sample_ID = 138b, RNA


title: Control sample, Sample_ID = 123a, RNA


title: Pancreatic cancer sample, Sample_ID = 60, DNA


title: Pancreatic cancer sample, Sample_ID = 61, DNA


title: Control sample, Sample_ID = 122b, RNA


title: Pancreatic cancer sample, Sample_ID = 55, DNA


title: Pancreatic cancer sample, Sample_ID = 5b, DNA


title: Pancreatic cancer sample, Sample_ID = 54, DNA


title: Control sample, Sample_ID = 121b, RNA


title: Pancreatic cancer sample, Sample_ID = 5a, DNA


title: Pancreatic cancer sample, Sample_ID = 103b, RNA


title: Control sample, Sample_ID = 120b, RNA


title: Control sample, Sample_ID = 121a, RNA


title: Control sample, Sample_ID = 120a, RNA


title: Control sample, Sample_ID = 119a, RNA


title: Pancreatic cancer sample, Sample_ID = 11a, RNA


title: Pancreatic cancer sample, Sample_ID = 11b, RNA


title: Control sample, Sample_ID = 119b, RNA


title: Pancreatic cancer sample, Sample_ID = 52, DNA


title: Pancreatic cancer sample, Sample_ID = 50, DNA


title: Pancreatic cancer sample, Sample_ID = 4b, DNA


title: Pancreatic cancer sample, Sample_ID = 53, DNA


title: Pancreatic cancer sample, Sample_ID = 100b, RNA


title: Pancreatic cancer sample, Sample_ID = 14b, RNA


title: Control sample, Sample_ID = 118a, RNA


title: Control sample, Sample_ID = 118b, RNA


title: Control sample, Sample_ID = 116b, RNA


title: Control sample, Sample_ID = 117a, RNA


title: Control sample, Sample_ID = 117b, RNA


title: Pancreatic cancer sample, Sample_ID = 47a, DNA


title: Control sample, Sample_ID = 116a, RNA


title: Pancreatic cancer sample, Sample_ID = 48b, DNA


title: Control sample, Sample_ID = 113b, RNA


title: Pancreatic cancer sample, Sample_ID = 47b, DNA


title: Control sample, Sample_ID = 114b, RNA

value: CEPH 1375


title: Control sample, Sample_ID = 114a, RNA


title: Pancreatic cancer sample, Sample_ID = 45a, DNA


title: Control sample, Sample_ID = 113a, RNA


title: Control sample, Sample_ID = 112b, RNA


title: Pancreatic cancer sample, Sample_ID = 46a, DNA


title: Pancreatic cancer sample, Sample_ID = 46b, DNA


title: Pancreatic cancer sample, Sample_ID = 49, DNA


title: Pancreatic cancer sample, Sample_ID = 45b, DNA


title: Pancreatic cancer sample, Sample_ID = 44b, DNA


title: Pancreatic cancer sample, Sample_ID = 44a, DNA


title: Pancreatic cancer sample, Sample_ID = 43b, DNA


title: Control sample, Sample_ID = 111b, RNA

value: DAUGHTER


title: Control sample, Sample_ID = 111a, RNA


title: Pancreatic cancer sample, Sample_ID = 42a, DNA


title: Control sample, Sample_ID = 110b, RNA


title: Pancreatic cancer sample, Sample_ID = 43a, DNA


title: Control sample, Sample_ID = 110a, RNA


title: Pancreatic cancer sample, Sample_ID = 42b, DNA


title: Pancreatic cancer sample, Sample_ID = 10b, RNA


title: Pancreatic cancer sample, Sample_ID = 109b, RNA


title: Pancreatic cancer sample, Sample_ID = 10a, RNA


title: Pancreatic cancer sample, Sample_ID = 108a, RNA


title: Pancreatic cancer sample, Sample_ID = 41a, DNA


title: Pancreatic cancer sample, Sample_ID = 41b, DNA


title: Control sample, Sample_ID = 112a, RNA


title: Pancreatic cancer sample, Sample_ID = 108b, RNA


title: Pancreatic cancer sample, Sample_ID = 40a, DNA


title: Pancreatic cancer sample, Sample_ID = 3a, DNA


title: Pancreatic cancer sample, Sample_ID = 3b, DNA


title: Pancreatic cancer sample, Sample_ID = 109a, RNA


title: Pancreatic cancer sample, Sample_ID = 107a, RNA


title: Pancreatic cancer sample, Sample_ID = 39b, DNA


title: Pancreatic cancer sample, Sample_ID = 107b, RNA


title: Pancreatic cancer sample, Sample_ID = 39a, DNA


title: Pancreatic cancer sample, Sample_ID = 106b, RNA


title: Pancreatic cancer sample, Sample_ID = 40b, DNA


title: Pancreatic cancer sample, Sample_ID = 106a, RNA


title: Pancreatic cancer sample, Sample_ID = 37b, DNA


title: Pancreatic cancer sample, Sample_ID = 104b, RNA


title: Pancreatic cancer sample, Sample_ID = 105a, RNA


title: Pancreatic cancer sample, Sample_ID = 37a, DNA


title: Pancreatic cancer sample, Sample_ID = 104a, RNA


title: Pancreatic cancer sample, Sample_ID = 36b, DNA


title: Control sample, Sample_ID = 122a, RNA


title: Pancreatic cancer sample, Sample_ID = 35b, DNA


title: Pancreatic cancer sample, Sample_ID = 105b, RNA


title: Pancreatic cancer sample, Sample_ID = 38b, DNA


title: Pancreatic cancer sample, Sample_ID = 103b, RNA


title: Pancreatic cancer sample, Sample_ID = 103a, RNA


title: Pancreatic cancer sample, Sample_ID = 35a, DNA


title: Pancreatic cancer sample, Sample_ID = 38a, DNA


title: Pancreatic cancer sample, Sample_ID = 36a, DNA


title: Pancreatic cancer sample, Sample_ID = 102b, RNA


title: Pancreatic cancer sample, Sample_ID = 101b, RNA


title: Pancreatic cancer sample, Sample_ID = 33b, DNA


title: Pancreatic cancer sample, Sample_ID = 34b, DNA


title: Control sample, Sample_ID = 119a, RNA


title: Pancreatic cancer sample, Sample_ID = 102a, RNA


title: Pancreatic cancer sample, Sample_ID = 101a, RNA


title: Pancreatic cancer sample, Sample_ID = 33a, DNA


title: Pancreatic cancer sample, Sample_ID = 100b, RNA


title: Pancreatic cancer sample, Sample_ID = 100a, RNA


title: Pancreatic cancer sample, Sample_ID = 32b, DNA


title: Pancreatic cancer sample, Sample_ID = 99, DNA


title: Pancreatic cancer sample, Sample_ID = 32a, DNA


title: Pancreatic cancer sample, Sample_ID = 98, DNA


title: Pancreatic cancer sample, Sample_ID = 34a, DNA


title: Pancreatic cancer sample, Sample_ID = 97, DNA


title: Pancreatic cancer sample, Sample_ID = 2a, DNA


title: Pancreatic cancer sample, Sample_ID = 94, DNA


title: Pancreatic cancer sample, Sample_ID = 95, DNA


title: Pancreatic cancer sample, Sample_ID = 2b, DNA


title: Pancreatic cancer sample, Sample_ID = 31b, DNA


title: Pancreatic cancer sample, Sample_ID = 28b, DNA


title: Pancreatic cancer sample, Sample_ID = 27b, DNA


title: Pancreatic cancer sample, Sample_ID = 31a, DNA


title: Pancreatic cancer sample, Sample_ID = 93, DNA


title: Pancreatic cancer sample, Sample_ID = 91, DNA


title: Pancreatic cancer sample, Sample_ID = 27a, DNA


title: Pancreatic cancer sample, Sample_ID = 96, DNA


title: Pancreatic cancer sample, Sample_ID = 90, DNA


title: Pancreatic cancer sample, Sample_ID = 26b, DNA


title: Pancreatic cancer sample, Sample_ID = 26a, DNA


title: Pancreatic cancer sample, Sample_ID = 9, DNA


title: Pancreatic cancer sample, Sample_ID = 25a, DNA


title: Pancreatic cancer sample, Sample_ID = 25b, DNA


title: Pancreatic cancer sample, Sample_ID = 28a, DNA


title: Pancreatic cancer sample, Sample_ID = 92, DNA


title: Pancreatic cancer sample, Sample_ID = 24b, DNA


title: Pancreatic cancer sample, Sample_ID = 23b, DNA


title: Pancreatic cancer sample, Sample_ID = 88, DNA


title: Pancreatic cancer sample, Sample_ID = 8b, DNA


title: Pancreatic cancer sample, Sample_ID = 86, DNA


title: Pancreatic cancer sample, Sample_ID = 8a, DNA


title: Pancreatic cancer sample, Sample_ID = 23a, DNA


title: Pancreatic cancer sample, Sample_ID = 22a, DNA


title: Pancreatic cancer sample, Sample_ID = 22b, DNA


title: Pancreatic cancer sample, Sample_ID = 87, DNA


title: Pancreatic cancer sample, Sample_ID = 1b, DNA


title: Pancreatic cancer sample, Sample_ID = 20b, DNA


title: Pancreatic cancer sample, Sample_ID = 84, DNA


title: Pancreatic cancer sample, Sample_ID = 20a, DNA


title: Control sample, Sample_ID = 147b, RNA


title: Pancreatic cancer sample, Sample_ID = 24a, DNA


title: Pancreatic cancer sample, Sample_ID = 81, DNA


title: Pancreatic cancer sample, Sample_ID = 89, DNA


title: Pancreatic cancer sample, Sample_ID = 85, DNA


title: Pancreatic cancer sample, Sample_ID = 80, DNA


title: Control sample, Sample_ID = 145b, RNA


title: Pancreatic cancer sample, Sample_ID = 19a, DNA


title: Pancreatic cancer sample, Sample_ID = 7b, DNA


title: Pancreatic cancer sample, Sample_ID = 7a, DNA


title: Pancreatic cancer sample, Sample_ID = 82, DNA


title: Pancreatic cancer sample, Sample_ID = 79, DNA


title: Pancreatic cancer sample, Sample_ID = 18a, DNA


title: Pancreatic cancer sample, Sample_ID = 18b, DNA


title: Pancreatic cancer sample, Sample_ID = 78, DNA


title: Pancreatic cancer sample, Sample_ID = 76, DNA


title: Pancreatic cancer sample, Sample_ID = 75, DNA


title: Pancreatic cancer sample, Sample_ID = 16b, DNA


title: Pancreatic cancer sample, Sample_ID = 17b, DNA


title: Pancreatic cancer sample, Sample_ID = 17a, DNA


title: Pancreatic cancer sample, Sample_ID = 19b, DNA


title: Pancreatic cancer sample, Sample_ID = 77, DNA


title: Pancreatic cancer sample, Sample_ID = 16a, DNA


title: Pancreatic cancer sample, Sample_ID = 83, DNA


title: Pancreatic cancer sample, Sample_ID = 74, DNA


title: Pancreatic cancer sample, Sample_ID = 15b, DNA


title: Pancreatic cancer sample, Sample_ID = 71, DNA


title: Pancreatic cancer sample, Sample_ID = 1a, DNA


title: Pancreatic cancer sample, Sample_ID = 70, DNA


title: Control sample, Sample_ID = 157b, DNA


title: Pancreatic cancer sample, Sample_ID = 48a, DNA


title: Control sample, Sample_ID = 157a, DNA


title: Pancreatic cancer sample, Sample_ID = 15a, DNA


title: Control sample, Sample_ID = 156b, DNA


title: Pancreatic cancer sample, Sample_ID = 69, DNA


title: Pancreatic cancer sample, Sample_ID = 68, DNA


title: Pancreatic cancer sample, Sample_ID = 67, DNA


title: Control sample, Sample_ID = 156a, DNA


title: Pancreatic cancer sample, Sample_ID = 66, DNA


title: Control sample, Sample_ID = 155b, DNA

value: CEPH 1345


title: Pancreatic cancer sample, Sample_ID = 61, DNA


title: Pancreatic cancer sample, Sample_ID = 64, DNA


title: Pancreatic cancer sample, Sample_ID = 63, DNA


title: Pancreatic cancer sample, Sample_ID = 65, DNA


title: Control sample, Sample_ID = 154a, DNA

value: CEPH 1346


title: Control sample, Sample_ID = 152b, DNA


title: Pancreatic cancer sample, Sample_ID = 6, DNA


title: Control sample, Sample_ID = 153a, DNA

value: CEPH 1340

value: SON


title: Control sample, Sample_ID = 155a, DNA


title: Pancreatic cancer sample, Sample_ID = 5a, DNA


title: Pancreatic cancer sample, Sample_ID = 5b, DNA


title: Pancreatic cancer sample, Sample_ID = 60, DNA


title: Control sample, Sample_ID = 153b, DNA


title: Pancreatic cancer sample, Sample_ID = 55, DNA


title: Control sample, Sample_ID = 151b, DNA


title: Control sample, Sample_ID = 154b, DNA


title: Pancreatic cancer sample, Sample_ID = 54, DNA


title: Pancreatic cancer sample, Sample_ID = 62, DNA


title: Control sample, Sample_ID = 151a, DNA


title: Control sample, Sample_ID = 152a, DNA


title: Control sample, Sample_ID = 150b, DNA

value: CEPH 1344


title: Pancreatic cancer sample, Sample_ID = 52, DNA


title: Control sample, Sample_ID = 150a, DNA


title: Control sample, Sample_ID = 149b, DNA

value: FATHER


title: Pancreatic cancer sample, Sample_ID = 53, DNA


title: Pancreatic cancer sample, Sample_ID = 14b, DNA


title: Pancreatic cancer sample, Sample_ID = 14a, DNA


title: Pancreatic cancer sample, Sample_ID = 50, DNA


title: Pancreatic cancer sample, Sample_ID = 48, DNA


title: Pancreatic cancer sample, Sample_ID = 47b, DNA


title: Pancreatic cancer sample, Sample_ID = 47a, DNA


title: Control sample, Sample_ID = 149a, DNA


title: Control sample, Sample_ID = 147b, DNA


title: Control sample, Sample_ID = 147a, DNA


title: Control sample, Sample_ID = 148a, DNA


title: Pancreatic cancer sample, Sample_ID = 45b, DNA


title: Pancreatic cancer sample, Sample_ID = 46, DNA


title: Control sample, Sample_ID = 148b, DNA


title: Control sample, Sample_ID = 146b, DNA


title: Pancreatic cancer sample, Sample_ID = 45a, DNA


title: Control sample, Sample_ID = 146a, DNA


title: Control sample, Sample_ID = 144b, DNA


title: Control sample, Sample_ID = 145a, DNA

value: CEPH 1362


title: Control sample, Sample_ID = 145b, DNA


title: Pancreatic cancer sample, Sample_ID = 43, DNA


title: Pancreatic cancer sample, Sample_ID = 42, DNA


title: Pancreatic cancer sample, Sample_ID = 44, DNA


title: Pancreatic cancer sample, Sample_ID = 41, DNA


title: Pancreatic cancer sample, Sample_ID = 40, DNA


title: Control sample, Sample_ID = 144a, DNA


title: Control sample, Sample_ID = 143a, DNA


title: Control sample, Sample_ID = 142b, DNA


title: Pancreatic cancer sample, Sample_ID = 4, DNA


title: Pancreatic cancer sample, Sample_ID = 3b, DNA


title: Pancreatic cancer sample, Sample_ID = 3a, DNA


title: Pancreatic cancer sample, Sample_ID = 35b, DNA


title: Pancreatic cancer sample, Sample_ID = 36, DNA


title: Control sample, Sample_ID = 143b, DNA


title: Control sample, Sample_ID = 142a, DNA


title: Control sample, Sample_ID = 141b, DNA


title: Pancreatic cancer sample, Sample_ID = 35a, DNA


title: Control sample, Sample_ID = 139a, DNA


title: Pancreatic cancer sample, Sample_ID = 34a, DNA


title: Pancreatic cancer sample, Sample_ID = 13b, DNA


title: Pancreatic cancer sample, Sample_ID = 13a, DNA


title: Control sample, Sample_ID = 139b, DNA


title: Pancreatic cancer sample, Sample_ID = 34b, DNA


title: Control sample, Sample_ID = 136b, DNA


title: Pancreatic cancer sample, Sample_ID = 39, DNA


title: Control sample, Sample_ID = 138a, DNA

value: CEPH 1421


title: Pancreatic cancer sample, Sample_ID = 33b, DNA


title: Pancreatic cancer sample, Sample_ID = 32, DNA


title: Control sample, Sample_ID = 137b, DNA

value: CEPH 1420


title: Pancreatic cancer sample, Sample_ID = 33a, DNA


title: Control sample, Sample_ID = 137a, DNA


title: Control sample, Sample_ID = 138b, DNA


title: Control sample, Sample_ID = 141a, DNA


title: Pancreatic cancer sample, Sample_ID = 31, DNA


title: Control sample, Sample_ID = 135b, DNA

value: CEPH 1416


title: Pancreatic cancer sample, Sample_ID = 38, DNA


title: Pancreatic cancer sample, Sample_ID = 28, DNA


title: Pancreatic cancer sample, Sample_ID = 27b, DNA


title: Control sample, Sample_ID = 135a, DNA


title: Control sample, Sample_ID = 134b, DNA

value: CEPH 1424


title: Pancreatic cancer sample, Sample_ID = 37, DNA


title: Pancreatic cancer sample, Sample_ID = 27a, DNA


title: Control sample, Sample_ID = 133a, DNA

value: MOTHER


title: Pancreatic cancer sample, Sample_ID = 26b, DNA


title: Control sample, Sample_ID = 134a, DNA


title: Pancreatic cancer sample, Sample_ID = 25a, DNA


title: Control sample, Sample_ID = 133b, DNA


title: Pancreatic cancer sample, Sample_ID = 26a, DNA


title: Control sample, Sample_ID = 132b, DNA

value: CEPH 1413


title: Pancreatic cancer sample, Sample_ID = 25b, DNA


title: Control sample, Sample_ID = 131b, DNA

value: CEPH 1349


title: Control sample, Sample_ID = 130a, DNA

value: CEPH 1341


title: Pancreatic cancer sample, Sample_ID = 24a, DNA


title: Control sample, Sample_ID = 131a, DNA


title: Control sample, Sample_ID = 130b, DNA


title: Pancreatic cancer sample, Sample_ID = 22b, DNA


title: Pancreatic cancer sample, Sample_ID = 24b, DNA


title: Pancreatic cancer sample, Sample_ID = 23b, DNA


title: Pancreatic cancer sample, Sample_ID = 12a, DNA


title: Pancreatic cancer sample, Sample_ID = 22a, DNA


title: Pancreatic cancer sample, Sample_ID = 12b, DNA


title: Control sample, Sample_ID = 129b, DNA


title: Pancreatic cancer sample, Sample_ID = 21a, DNA


title: Control sample, Sample_ID = 128b, DNA

value: CEPH 1350


title: Control sample, Sample_ID = 132a, DNA

value: DAUGHTER


title: Pancreatic cancer sample, Sample_ID = 20b, DNA


title: Control sample, Sample_ID = 129a, DNA


title: Pancreatic cancer sample, Sample_ID = 23a, DNA


title: Pancreatic cancer sample, Sample_ID = 20a, DNA


title: Pancreatic cancer sample, Sample_ID = 2, DNA


title: Control sample, Sample_ID = 156a, DNA


title: Pancreatic cancer sample, Sample_ID = 16, DNA


title: Pancreatic cancer sample, Sample_ID = 21b, DNA


title: Pancreatic cancer sample, Sample_ID = 19b, DNA


title: Control sample, Sample_ID = 156b, DNA


title: Pancreatic cancer sample, Sample_ID = 17a, DNA


title: Control sample, Sample_ID = 126b, DNA


title: Pancreatic cancer sample, Sample_ID = 19a, DNA


title: Pancreatic cancer sample, Sample_ID = 17b, DNA


title: Control sample, Sample_ID = 128a, DNA


title: Control sample, Sample_ID = 155b, DNA

value: CEPH 1345


title: Quercetin, sample 1

status: Public on Jan 01 2008

city: Zeist

first: Ashwin

last: Dihal

address: Utrechtseweg 48

department: Business Unit Physiologival Sciences

country: Netherlands

institute: TNO Quality of Life

description: Quercetin, sample 1

hyb_protocol: Hybridisation on Affymetrix® GeneChip® arrays was processed according to the GeneChip® One-Cycle Eukaryotic Target Labeling Assay.

scan_protocol: Affymetrix® GeneChip® arrays were scanned with the GeneChip® Scanner 3000 7G (Affymetrix® Inc., Santa Clara, California, U.S.A.).

data_processing: Data were processed with MAS 5.0 and a scaling factor of 200 was applied.

label: Biotin

organism: Rattus norvegicus

source_name: Scrapings of the distal colon mucosa

label_protocol: For RNA labeling, GeneChip® One-Cycle Eukaryotic Target Labeling Assay for expression analysis was performed, as described in the Affymetrix® GeneChip® Expression Analysis Technical Manual

growth_protocol: Rats were fed either 10 g quercetin/kg diet or the control diet(RM3 [E] FG SQC rat breeder diet obtained from SDS Special Diets Services, Witham, England) for 11 weeks.

extract_protocol:
RNA extraction was performed with the TRIzol Reagent (Life Technologies, Paisley, U.K.), as described by the manufacturer.
Total RNA was purified with the NucleoSpin® RNA II kit (Machery-Nagel, Düren, Germany), including a DNAse incubation step to digest possible traces of DNA. Subsequent analysis on the Agilent 2100 bioanalyser (Agilent Technologies, Palo Alto, California, U.S.A.) indicated high quality total RNA (28S/18S ribosomal RNA ratios ~2.0) that was suitable for hybridization

treatment_protocol: During section, the distal colon was rinsed with 70% ethanol at 4°C, subsequently scraped with sterilized glass slides and fixed in RNAlater® (Ambion®, Cambridgeshire, U.K.) according to the manufacturer’s protocol.

tag: Male F344 rats, sacrificed at the age 18 weeks


title: Control, sample 4

description: Control, sample 4


title: TK6

city: New York

first: Sally

last: Amundson

state: NY

department: Center for Radiological Research

institute: Columbia University

description: no additional information

hyb_protocol: Probes and targets were hybridized together for 16-18 hours in 3x SSC at 65oC in the presence of blocking agents human CoT1 DNA, yeast tRNA and polydeoxyadenine.  Hybridized slides were washed at room temperature twice in 0.5X SSC, 0.01% SDS for 5 minutes and once in 0.06X SSC for 5 minutes.

scan_protocol: Agilent Microarray Scanner, 100% PMT voltage, 10 uM resolution scans

data_processing: ArraySuite 2.1 extensions in the IPLab program (Scanalytics Inc., Fairfax, VA) as described in Chen et al., 2002 (PMID: 12217912)

source_name: control

label_protocol: single round of reverse transcription (Superscript II, Invitrogen) in the presence of fluorescent dUTP (Cy3 dUTP or Cy5 dUTP, NEN) as described in Amundson et al., 1999 (PMID: 10380890)

growth_protocol: All cell lines were maintained in exponential growth in RPMI1640 medium supplemented with 10% FBS in a humidified 5%CO2 incubator at 37-degrees C.

extract_protocol: After irradiation, cultures were incubated at 37ºC for 4 hours, and RNA was extracted using a modified guanidine thiocyanate method (Chomczynski and Sacchi, 1987, PMID: 2440339) followed by purification with RNeasy columns (Qiagen, Valencia, CA)

treatment_protocol: All cultures were fed with fresh medium the day before treatment and treated in exponential growth.  Duplicate cultures were treated with 0 Gy (mock-irradiated) or with 8 Gy gamma-radiation delivered at 2.9 Gy/minute with a Mark I-68 137Cs source (J.L. Shepherd and Associates, Inc.)

tag: lymphoid

source_name: 8 Gy plus 4 hours


title: Control, sample 1

description: Control, sample 1


title: UACC257

description: no additional information

tag: melanoma


title: U251

description: no additional information

tag: CNS


title: UACC62

description: no additional information


title: Quercetin, sample 4

description: Quercetin, sample 4


title: Quercetin, sample 3

description: Quercetin, sample 3


title: SNB75

description: no additional information


title: Quercetin, sample 2

description: Quercetin, sample 2


title: TK10

description: no additional information

tag: renal


title: SKMel28

description: no additional information


title: SKOV3

description: no additional information

tag: ovary


title: SW620

description: no additional information

tag: colon


title: SR

description: no additional information


title: SF295

description: no additional information


title: SN12C

description: no additional information


title: T47D

description: no additional information

tag: breast


title: SF593

description: no additional information


title: Control, sample 3

description: Control, sample 3


title: Control, sample 2

description: Control, sample 2


title: SNB19

description: no additional information


title: SKMel5

description: no additional information


title: SF268

description: no additional information


title: UO31

description: no additional information


title: SKMel2

description: no additional information


title: RPMI8226

description: no additional information


title: PC3

description: no additional information

tag: prostate


title: OVCAR5

description: no additional information


title: RXR393

description: no additional information


title: OVCAR4

description: no additional information


title: Molt4

description: no additional information


title: NH32

description: no additional information


title: NCIH226

description: no additional information

tag: lung


title: NCIADR

description: no additional information


title: OVCAR8

description: no additional information


title: ML1

description: no additional information


title: NCIH322M

description: no additional information


title: NCIH23

description: no additional information


title: NCIH460

description: no additional information


title: MDAN

description: no additional information


title: LoxIVMI

description: no additional information


title: MDAMB435

description: no additional information


title: NCIH522

description: no additional information


title: M14

description: no additional information


title: Malme3M

description: no additional information


title: MDAMB231

description: no additional information


title: OVCAR3

description: no additional information


title: KM12

description: no additional information


title: MCF7

description: no additional information


title: K562

description: no additional information


title: IGROV1

description: no additional information


title: HS578T

description: no additional information


title: HT29

description: no additional information


title: HOP62

description: no additional information


title: HCT15

description: no additional information


title: HOP92

description: no additional information


title: HL60

description: no additional information


title: Colo205

description: no additional information


title: EKVX

description: no additional information


title: HCC2998

description: no additional information


title: CAKI1

description: no additional information


title: CCRFCEM

description: no additional information


title: BT549

description: no additional information


title: ACHN

description: no additional information


title: 786O

description: no additional information


title: A549

description: no additional information


title: A498

description: no additional information


title: HCT116

description: no additional information


title: Du145

description: no additional information


title: WntM m49

status: Public on Nov 30 2007

first: Shixia

last: Huang

department: Cell Biology

institute: Memorial Sloan-Kettering Cancer Center

description: Lung metastasis from MMTV-Wnt-1 TG mice

scan_protocol: GenePix 4000 scanner

data_processing: ArraySuite software on Scanalytics IPlab platform

organism: Mus musculus

source_name: Lung metastasis

label_protocol: Direct cDNA labeling

extract_protocol: Trizol

tag: MMTV-Wnt-1 Transgenic mouse lung metasasis

source_name: reference RNA

tag: reference RNA from multiple mouse organs


title: WntM m50

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: NeuM m56

description: Lung metastasis from MMTV-Neu TG mice

tag: MMTV-Neu Transgenic mouse lung metasasis


title: WntM m52

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: BQS252 thiolutin_t0min_replicate 2

status: Public on Nov 29 2007

city: Burjassot

first: Jose

middle: E.

last: Perez-Ortin

state: Valencia

address: Dr. Moliner 50

department: Bioquimica y Biologia Molecular

country: Spain

institute: Universitat de Valencia

description:
Filters were stripped by pouring 3X150 ml boiling stripping buffer (5 mM sodium phosphate, pH 7.5, 0.1% SDS) over the
membrane. The first time, the stripping buffer was immediately changed while after the second and third washes the filters
were left to cool at room temperature. To ensure that radioactivity had been eliminated, the filters were either checked
with a Geiger counter or re-scanned with a Phosphorimager.

hyb_protocol: Hybridization Solution was: 5XSSC, 5XDenhart’s, 0.5% SDS and 100 µg herring sperm DNA/ml. The hybridization protocol used was as follows. Filters were inserted in 12.5X2.5-cm flat-bottom plastic tubes and pre-hybridized in a rotator oven with 5 ml pre-hybridization solution (the same as used for hybridization but without the radioactive sample) at 65ºC. The pre-hybridization solution was then replaced with 5 ml of the same solution containing 3X10exp6 dpm/mL of radioactive sample and hybridized for 44h. Washing conditions were: 1h at 65ºC for 20 min in 2XSSC, 0.1% SDS, and twice at 65ºC for 30 min in 0.2XSSC, 0.1% SDS.

scan_protocol: Images were acquired using a FujiFilm FLA3000 Phosphorimager.

data_processing: Raw image quantization background subtracted

organism: Saccharomyces cerevisiae

source_name: yeast strain FY1679 derived growing in exponential phase t0min

label_protocol: About 30-40 µg of total RNA were reverse transcribed into cDNA by adding 200 us of RT polymerase SuperScript II and random hexamers (Invitrogen), 1 µL RNaseOUT (Invitrogen), 6 µL 5X First Strand Buffer (Invitrogen), 1.5 µL dNTP mix (16 mM dATP, dTTP, dGTP, and 100 µM dCTP) and 5 µL [α-33P]dCTP (3000 Ci/mmol, 10 µCi/microL) in a final reaction volume of 30 µL. The labeling reaction was incubated for 1 h at 43ºC. 1 µL of EDTA 0.5 M was added to stop the reaction. The labeled cDNAs were purified by a S300-HR MicroSpin column (Amersham BioSciences).

growth_protocol: Total RNA from BQS252 yeast strain growing in exponential phase in YPD (yeast extract 1%; peptone 2%,glucose 2%)

extract_protocol:
Total RNA from yeast cells was prepared as described by
Sherman et al. [1986], but using a multiple-sample automated
device (Fast-Prep, BIO101) to break the cells.
Sherman F, Fink GR, Hicks JB (1986) Methods in yeast genetics.
Spring Harbor Cold Laboratory Press, Cold Spring Harbor, New York

treatment_protocol: exponential grow before the addition of thiolutin

tag: Total RNA from BQS252 yeast strain (Mat a, ura3-52 derived from FY1679) growing in exponential phase in YPD


title: NeuM m61

description: Lung metastasis from MMTV-Neu TG mice


title: BQS252_thiolutin_10µg_t30min_replicate 2

source_name: yeast strain FY1679 derived growing in exponential phase treated with 10 µ/mL thiolutin t30min

treatment_protocol: 30 minutes after the addition of thiolutin 10 µ/mL


title: NMO-004-3

status: Public on Nov 28 2007

city: Beijing

first: Junping

last: Peng

address: No 6, Rongjing Eastern Street, BDA

country: China

institute: Chinese center for disease control and prevention

description: CGH

hyb_protocol: Samples were hybridized overnight at 65°C.

scan_protocol: The processed slides were scanned with a GenePix 4000B scanner (Axon). Fluorescent spots and the local background intensities were quantified with GenePix Pro 6.0 software (Axon).

data_processing: MIDAS & GACK

organism: Neisseria meningitidis

label_protocol:
Genomic DNA was  fluorescently labeled by random priming with the
Klenow fragment.

extract_protocol: Genomic DNA was extracted by using Wizard Genomic DNA Purification Kit (Promega)

tag: Neisseria meningitidis Serogroup C isolate (ST4821)

source_name: menH 004

tag: Neisseria meningitidis Serogroup H isolate (ST5584)


title: LMO_10403S vs delta sigB_STATIONARY

city: Ithaca

first: Sarita

last: Raengpradub

address: 412 Stocking Hall

department: Food Science

institute: Cornell University

description: Expression profiles were measured from three independent RNA extractions, resulting in six replicate spots per gene (array contains duplicate spots).

hyb_protocol: Microarray slide blocking was performed prior to hybridization. Slides were incubated for 10 min in a solution containing 0.176M succinic anhydride and 44mM sodium borate in methyl pyrrilidone, followed by 1-min washes in fresh methyl pyrrilidone (1x), deionized water (1x), 0.1% SDS (3x), deionized water (5x), and 95% EtOH (1x). The slides were dried by centrifugation and immersed in blocking solution (0.1% BSA, 5X SSC, 0.1% SDS) at 42°C. After 1 h, the slides were washed for 1 min each in deionized water (5x) and 95% EtOH (2x) and then dried by centrifugation. For the strains to be compared (parent and ΔsigB), labeled cDNAs were combined and dried, then resuspended in 50μl of hybridization buffer (5X SSC, 0.1% SDS, 0.1mM dithiothreitol (DTT), 0.5X formamide, 0.06 μg/μl salmon sperm DNA in DEPC-treated water). Samples were vortexed for 1 min and denatured at 95°C for 5 min (repeated twice), followed by a brief centrifugation, then applied to the slides using mSeries LifterSlips™ (Erie Scientific). Following overnight hybridization at 42°C, the slides were washed in 2X SSC+0.1% SDS (5 min, 42˚C), with subsequent 5-min washes at room temperature in 2X SSC+0.1% SDS, 2X SSC, and 0.2X SSC, followed by final rinse in deionized water. Slides were dried by centrifugation.

scan_protocol: Images were scanned using a GenePix 4000B scanner (Molecular Devices Corp.) using the following general scanning parameters: pixel size=10, focus position=20, lines to average=1, laser power=100%. The auto-PMT function was used to scan the slides with an acceptable PMT range of 400-900. Raw TIFF images were automatically gridded and analyzed using GenePix Pro 6.0 software.

data_processing: Analyses of microarray data were performed in R with Bioconductor using LIMMA software (Smyth, 2005). Background correction was performed using the “normexp” method. For normalization within arrays, the data were weighted for the genomic DNA controls and normalized using print-tip loess method (Smyth & Speed, 2003). The data were then scale normalized between arrays. The correlation between duplicate spots was calculated (Smyth et al., 2005) and a linear model was fitted to the normalized log ratios and empirical Bayes statistics were applied for differential expression analysis.

label: Alexa Fluor 635

organism: Listeria monocytogenes

source_name: Listeria monocytogenes 10403S

label_protocol: cDNA was synthesized from purified total RNA and labeled with Alexa Fluor dyes using the SuperScript Plus Indirect cDNA Labeling System according to the manufacturer's protocol with following modifications. 10 μg total RNA was combined with 1 μl of random primers included in the kit, incubated at 70°C for 5 min.  Following a 5 min on ice, 6 μl 5X First-Strand buffer, 1.5 μl 0.1M dithiothreitol (DTT), 1.5 μl dNTP mix containing aminoallyl-dATP and aminohexyl-dTTP, 1 μl RNaseOUT and 2 μl SuperScript III Reverse Transcriptase were added to the reaction tube.  The reverse transcription reaction was carried out at 42ºC overnight. Remaining RNA was hydrolyzed by addition of 15 μl 1N NaOH (70ºC for 10 min) and then neutralized with 15 μl 1N HCl.  Each cDNA sample was purified with the QIAquick PCR purification kit (Qiagen) using RNase-free water for the final elution step.  cDNA samples were dried in a SpeedVac until reduced to ~3 μl.  Each cDNA sample was combined with 2X Coupling Buffer and then added to a vial of DMSO-suspended Alexa Fluor® Reactive Dye and the dye coupling reaction was carried out at room temperature overnight.  Labeled cDNA samples were purified with the QIAquick PCR purification kit with an additional 35% Guanidine-HCl wash step and a final elution step in RNase-free water.  Purified, labeled cDNA was quantified with UV spectrophotometer readings at wavelengths appropriate to determine the frequency of incorporation (FOI), which is defined as the number of labeled nucleotides incorporated per 1,000 nucleotides of cDNA.  cDNA samples with FOIs between 20-50 were used for microarray hybridization.

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm) unless otherwise indicated. L. monocytogenes 10403S was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 hr. A single colony was subsequently inoculated into BHI broth and grown overnight. An aliquot of this overnight culture was then diluted 1:100 in fresh pre-warmed BHI and grown to OD600 = 0.4, then diluted 1:100 in fresh pre-warmed BHI. After growth to early stationary phase (OD600=1.0+3hr), cells were harvested for RNA isolation.

extract_protocol: RNA was isolated from frozen bacterial pellets with the Qiagen RNeasy Midi kit according to the manufacturer’s protocol for enzymatic and mechanical disruption, except that cells treated with lysozyme (20mg/ml) followed by sonication on ice for three 30 s bursts at 18–21 W (30 s pauses between bursts). Following RNA isolation, RQ1 DNase treatment (40 U; Promega) of total RNA in the presence of RNasin Plus RNA inhibitor (400 U; Promega). DNase treatment was incubated at 37°C for 1 h, followed by subsequent phenol:chloroform (2x) and 100% chloroform (1x) extractions. RNA was ethanol-precipitated overnight, centrifuged and washed with 70% ethanol, centrifuged and washed with 100% ethanol, before resuspenson of the final RNA pellet in RNase-free water. Total nucleic acid concentration and purity were estimated using absorbance readings (260/280 nm, 260/230 nm) on a NanoDrop ND-1000 spectrophotometer. RNA integrity was checked by agarose gel electrophoresis.

treatment_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman); dilutions were made as appropriate in order to obtain OD readings in the linear range of the spectrophotometer. L. monocytogenes 10403S was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). Cells were grown to stationary phase, which is defined as growth to an OD600=1.0 followed by incubation for an additional 3 h.  A total of 10 ml of this stationary phase culture was added to 20 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) to stabilize RNA, then vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria monocytogenes 10403S grown at 37°C to early stationary phase.

label: Alexa Fluor 532

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman); dilutions were made as appropriate in order to obtain OD readings in the linear range of the spectrophotometer. L. monocytogenes FSL A1-254 was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). Cells were grown to stationary phase, which is defined as growth to an OD600=1.0 followed by incubation for an additional 3 h.  A total of 10 ml of this stationary phase culture was added to 20 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) to stabilize RNA, then vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria monocytogenes FSL A1-254 (sigB null mutant) grown at 37°C to early stationary phase.


title: WntM m47

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: WntM m42

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: BQS252_thiolutin_3µg_t30min_replicate 2

source_name: yeast strain FY1679 derived growing in exponential phase treated with 3 µ/mL thiolutine t30min

treatment_protocol: 30 minutes after the addition of thiolutin 3 µ/mL


title: NeuM m53E

description: Lung metastasis of non-transgenic mouse tail-vein injected with primary tumor cells from MMTV-Neu TG mice

tag: mouse lung experimental metasasis


title: NeuM m56E


title: NeuM m53

description: Lung metastasis from MMTV-Neu TG mice


title: WntM m38

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: Pancreatic cancer sample, Sample_ID = 12a, RNA


title: WntM m19

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: WntM m62

description: Lung metastasis from MMTV-Wnt-1 TG mice


title: NMO-004-1

description: CGH


title: BQS252_thiolutin_10µg_t30min_replicate 1

source_name: yeast strain FY1679 derived  growing in exponential phase treated with 10µ/mL thiolutin t30min


title: LMO_10403S vs delta sigB_NaCl

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman). L. monocytogenes 10403S was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300 ml side-arm flask). After growth to OD600=0.4, a total of 10 ml of this log phase culture was added to an equal volume of pre-warmed BHI  containing 0.6M NaCl (to achieve a final concentration of 0.3M NaCl). After incubation at 37°C for 10 min with shaking, a total of 40 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) were added to cells to stabilize RNA,  vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria monocytogenes 10403S grown at 37°C to log phase, then exposed to 0.3M NaCl in BHI for 10 min (at 37°C with shaking).

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman). L. monocytogenes FSL A1-254 was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). After growth to OD600=0.4, a total of 10 ml of this log phase culture was added to an equal volume of pre-warmed BHI  containing 0.6M NaCl (to achieve a final concentration of 0.3M NaCl). After incubation at 37°C for 10 min with shaking, a total of 40 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) were added to cells to stabilize RNA,  vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria monocytogenes FSL A1-254 (sigB null mutant) grown at 37°C to log phase, then exposed to 0.3M NaCl in BHI for 10 min (at 37°C with shaking).


title: LIN_C2-0098 vs delta sigB_NaCl

organism: Listeria innocua

source_name: Listeria innocua FSL C2-008

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman). L. innocua FSL C2-008 was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). After growth to OD600=0.4, a total of 10 ml of this log phase culture was added to an equal volume of pre-warmed BHI  containing 0.6M NaCl (to achieve a final concentration of 0.3M NaCl). After incubation at 37°C for 10 min with shaking, a total of 40 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) were added to cells to stabilize RNA,  vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria innocua FSL C2-008 (parent strain) grown at 37°C to log phase, then exposed to 0.3M NaCL in BHI for 10 min (at 37°C with shaking).

source_name: Listeria innocua FSL R4-009

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman). L. innocua FSL R4-009 was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). After growth to OD600=0.4, a total of 10 ml of this log phase culture was added to an equal volume of pre-warmed BHI  containing 0.6M NaCl (to achieve a final concentration of 0.3M NaCl). After incubation at 37°C for 10 min with shaking, a total of 40 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) were added to cells to stabilize RNA,  vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria innocua FSL R4-009 (sigB null mutant) grown at 37°C to log phase, then exposed to 0.3M NaCL in BHI for 10 min (at 37°C with shaking).


title: NMO-004-2

description: CGH


title: LIN_C2-008 vs delta sigB_STATIONARY

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman); dilutions were made as appropriate in order to obtain OD readings in the linear range of the spectrophotometer. L. innocua FSL C2-008 was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). Cells were grown to stationary phase, which is defined as growth to an OD600=1.0 followed by incubation for an additional 3 h.  A total of 10 ml of this stationary phase culture was added to 20 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) to stabilize RNA, then vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria innocua FSL C2-008 (parent strain) grown at 37°C to early stationary phase.

source_name: Listeria innocua FSL R4-009 (sigB null mutant)

growth_protocol: Cells were grown in BHI broth at 37°C with shaking (250 rpm; Series 25 Incubator Shaker, New Brunswick Scientific) unless otherwise indicated. All optical density measurements (OD) were made with a model DU640 spectrophotometer (Beckman); dilutions were made as appropriate in order to obtain OD readings in the linear range of the spectrophotometer. L. innocua FSL R4-009 was streaked onto brain heart infusion (BHI) agar from –80°C glycerol stock cultures followed by incubation at 37°C for 24 h. A single colony was subsequently inoculated into a tube containing 5 ml BHI broth and grown overnight. 50 μl of this overnight culture was then added to a tube of 5 ml fresh, pre-warmed BHI broth and grown to logarithmic phase (OD600=0.4), then diluted 1:100 in fresh, pre-warmed BHI broth (500 μl into 50 ml broth in a 300ml side-arm flask). Cells were grown to stationary phase, which is defined as growth to an OD600=1.0 followed by incubation for an additional 3 h.  A total of 10 ml of this stationary phase culture was added to 20 ml (2X volume) of RNAProtect Bacteria Reagent (Qiagen) to stabilize RNA, then vortexed, and incubated at room temperature for 5 min. Cells were then pelleted by centrifugation at 5000 rpm for 5 min (Avanti J-25 Centrifuge, Beckman). Supernatant was removed and cell pellets were stored at -80°C until RNA isolation.

tag: Listeria innocua FSL R4-009 (sigB null mutant strain) grown at 37°C to early stationary phase.


title: NMO-003-1

description: CGH

source_name: menI 003

tag: Neisseria meningitidis Serogroup I isolate (ST5584)


title: NMO-002-3

description: CGH

source_name: menK 002

tag: Neisseria meningitidis Serogroup K isolate (ST5584)


title: NMO-002-2

description: CGH


title: WntM m36

description: Lung metastasis from MMTV-Wnt-1 TG mice

tag: MMTV-Wnt-1 Transgenic mouse lung metasasis


title: NMO-003-2

description: CGH


title: NMO-002-1

description: CGH


title: C90-1

description: CGH

source_name: menC 90

tag: Neisseria meningitidis Serogroup C isolate (ST4833)


title: WntM m18

description: Lung metastasis from MMTV-Wnt-1 TG mice

tag: reference RNA from multiple mouse organs


title: C100-2

description: CGH

source_name: menC 100

tag: Neisseria meningitidis Serogroup C isolate (ST4896)


title: C100-3

description: CGH

tag: Neisseria meningitidis Serogroup C isolate (ST4821)


title: C90-2

description: CGH


title: C78005-3

description: CGH

tag: Neisseria meningitidis Serogroup C isolate (ST4980)


title: C87-3

description: CGH

source_name: menC 87

tag: Neisseria meningitidis Serogroup C isolate (ST4832)


title: C90-3

description: CGH


title: C87-2

description: CGH


title: C100-1

description: CGH


title: C73-1

description: CGH

source_name: menC 73

tag: Neisseria meningitidis Serogroup C isolate (ST4820)


title: C78005-1

description: CGH


title: C73-2

description: CGH


title: C87-1

description: CGH


title: C73-3

description: CGH


title: C78005-2

description: CGH


title: C57-3

description: CGH

source_name: menC 57

tag: Neisseria meningitidis Serogroup C isolate (ST4831)


title: NMO-003-3

description: CGH

tag: Neisseria meningitidis Serogroup I isolate (5584)


title: C58-1

description: CGH

source_name: menC 58

tag: Neisseria meningitidis Serogroup C isolate (ST5081)


title: C2-2

description: CGH

label_protocol: Genomic DNA was  fluorescently labeled by random priming with the Klenow fragment

source_name: menC 2


title: C55-2

description: CGH

source_name: menC 55


title: C55-3

description: CGH


title: C52-3

description: CGH

source_name: menC 52


title: B165-3

description: CGH

source_name: menB 165

tag: Neisseria meningitidis Serogroup B isolate (ST4821)


title: C55-1

description: CGH


title: C2-1

description: CGH


title: C57-2

description: CGH


title: C57-1

description: CGH


title: C52-1

description: CGH


title: B165-2

description: CGH


title: C52-2

description: CGH


title: B162-3

description: CGH

source_name: menB 162

tag: Neisseria meningitidis Serogroup B isolate (ST5664)


title: C58-2

description: CGH


title: B135-3

description: CGH

source_name: menB 135

tag: Neisseria meningitidis Serogroup B isolate (ST3436)


title: C2-3

description: CGH


title: B135-2

description: CGH


title: B162-2

description: CGH


title: B113-3

description: CGH

source_name: menB 113

tag: Neisseria meningitidis Serogroup B isolate (ST5648)


title: B135-1

description: CGH


title: B165-1

description: CGH


title: B085-6

description: CGH

source_name: menB 085

tag: Neisseria meningitidis Serogroup B isolate (ST5638)


title: C58-3

description: CGH


title: B113-1

description: CGH


title: B113-2

description: CGH


title: B162-1

description: CGH


title: B085-5

description: CGH


title: B078-1

description: CGH

source_name: menB 078

tag: Neisseria meningitidis Serogroup B isolate (ST5584)


title: B085-4

description: CGH


title: B078-3

description: CGH


title: B078-2

description: CGH


title: B062-3

description: CGH

source_name: menB 062


title: B062-1

description: CGH


title: B062-2

description: CGH


title: B039-1

description: CGH

source_name: menB 039

tag: Neisseria meningitidis Serogroup B isolate (ST5618)


title: B014-3

description: CGH

label_protocol: Genomic DNA was  fluorescently labeled by random priming with the Klenow fragment.

source_name: menB 014


title: B020-2

description: CGH

hyb_protocol: Samples were hybridized overnight at 65°C

source_name: menB 020

tag: Neisseria meningitidis Serogroup B isolate (ST5614)


title: B014-2

description: CGH


title: B039-2

description: CGH


title: B064-3

description: CGH

source_name: menB 064

tag: Neisseria meningitidis Serogroup B isolate (ST5632)


title: B012-3

description: CGH

source_name: menB 012

tag: Neisseria meningitidis Serogroup B isolate (ST3200)


title: B064-1

description: CGH

tag: Neisseria meningitidis Serogroup C isolate (ST4821)


title: B014-1

description: CGH


title: B012-1

description: CGH


title: B039-3

description: CGH

tag: Neisseria meningitidis Serogroup C isolate (ST5618)


title: B064-2

description: CGH


title: B020-1

description: CGH


title: B012-2

description: CGH


title: B020-3

description: CGH


title: A373-2

description: CGH

source_name: menA 373

tag: Neisseria meningitidis Serogroup A isolate (ST4821)


title: B008-2

description: CGH

source_name: menB 008


title: B008-3

description: CGH


title: D NB root S2 rep2

city: Sapporo

first: Kouji

last: Satoh

state: Hokkaido

address: Hitsujigaoka 1

country: Japan

institute: NARO/HARC

description: Keyword = comparison between root and shoot

hyb_protocol: Hybridization methods = hybridization_Kit = in situ hybridization plus Hybridization methods = hybridization_Manufacturer = Agilent Technologies Hybridization methods = hybridization_Manual = Agilent Technologies Hybridization methods = Washing_kit = in situ hybridization plus Hybridization methods = washing_Manufacturer = Agilent Technologies Hybridization methods = Washing_Manual = Agilent Technologies

scan_protocol: Scan methods = Scanner = Agilent DNA microarray Scaner Scan methods = Manufacturer = Agilent Technologies Scan methods = Software = Scanner Control software Scan methods = Manufacturer = Agilent Technologies Scan methods = Manual = Agilent Technologies

data_processing:
Procesing methods = Software = Feature Extraction ver 7.5
Procesing methods = Manufacturer = Agilent Technologies
Procesing methods = Manual = Agilent Technologies
Procesing methods = Value = Log based 10 expression ratio

organism: Oryza sativa

label_protocol:
Labeling methods = Kit = Low RNA Input Linear Amplification kit
Labeling methods = Manufacturer = Agilent Technologies
Labeling methods = Manual = Agilent Technologies

growth_protocol:
Growth substrates = soil environment
EO_ID = EO:0007049
medium = soil texture
EO_ID = EO:0007050
sterilisation = non-Sterilisation
Growth environment = not-controlled
Growth environment = green house study
EO_ID = EO:0007248
Growth_length = 10 days
light condition = natural condition

extract_protocol:
Separation technique = Trimming
Quantity extracted = nucleotide = transcript
Quantity extracted = SO_ID = SO:0000673
Quantity extracted = other word = totalRNA
Extraction source = Frozen
Extraction methods = Kit = Trizole
Extraction methods = Manufacturer = Invitrogen
Extraction methods = Manual = Invitrogen

tag: species = Oryza sativa

tag: GR_tax = GR_tax:013681

tag: subspecies = Oryza sativa sub. Japponica

tag: GR_tax = GR_tax:013684

tag: cultivar = Nipponbare

tag: stock centre = NIAS

tag: Plant structure = whole plant

tag: plant growth and developmental stage = LP.03 three leaves visible

tag: age = 10 days after sowing

tag: Plant structure = shoot

growth_protocol:
Growth substrates = hydroponic plant culture media
EO_ID = EO:0007067
Sterilisation = non-Sterilisation
Growth substrates;constituents = 1/5000 diluted Hyponex (10-3-3) solution
manufacture = HYPONeX JAPAN
Growth environment = controlled
Growth environment = growth chamber study
EO_ID = EO:0007269
Growth_length = 10 days
Light_duration_1 = 16 hours
Light source_1 = cool white fluorescent
Temperature_1 = 28 degreeC
Light_duration_2 = 8 hours
Light source_2 = none
Temperature_2 = 28 degreeC

extract_protocol:
Separation technique = Trimming
Quantity extracted = nucleotide = transcript
Quantity extracted = SO_ID = SO:0000673
Quantity extracted = other word = totalRNA
Extraction source = Frozen
Extraction methods = Kit = RNeasy Midi Kit
Extraction methods = Manufacturer = QIAGEN
Extraction methods = Manual = QIAGEN

tag: Plant structure = root


title: A373-3

description: CGH

tag: Neisseria meningitidis Serogroup  A isolate (ST4821)


title: D NB panicle S2 rep2

description: Keyword = comparison between panicle and shoot

growth_protocol:
Growth substrates = soil environment
EO_ID = EO:0007262
Sterilisation = non-Sterilisation
Growth environment = not-controlled
Growth environment = field study
EO_ID = EO:0007256

tag: plant growth and developmental stage = IL.00 inflorescence just visible

tag: Plant structure = inflorescence


title: D NB root S1 rep1


title: D NB callus S2 rep2

description: Keyword = comparison between callus and shoot

growth_protocol:
Growth substrates = tissue culture growth media
EO_ID = EO:0007266
medium = solid
medium = Sterilisation
medium = 8g/L agarose
manufacture = Sigma
Growth substrates;constituents = callus induction medium
reference = Kyozuka and Shimamoto (1991) Transformation and regeneration of rice protoplasts. In K Lindsey, ed, Plant Tissue Culture Manual B1.
Growth environment = controlled
Growth environment = growth chamber study
EO_ID = EO:0007269
Growth_length = 28 days
Light_duration = 24hours
Light source = cool white fluorescent
Temperature = 30 degreeC

tag: Plant structure = callus

tag: age = incubation for 28 days


title: D NB root S2 rep1


title: B008-1

description: CGH

tag: Neisseria meningitidis Serogroup C isolate (ST4821)

tag: Neisseria meningitidis Serogroup B isolate (ST5664)


title: D NB panicle S2 rep1

tag: species = Oryza sativa

tag: GR_tax = GR_tax:013681


title: D NB panicle S1 rep2

tag: subspecies = Oryza sativa sub. Japponica

tag: GR_tax = GR_tax:013684


title: D NB panicle S1 rep1

tag: cultivar = Nipponbare

tag: stock centre = NIAS


title: D NB callus S1 rep2

tag: Plant structure = whole plant

tag: plant growth and developmental stage = LP.03 three leaves visible


title: A373-1

description: CGH

tag: Neisseria meningitidis Serogroup A isolate (ST4821)


title: NB shoot S2 rep2

description: Keyword = self hybridization

tag: age = 10 days after sowing

tag: Plant structure = shoot


title: D NB callus S2 rep1


title: D IR64 shoot S2 rep2

description: Keyword = comparison between indica and japonica

tag: subspecies = Oryza sativa sub. Indica

tag: GR_tax = GR_tax:013682

tag: line = IR64

tag: stock centre = IRRI


title: D NB root S1 rep2

tag: Plant structure = root


title: D IR64 shoot S1 rep2


title: D NB callus S1 rep1

tag: Plant structure = callus

tag: age = incubation for 28 days


title: D IR64 shoot S1 rep1

tag: species = Oryza sativa

tag: GR_tax = GR_tax:013681


title: NB root S2 rep1

description: Keyword = self hybridization

tag: subspecies = Oryza sativa sub. Japponica

tag: GR_tax = GR_tax:013684


title: NB shoot S2 rep1

description: Keyword = self hybridization

tag: cultivar = Nipponbare

tag: stock centre = NIAS


title: NB shoot S1 rep1

description: Keyword = self hybridization

tag: Plant structure = whole plant

tag: plant growth and developmental stage = LP.03 three leaves visible


title: NB panicle S2 rep1

description: Keyword = self hybridization

tag: plant growth and developmental stage = IL.00 inflorescence just visible

tag: Plant structure = inflorescence


title: NB shoot S1 rep2

description: Keyword = self hybridization

tag: age = 10 days after sowing

tag: Plant structure = shoot


title: NB callus S2 rep2

description: Keyword = self hybridization


title: SHR rep3

city: Canberra

first: Stephen

middle: John

last: Ohms

state: Australian Capital Territory

address: Garran Road

department: John Curtin School of Medical Research

country: Australia

institute: Australian National University

description: Gene expression data from a primary branch of the saphenous artery of 16 week old spontaneously hypertensive (SHR) rats

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C to each array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400. Affymetrix GeneChip Expression Analysis protocols were used throughout.

scan_protocol: GeneChips were scanned using an Affymetrix 2500A GeneArray Scanner.

data_processing: Data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as the normalization method. The trimmed mean target intensity of each array was set to 150.

label: biotin

source_name: Primary branch of saphenous artery pooled from 2-3 16 week old male spontaneously hypertensive (SHR) rats

label_protocol: Two cycle preparation of cRNA and hybridization: Sample preparation followed the Affymetrix GeneChip Eukaryotic Small Sample Target Labeling Assay Version II [42]. Double-stranded cDNA was synthesized using oligo(dT) 24-anchored T7 primer, Superscript III (Invitrogen) and 100ng total RNA for the first strand followed by DNA polymerase I and T4 DNA polymerase for the second strand. The double-stranded cDNA was precipitated with ethanol, air-dried and used as template for the first round of in vitro transcription of cRNA with MEGAscript enzyme mix (Ambion) at 37ºC for 7 h. The cRNA was purified (RNeasy, Qiagen) and used as template for the second round of double-stranded cDNA synthesis with random primers (Invitrogen). The double-stranded cDNA product of second round synthesis was purified by ethanol precipitation and used as template for the second round of in vitro transcription and labeling of cRNA, using the ENZO BioArray HighYield RNA Transcript Labeling kit (Affymetrix) according to the protocol. All components were mixed, incubated at 37ºC for 7 h, and the biotin-labeled cRNA was purified (RNeasy, Qiagen) and fragmented prior to hybridisation to Affymetrix GeneChip RAE230A arrays. Hybridization, washing and staining followed the Affymetrix GeneChip Expression Analysis protocols. Data were collected and analyzed using the program MAS5 (Affymetrix).

growth_protocol: All RNA samples were obtained from male 16-week old Wistar-Kyoto rats or male 16-week old SHR rats

extract_protocol: Rats were anesthetized with ether and killed by decapitation. A primary branch of the saphenous artery was removed, immersed in RNAlater (Ambion) and extraneous material removed in cold phosphate-buffered saline (PBS). Samples (n=3) were taken from 2 or 3 animals from each experimental group. Arteries were snap frozen in liquid nitrogen and processed using the RNeasy Micro Kit (Qiagen), including a 20 min DNAse treatment. RNA quality was monitored on an Agilent 2100 Bioanalyzer using the RNA 6000 Pico LabChip kit (Agilent). Concentrations of RNA were measured by UV spectrophometry.

treatment_protocol: no treatment


title: NB root S2 rep2

description: Keyword = self hybridization


title: D IR64 shoot S2 rep1

tag: subspecies = Oryza sativa sub. Indica

tag: GR_tax = GR_tax:013682

tag: line = IR64


title: NB root S1 rep2

description: Keyword = self hybridization

tag: Plant structure = root


title: ACTH treated rep3

description: Gene expression data from a primary branch of the saphenous artery of 16 week old ACTH-treated male Wistar-Kyoto rats

source_name: Primary branch of saphenous artery pooled from 2-3 16 week old male Wistar-Kyoto rats

treatment_protocol: treated with ACTH (0.1mg/kg/day) subcutaneously, for 4 weeks prior to sampling  (i.e. during weeks 12-16 of life)

tag: 16 week old male Wistar-Kyoto rats (ACTH-treated)


title: SHR rep1

tag: 16 week old male spontaneously hypertensive (SHR) rats


title: SHR rep2


title: IR64 shoot S2 rep1

description: Keyword = self hybridization

label_protocol:
Labeling methods = Low RNA Input Linear Amplification kit
Labeling methods = Agilent Technologies
Labeling methods = Agilent Technologies

tag: species = Oryza sativa

tag: GR_tax = GR_tax:013681

tag: stock centre = IRRI


title: NB panicle S1 rep2

description: Keyword = self hybridization


title: NB callus S2 rep1

description: Keyword = self hybridization

tag: subspecies = Oryza sativa sub. Japponica

tag: GR_tax = GR_tax:013684

tag: cultivar = Nipponbare

tag: Plant structure = callus

tag: age = incubation for 28 days


title: NB panicle S1 rep1

description: Keyword = self hybridization

tag: Plant structure = whole plant

tag: plant growth and developmental stage = IL.00 inflorescence just visible

tag: Plant structure = inflorescence


title: NB callus S1 rep2

description: Keyword = self hybridization

tag: stock centre = NIAS


title: IR64 shoot S1 rep2

description: Keyword = self hybridization

tag: species =Oryza sativa

tag: GR_tax =GR_tax:013681

tag: subspecies =Oryza sativa sub. Indica

tag: GR_tax =GR_tax:013682

tag: line =IR64

tag: stock centre =IRRI

tag: Plant structure =whole plant

tag: plant growth and developmental stage =LP.03 three leaves visible

tag: age =10 days after sowing

tag: Plant structure =shoot


title: WKY rep3

description: Gene expression data from a primary branch of the saphenous artery of 16 week old male Wistar-Kyoto rats

tag: 16 week old male Wistar-Kyoto rats


title: WKY rep2


title: ACTH treated rep2

tag: 16 week old male Wistar-Kyoto rats (ACTH-treated)


title: ACTH treated rep1


title: WKY rep1


title: Testicle tissue, Porcine, L_004633

status: Public on Nov 26 2007

city: Tjele

first: Jakob

last: Hedegaard

address: PO-box 50

department: Department of Genetics and Biotechnology

country: Denmark

institute: Aarhus University, Faculty of Agricultural Sciences

description: High and low androstenone testicle tissue samples were prepared from Landrace boars slaughtered at approximately 100kg

hyb_protocol: Two labeled RNA extract batches, corresponding to two independent RNA extractions, were hybridized to cDNA microarrays on a Discovery XT hybridization station from Ventana. The slides were hybridized in a Discovery XT hybridization station (Ventana Discovery Systems, Tucson, AZ, USA). Transfer Chip Prep-2 from 4 ºC to room temperature 1 hour before use. Prepare ChipSpread by mixing equal volumes of ChipSpread A (20 mg/mL BSA, 4x SSC, 0.5 mg/mL sodium azide) and B (formamide; 2 mg/mL SDS) and incubate at room temperature for 1 hour before use. A total of 2.5 mL is needed per slide. Print labels, trim them and place them on the slides. Mix the Chip Map reagents (Chip Prep-1, -2 and - 3) by inversion, remove the cap and place the reagents in the Discovery. Place the slides in the machine and initiate the run. Cover slide with 2.5 mL ChipSpread when the message appears (after few minutes). The machine now runs for app. 1.5 hours to pre-hybridize the slides. Heat a waterbath to 90°C or use a PCR machine. Mix the Chiphybe80, add 200 µL to the sample (<20 µL) and mix carefully. Heat the sample mixture at 90°C for 3 minutes and mix carefully by pipetting. Press ""button"" on the machine which then prepares the slides for hybridization. When the message appears apply the samples onto the slides and press ""button"" and the machine hybridizes at 48 ºC for 6 hours. Wipe oil from backside of slides using a clean-room napkin and place slides in the slide-holder from the High Throughput Wash Station (Telechem, cat.no. HTW) placed in a mTub filled with RiboWash. If processing more than 20 slides, place equal number of slides in two slide-holders and continue in parallel. Transfer the slide-holder to a HTW filled with RiboWash and wash for 2 min with magnetic stirring at 700 rpm. Refill the HTW with RiboWash and repeat the wash. Dip the slide-holder in 2x SSC filled in a mTub (200 mL 20x SSC, Elga H2O + 1800 mL water). Transfer the slide-holder to a HTW filled with 2x SSC and wash for 2 min with magnetic stirring at 700 rpm. Refill the HTW with 2x SSC and repeat the wash. Dip the slide-holder 10 times in 0.1x SSC filled in a mTub (5 mL 20x SSC, Elga H2O + 995 mL water) and leave the holder submerged in 0.1x SSC. Transfer the slides to a mBox slide holder placed in a mTub filled with Elga H2O. Dry arrays by centrifugation (at 300 x g for 4 min placed in a mBox)

scan_protocol: Scanner: ScanArray Express HT system (Perkin Elmer), 5 µm resolution, 100 % laser power and PMT adjusted individually for each channel. Image analysis software: ScanArray Express (version 3.0, Perkin Elmer) using the histogram method with default settings.

data_processing: The edwards method of the limma Bioconductor package was used for background correction, and the printtip loess method was used for normalizing the expression log-ratios. The empirical Bayes statistics of limma was used to assess differential expression.

organism: Sus scrofa

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 3050

label_protocol: 20 µg total RNA was labelled by using the Superscript Indirect cDNA Labeling System (Invitrogen) in combination with ARES cDNA labeling kits (Molecular Probes/Invitrogen) following the enclosed protocols. Spike-in RNA from the Lucidea Universal ScoreCard (Amersham Biosciences) was added to the cDNA reactions. ""Green"" spike-in RNA was added to the samples labeled with Alexa-594 and ""red"" spike-in RNA was added to the samples labeled with Alexa-488.

extract_protocol: Total-RNA extractions with DNase treatment using RNeasy Midi Kit from Qiagen

tag: Breed

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 3050

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 12209

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 12209


title: Testicle tissue, Porcine, L_004510

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 864

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 864

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 21104

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 21104


title: NB callus S1 rep1

description: Keyword = self hybridization

tag: species = Oryza sativa

tag: GR_tax = GR_tax:013681

tag: subspecies = Oryza sativa sub. Japponica

tag: GR_tax = GR_tax:013684

tag: cultivar = Nipponbare

tag: Plant structure = callus

tag: age = incubation for 28 days


title: Testicle tissue, Porcine, L_004381

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 17104

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 17104

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 13231

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 13231


title: Testicle tissue, Porcine, D_004183

description: High and low androstenone testicle tissue samples were prepared from Duroc boars slaughtered at approximately 100kg

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 20792

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 20792

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 3789

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 3789


title: Testicle tissue, Porcine, D_004060

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 24257

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 24257

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 4364

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 4364


title: Testicle tissue, Porcine, D_004206

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 6027

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 6027

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 12628

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 12628


title: Testicle tissue, Porcine, L_004589

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 7109

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 7109

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 3058

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 3058


title: Testicle tissue, Porcine, L_004558

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 18956

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 18956

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 21121

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 21121


title: Testicle tissue, Porcine, D_004313

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 14572

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 14572

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 4351

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 4351


title: Testicle tissue, Porcine, L_004435

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 23845

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 23845

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 18534

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 18534


title: Testicle tissue, Porcine, L_004664

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8351

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8351

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 23192

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 23192


title: Testicle tissue, Porcine, D_004237

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 7553

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 7553

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 5010

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 5010


title: Testicle tissue, Porcine, D_004312

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 24448

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 24448

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 9135

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 9135


title: Testicle tissue, Porcine, D_004114

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 8882

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 8882

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 13611

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 13611


title: IR64 shoot S1 rep1

description: Keyword = self hybridization

tag: subspecies = Oryza sativa sub. indica

tag: GR_tax = GR_tax:013682

tag: line = IR64

tag: stock centre = IRRI

tag: Plant structure = whole plant

tag: plant growth and developmental stage = LP.03 three leaves visible

tag: age = 10 days after sowing

tag: Plant structure = shoot


title: Testicle tissue, Porcine, L_004541

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8628

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8628

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 11494

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 11494


title: Testicle tissue, Porcine, L_004466

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 17097

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 17097

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 22594

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 22594


title: Testicle tissue, Porcine, D_004091

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 7901

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 7901

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 510

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 510


title: IR64 shoot S2 rep2

description: Keyword = self hybridization

tag: subspecies = Oryza sativa sub. Indica


title: Testicle tissue, Porcine, D_004268

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 23840

tag: Breed

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 23840

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 4561

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 4561


title: Testicle tissue, Porcine, D_004343

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 5442

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 5442

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 11613

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 11613


title: Testicle tissue, Porcine, L_004497

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 1416

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 1416

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 518

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 518


title: Testicle tissue, Porcine, L_004572

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 24241

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 24241

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 3051

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 3051


title: Testicle tissue, Porcine, D_004145

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 4817

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 4817

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 11033

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 11033


title: Testicle tissue, Porcine, L_004374

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 17845

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 17845

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8353

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8353


title: Testicle tissue, Porcine, D_004220

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 6015

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 6015

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 13549

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 13549


title: Testicle tissue, Porcine, L_004626

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 6316

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 6316

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 24859

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 24859


title: Testicle tissue, Porcine, D_004176

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 24433

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 24433

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8887

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8887


title: Testicle tissue, Porcine, D_004299

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 4087

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 4087

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 2616

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 2616


title: Testicle tissue, Porcine, D_004251

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 3570

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 3570

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 4571

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 4571


title: Testicle tissue, Porcine, L_004428

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 12630

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 12630

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8042

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8042


title: Testicle tissue, Porcine, L_004503

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 7545

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 7545

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 11507

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 11507


title: Testicle tissue, Porcine, L_004657

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 13460

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 13460

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 15797

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 15797


title: Testicle tissue, Porcine, D_004305

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 11475

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 11475

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 23863

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 23863


title: Testicle tissue, Porcine, L_004480

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 12625

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 12625

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 7091

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 7091


title: Testicle tissue, Porcine, D_004053

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 20884

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 20884

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 17120

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 17120


title: Testicle tissue, Porcine, L_004411

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 19155

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 19155

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 24431

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 24431


title: Testicle tissue, Porcine, L_004534

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8327

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8327

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 3759

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 3759


title: Testicle tissue, Porcine, D_004282

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 20340

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 20340

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 11035

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 11035


title: Testicle tissue, Porcine, L_004459

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 17851

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 17851

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 5711

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 5711


title: Testicle tissue, Porcine, L_004640

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 8048

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 8048

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 11865

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 11865


title: Testicle tissue, Porcine, D_004107

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 1617

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 1617

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 5432

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 5432


title: Testicle tissue, Porcine, D_004084

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 9160

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 9160

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 21323

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 21323


title: Testicle tissue, Porcine, L_004565

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 11019

value: Landrace, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 11019

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 5431

value: Landrace, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 5431


title: Testicle tissue, Porcine, D_004138

source_name: Testicle tissue, Porcine, High androstenone, biomat-id 5009

value: Duroc, Gender:Male, Tissue:Testicle, High androstenone, biomat-id 5009

source_name: Testicle tissue, Porcine, Low androstenone, biomat-id 5452

value: Duroc, Gender:Male, Tissue:Testicle, Low androstenone, biomat-id 5452