title: KIV-1-GAS-20E09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E09 column.

value: 1 Gender:Male GAS CFU:440


title: KIV-1-GAS-20E05-1-RML

status: Public on Jun 17 2005

type: RNA

city: Hamilton

first: Steve

middle: F

last: Porcella

state: MT

address: 903 SOUTH 4TH Street

department: Rocky Mountain Laboratories

country: USA

institute: NIAID

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E05 column.

data_processing: RMA

label: unknown

molecule: total RNA

organism:
Streptococcus pyogenes
Macaca fascicularis

source_name: Throat Swab

extract_protocol: Total RNA was extracted from monkey tonsillar throat swabs with the  FastPrep FP 120 kit (Qbiogene, Carlsbad, CA) by immersing the swab tips directly  into the FastPrep Blue tubes containing 300 ul 5 mM ammonium  aurintricarboxylate, 500 ul CRSR-Blue(Qbiogene), and acid phenol:chloroform  (5:1, pH 4.5; Ambion, Austin, TX).   The mixture was homogenized (80 sec at speed  #5), heated at 65 oC for 20 min, and centrifuged at 16,000xg for 15 min.  The aqueous phase was collected, 250 ug glycogen (Roche Applied Science, Indianapolis, IN) and 0.8 ug MS2 carrier RNA (Roche Applied Science, Indianapolis, IN) was added, and the mixture was concentrated to 100 ul with a vacuum concentrator  (Eppendorf, Germany).  The concentrate was purified using the Qiagen RNeasy 96 kit following the manufacturer's protocol (Qiagen, Valencia, CA).

tag: Day

value: 23 Gender:Male GAS CFU:1700


title: KIV-1-GAS-20F05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20F05 column.

value: 32 Gender:Male GAS CFU:1


title: KIV-1-GAS-20F03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20F03 column.

value: 86 Gender:Male GAS CFU:0


title: KIV-1-GAS-20E08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E08 column.

value: 4 Gender:Male GAS CFU:440


title: KIV-1-GAS-20E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E04 column.

value: 45 Gender:Male GAS CFU:1


title: KIV-1-GAS-20E03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E03 column.

value: 72 Gender:Male GAS CFU:0


title: KIV-1-GAS-20C08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20C08 column.

value: 58 Gender:Female GAS CFU:0


title: KIV-1-GAS-20C05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20C05 column.

value: 16 Gender:Female GAS CFU:2600


title: KIV-1-GAS-20E06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E06 column.

value: 0 Gender:Male GAS CFU:0


title: KIV-1-GAS-20C04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20C04 column.

value: 7 Gender:Female GAS CFU:9000


title: KIV-1-GAS-20C07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20C07 column.

value: 32 Gender:Female GAS CFU:74000


title: KIV-1-GAS-20C03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20C03 column.

value: 2 Gender:Female GAS CFU:1


title: KIV-1-GAS-20C09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20C09 column.

value: 86 Gender:Female GAS CFU:0


title: KIV-1-GAS-20E07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20E07 column.

value: 9 Gender:Male GAS CFU:1300


title: KIV-1-GAS-21E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 21E04 column.

value: 45 Gender:Female GAS CFU:200


title: KIV-1-GAS-20B09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B09 column.

value: 72 Gender:Female GAS CFU:0


title: KIV-1-GAS-20B05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B05 column.

value: 9 Gender:Female GAS CFU:19000


title: KIV-1-GAS-20B04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B04 column.

value: 4 Gender:Female GAS CFU:1000


title: KIV-1-GAS-20B07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B07 column.

value: 23 Gender:Female GAS CFU:1


title: KIV-1-GAS-20B06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B06 column.

value: 0 Gender:Female GAS CFU:0


title: KIV-1-GAS-20B08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B08 column.

value: 45 Gender:Female GAS CFU:1


title: KIV-1-GAS-19F03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19F03 column.


title: KIV-1-GAS-19F05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19F05 column.

value: 32 Gender:Female GAS CFU:1


title: KIV-1-GAS-19F08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19F08 column.

value: 7 Gender:Female GAS CFU:1000


title: KIV-1-GAS-19F09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19F09 column.


title: KIV-1-GAS-19F07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19F07 column.

value: 16 Gender:Female GAS CFU:19000


title: KIV-1-GAS-19F04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19F04 column.

value: 58 Gender:Female GAS CFU:0


title: KIV-1-GAS-19E09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E09 column.

value: 1 Gender:Female GAS CFU:20


title: KIV-1-GAS-19E07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E07 column.

value: 9 Gender:Female GAS CFU:4100


title: KIV-1-GAS-19E05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E05 column.


title: KIV-1-GAS-19E08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E08 column.

value: 4 Gender:Female GAS CFU:2300


title: KIV-1-GAS-19C08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19C08 column.

value: 58 Gender:Male GAS CFU:4000


title: KIV-1-GAS-19E03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E03 column.


title: KIV-1-GAS-19B06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B06 column.

value: 0 Gender:Male GAS CFU:0


title: KIV-1-GAS-19C03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19C03 column.

value: 2 Gender:Male GAS CFU:2500


title: KIV-1-GAS-19B08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B08 column.

value: 45 Gender:Male GAS CFU:0


title: KIV-1-GAS-19E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E04 column.

value: 45 Gender:Female GAS CFU:1200


title: KIV-1-GAS-19C09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19C09 column.

value: 86 Gender:Male GAS CFU:0


title: KIV-1-GAS-19C05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19C05 column.

value: 16 Gender:Male GAS CFU:100


title: KIV-1-GAS-19C07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19C07 column.

value: 32 Gender:Male GAS CFU:1


title: KIV-1-GAS-19B09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B09 column.

value: 72 Gender:Male GAS CFU:3500


title: KIV-1-GAS-19B07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B07 column.

value: 23 Gender:Male GAS CFU:1300


title: KIV-1-GAS-19E06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19E06 column.

value: 0 Gender:Female GAS CFU:0


title: KIV-1-GAS-19C04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19C04 column.

value: 7 Gender:Male GAS CFU:1400


title: KIV-1-GAS-18F09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18F09 column.

value: 2 Gender:Male GAS CFU:61000


title: KIV-1-GAS-19B05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B05 column.

value: 9 Gender:Male GAS CFU:2600


title: KIV-1-GAS-19B04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B04 column.

value: 4 Gender:Male GAS CFU:300


title: KIV-1-GAS-19B03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 19B03 column.

value: 1 Gender:Male GAS CFU:170


title: KIV-1-GAS-18F05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18F05 column.

value: 32 Gender:Male GAS CFU:4000


title: KIV-1-GAS-18F08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18F08 column.

value: 7 Gender:Male GAS CFU:14000


title: KIV-1-GAS-18F07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18F07 column.

value: 16 Gender:Male GAS CFU:1300


title: KIV-1-GAS-18E07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E07 column.

value: 9 Gender:Male GAS CFU:20000


title: KIV-1-GAS-18F04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18F04 column.

value: 58 Gender:Male GAS CFU:0


title: KIV-1-GAS-18E09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E09 column.

value: 1 Gender:Male GAS CFU:0


title: KIV-1-GAS-18F03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18F03 column.

value: 86 Gender:Male GAS CFU:1


title: KIV-1-GAS-18E06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E06 column.

value: 0 Gender:Male GAS CFU:0


title: KIV-1-GAS-18E08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E08 column.

value: 4 Gender:Male GAS CFU:26000


title: KIV-1-GAS-18E03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E03 column.

value: 72 Gender:Male GAS CFU:2500


title: KIV-1-GAS-18C07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18C07 column.

value: 32 Gender:Female GAS CFU:2000


title: KIV-1-GAS-18E05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E05 column.

value: 23 Gender:Male GAS CFU:7000


title: KIV-1-GAS-18E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18E04 column.

value: 45 Gender:Male GAS CFU:3000


title: KIV-1-GAS-18C09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18C09 column.

value: 86 Gender:Female GAS CFU:0


title: KIV-1-GAS-18B07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B07 column.

value: 23 Gender:Female GAS CFU:1700


title: KIV-1-GAS-18B06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B06 column.

value: 0 Gender:Female GAS CFU:0


title: KIV-1-GAS-18C03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18C03 column.

value: 2 Gender:Female GAS CFU:26000


title: KIV-1-GAS-18B09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B09 column.

value: 72 Gender:Female GAS CFU:0


title: KIV-1-GAS-18C05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18C05 column.

value: 16 Gender:Female GAS CFU:3500


title: KIV-1-GAS-18C04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18C04 column.

value: 7 Gender:Female GAS CFU:230


title: KIV-1-GAS-18C08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18C08 column.

value: 58 Gender:Female GAS CFU:2100


title: KIV-1-GAS-18B05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B05 column.

value: 9 Gender:Female GAS CFU:42000


title: KIV-1-GAS-18B04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B04 column.

value: 4 Gender:Female GAS CFU:14800


title: KIV-1-GAS-18B08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B08 column.

value: 45 Gender:Female GAS CFU:0


title: KIV-1-GAS-18B03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 18B03 column.

value: 1 Gender:Female GAS CFU:3000


title: KIV-1-GAS-17F08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17F08 column.

value: 7 Gender:Female GAS CFU:80


title: KIV-1-GAS-17F07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17F07 column.

value: 16 Gender:Female GAS CFU:2000


title: KIV-1-GAS-17F09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17F09 column.

value: 2 Gender:Female GAS CFU:100


title: KIV-1-GAS-17F03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17F03 column.


title: KIV-1-GAS-17F04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17F04 column.

value: 58 Gender:Female GAS CFU:0


title: KIV-1-GAS-17F05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17F05 column.

value: 32 Gender:Female GAS CFU:100


title: KIV-1-GAS-17E08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E08 column.

value: 4 Gender:Female GAS CFU:1


title: KIV-1-GAS-17E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E04 column.

value: 45 Gender:Female GAS CFU:200


title: KIV-1-GAS-17E09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E09 column.

value: 1 Gender:Female GAS CFU:100


title: KIV-1-GAS-17E05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E05 column.

value: 23 Gender:Female GAS CFU:1


title: KIV-1-GAS-17E07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E07 column.

value: 9 Gender:Female GAS CFU:1


title: KIV-1-GAS-17E06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E06 column.

value: 0 Gender:Female GAS CFU:0


title: KIV-1-GAS-20B03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 20B03 column.

value: 1 Gender:Female GAS CFU:0


title: KIV-1-GAS-17C05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17C05 column.

value: 16 Gender:Male GAS CFU:20000


title: KIV-1-GAS-17C08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17C08 column.

value: 58 Gender:Male GAS CFU:4600


title: KIV-1-GAS-17C07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17C07 column.

value: 32 Gender:Male GAS CFU:4700


title: KIV-1-GAS-17C03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17C03 column.

value: 2 Gender:Male GAS CFU:7200


title: KIV-1-GAS-17B07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B07 column.

value: 23 Gender:Male GAS CFU:31000


title: KIV-1-GAS-17C09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17C09 column.

value: 86 Gender:Male GAS CFU:500


title: KIV-1-GAS-17C04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17C04 column.

value: 7 Gender:Male GAS CFU:1550


title: KIV-1-GAS-17B05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B05 column.

value: 9 Gender:Male GAS CFU:8800


title: KIV-1-GAS-17B09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B09 column.

value: 72 Gender:Male GAS CFU:3900


title: KIV-1-GAS-17B08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B08 column.

value: 45 Gender:Male GAS CFU:1000


title: KIV-1-GAS-17B04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B04 column.

value: 4 Gender:Male GAS CFU:9400


title: KIV-1-GAS-17B06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B06 column.

value: 0 Gender:Male GAS CFU:0


title: KIV-1-GAS-17E03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17E03 column.

value: 72 Gender:Female GAS CFU:0


title: KIV-1-GAS-16F08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16F08 column.

value: 7 Gender:Male GAS CFU:27000


title: KIV-1-GAS-16F09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16F09 column.

value: 2 Gender:Male GAS CFU:5200


title: KIV-1-GAS-17B03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 17B03 column.

value: 1 Gender:Male GAS CFU:7300


title: KIV-1-GAS-16F05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16F05 column.

value: 32 Gender:Male GAS CFU:0


title: KIV-1-GAS-16F07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16F07 column.

value: 16 Gender:Male GAS CFU:1


title: KIV-1-GAS-16F04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16F04 column.

value: 58 Gender:Male GAS CFU:0


title: KIV-1-GAS-16E08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E08 column.

value: 4 Gender:Male GAS CFU:2400


title: KIV-1-GAS-16E07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E07 column.

value: 9 Gender:Male GAS CFU:38000


title: KIV-1-GAS-16F03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16F03 column.

value: 86 Gender:Male GAS CFU:0


title: KIV-1-GAS-16E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E04 column.

value: 45 Gender:Male GAS CFU:1


title: KIV-1-GAS-16E05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E05 column.

value: 23 Gender:Male GAS CFU:1


title: KIV-1-GAS-16C09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16C09 column.

value: 86 Gender:Female GAS CFU:0


title: KIV-1-GAS-16E06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E06 column.


title: KIV-1-GAS-16E03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E03 column.

value: 72 Gender:Male GAS CFU:0


title: KIV-1-GAS-16C08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16C08 column.

value: 58 Gender:Female GAS CFU:0


title: KIV-1-GAS-16C07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16C07 column.

value: 32 Gender:Female GAS CFU:1


title: KIV-1-GAS-16B05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B05 column.

value: 9 Gender:Female GAS CFU:11400


title: KIV-1-GAS-16B07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B07 column.

value: 23 Gender:Female GAS CFU:6200


title: KIV-1-GAS-16B08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B08 column.

value: 45 Gender:Female GAS CFU:160


title: KIV-1-GAS-15F07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15F07 column.

value: 16 Gender:Female GAS CFU:1


title: KIV-1-GAS-16B06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B06 column.

value: 0 Gender:Female GAS CFU:0


title: KIV-1-GAS-15F04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15F04 column.


title: KIV-1-GAS-16C04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16C04 column.

value: 7 Gender:Female GAS CFU:81000


title: KIV-1-GAS-15F05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15F05 column.

value: 32 Gender:Female GAS CFU:1000


title: KIV-1-GAS-15F03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15F03 column.


title: KIV-1-GAS-15E09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E09 column.

value: 1 Gender:Female GAS CFU:1900


title: KIV-1-GAS-15F08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15F08 column.

value: 7 Gender:Female GAS CFU:7000


title: KIV-1-GAS-16C05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16C05 column.

value: 16 Gender:Female GAS CFU:2000


title: KIV-1-GAS-15F09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15F09 column.

value: 2 Gender:Female GAS CFU:6000


title: KIV-1-GAS-16B03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B03 column.

value: 1 Gender:Female GAS CFU:6300


title: KIV-1-GAS-15E08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E08 column.

value: 4 Gender:Female GAS CFU:9000


title: KIV-1-GAS-16B04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B04 column.

value: 4 Gender:Female GAS CFU:4700


title: KIV-1-GAS-15E06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E06 column.


title: KIV-1-GAS-15E07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E07 column.

value: 9 Gender:Female GAS CFU:15000


title: KIV-1-GAS-16C03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16C03 column.

value: 2 Gender:Female GAS CFU:3100


title: KIV-1-GAS-15E03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E03 column.

value: 72 Gender:Female GAS CFU:0


title: KIV-1-GAS-15E05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E05 column.

value: 23 Gender:Female GAS CFU:14000


title: KIV-1-GAS-15C09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15C09 column.

value: 86 Gender:Male GAS CFU:4400


title: KIV-1-GAS-15E04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15E04 column.

value: 45 Gender:Female GAS CFU:1700


title: KIV-1-GAS-16B09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16B09 column.


title: KIV-1-GAS-15C05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15C05 column.

value: 16 Gender:Male GAS CFU:11700


title: KIV-1-GAS-15C08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15C08 column.

value: 58 Gender:Male GAS CFU:0


title: KIV-1-GAS-15C04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15C04 column.

value: 7 Gender:Male GAS CFU:8200


title: KIV-1-GAS-15C03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15C03 column.

value: 2 Gender:Male GAS CFU:33000


title: KIV-1-GAS-15B08-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B08 column.

value: 45 Gender:Male GAS CFU:8100


title: KIV-1-GAS-15B09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B09 column.

value: 72 Gender:Male GAS CFU:800


title: KIV-1-GAS-15B03-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B03 column.

value: 1 Gender:Male GAS CFU:13000


title: Lda2a

status: Public on Jun 16 2005

city: La Jolla

first: James

middle: Bradley

last: Aimone

state: CA

address: 10010 N. Torrey Pines Rd

department: Laboratory of Genetics

institute: Salk Institute

description: Low-density CCg progenitors treated with FBS to derive Astrocytes

organism: Rattus norvegicus

source_name: LD Astrocytes


title: KIV-1-GAS-15B04-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B04 column.

value: 4 Gender:Male GAS CFU:33000


title: Ld3

description: Low-density CCg progenitors

source_name: LD Progenitors


title: KIV-1-GAS-15B06-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B06 column.

value: 0 Gender:Male GAS CFU:0


title: KIV-1-GAS-15B07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B07 column.

value: 23 Gender:Male GAS CFU:12000


title: Lda3


title: Lda1b


title: KIV-1-GAS-15B05-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15B05 column.

value: 9 Gender:Male GAS CFU:33000


title: Lda3r


title: HD2b

description: High-density progenitors

source_name: HD Progenitors


title: LD1a

description: Low-density CCg progenitors

source_name: LD CCg Progenitors


title: Ldn3

description: Low-density CCg progenitors treated with RA/Fsk to derive Neurons

source_name: LD Neurons


title: Ld4

description: Low-density CCg progenitors


title: HD2a

description: High-density progenitors


title: Ld1b

description: Low-density CCg progenitors


title: KIV-1-GAS-16E09-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 16E09 column.

value: 1 Gender:Male GAS CFU:1500


title: Ldn4


title: Lda4


title: Ldn1


title: Ldn2


title: HD1b

description: High-density progenitors


title: LDa1a


title: HD4b

description: High-density progenitors


title: HD1a

description: High-density progenitors


title: GSCrevert50hr2

status: Public on Jun 15 2005

city: Baltimore

first: Allan

middle: C

last: Spradling

state: MD

address: 3520 San Martin Dr

department: Embryology

institute: Carnegie Institution/HHMI

description: RNA from dissected ovary tips of c587-GAL4; hsbam UAS-dpp  females 50hr after a single heat shock to induce GSC differentiation ; expt 2; these tips contain reverted GSCs;  See  Kai et al. (2005). Developmental Biology, in press.

data_processing: MAS 5.0

label: BioArray high yield transcript kit (Enzo)

organism: Drosophila melanogaster

source_name: ovary tips


title: GSCrevert20hr2

description: RNA from dissected ovary tips of c587-GAL4; hsbam UAS-dpp  females 20hr after a single heat shock to induce GSC differentiation ; expt 2; these tips lack GSCs;  See  Kai et al. (2005). Developmental Biology, in press.


title: GSCrevert50hr1

description: RNA from dissected ovary tips of c587-GAL4; hsbam UAS-dpp  females 50hr after a single heat shock to induce GSC differentiation ; expt 1; these tips contain reverted GSCs;  See  Kai et al. (2005). Developmental Biology, in press.


title: Fetal heart 6 ug/kg TCDD rep3

city: Albuquerque

first: Evan

middle: A.

last: Thackaberry

state: NM

address: 2502 Marble N.E.

department: College of Pharmacy

institute: University of New Mexico

description: gd17.5 fetal mouse hearts

hyb_protocol: standard Affymetrix procedures

scan_protocol: standard Affymetrix procedures

data_processing: Affymetrix Microarray Suite version 5.0

label: Labeling and probe preparation was performed exactly as recommended by Affymetrix.

organism: Mus musculus

source_name: T6 fetal heart (treated on gd14.5 via oral gavage, collected on gd17.5)

label_protocol: Labeling and probe preparation was performed exactly as recommended by Affymetrix, using the Superscript Choice System for RT/PCR (Gibco/BRL Life Technologies) for cDNA synthesis and the RNA Transcript Labeling Kit (ENZO) for cRNA preparation.

extract_protocol: Trizol reagent was used to isolate total RNA from whole d17.5 fetal mouse hearts.

tag: C57Bl6N Mouse

tag: gd17.5 fetal heart


title: Fetal heart 6 ug/kg TCDD rep4

description: gd17.5 fetal mouse hearts


title: Fetal heart 6 ug/kg TCDD rep2

description: gd17.5 fetal mouse hearts


title: Fetal heart 1.5 ug/kg TCDD rep2

description: gd17.5 fetal mouse hearts

source_name: T1.5 fetal heart (treated on gd14.5 via oral gavage, collected on gd 17.5)


title: Fetal heart 3.0 ug/kg TCDD rep4

description: gd17.5 fetal mouse hearts

source_name: T3 fetal heart (treated on gd14.5 via oral gavage, collected on gd 17.5)


title: Fetal heart 6 ug/kg TCDD rep1

description: gd17.5 fetal mouse hearts


title: GSCrevert0hr2

description: RNA from dissected ovary tips of c587-GAL4; hsbam UAS-dpp  females 0hr after a single heat shock to induce GSC differentiation ; expt 2; these tips are enriched in GSCs;  See  Kai et al. (2005). Developmental Biology, in press.


title: Fetal heart 1.5 ug/kg TCDD rep3

description: gd17.5 fetal mouse hearts

source_name: T1.5 fetal heart (treated on gd14.5 via oral gavage, collected on gd17.5)


title: Fetal heart TCDD 3 ug/kg TCDD rep1

description: gd17.5 fetal mouse hearts

source_name: T3 fetal heart (treated on gd14.5 via oral gavage, collected on gd17.5)


title: Fetal heart 1.5 ug/kg TCDD rep4

description: gd17.5 fetal mouse hearts


title: Kc cell line replicate 3

description: RNA from Kc tissue culture cells was profiled.  This is replicate 3.  See  Kai et al. (2005). Developmental Biology, in press.

label: BioArray transcript labeling kit (Enzo)

source_name: cultured Kc cells

tag: tissue culture cells; replicate 3


title: Kc cell line replicate 1

description: RNA from Kc tissue culture cells was profiled.  This is replicate 1.  See  Kai et al. (2005). Developmental Biology, in press.

tag: tissue culture cells; replicate 1


title: Fetal heart 3.0 ug/kg TCDD rep3

description: gd17.5 fetal mouse hearts

source_name: T3 fetal heart (treated on gd 14.5 via oral gavage, collected on gd17.5)


title: Fetal heart control 4

description: gd17.5 fetal mouse hearts

source_name: Control fetal heart (vehicle treated with corn oil on gd14.5 via oral gavage, collected on gd17.5)


title: GSC dpp3

description: RNA from highly purified germline stem cells prepared from ovaries overexpressing Dpp from c587-GAL4 was profiled.  This is replicate 3.  See  Kai et al. (2005). Developmental Biology, in press.

source_name: germ line stem cell

tag: purified germ line stem cells from ovaries overexpressing Dpp from c587-GAL4; replicate 3


title: Fetal heart control 3

description: gd17.5 fetal mouse hearts


title: Fetal heart control 1

description: gd17.5 fetal mouse hearts


title: GSCrevert0hr1

description: RNA from dissected ovary tips of c587-GAL4; hsbam UAS-dpp  females 0hr after a single heat shock to induce GSC differentiation ; expt 1; these tips are enriched in GSCs;  See  Kai et al. (2005). Developmental Biology, in press.


title: Kc cell line replicate 2

description: RNA from Kc tissue culture cells was profiled.  This is replicate 2.  See  Kai et al. (2005). Developmental Biology, in press.

tag: tissue culture cells; replicate 2


title: Fetal heart 1.5 ug/kg TCDD rep1

description: gd17.5 fetal mouse hearts

source_name: T1.5 fetal heart (treated on gd1.45 via oral gavage, collected on gd17.5)


title: Fetal heart control 2

description: gd17.5 fetal mouse hearts


title: GSC revert20hr1

description: RNA from dissected ovary tips of c587-GAL4; hsbam UAS-dpp  females 20hr after a single heat shock to induce GSC differentiation ; expt 1; these tips lack GSCs;  See  Kai et al. (2005). Developmental Biology, in press.


title: Fetal heart control 7

description: gd17.5 fetal mouse hearts


title: GSC dpp1

description: RNA from highly purified germline stem cells prepared from ovaries overexpressing Dpp from c587-GAL4 was profiled.  This is replicate 1.  See  Kai et al. (2005). Developmental Biology, in press.

tag: purified germ line stem cells from ovaries overexpressing Dpp from c587-GAL4; replicate 1


title: Fetal heart control 6

description: gd17.5 fetal mouse hearts


title: KIV-1-GAS-15C07-1-RML

description: Data can be found for this sample in CEL, EXP, and PPA files included as an attachment to this submission. The filename for the CEL and EXP files is the same as the Sample_title field. The column in the PPA file corresponding to this sample is the 15C07 column.

source_name: Throat Swab

value: 32 Gender:Male GAS CFU:1200


title: Time course (72 hr B) of leafy spurge root buds following loss of paradormancy

city: Fargo

first: David

last: Horvath

state: ND

address: 1605 Albrecht Blvd

department: Agr. Research Service

institute: US Dept. Agriculture

description: This experiment compares the differences in expression of genes in root buds between the 0 hr control and the 72 hr time point. Any changes in gene expression are likely the result of factors influencing bud growth

hyb_protocol: Schaffer R., J. Landgraf, M. Accerbi, V. V. Simon, M. Larson, and E. Wisman. 2001. Microarray Analysis of Diurnal and Circadian Regulated Genes in Arabidopsis. Plant Cell 13:113-123

scan_protocol: Hybridization was visualized using an Affy428 scanner. Spots were identified and signal intensities calculated using Jaguar software provided with the scanner.

data_processing: After removal of all flagged spots, and all non-plant-DNA-containing spots, Loess normalization and SD regularization was performed using MIDAS software developed by TIGR. The ratios of the treated over the 0 hr control for the normalized data was obtained, and LOG base 2 transformed. These values are listed in the VALUE column.

organism: Euphorbia esula

source_name: underground adventitious shoot buds of leafy spurge collected at 0 hrs (control) following loss of paradormancy

growth_protocol: All plant material has been derived from clonal propagation of a wild isolate of leafy spurge collected in ND approximately 15 years ago. Single-stem plants were grown in sunshine mix1 in 5 by 21 cm cones in a greenhouse under a 16 hr photoperiod with supplemental lighting for 3-4 months. Root buds were collected from unexcised plants. Buds were harvested between 8:00 and 10:00 A.M., (approximately two to four hours after artificial lights were turned on), frozen in liquid nitrogen, and stored at -80 C until RNA extractions were preformed.

extract_protocol: Total RNA was isolated from ground root buds using a modification (Horvath et al. 2002) of the Pine tree extraction method (Chang et al. 1993)

treatment_protocol: Adventitious buds were collected from intact plants. This particular sample was used as a control for all experiments described in this series. Plants were separated from their containers and soil was removed from the root by shaking and rinsing in tap water. Adventitious buds were then removed from the lateral roots using teasers, frozen in liquid nitrogen, and then stored at -80 C

tag: Adventitious buds of at least 0.5 mm in length. The strain designation of the cultivar is CEM80. Plants were 3-4 months old at time of harvest.

source_name: underground adventitious shoot buds of leafy spurge collected at 72 hrs following loss of paradormancy

growth_protocol: All plant material has been derived from clonal propagation of a wild isolate of leafy spurge collected in ND approximately 15 years ago. Single-stem plants were grown in sunshine mix1 in 5 by 21 cm cones in a greenhouse under a 16 hr photoperiod with supplemental lighting for 3-4 months. Root buds were collected 12 hrs following excision of all plant parts above the point of lateral root branching (a treatment known to break paradormancy in underground adventitious buds). Buds were harvested between 8:00 and 10:00 A.M., (approximately two to four hours after artificial lights were turned on), frozen in liquid nitrogen, and stored at -80 C until RNA extractions were preformed.

treatment_protocol: Adventitious buds were collected from excised plants. Plants were separated from their conetainers and soil was removed from the root by shaking and rinsing in tap water. Adventitious buds were then removed from the lateral roots using teasers, frozen in liquid nitrogen, and then stored at -80 C


title: GSC bam2

description: RNA from highly purified germline stem cells prepared from bam mutant ovaries was profiled.  This is replicate 2.  See  Kai et al. (2005). Developmental Biology, in press.

tag: purified germ line stem cells from bam mutant ovaries; replicate 2


title: Fetal heart control 5

description: gd17.5 fetal mouse hearts

source_name: Control fetal heart (vehicle treated with corn oil via oral gavage on gd14.5, collected on gd17.5)


title: Time course (72 hr A) of leafy spurge root buds following loss of paradormancy

label_protocol: Schaffer R., J. Landgraf, M. Accerbi, V. V. Simon, M. Larson, and E. Wisman. 2001. Microarray Analysis of Diurnal and Circadian Regulated Genes in Arabidopsis. Plant Cell 13:113-123

growth_protocol: All plant material has been derived from clonal propagation of a wild isolate of leafy spurge collected in ND approximately 15 years ago. Single-stem plants were grown in sunshine mix1 in 5 by 21 cm cones in a greenhouse under a 16 hr photoperiod with supplemental lighting for 3-4 months. Root buds were collected 72 hrs following excision of all plant parts above the point of lateral root branching (a treatment known to break paradormancy in underground adventitious buds). Buds were harvested between 8:00 and 10:00 A.M., (approximately two to four hours after artificial lights were turned on), frozen in liquid nitrogen, and stored at -80 C until RNA extractions were preformed.

source_name: underground adventitious shoot buds of leafy spurge collected at 0 hrs


title: Time course (24 hr B) of leafy spurge root buds following loss of paradormancy

description: This experiment compares the differences in expression of genes in root buds between the 0 hr control and the 24 hr time point. Any changes in gene expression are likely the result of factors influencing bud growth

scan_protocol: Hybridization was visualized using an Affy428 scanner. Spots were identified and signal intensities calculated using Jaguar software provided with thye scanner.

source_name: underground adventitious shoot buds of leafy spurge collected at 24 hrs following loss of paradormancy

label_protocol: Schaffer R., J. Landgraf, M. Accerbi, V. V. Simon, M. Larson, and E. Wisman. 2001. Microarray Analysis of Diurnal and Circadian Regulated Genes in Arabidopsis. Plant Cell 13:113-123.


title: GSC bam3

description: RNA from highly purified germline stem cells prepared from bam mutant ovaries was profiled.  This is replicate 3.  See  Kai et al. (2005). Developmental Biology, in press.

tag: purified germ line stem cells from bam mutant ovaries; replicate 3


title: GSC bam1

description: RNA from highly purified germline stem cells prepared from bam mutant ovaries was profiled.  This is replicate 1.  See  Kai et al. (2005). Developmental Biology, in press.

tag: purified germ line stem cells from bam mutant ovaries; replicate 1


title: Fetal heart 3 ug/kg TCDD rep2

description: gd17.5 fetal mouse hearts


title: vMyb virus-infected replicate 2 (MCF7)

status: Public on Jun 14 2005

first: Scott

last: Ness

department: Internal Medicine

institute: U. of New Mexico HSC

description: Adenovirus-infected MCF7 cells

label: biotin

organism: Homo sapiens

source_name: MCF7 cells

label_protocol: Approximately 1 µg of total RNA was processed to produce biotinylated cRNA targets.

extract_protocol: Approximately 1x10^6 cells were infected with adenovirus expressing v-Myb and GFP for 16 hours, then total RNA was isolated using RNEasy kit (Qiagen).

tag: Mammary cell line


title: Fetal heart control 8

description: gd17.5 fetal mouse hearts


title: cMyb virus-infected replicate 1 (MCF7)

description: Adenovirus-infected MCF7 cells

extract_protocol: Approximately 1x10^6 cells were infected with adenovirus expressing c-Myb and GFP for 16 hours, then total RNA was isolated using RNEasy kit (Qiagen).


title: 3Mutc virus-infected replicate 1 (MCF7)

description: Adenovirus-infected MCF7 cells

extract_protocol: Approximately 1x10^6 cells were infected with adenovirus expressing 3Mutc Myb and GFP for 16 hours, then total RNA was isolated using RNEasy kit (Qiagen).


title: Time course (48 hr B) of leafy spurge root buds following loss of paradormancy

description: This experiment compares the differences in expression of genes in root buds between the 0 hr control and the 48 hr time point. Any changes in gene expression are likely the result of factors influencing bud growth

source_name: underground adventitious shoot buds of leafy spurge collected at 48 hrs following loss of paradormancy


title: Time course (24 hr A) of leafy spurge root buds following loss of paradormancy

description: This experiment compares the differences in expression of genes in root buds between the 0 hr control and the 24 hr time point. Any changes in gene expression are likely the result of factors influencing bud growth.

growth_protocol: All plant material has been derived from clonal propagation of a wild isolate of leafy spurge collected in ND approximately 15 years ago. Single-stem plants were grown in sunshine mix1 in 5 by 21 cm cones in a greenhouse under a 16 hr photoperiod with supplemental lighting for 3-4 months. Root buds were collected 24 hrs following excision of all plant parts above the point of lateral root branching (a treatment known to break paradormancy in underground adventitious buds). Buds were harvested between 8:00 and 10:00 A.M., (approximately two to four hours after artificial lights were turned on), frozen in liquid nitrogen, and stored at -80 C until RNA extractions were preformed.

extract_protocol: Total RNA was isolated from ground root buds using a modification (Horvath et al. 2002) of the Pine tree extraction method (Chang et al. 1993).


title: control virus-infected replicate 1 (MCF7)

description: Adenovirus-infected MCF7 cells

extract_protocol: Approximately 1x10^6 cells were infected with control adenovirus expressing GFP for 16 hours, then total RNA was isolated using RNEasy kit (Qiagen).


title: 3Mutc virus-infected replicate 2 (MCF7)

description: Adenovirus-infected MCF7 cells


title: Time course (12 hr A) of leafy spurge root buds following loss of paradormancy

description: This experiment compares the differences in expression of genes in root buds between the 0 hr control and the 12 hr time point. Any changes in gene expression are likely the result of factors influencing bud growth.

source_name: underground adventitious shoot buds of leafy spurge collected at 12 hrs following loss of paradormancy


title: control virus-infected replicate 2 (MCF7)

description: Adenovirus-infected MCF7 cells


title: Time course (12 hr B) of leafy spurge root buds following loss of paradormancy


title: vMyb virus-infected replicate 1 (MCF7)

description: Adenovirus-infected MCF7 cells


title: Time course (0 hr A) of leafy spurge root buds following loss of paradormancy

description: This experiment compares the differences in expression of genes between what are essentially two control populations of adventitious buds. Any changes in gene expression are likely the result of uncontrolled factors

data_processing: After removal of all flagged spots, and all non-plant-DNA-containing spots, Loess normalization and SD regularization was performed using MIDAS software developed by TIGR. The ratios of the treated verses the 0 hr control for the normalized data was obtained, and LOG base 2 transformed. These values are listed in the VALUE column.

source_name: underground adventitious shoot buds of leafy spurge collected at 0 hrs following loss of paradormancy

treatment_protocol: Adventitious buds were collected from intact plants. Plants were separated from their containers and soil was removed from the root by shaking and rinsing in tap water. Adventitious buds were then removed from the lateral roots using teasers, frozen in liquid nitrogen, and then stored at -80 C


title: HD4a

description: High-density progenitors

source_name: HD Progenitors


title: Mecp2_null_versus_wt

city: Berlin

first: Ulrike

middle: A

last: Nuber

address: Ihnestrasse 73

country: Germany

institute: Max Planck Institute for molecular Genetics

description: This was a dye swap experiment. Two co-hybridizations (Mecp2 null versus wt) were performed. The normalized mean spot intensities of the two co-hybridizations were combined in the subsequent data analysis, resulting in  one set of log ratios and estimated fold changes.

data_processing: ANOVA, Nuber et al., 2005

label: Cy3 or Cy5

source_name: Total brain tissue wt

tag: Cy3  in experiment1, Cy5 in dye swap experiment

label: Cy5 or Cy3

source_name: Total brain tissue Mecp2 null

tag: Cy5  in experiment1, Cy3 in dye swap experiment


title: Time course (0 hr B) of leafy spurge root buds following loss of paradormancy

treatment_protocol: Adventitious buds were collected from intact plants. This particular sample was used as a control for all experiments described in this series. Plants were separated from their conetainers and soil was removed from the root by shaking and rinsing in tap water. Adventitious buds were then removed from the lateral roots using teasers, frozen in liquid nitrogen, and then stored at -80 Cand rinsing in tap water. Adventitious buds were then removed from the lateral roots using teasers, frozen in liquid nitrogen, and then stored at -80 C


title: rna14-1_3

status: Public on Jun 13 2005

city: Santa Cruz

first: Todd

last: Burckin

address: 1156 High Street

department: Molecular, Cell, & Developmental Biology

institute: University of California Santa Cruz

description: Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shifted to 37 deg for 30 minutes.  RNA extracted.

organism: Saccharomyces cerevisiae

source_name: OY147 (wt) @ 37 deg C


title: rapamycin_3

description: Reference and mutant strains grown at 26oC to OD= 0.5-0.6.  Rapamycin  nor water(reference) added for 30 minutes. RNA extracted.

source_name: BY4741 (rapamycin) @ 26 deg


title: xrn1D_5

description:
Reference and mutant strains grown at 26oC to OD= 0.5-0.6.  RNA extracted.
Empty cells (no data) are represented by the value -10000


title: cMyb virus-infected replicate 2 (MCF7)

description: Adenovirus-infected MCF7 cells


title: tif1-1_tif2D_5

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shifted to 37 deg for 60 min. RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: YTC396 (reference) @ 37 deg

source_name: YTC398 (tif1-1_tif2D) @ 37 deg


title: xrn1D_3

description: Reference and mutant strains grown at 26oC to OD= 0.5-0.6. RNA extracted.


title: tif1-1_tif2D_3

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shifted to 37 deg for 1 hour. RNA extracted.
Empty cells (no data) are represented by the value -10000


title: uba1-3_5

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shifted to 37 deg for 30 minutes. RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: LH3558 (reference) @ 37 deg


title: rna14-1_5


title: syf2D_5

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 . RNA extracted.
Empty cells (no data) are represented by the value -10000


title: rat1-1_3

description: Reference and mutant strains grown at 26oC to OD= 0.5-0.6 and shifted to 37 deg for 30 min.  RNA extracted.


title: snt309D_3


title: rna15-1_3


title: rapamycin_5

description:
Reference and mutant strains grown at 26oC to OD= 0.5-0.6.  Rapamycin  nor water(reference) added for 30 minutes. RNA extracted.
Empty cells (no data) are represented by the value -10000


title: uba1-3_3


title: prp9-1_3

description: Reference and mutant strains grown at 26oC to OD= 0.5-0.6 and shifted to 37 deg. for 30 minutes. RNA extracted.


title: snt309D_5


title: snu17D_3


title: prp9-1_5

description:
Reference and mutant strains grown at 26oC to OD= 0.5-0.6 and shifted to 37 deg. for 30 minutes. RNA extracted.
Empty cells (no data) are represented by the value -10000


title: snu17D_5


title: prp3-1_5


title: heatshock_5

description: Reference and mutant strains grown at 26oC to an OD of 0.5-0.6.  Heatshock sample shifted to 37 deg for 30 minutes. RNA extracted.

source_name: SS330 (wt) @ 26 deg C

source_name: SS330 (wt) @ 37 deg C


title: prp21-1_3


title: prp3-1_3


title: heatshock_3


title: rna15-1_5


title: prp20-1_3


title: rat1-1_5


title: sky1D_3


title: rnp1D_5


title: syf2D_3


title: rnp1D_3


title: prp2-1_3


title: Time course (48 hr A) of leafy spurge root buds following loss of paradormancy

description: This experiment compares the differences in expression of genes in root buds between the 0 hr control and the 48 hr time point. Any changes in gene expression are likely the result of factors influencing bud growth

data_processing: After removal of all flagged spots, and all non-plant-DNA-containing spots, Loess normalization and SD regularization was performed using MIDAS software developed by TIGR. The ratios of the treated over the 0 hr control for the normalized data was obtained, and LOG base 2 transformed. These values are listed in the VALUE column..

growth_protocol: All plant material has been derived from clonal propagation of a wild isolate of leafy spurge collected in ND approximately 15 years ago. Single-stem plants were grown in sunshine mix1 in 5 by 21 cm cones in a greenhouse under a 16 hr photoperiod with supplemental lighting for 3-4 months. Root buds were collected 48 hrs following excision of all plant parts above the point of lateral root branching (a treatment known to break paradormancy in underground adventitious buds). Buds were harvested between 8:00 and 10:00 A.M., (approximately two to four hours after artificial lights were turned on), frozen in liquid nitrogen, and stored at -80 C until RNA extractions were preformed.

source_name: underground adventitious shoot buds of leafy spurge collected at 0 hrs (control) following loss of paradormancy


title: rnt1D_5

source_name: SS330 (rnt1D) @ 26 deg


title: rnt1D_3


title: prp11-1_3


title: pub1D_5


title: prp21-1_5


title: pub1D_3


title: prp20-1_5


title: prp28-102_3

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shiftet to 15 deg for 1 hour. RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: YTC127 (wt) @ 15 deg


title: sub2-85_5

description:
Reference and mutant strains grown at 26oC to OD= 0.5-0.6 and shifted to 37 deg for 60 minutes. RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: YTC828 (wt) @ 37 deg


title: prp2-1_5


title: pus7D_3


title: sky1D_5


title: prp11-1_5


title: npl3D_3


title: prp28-102_5


title: mex67-6_5

source_name: YTC832 (wt) @ 37 deg


title: prp19-1_3


title: pus7D_5


title: sub2-85_3

description: Reference and mutant strains grown at 26oC to OD= 0.5-0.6 and shifted to 37 deg for 60 minutes. RNA extracted.


title: prp19-1_5


title: mex67-6_3


title: nam8D_3


title: nam8D_5


title: npl3D_5


title: mud2D_3


title: mud13D_3


title: yra1-1_5

source_name: YTC830 (wt) @ 37 deg


title: wt_YC6_5

description:
Strains grown at 30oC to 1-2 x 10exp7 cells/ml. shifted to 39 deg for 45 minutes. RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: OY94 (wt) @ 39 deg


title: mud2D_5


title: wt_YC6_3

description: Strains grown at 30oC to 1-2 x 10exp7 cells/ml. shifted to 39 deg for 45 minutes. RNA extracted.


title: srb2D_3

description: Reference and mutant strains grown at 30oC to 1-2 x 10exp7 cells/ml. shifted to 39 deg for 45 minutes. RNA extracted.

source_name: GHY514 (srb2D) @ 39 deg


title: mud1D_3


title: mud1D_5


title: spt6-14_3


title: spt6-14_5

description:
Reference and mutant strains grown at 30oC to 1-2 x 10exp7 cells/ml. shifted to 39 deg for 45 minutes. RNA extracted.
Empty cells (no data) are represented by the value -10000


title: srb10D_3

source_name: OY65 (srb10D) @ 39 deg


title: srb10D_5


title: yra1-1_3


title: lsm6D_3


title: mlp1D_5


title: lsm6D_5


title: spt5-194_5


title: spt5-194_3


title: mud13D_5


title: spt15-328_3


title: srb2D_5


title: lea1D_3


title: spt16-197_3


title: spt15-328_5


title: mlp1D_3


title: isy1D_3


title: hpr1D_3


title: rtf1D_3

source_name: GHY1121 (rtf1D) @ 39 deg


title: isy1D_5


title: spt16-197_5


title: gcr3D_3


title: rrp6D_5

source_name: GHY1344 (rrp6D) @ 39 deg


title: rtf1D_5


title: dhh1D_5


title: ded1-95_3

source_name: YTC127 (wt) @ 37 deg


title: paf1D_3

source_name: GHY960 (paf1D) @ 39 deg


title: gcr3D_5


title: ded1-95_5


title: rrp6D_3


title: rpb2-10_3


title: rpb2-10_5


title: hpr1D_5


title: dhh1D_3


title: ded1-199_3

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shifted to 15 deg for 1 hour. RNA extracted.
Empty cells (no data) are represented by the value -10000


title: rpb1D101_5


title: rpb1D101_3


title: leo1D_3

source_name: GHY240 (leo1D) @ 39 deg


title: paf1D_5


title: kin28-16_5


title: ded1-120_5


title: ded1-120_3


title: lea1D_5


title: wt_SC4_5

description: Strains grown at 26oC to an OD of 0.5-0.6 . RNA extracted.


title: ded1-199_5


title: wt_SC5_3


title: rpb1-1_5


title: kin28-16_3


title: wt_SC4_3


title: ski2D_3

description: Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 . RNA extracted.

source_name: ski2D @ 26 deg


title: wt_SC5_5


title: ski2D_5


title: iws1-13_3


title: cwc21D_3

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 . RNA extracted.
Empty cells (no data) are represented by the value -10000


title: lsm7D_3

source_name: lsm7D @ 26 deg


title: cwc21D_5


title: cyclohexamide_3

description:
Reference and treated strains grown to mid-log in YPD at room temp.  Cyclohexamide (dissolved in absolute ethanol) was added to the treated sample at a final conc. of 1 mg/ml and the sample incubated 1 hour more.  The same amount/volume of ethanol without cyclohexamide was added to the reference sample.  RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: YTC127 (cyclohexamdide treated)

source_name: YTC127 (reference)


title: iws1-13_5


title: lsm7D_5


title: dst1D_3

source_name: GHY349 (dst1D) @ 39 deg


title: leo1D_5


title: dbp5-1_5

description:
Reference and mutant strains grown at 26oC to an OD of 0.5-0.6 and shifted to 37 deg for 1 hour. RNA extracted.
Empty cells (no data) are represented by the value -10000

source_name: YTC152 (wt) @ 37 deg


title: dbp5-1_3


title: cyclohexamide_5

source_name: YTC127 (cyclohexamide treated)


title: rpb1-1_3


title: upf1D_3


title: dst1D_5


title: ctr9D_3

source_name: GHY1158 (ctr9D) @ 39 deg


title: lsm1D_3

source_name: lsm1D @ 26 deg


title: cwc15D_3


title: ski7D_3


title: ctk1D_5

source_name: OY94 (wt) @ 39 deg

source_name: GHY629 (ctk1D) @ 39 deg


title: ctk1D_3


title: upf1D_5


title: lsm1D_5


title: prp4-1_3

description: Reference RNA isolated from reference strain temperature shifted 26oC to 37oC for 60 minutes. Mutant RNA islolated from mutant strain temperature shifted 26oC to 37oC. RNA extracted.

source_name: prp4-1 @ 37 deg 60 min

source_name: SS330 (wt) @ 37 deg 60 min


title: cus2D_3


title: ski7D_5


title: prp4-1_5


title: bur1-1_5


title: bur1-1_3


title: ceg1-250_3


title: brr1D_3


title: dbr1D_3

description:
Reference and mutant strains grown at 26oC to OD= 0.5-0.6. RNA extracted.
Empty cells (no data) are represented by the value -10000


title: ctr9D_5


title: spt4D_5

source_name: spt4D  @ 39 deg


title: cwc15D_5


title: hsp70D_5


title: cus2D_5


title: ceg1-250_5


title: dbr1D_5


title: hsp70D_3


title: TriMeH3K27 in HeLa cell - rep3 of 3

status: Public on Jun 12 2005

type: genomic

city: San Diego

first: Chunxu

last: Qu

department: Gene Regulation

institute: Ludwig Institute for Cancer Research

description: Genome-wide location analysis of TriMeH3K27 binding in HeLa cells using RenLab ENCODE PCR tiling array. Array ID is ENC854. Replicate 3 of 3.

scan_protocol: Fluorescent array images were collected for both Cy3 and Cy5 with a GenePix 4000B fluorescent scanner and image intensity data were extracted and analyzed with GenePix Pro 4.0 analysis software.

data_processing: The two channels in each array are normalized using printtip loess with normexp background correction using R.  The replicate arrays are then quantile normalized using reference channel intensity.  The normalized intensities are then used for p-value calculation using single array error model, and log2 ratio calculation.

molecule: genomic DNA

source_name: Chromatin immunoprecipiated DNA using trimethyl-K27 histone H3 antibody, HeLa cells

tag: Human cervix epithelial adenocarcinoma cells, HeLa cells, trimethyl-K27 histone H3 antibody

source_name: Input DNA from HeLa cells


title: spt4D_3

source_name: spt4D @ 39 deg


title: TriMeH3K27 in HeLa cell - rep1 of 3

description: Genome-wide location analysis of TriMeH3K27 binding in HeLa cells using RenLab ENCODE PCR tiling array. Array ID is ENC848. Replicate 1 of 3.

tag: Human cervix epithelial adenocarcinoma cells, HeLa cells


title: TriMeH3K27 in HeLa cell - rep2 of 3

description: Genome-wide location analysis of TriMeH3K27 binding in HeLa cells using RenLab ENCODE PCR tiling array. Array ID is ENC853. Replicate 2 of 3.


title: brr1D_5


title: SUZ12 in HeLa cell - rep2 of 3

description: Genome-wide location analysis of SUZ12 binding in HeLa cells using RenLab ENCODE PCR tiling array. Array ID is ENC851. Replicate 2 of 3.

source_name: Chromatin immunoprecipiated DNA using SUZ12 antibody, HeLa cells

tag: Human cervix epithelial adenocarcinoma cells, HeLa cells, SUZ12 antibody


title: STAT1 binding in HeLa cell, 0 minute - rep5 of 5

status: Public on Jun 10 2005

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC792. Replicate 5 of 5.

data_processing: Single-Array Error Model

source_name: Chromatin immunoprecipitated DNA using STAT1 antibody

source_name: input DNA

tag: input DNA


title: STAT1 binding in HeLa cell, 30 minutes - rep3 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC789. Replicate 3 of 5.

tag: Chromatin immunoprecipitated DNA using STAT1 antibody


title: STAT1 binding in HeLa cell, 0 minute - rep4 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC790. Replicate 4 of 5.


title: STAT1 binding in HeLa cell, 30 minutes - rep4 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC731. Replicate 4 of 5.


title: STAT1 binding in HeLa cell, 30 minutes - rep2 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC487. Replicate 2 of 5.


title: dimethylated K4 histone H3 in HeLa cell, 0 minute - rep3 of 4

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC684. Replicate 3 of 4.

source_name: Chromatin immunoprecipitated DNA using dimethyl-H3K4 antibody


title: STAT1 binding in HeLa cell, 30 minutes - rep1 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC752. Replicate 1 of 5.


title: dimethylated K4 histone H3 in HeLa cell, 0 minute - rep1 of 4

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC622. Replicate 1 of 4.

tag: Chromatin immunoprecipitated DNA using dimethyl-H3K4 antibody


title: dimethylated K4 histone H3 in HeLa cell, 0 minute - rep4 of 4

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC761. Replicate 4 of 4.


title: dimethylated K4 histone H3 in HeLa cell, 30 minutes - rep3 of 3

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC856. Replicate 3 of 3.


title: dimethylated K4 histone H3 in HeLa cell, 30 minutes - rep1 of 3

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC471. Replicate 1 of 3.


title: SUZ12 in HeLa cell - rep3 of 3

description: Genome-wide location analysis of SUZ12 binding in HeLa cells using RenLab ENCODE PCR tiling array. Array ID is ENC852. Replicate 3 of 3.


title: dimethylated K4 histone H3 in HeLa cell, 0 minute - rep2 of 4

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC683. Replicate 2 of 4.


title: STAT1 binding in HeLa cell, 0 minute - rep3 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC525. Replicate 3 of 5.


title: SUZ12 in HeLa cell - rep1 of 3

description: Genome-wide location analysis of SUZ12 binding in HeLa cells using RenLab ENCODE PCR tiling array. Array ID is ENC841. Replicate 1 of 3.


title: dimethylated K4 histone H3 in HeLa cell, 30 minutes - rep2 of 3

description: Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC773. Replicate 2 of 3.


title: STAT1 binding in HeLa cell, 0 minute - rep2 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC524. Replicate 2 of 5.


title: STAT1 binding in HeLa cell, 0 minute - rep1 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC489. Replicate 1 of 5.


title: acetylated histone H4 in HeLa cell, 30 minutes - rep1 of 3

description: Genome-wide location analysis of acetylated histone H4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC759. Replicate 1 of 3.

source_name: Chromatin immunoprecipitated DNA using acetylated histone H4 antibody


title: acetylated histone H4 in HeLa cell, 0 minute - rep3 of 3

description: Genome-wide location analysis of acetylated histone H4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC858. Replicate 3 of 3.

tag: Chromatin immunoprecipitated DNA using acetylated histone H4 antibody


title: acetylated histone H4 in HeLa cell, 0 minute - rep1 of 3

description: Genome-wide location analysis of acetylated histone H4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC760. Replicate 1 of 3.


title: acetylated histone H4 in HeLa cell, 30 minutes - rep2 of 3

description: Genome-wide location analysis of acetylated histone H4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC811. Replicate 2 of 3.


title: STAT1 binding in HeLa cell, 30 minutes - rep5 of 5

description: Genome-wide location analysis of STAT1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC791. Replicate 5 of 5.


title: acetylated histone H3 in HeLa cell, 30 minutes - rep5 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC746. Replicate 5 of 5.

source_name: Chromatin immunoprecipitated DNA using acetylated histone H3 antibody


title: acetylated histone H3 in HeLa cell, 30 minutes - rep4 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC620. Replicate 4 of 5.

tag: Chromatin immunoprecipitated DNA using acetylated histone H3 antibody


title: acetylated histone H4 in HeLa cell, 0 minute - rep2 of 3

description: Genome-wide location analysis of acetylated histone H4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC766. Replicate 2 of 3.


title: acetylated histone H3 in HeLa cell, 30 minutes - rep3 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC603. Replicate 3 of 5.


title: acetylated histone H3 in HeLa cell, 30 minutes - rep1 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC386. Replicate 1 of 5.


title: acetylated histone H3 in HeLa cell, 30 minutes - rep2 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC602. Replicate 2 of 5.


title: Ppara KO 8 hours CL 30 nmol

city: Detroit

last: Granneman

state: MI

institute: Wayne State University

description: Ppara KO CL 316243 8 hours, 30 nmol

source_name: Mouse epididymal white adipose tissue


title: Ppara KO 6 days CL 3 nmol/hr

description: Ppara KO CL 316243 6 days 3 nmol/hr


title: Ppara KO 3 days CL 3 nmol/hr

description: Ppara KO CL 316243 3 days 3 nmol/hr

source_name: mouse epididymal white adipose tissue


title: Wild type 6 days CL 316243 (3nmol/hr)

description: Wild type CL 3 nmol/hr 6 days


title: acetylated histone H3 in HeLa cell, 0 minute - rep4 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC601. Replicate 4 of 5.


title: acetylated histone H3 in HeLa cell, 0 minute - rep3 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC600. Replicate 3 of 5.


title: acetylated histone H3 in HeLa cell, 0 minute - rep5 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC743. Replicate 5 of 5.


title: Wild type 3 days CL 316243 (3nmol/hr)

description: Wild type CL 3 nmol/hr 3 days


title: acetylated histone H3 in HeLa cell, 0 minute - rep2 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC589. Replicate 2 of 5.


title: Wild type 8 hours CL 316243 (30 nmol)

description: Wild type CL 30 nmol 8 hours


title: TAF1 in HeLa cell, 30 minutes - rep2 of 3

description: Genome-wide location analysis of TAF1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC404. Replicate 2 of 3.

source_name: Chromatin immunoprecipitated DNA using TAF1 antibody


title: Human Neutrolphil (PMN) Total RNA Bioligical Sample 10

status: Public on Jun 11 2005

city: New Haven

first: Joel

last: Rozowsky

state: CT

address: 266 Whitney Ave, Bass 437

department: Molecular Biophysics & Biochemistry

institute: Yale University

description:
Human Neutrophils were isolated from venous blood (freshly drawn at 8 to 9 AM) of healthy volunteers, using dextran sedimentation and centrifugation through Ficoll-Paque Plus (Pharmacia, Uppsala, Sweden), as described previously [Subrahmanyam, Y. V., Yamaga, S., Prashar, Y., Lee, H. H., Hoe, N. P., Kluger, Y., Gerstein, M., Goguen, J. D., Newburger, P. E., Weissman, S. M. (2001) RNA expression patterns change dramatically in human neutrophils exposed to bacteria Blood 97,2457-2468[Abstract/Free Full Text]  ].
First-strand cDNA synthesis was achieved using SuperScript II reverse transcriptase (Invitrogen) in the reaction volume of 105 ul for 15 of starting RNA material or scaled accordingly using the following protocol. RNA was mixed with random hexamers (83.3 ng/ g of mRNA; Invitrogen) and the bacterial control transcripts (see below) and subjected to the following cycling conditions in PE GeneAmp9600 PCR System: 70?C- 10 min and 20min ramp to 15C after which the 5x Superscript II First Strand buffer (Life Technologies), DTT and four dNTPs were added to the following final concentrations of 1x, 10mM and 0.5mM, respectively, followed by a 30 min incubation at 15C. At this point, Superscript II RTase was added (200Units/ g of mRNA; Life Technologies) followed by a 20 min ramp to 42C and 60 min incubation at 42C. At this point the SuperScript II was inactivated by 15 min incubation at 75C.
The first strand cDNA synthesis reaction was used for the second-strand cDNA synthesis in the presence of 50U of E. coli DNA Ligase, 200U of E. coli DNA polymerase I, and 10U of E. coli RNAse H supplemented with 0.2mM dNTPs in the final volume of 750 ul at 16oC (all reagents were from Invitrogen) based on 15ug of starting RNA or scaled appropriately. Upon treatment with RNAse H (Epicentre) and RNAse A/T1 (Ambion), double-stranded cDNA was extracted using QIAquick PCR purification kit (Qiagen) and subjected to further fragmentation to 50-100 bp by DNAse I (1U/ul; Epicentre) treatment in 1X One-Phor-All buffer (Pharmacia).
Following DNAse I inactivation at 99C for 10 min, the size ditsribution of fragmented DNA was verified on a 1% agarose gel. The fragmented cDNA was then end-labeled with 70nM of bio-ddATP (Perkin Elmer) using 6-10U of terminal transferase (TdT, Roche) per 1ug of fragmented DNA in 1X TdT buffer (Roche) and 5mM CoCl2 (Roche) for 2 hours at 37C. The labeled DNA material was subsequently hybridized to the chips (previously prehybridized for 1 hour in 1X MES-triton at 45C) for 18 hours at 45C in a 3 M TMAC/1X MES-based solution.
Keywords = Transcript Mapping, Human, Affymetrix, Genome Tiling Arrays

source_name: Human Neutrophil (PMN)


title: Wild type control

description: Wild type control (no drug)


title: SM22-rtTA 8 weeks dox

city: Nashville

last: West

state: TN

address: 4200 E 9TH Ave, Box B133

department: Medicine

institute: Vanderbilt University

description: These mice have normal right ventricular pressures by heart catheter, of 30+/- 3 mm Hg

data_processing: dChip 2004 with PM/MM odel

label: biotinylation

source_name: whole lung

tag: mixed pool of whole lung RNA from 4 male and female SM22-rtTA mice on fvb/n background 8 weeks old, doxycycline from birth


title: 4 week hypoxic fvb/n mice, 8 weeks old

description: These mice have elevated right ventricular pressures by heart catheter, of 50+/- 8 mm Hg

tag: mixed pool of whole lung RNA from 4 male and female wild-type mice on fvb/n background 8 weeks old, 17,000 foot hypobaric hypoxia for 4 weeks


title: acetylated histone H3 in HeLa cell, 0 minute - rep1 of 5

description: Genome-wide location analysis of acetylated histone H3 binding using RenLab ENCODE PCR tiling array. Array ID is ENC385. Replicate 1 of 5.


title: C57bl6 CL 316234 3 day

description: EWAT RNA pooled from 3-4 month-old male C57 BL6 mice treated for 3 days with 3nmol/hr CL 316243.


title: Mouse white adipose tissue CL 6days

description: EWAT RNA pooled from 3-4 month-old male C57 BL6 mice treated for 6 days with 3nmol/hr CL 316243.


title: wild-type fvb/n 8 weeks old

tag: mixed pool of whole lung RNA from 4 male and female mice on fvb/n background 8 weeks old - wild-type control


title: TAF1 in HeLa cell, 0 minute - rep2 of 3

description: Genome-wide location analysis of TAF1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC403. Replicate 2 of 3.


title: TAF1 in HeLa cell, 30 minutes - rep3 of 3

description: Genome-wide location analysis of TAF1 binding using RenLab ENCODE PCR tiling array. Array ID is ENC486. Replicate 3 of 3.