title: 3A_33CvPRIM_R1

description:
Hver1.2.1
Cy3 HMF3 p8-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 8 the cells were lysed. Cells were fed the day before lysis.
Cy5 HMF3A 33C (2)-HMF3A cells were cultured at 33C.  Cells were at passage 50 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.

Lot batch = 52-29


title: 3A_33CvQUIES_R3

status: Public on Mar 01 2004

type: RNA

city: Bruce

first: Kristine

last: Hardy

state: ACT

address: University of Canberra

country: Australia

institute: University of Canberra

description:
Hver1.2.1
Cy3 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A starved (1)-HMF3A cells were cultured at 33C.  Cells at passage 39 were trypsinised and replated, the next day the cells were washed twice with PBS and incubated in DMEM with 0.25% FCS for 1 week upon which time they were confluent.  The cells were washed twice during the week and re-fed with 0.25% FCS DMEM.

Lot batch = 53-4

molecule: total RNA

organism: Homo sapiens

source_name: HMF3A starved (1)


title: 3A_33Cv39C7d_R9

description:
Hver1.2.1
Cy3 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A 39C (3)-HMF3A cells were cultured at 33C. Cells at passage 39 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.

Lot batch = 53-2


title: 3A_33CvBT33C7d_R2

description:
Hver1.2.1
Cy3 HMF3A ->33C 7d (1)-HMF3A cells were cultured at 33C. Cells at passage 41 were trypsinised and then plated at 60% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were shifted down to 33C. After 7 days at 33C the cells were lysed.  Media was changed a day before lysis and twice a week.
Cy5 HMF3A 33C (4)-HMF3A cells were cultured at 33C.  Cells were at passage 42 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.

Lot batch = 52-40


title: 3A_33CvPRIM_R3

description:
Hver1.2.1
Cy3 HMF3 p8-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 8 the cells were lysed. Cells were fed the day before lysis.
Cy5 HMF3A 33C (2)-HMF3A cells were cultured at 33C.  Cells were at passage 50 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.

Lot batch = 53-14

source_name: HMF3 p8


title: 3A_33CvPRIM_R4

description:
Hver1.2.1
Cy3 HMF3A 33C (2)-HMF3A cells were cultured at 33C.  Cells were at passage 50 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3 p8-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 8 the cells were lysed. Cells were fed the day before lysis.

Lot batch = 53-18


title: 3A_33CvQUIES_R2

description:
Hver1.2.1
Cy3 HMF3A starved (1)-HMF3A cells were cultured at 33C.  Cells at passage 39 were trypsinised and replated, the next day the cells were washed twice with PBS and incubated in DMEM with 0.25% FCS for 1 week upon which time they were confluent.  The cells were washed twice during the week and re-fed with 0.25% FCS DMEM.
Cy5 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.

Lot batch = 52-25


title: 3A_33CvPRIM_R2

description:
Hver1.2.1
Cy3 HMF3A 33C (2)-HMF3A cells were cultured at 33C.  Cells were at passage 50 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3 p8-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 8 the cells were lysed. Cells were fed the day before lysis.

Lot batch = 52-33


title: 3A_39CvQUIES_R1

description:
Hver1.2.1
Cy3 HMF3A 39C (3)-HMF3A cells were cultured at 33C. Cells at passage 39 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Cy5 HMF3A starved (1)-HMF3A cells were cultured at 33C.  Cells at passage 39 were trypsinised and replated, the next day the cells were washed twice with PBS and incubated in DMEM with 0.25% FCS for 1 week upon which time they were confluent.  The cells were washed twice during the week and re-fed with 0.25% FCS DMEM.

Lot batch = 52-27


title: Primary large cell carcinoma 4319

city: Koto-ku

first: Yuichi

last: Ishikawa

state: Tokyo

address: 3-8-31 Ariake

country: Japan

institute: Cancer Insitute

description: large cell lung carcinoma 4222

source_name: Primary large cell carcinoma 4319

source_name: lung reference


title: 3A_33CvQUIES_R4

description:
Hver1.2.1
Cy3 HMF3A starved (1)-HMF3A cells were cultured at 33C.  Cells at passage 39 were trypsinised and replated, the next day the cells were washed twice with PBS and incubated in DMEM with 0.25% FCS for 1 week upon which time they were confluent.  The cells were washed twice during the week and re-fed with 0.25% FCS DMEM.
Cy5 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.

Lot batch = 53-5


title: 3A_33CvQUIES_R1

description:
Hver1.2.1
Cy3 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A starved (1)-HMF3A cells were cultured at 33C.  Cells at passage 39 were trypsinised and replated, the next day the cells were washed twice with PBS and incubated in DMEM with 0.25% FCS for 1 week upon which time they were confluent.  The cells were washed twice during the week and re-fed with 0.25% FCS DMEM.
Lot batch = 52-26


title: Primary large cell carcinoma 4222

description: large cell lung carcinoma 4222

source_name: Primary large cell carcinoma 4222


title: 3A_33Cv39C7d_R7

description:
Hver1.2.1
Cy3 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A 39C (3)-HMF3A cells were cultured at 33C. Cells at passage 39 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.

Lot batch = 52-24


title: 3A_33Cv39C7d_R8

description:
Hver1.2.1
Cy3 HMF3A 39C (3)-HMF3A cells were cultured at 33C. Cells at passage 39 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Cy5 HMF3A 33C (3)-HMF3A cells were cultured at 33C.  Cells were at passage 40 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Lot batch = 52-23


title: 3A_33Cv39C7d_R6

description:
Hver 1.1.1 and 1.1.2
Cy3 HMF3A 39C (2)-
HMF3A cells were cultured at 33C. Cells at passage 49 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Cy5 HMF3A 33C (2)-HMF3A cells were cultured at 33C.  Cells were at passage 50 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Lot batch = 12-8


title: 3A_33Cv39C7d_R5

description:
Hver 1.1.1 and 1.1.2
Cy3 HMF3A 33C (2)-HMF3A cells were cultured at 33C.  Cells were at passage 50 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A 39C (2)-HMF3A cells were cultured at 33C. Cells at passage 49 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 12-7


title: Primary large cell carcinoma 2081

description: large cell lung carcinoma 2081

source_name: Primary large cell carcinoma 2081


title: 3A_33Cv39C7d_R4

description:
Hver 1.1.1 and 1.1.2
Cy5-HMF3A 33C (1)-HMF3A cells were cultured at 33C.  Cells were at passage 34 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy3 HMF3A 39C (1)-HMF3A cells were cultured at 33C. Cells at passage 33 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 9-13, 8-24


title: PRIM_FIB1_SEN_R2

description:
Hver 1.1.1 and 1.1.2
Cy3 HMF3 p18-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 18 the cells were no longer increasing in number and were lysed. Cells were fed the day before lysis.
Cy5 HMF3 p8-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 8 the cells were lysed. Cells were fed the day before lysis.

Lot batch = 12-4

source_name: HMF3 p18


title: Primary large cell carcinoma 1934

description: large cell lung carcinoma 1934

source_name: Primary large cell carcinoma 1934


title: Primary large cell carcinoma 3259

description: large cell lung carcinoma 3259

source_name: Primary large cell carcinoma 3259


title: Primary large cell carcinoma 2985

description: large cell lung carcinoma 2985

source_name: Primary large cell carcinoma 2985


title: Primary small cell lung carcinoma 4567

description: small cell lung carcinoma 4567

source_name: Primary small cell lung carcinoma 4567


title: 3A_33Cv39C7d_R3

description:
Hver 1.1.1 and 1.1.2
Cy3 HMF3A 33C (1)-HMF3A cells were cultured at 33C.  Cells were at passage 34 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A 39C (1)-HMF3A cells were cultured at 33C. Cells at passage 33 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 9-12, 8-23


title: 3A_33Cv39C7d_R2

description:
Hver 1.1.1 and 1.1.2
Cy5 HMF3A 33C (1)-HMF3A cells were cultured at 33C.  Cells were at passage 34 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy3 HMF3A 39C (1)-HMF3A cells were cultured at 33C. Cells at passage 33 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 9-30, 8-11


title: 3A_33Cv39C7d_R1

description:
Hver 1.1.1 and 1.1.2
Cy3 HMF3A 33C (1)-HMF3A cells were cultured at 33C.  Cells were at passage 34 (since isolation from tissue) when lysed. Media was changed a day before lysis. Cells were lysed at around 80% confluence.
Cy5 HMF3A 39C (1)-HMF3A cells were cultured at 33C. Cells at passage 33 (since isolation from tissue) were trypsinised and then plated at 50% confluence. The next day they were shifted up to 39C. After 7 days at 39C the cells were lysed.  Media was changed a day before lysis.
Lot batch = 9-29, 8-10


title: Primary small cell lung carcinoma 4271

description: small cell lung carcinoma 4271

source_name: Primary small cell lung carcinoma 4271


title: Primary small cell lung carcinoma 3105

description: Primary small cell lung carcinoma 3105

source_name: Primary small cell lung carcinoma 3105


title: PRIM_FIB1_SEN_R1

description:
Hver 1.1.1 and 1.1.2
Cy3 HMF3 p8-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 8 the cells were lysed. Cells were fed the day before lysis.
Cy5 HMF3 p18-Primary fibroblasts from human mammary stroma were isolated as described (O'Hare M.J et al. 2001, PNAS, 98:641). When the cells were first plated after isolation, they were said to be at passage 0.  The cells were fed twice weekly and re-plated at 25% confluence when they reached around 80% confluence, this usually occurred after 7 days.  At passage 18 the cells were no longer increasing in number and were lysed. Cells were fed the day before lysis.
Lot batch = 12-3


title: Primary large cell carcinoma 3387

description: large cell lung carcinoma 3387

source_name: Primary large cell carcinoma 3387


title: Primary small cell lung carcinoma 3424

description: Primary small cell lung carcinoma 3424

source_name: Primary small cell lung carcinoma 3424


title: Primary small cell lung carcinoma 2229

description: Primary small cell lung carcinoma 2229

source_name: Primary small cell lung carcinoma 2229


title: Primary small cell lung carcinoma 3170

description: Primary small cell lung carcinoma 3170

source_name: Primary small cell lung carcinoma 3170


title: Primary small cell lung carcinoma 2243

description: Primary small cell lung carcinoma 2243

source_name: Primary small cell lung carcinoma 2243


title: Primary small cell lung carcinoma 5395

description: small cell lung carcinoma 5395

source_name: Primary small cell lung carcinoma 5395


title: Primary small cell lung carcinoma 2760

description: Primary small cell lung carcinoma 2760

source_name: Primary small cell lung carcinoma 2760


title: Primary small cell lung carcinoma 544

description: Primary small cell lung carcinoma 544

source_name: Primary small cell lung carcinoma 544

source_name: lung reference


title: Primary small cell lung carcinoma 2942

description: Primary small cell lung carcinoma 2942

source_name: Primary small cell lung carcinoma 2942


title: Primary small cell lung carcinoma 1926

description: Primary small cell lung carcinoma 1926

source_name: Primary small cell lung carcinoma 1926


title: Primary small cell lung carcinoma 2425

description: Primary small cell lung carcinoma 2425

source_name: Primary small cell lung carcinoma 2425


title: Primary large cell neuroendocrine carcinoma 6564


title: Primary small cell lung carcinoma 2212

description: Primary small cell lung carcinoma 2212

source_name: Primary small cell lung carcinoma 2212


title: Primary small cell lung carcinoma 8526

description: small cell lung carcinoma 8526

source_name: Primary small cell lung carcinoma 8526


title: Primary large cell neuroendocrine carcinoma 1408


title: Primary large cell neuroendocrine carcinoma 6065


title: Primary large cell neuroendocrine carcinoma 5883


title: Primary large cell neuroendocrine carcinoma 5020


title: Primary large cell neuroendocrine carcinoma 571


title: Primary large cell neuroendocrine carcinoma 6042


title: Primary large cell neuroendocrine carcinoma 2144


title: Liver 3 (12 weeks of age)

city: Seoul

first: MyeongHo

last: Jung

address: 5 Nokbun-dong, Eunpyung-gu

department: Biomedical Sciences

country: South Korea

institute: National Institute of Health

description:
Gene expression profiles in liver of Zucker diabetic fatty (ZDF) rats at 12 weeks of age (diabetic) compared with age matched Zucker lean control (ZLC) rats.
Keywords = ZDF

organism: Rattus norvegicus

source_name: Liver (12 weeks of age) of ZDF (Cy5)

source_name: Liver (12 weeks of age) of ZLC (Cy3)


title: Liver 4 (12 weeks of age)


title: Primary typical carcinoid 8512

description: Primary typical carcinoid 8512

source_name: primary typical carcinoid 8512


title: Primary typical carcinoid 6618

description: Primary typical carcinoid 6618

source_name: primary typical carcinoid 6618


title: Muscle 4 (12 weeks of age)

description:
Gene expression profiles in muscle of Zucker diabetic fatty (ZDF) rats at 12 weeks of age (diabetic) compared with age matched Zucker lean control (ZLC) rats.
Keywords = ZDF

source_name: Muscle (12 weeks of age) of ZDF (Cy5)

source_name: Muscle (12 weeks of age) of ZLC (Cy3)


title: Primary typical carcinoid 7787

description: Primary typical carcinoid 7787

source_name: primary typical carcinoid 7787


title: Primary typical carcinoid 4837

description: Primary typical carcinoid 4837

source_name: primary typical carcinoid 4837


title: Liver 1 (12 weeks of age)


title: Liver 2 (12 weeks of age)


title: Primary typical carcinoid 4838

description: Primary typical carcinoid 4838

source_name: primary typical carcinoid 4838


title: Primary typical carcinoid 4423

description: Primary typical carcinoid 4423

source_name: primary typical carcinoid 4423


title: Adipose tissue 3 (12 weeks of age)

description:
Gene expression profiles in adipose tissue of Zucker diabetic fatty (ZDF) rats at 12 weeks of age (diabetic) compared with age matched Zucker lean control (ZLC) rats.
Keywords = ZDF

source_name: Adipose tissue (12 weeks of age) of ZDF (Cy5)

source_name: Adipose tissue (12 weeks of age) of ZLC (Cy3)


title: Adipose tissue 2 (12 weeks of age)


title: Adipose tissue 4 (12 weeks of age)


title: Muscle 3 (12 weeks of age)


title: Primary typical carcinoid 1498

description: Primary typical carcinoid 1498

source_name: primary typical carcinoid 1498

source_name: lung reference


title: Primary typical carcinoid 2013

description: Primary typical carcinoid 2013

source_name: primary typical carcinoid 2013


title: Primary typical carcinoid 791

description: Primary typical carcinoid 791

source_name: Primary typical carcinoid 791


title: Primary typical carcinoid 134

description: Primary typical carcinoid 134

source_name: Primary typical carcinoid 134


title: Muscle 1 (12 weeks of age)


title: Muscle 2 (12 weeks of age)


title: Primary typical carcinoid 3313

description: Primary typical carcinoid 3313

source_name: primary typical carcinoid 3313


title: Adipose tissue 1 (12 weeks of age)


title: Primary typical carcinoid 1753

description: Primary typical carcinoid 1753

source_name: primary typical carcinoid 1753


title: Liver 2 (6 weeks of age)

description:
Gene expression profiles in liver of Zucker diabetic fatty (ZDF) rats at 6 weeks of age (pre-diabetic) compared with age matched Zucker lean control (ZLC) rats.
Keywords = ZDF

source_name: Liver (6 weeks of age) of ZDF (Cy5)

source_name: Liver (6 weeks of age) of ZLC (Cy3)


title: SCLC cell line SBC-3

description: SCLC cell line SBC-3

source_name: SCLC cell line SBC-3


title: Liver 3 (6 weeks of age)


title: Muscle 1 (6 weeks of age)

description:
Gene expression profiles in muscle of Zucker diabetic fatty (ZDF) rats at 6 weeks of age (pre-diabetic) compared with age matched Zucker lean control (ZLC) rats.
Keywords = ZDF

source_name: Muscle (6 weeks of age) of ZDF (Cy5)

source_name: Muscle (6 weeks of age) of ZLC (Cy3)


title: SCLC cell line MS-1

description: SCLC cell line MS-1

source_name: SCLC cell line MS-1


title: Muscle 3 (6 weeks of age)


title: SCLC cell line Lu-134a

description: SCLC cell line Lu-134a

source_name: SCLC cell line Lu-134a


title: SCLC cell line DMS79

description: SCLC cell line DMS79

source_name: SCLC cell line DMS79


title: Adipose tissue 3 (6 weeks of age)

description:
Gene expression profiles in adipose tissue of Zucker diabetic fatty (ZDF) rats at 6 weeks of age (pre-diabetic) compared with age matched Zucker lean control (ZLC) rats.
Keywords = ZDF

source_name: Adipose tissue (6 weeks of age) of ZDF (Cy5)

source_name: Adipose tissue (6 weeks of age) of ZLC (Cy3)


title: SCLC cell line SBC-5

description: SCLC cell line SBC-5

source_name: SCLC cell line SBC-5


title: Muscle 4 (6 weeks of age)


title: Corl51 SCLC cell line

description: SCLC cell line

source_name: Corl51 SCLC cel line

source_name: ung reference mix


title: Adipose tissue 4 (6 weeks of age)


title: Adipose tissue 2 (6 weeks of age)


title: SCLC cell line SBC-2

description: SCLC cell line SBC-2

source_name: SCLC cell line SBC-2

source_name: lung reference


title: SCLC cell line Lu-130

description: SCLC cell line Lu-130

source_name: SCLC cell line Lu-130


title: HS-AMLNCK3

status: Public on Feb 29 2004

type: genomic

city: Columbus

first: Nehad

last: Mohamed

state: OH

address: 420W12th Ave

department: Comperhensive Cancer Center/HCG

country: USA

institute: The Ohio State University

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5(CH2)and 2ug AML patient+13-21 gDNA labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11

molecule: genomic DNA

source_name: AML patient Non- Complex Karyotype

source_name: HS Normal Prephiral Blood gDNA


title: HS-AMLNORMAL2

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelleb according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug normal PBL gDNA  labelled CY5(CH2)and 2ug normal PBL gDNA labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AMLNCK2


title: HS-AMLNCK1

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3(CH2)and 2ug AML patient +13-21 gDNA labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AMLNORMAL3

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug normal PBL gDNA  labelled CY5(CH2)and 2ug normal PBL gDNA labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AMLNORMAL1


title: Adipose tissue 1 (6 weeks of age)


title: HS-AML9

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5 (CH2)and 2ug AML patient9 gDNA labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11

source_name: AML patient Complex Karyotype


title: HS-AML12

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3(CH2)and 2ug AML patient12 gDNA from bone marrow aspirate labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML12a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5(CH2)and 2ug AML patient12 gDNA from bone marrow aspirate labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML10

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient10 gDNA from bone marrow aspirate labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: Liver 4 (6 weeks of age)

source_name: Liver (6 weeks of age) of ZDF (Cy5)

source_name: Liver (6 weeks of age) of ZLC (Cy3)


title: Muscle 2 (6 weeks of age)

source_name: Muscle (6 weeks of age) of ZDF (Cy5)

source_name: Muscle (6 weeks of age) of ZLC (Cy3)


title: HS-AML8a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5 (CH2)and 2ug AML patient8 gDNA from bone marrow aspirate labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML7

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient7 gDNA labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: SCLC cell line DMS53

description: SCLC cell line DMS53

source_name: SCLC cell line DMS53


title: HS-AML7a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5 (CH2)and 2ug AML patient7 gDNA labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML8

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient8 gDNA from bone marrow aspirate labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML10a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5 (CH2)and 2ug AML patient10 gDNA from bone marrow aspirate labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: SCLC cell line COR-L88

description: SCLC cell line COR-L88

source_name: SCLC cell line COR-L88


title: Liver 1 (6 weeks of age)


title: HS-AML2a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5 (CH2)and 2ug AML patient2 gDNA from bone marrow aspirate labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML3a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY5 (CH2)and 2ug AML patient3 gDNA from bone marrow aspirate labelled Cy3 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML2

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient2 gDNA from bone marrow aspirate labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML3

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient3 gDNA from bone marrow aspirate labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: nc1

city: Helsinki

first: Massimiliano

last: Gentile

address: Haartmaninkatu 8

department: Biomedicum Bioinformatics Unit

country: Finland

institute: Biomedicum Helsinki

description: Total RNA was extracted from umbilical subcutaneous adipose tissue from an individual affected with FCHL and exhibiting the USF1 protective haplotype

source_name: adipose tissue


title: nc2


title: nc4


title: hc2

description: Total RNA was extracted from umbilical subcutaneous adipose tissue from an individual affected with FCHL and exhibiting the USF1 susceptibility haplotype


title: nc3


title: hc6


title: Colo 668 SCLC cell line

description: SCLC cell line

source_name: Colo 668 SCLC cell line

source_name: Lng reference mix


title: Primary Embryonic Fibroblasts

type: SAGE

anchor: NlaIII

city: Baltimore

first: Kenneth

middle: R.

last: Boheler

state: MD

address: 5600 Nathan Shock Drive

department: GRC

institute: National Institute on Aging, NIH

description:
Primary mouse embryonic fibroblasts (derived from ~16.5 dpc fetuses, CD-1 mice) at passage 3. Five individual samples were pooled together. Total number of tags sequenced = 65,121. Linker-originated tags and Poly(A) tags have been extracted, to bring a number of "Reliable tags" to 64,882.
Keywords = Primary Embryonic Fibroblasts
Lot batch = Passage 3

organism: Mus musculus

source_name: Pimary mouse embryonic fibroblasts (derived from ~16.5 dpc fetuses, CD-1 mice)


title: hc4


title: 8 week old leg control rep 1

status: Public on Feb 27 2004

city: Cleveland

first: Henry

middle: J.

last: Kaminski

address: 11100 Euclid Avenue

department: Neurology

institute: Case Western Reserve University

description:
Extraocular Muscle is Defined by a Fundamentally Distinct Gene Expression Profile
Keywords = microarray
Keywords = muscle

source_name: 8 week mouse gastrocnemius/soleus muscle


title: 8 week old jaw control rep 5

source_name: 8 week mouse masseter muscle


title: hc5


title: 8 week old leg control rep 2


title: hc3


title: 8 week old jaw control rep 3


title: hc1


title: 8 week old leg control rep 3


title: Deferoxamine 24 hours rep#1

city: East Lansing

first: John

last: LaPres

state: MI

address: Wilson Avenue

department: Biochemistry and Molecular Biology

institute: Michigan State University

description:
Deferoxamine (100 uM) Hep3B cells 24 hours replicate # 1
Lot batch =

source_name: Hep3B cells


title: 8 week old jaw control rep 4


title: 8 week old jaw control rep 2


title: Deferoxamine 24 hours rep#2

description:
Deferoxamine (100 uM) Hep3B cells 24 hours replicate # 2
Lot batch =


title: 100 nM Endothelin-1 (ET-1)  treated

status: Public on Feb 28 2004

city: London

first: Andrew

last: Leask

country: United Kingdom

institute: Royal Free and University College Medical School

description: primary lung fibroblasts p3 from normal periphery of resected cancer. grown in DMEM 10% FBS, until confluence, then DMEM 0.5% FBS for 18 hours. Media were then changed and incubated for an additional 4 hours in 100 nM ET-1

source_name: primary lung fibroblasts


title: 8 week old leg control rep 4


title: Hypoxia 24 hours rep#2

description:
Hypoxia (1% O2) Hep3B cells 24 hours replicate # 2
Lot batch =


title: Cobalt 24 hours rep#2

description:
Cobalt Chloride (100 uM) Hep3B cells 24 hours replicate # 2
Lot batch =


title: Cobalt 24 hours rep#1

description:
Cobalt Chloride (100 uM) Hep3B cells 24 hours replicate # 1
Lot batch =


title: 8 week old leg control rep 5


title: hypoxia 24 hours rep#1

description: Hypoxia (1% O2) Hep3B cells 24 hours replicate # 1


title: Ctrl 24 hours rep#2

description:
Untreated Hep3B cells 24 hours replicate # 2
Lot batch =


title: Hypoxia 2 hours rep #2

description: Hypoxioa (1% O2) Hep3B cells 2 hours replicate # 2


title: 8 week old EOM control rep 4

source_name: 8 week mouse extraocular muscle


title: Hypoxia 2 hours rep #1

description:
Hypoxioa (1% O2) Hep3B cells 2 hours replicate # 1
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: 8 week old EOM control rep 5


title: 8 week old EOM control rep 3


title: Deferoxamine 2 hours rep2

description:
Deferoxamine (100uM) Hep3B cells 2 hours replicate # 2
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: HS-AMLCN4

status: Public on Feb 26 2004

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient gDNA  labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11

source_name: AML patient Control gDNA

source_name: HS Normal Prephiral Blood gDNA


title: Cobalt 2 hours rep#1

description:
Cobalt Chloride (100uM) Hep3B cells 2 hours replicate # 1
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: Deferoxamine 2 hour rep#1

description:
Deferoxamine (100uM) Hep3B cells 2 hours replicate # 1
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: Ctrl 2 hour rep 1

description:
Untreated Hep3B cells 2 hours replicate # 1
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: Ctrl 2 hours rep #2

description:
Untreated Hep3B cells 2 hours replicate # 2
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: 8 week old EOM control rep 2

description:
Extraocular Muscle is Defined by a Fundamentally Distinct Gene Expression Profile
Keywords = microarray
Keywords = muscle


title: HS-AMLCN3

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled  according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient gDNA  labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AMLnormal1

first: Herbert

last: Auer

address: 420 West 12th Ave

institute: Human Cancer Genetics

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)"
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to a published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug Control normal Karyotype AML gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11

source_name: AML Control patient

source_name: HS Normal Prephiral Blood DNA


title: Cobalt 2 hours rep#2

description:
Cobalt Chloride (100uM) Hep3B cells 2 hours replicate # 2
Keywords = cobalt
Keywords = deferoxamine
Keywords = hep3b
Keywords = hypoxia


title: HS-AML4a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled  according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available "http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug AML patient4 from bone marrow aspirate gDNA labelled CY3 (CH2)and 2ug Control gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11

source_name: AML patient Complex Karyotype


title: HS-AMLnormal2

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available  http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug Control AML normal karyotype gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11

source_name: AML patient Control


title: HS-AMLCN1

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )"
gDNA from AML patients and healthy controls was extracted and labelled according to a published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html  "
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient gDNA  labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software"
Keywords = RPCI11


title: HS-AML11a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also availablhttp://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug AML patient11 gDNA from bone marrow aspirate labelled CY3 (CH2)and 2ug Control gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML11

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the standard protocol published  by JR Pollack in Nature Genetics vol.23 Sep.99, also availabl http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug AML patient11 gDNA from bone marrow aspirate labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software"
Keywords = RPCI11


title: HS-AML4

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the standard protocol published by JR Pollack in Nature Genetics vol.23 Sep.99, also available  http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug AML patient4 gDNA from bone marrow aspirate labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software"
Keywords = RPCI11


title: Untreated

description: primary lung fibroblasts p3 from normal periphery of resected cancer. grown in DMEM 10% FBS, until confluence, then DMEM 0.5% FBS for 18 hours. Media were then changed and incubated for an additional 4 hours


title: Normal PBL

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA was extracted and labelled from normal PBL according to the standard protocol published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available "http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Normal Peripheral blood gDNA labelled CY3 (CH2)/(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML5a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled  according to the standard protocol published  by JR Pollack in Nature Genetics vol.23 Sep.99, also available "http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug AML patient5 gDNA from bone marrow aspirate labelled CY3 (CH2)and 2ug Control gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software"
Keywords = RPCI11


title: HS-AML6

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the standard protocol published by JR Pollack in Nature Genetics vol.23 Sep.99, also available  http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug AML patient6 from bone marrow aspirate gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AMLnormal3

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled  according to a published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available "http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug Control AML normal karyotype gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: 8 week old EOM control rep 1

source_name: 8 week old extraocular muscle


title: Ctrl 24 hours rep#1

description:
Untreated Hep3B cells 24 hours replicate # 1
Lot batch =


title: HS-AML6a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the standard protocol published  by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug AMLpatient6 gDNA from bone marrow aspirate labelled CY3 (CH2)and 2ug Control gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: SVEC in vitro LPS response. 24 h.

city: Dallas

middle: G

last: Maresh

state: TX

address: 5323 Harry Hines

department: Internal Medicine

institute: U.T. Southwestern Medical Center

description: In vitro cultured SVEC cell response to LPS at 50 ng/ml.  24 h. Amplified RNA.  Control Cy3 labeled. LPS-treated Cy5 labeled.

source_name: Control RNA

source_name: LPS-treatment RNA


title: In vitro SVEC cultured cell response to LPS. 24 h. Dye reversal

description: In vitro cultured SVEC cell response to LPS at 50 ng/ml.  24 h. Amplified RNA.  Control Cy5 labeled. LPS-treated Cy3 labeled.Dye reversal.

source_name: Control cell RNA

source_name: LPS-treated cell RNA


title: HS-AML5

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the standard protocol published by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug Control gDNA labelled CY3 (CH2)and 2ug AML patient5 bone marrow aspirate gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML1a

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia CA)
Genomic DNA from AML patients as well as healthy controls was extracted and labelled according to the standard protocol published  by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug AML patient1 gDNA from bone marrow aspirate labelled CY3 (CH2)and 2ug Control PBL gDNA labelled Cy5(CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AMLCN2

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )"
gDNA from AML patients and healthy controls was extracted and labelled according to the published protocol by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html  "
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient gDNA  labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: HS-AML1

description:
DNA Isolation from BAC clones was performed from bacterial culture (250ml)  LB medium using Qiagen midi kit (Qiagen, Valencia )
gDNA from AML patients and healthy controls was extracted and labelled by standard protocol published  by JR Pollack in Nature Genetics vol.23 Sep.99, also available http://cmgm.stanford.edu/pbrown/protocols/4_genomic.html
2ug control gDNA PBL labelled CY3 (CH2)and 2ug AML patient1 gDNA from bone marrow aspirate labelled Cy5 (CH1)
Slides scanned by GMS428 Affymetrix scanner , analysis done by using GenePix software
Keywords = RPCI11


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB7

city: Malmö

first: Harry

last: Björkbacka

address: CRC 91:12, UMAS entrance 72

department: Dept. of Clinical Sciences, Malmö

country: Sweden

institute: Lund University

description:
MyD88-/-, apoE-/- and apoE-/- mice were fed a high fat diet for 8 weeks.
Mouse aortas were collected by perfusing the aorta with RNA Later (Ambion) and connective tissue was cleaned off under chilled RNA Later.
The aortic arch was transferred to TRIzol reagent (Invtrogen) and homogenized with a Tissue-tearor (BioSpec Products Inc.).
High quality total RNA was purified using a combination of the TRIzol protocol and RNeasy columns (Qiagen) according to the manufacturer's instructions.
The total RNA was amplified by T7 polymerase using the MessageAmp aRNA kit (Ambion) and chemically labeled with the Micromax ASAP RNA labeling kit (Perkin-Elmer).
Labeled aRNA samples were hybridized over night in a Genomic Solutions hybridization station (Perkin-Elmer).
The hybridization buffer was 3xSSC, 50 mM Hepes buffer, 0.1% SDS, pH 7.0, 30 ng/mL salmon sperm DNA, 30 ng/mL poly-A DNA, 30 ng/mL mouse Cot-1 DNA.
The microarray slides were scanned with a GenePix 4000B microarray scanner and images quantified with the GenePix Pro 3.0 software (Axon Instruments).
All data analysis and statistical analysis was performed with the GeneSpring software (Silicon Genetics).
Keywords = Mus musculus, aorta, atherosclerosis

source_name: ApoE-/- mouse aorta (arch) from mouse 4 (male)

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 1 (male)


title: SVEC endothelial exposure in vitro. 4 h. LPS at 50 ng/ml.

description: SVEC cells in culture.  Exposure to LPS in vitro (lipopolysaccharide) 4 h.  RNA amplified.  Control Cy3. LPS-treated Cy5. Hybridization to Operon.  V1 long oligo.

source_name: Control

source_name: LPS-treated


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB4

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 3 (male)

source_name: ApoE-/- mouse aorta (arch) from mouse 11 (male)


title: Cardiac endothelial in vivo response to LPS, 24 h.

description: Cardiac endothelial RNA from mice exposed to LPS 24 h by intraperitoneal injection vs. saline-injected controls.  Control RNA labeled with Cy3 and LPS RNA with CY5. Hybridization to Operon V1 long oligos.

source_name: Control RNA from saline-injected animals

source_name: RNA from LPS-injected animals


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB9


title: Amplified cardiac endothelial RNA

description: Mice were exposed to intraperitoneal lipopolysaccharide vs.saline, 4 hours, hearts removed, enzymatically digested, Tie2 GFP cells sorted, RNA amplified

source_name: Cy 3 labeled control RNA

source_name: Cy 5 labeled LPS treatment RNA


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB8

source_name: ApoE-/- mouse aorta (arch) from mouse 10 (male)

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 2 (male)


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB3

description:
Mouse aortas were collected by perfusing the aorta with RNA Later (Ambion) and connective tissue was cleaned off under chilled RNA Later.
The aortic arch was transferred to TRIzol reagent (Invtrogen) and homogenized with a Tissue-tearor (BioSpec Products Inc.).
High quality total RNA was purified using a combination of the TRIzol protocol and RNeasy columns (Qiagen) according to the manufacturer's instructions.
The total RNA was amplified by T7 polymerase using the MessageAmp aRNA kit (Ambion) and chemically labeled with the Micromax ASAP RNA labeling kit (Perkin-Elmer).
Labeled aRNA samples were hybridized over night in a Genomic Solutions hybridization station (Perkin-Elmer).
The hybridization buffer was 3xSSC, 50 mM Hepes buffer, 0.1% SDS, pH 7.0, 30 ng/mL salmon sperm DNA, 30 ng/mL poly-A DNA, 30 ng/mL mouse Cot-1 DNA.
The microarray slides were scanned with a GenePix 4000B microarray scanner and images quantified with the GenePix Pro 3.0 software (Axon Instruments).
All data analysis and statistical analysis was performed with the GeneSpring software (Silicon Genetics).
Keywords = Mus musculus, aorta, atherosclerosis


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB5

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 9 (male)

source_name: ApoE-/- mouse aorta (arch) from mouse 6 (female)


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB6

source_name: ApoE-/- mouse aorta (arch) from mouse 7 (female)

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 8 (female)


title: Cardiac endothelial in vivo LPS effects, 4 h

description: Cardiac endothelium was isolated from hearts collected 4 h after intraperitoneal LPS injection vs. saline-injected controls.  Amplified RNA subjected to Cy3 and Cy5 labeling. Control Cy3, LPS Cy5 Operon long oligo array. Mouse V1, set 1 and 2

source_name: Control RNA from cardiac endothelium of saline-injected mice, 4 h

source_name: Cardiac endothelium of LPS-injeced mice, 4 h


title: SVEC endothelial in vitro 4h LPS response. Dye reversal.

description: SVEC cells in culture.  Exposure to LPS in vitro (lipopolysaccharide) 4 h.  RNA amplified.  Control Cy5. LPS-treated Cy3. Hybridization to Operon.  V1 long oligo.

source_name: Control treatment RNA

source_name: LPS-treatment RNA


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB2

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 1 (male)

source_name: ApoE-/- mouse aorta (arch) from mouse 4 (male)


title: Ler2

status: Public on Feb 22 2004

city: Stanford

first: Dominique

last: Bergmann

state: CA

address: 260 Panama St

department: Plant Biology

institute: Carnegie Institution

description: control 7dpg seedlings Ler ecotype

organism: Arabidopsis thaliana

source_name: 7dpg seedlings


title: C241

description: control 7dpg seedlings of line CS9159 C24 ecotype

source_name: 7 dpg seedlings C24


title: C243


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB1

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 7 (female)

source_name: ApoE-/- mouse aorta (arch) from mouse 8 (female)


title: Ler3

description: control 7dpg seedlings Ler ecotype


title: Ler1

description: control 7dpg seedlings Ler ecotype

source_name: 7 dpg seedlings


title: Amplified RNA from cardiac endothelium

source_name: Cy3 labeled RNA from LPS-treated mice

source_name: Cy5 labeled RNA from control mice


title: Cardiac endothelial in vivo LPS effects. 4h. Dye-reversal

description: Cardiac endothelium was isolated from hearts collected 4 h after intraperitoneal LPS injection vs. saline-injected controls.  Amplified RNA subjected to Cy3 (LPS-treated) and Cy5 (control saline) labeling.  Operon long oligo array. Mouse V1, set 1 and 2. Dye reversal.

source_name: Control sample

source_name: LPS-injected sample


title: Cardiac endothelial in vivo response to LPS vs saline, 24 h (dye reversal)

description: Cardiac endothelial RNA from mice exposed to LPS by intraperitoneal injection vs. saline-injected controls.  24 h. Control RNA labeled with Cy5 and LPS-injected  RNA with CY3.Dye reversal.  Hybridization to Operon V1 long oligo.

source_name: Control RNA from saline-injected animals

source_name: RNA from LPS-injected animals


title: NdelYDA4

description: replicate 4/4 of 7dpg seedlings expressing nterm deletion of YDA. No Stomata.  Ler ecotype


title: C242


title: NdelYDA3

description: 3/4 biological replicates of 7dpg N-term deletion (NB89) YDA seedlings.


title: ApoE-/- over ApoE-/-, MyD88-/- mouse aorta HYB10

source_name: ApoE-/- mouse aorta (arch) from mouse 6 (female)

source_name: ApoE-/-,MyD88-/- mouse aorta (arch) from mouse 9 (male)


title: Ndel-YDA2

description: 2/4 biological replicates of 7dpg N-term deletion (NB89) YDA seedlings.


title: yda1

description: 1/4 biological replicates of 7dpg yda seedlings.

source_name: 7dpg yda seedlings.


title: yda2

description: 2/4 biological replicates of 7dpg yda seedlings.


title: yda3

description: 3/4 biological replicates of 7dpg yda seedlings.

source_name: 7 dpg yda seedlings


title: Human myometrial cells stably-transfected with the ATF2-small gene, replicate 2

status: Public on Feb 21 2004

city: Newcastle upon Tyne

first: Jarrod

last: Bailey

state: Tyne and Wear

address: Leech Building, Medical School

department: School of Surgical and Reproductive Sciences

institute: University of Newcastle upon Tyne

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS, and stably-transfected with the pcDNA3.1/V5-His TOPO vector (Invitrogen) harbouring the ATF2-small gene. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.

source_name: human myometrium


title: Human myometrial cells stably-transfected with the ATF2-small gene, replicate 3


title: yda4

description: 4/4 biological replicates of 7dpg yda seedlings.

source_name: 7dpg yda seedlings


title: P0_1

city: Zurich

first: Ned

last: Mantei

department: Institute for Cell Biology

country: Switzerland

institute: Swiss Federal Institute of Technology

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At P0 (day of birth) the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 1

source_name: Schwann cells at P0


title: P0_4

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At P0 (day of birth) the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 4


title: P0_3

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At P0 (day of birth) the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 3


title: Human myometrial cells stably-transfected with the ATF2-small gene


title: E18_3

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E18 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 3

source_name: Schwann cells at E18


title: Human myometrial cells stably-transfected with the ATF2 gene

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS, and stably-transfected with the pcDNA3.1/V5-His TOPO vector (Invitrogen) harbouring the ATF2 gene. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: E16_4

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E16 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 4

source_name: early Schwann cells at E16


title: E18_1

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E18 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 1


title: Human myometrial cells stably-transfected with the CREM tau2alpha gene, replicate 3

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS, and stably-transfected with the pcDNA3.1/V5-His TOPO vector (Invitrogen) harbouring the CREM tau2alpha gene. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: Human myometrial cells stably-transfected with the ATF2 gene, replicate 3


title: Human myometrial cells stably-transfected with the CREM tau2alpha gene, replicate 2


title: Human myometrial cells stably-transfected with the CREM tau2alpha gene


title: Human myometrial cells stably-transfected with the ATF2 gene, replicate 2


title: Human myometrial cells stably-transfected with the CREM aplha gene, replicate 2

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS, and stably-transfected with the pcDNA3.1/V5-His TOPO vector (Invitrogen) harbouring the CREM alpha gene. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: Human myometrial cells stably-transfected with the CREM aplha gene, replicate 3


title: E14_3

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E14 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 3

source_name: Schwann cells at E14


title: E16_2

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E16 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 1


title: E16_3

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E16 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 3


title: e16_1


title: E14_2

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E14 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 2


title: Human myometrial cells stably-transfected with the CREM aplha gene


title: E18_2

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E18 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 2


title: Control empty-vector stably-transfected human myometrial cells (replicate)

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS. The cells were stably-transfected with the empty vector pcDNA3.1/V5-His TOPO (Invitrogen) using G418 for selection, as a control against cells stably-transfected with this vector harbouring our genes of interest. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: Human myometrial cells stably-transfected with the CREB gene

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS. The cells were stably-transfected with the pcDNA3.1/V5-His TOPO (Invitrogen) harbouring the CREB gene using G418 for selection. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: Control empty-vector stably-transfected human myometrial cells


title: ndelYDA1

description:
1/4 biological replicates of 7dpg N-term deletion (NB89) YDA seedlings.
no stomata Ler ecotype

source_name: 7dpg seedlings


title: Human myometrial cells stably-transfected with the CREB gene, replicate 2

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS, and stably-transfected with the pcDNA3.1/V5-His TOPO vector (Invitrogen) harbouring the CREB gene. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: E14_1

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E14 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = Schwann cells glia
Lot batch = 1


title: E12_2

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E12 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = neural crest stem cells Schwann glia
Lot batch = 2

source_name: Schwann cell precursor cells at E12


title: Control human myometrial cells

description: Human myometrial cells taken from biopsies of pre-menopausal non-cancerous non-pregnant uteri were cultured in complete MEM D-valine medium plus 10% FCS. Total RNA was extracted using TRI-reagent (Sigma) and RNeasy columns (Qiagen), and 10 ug used in target preparation for array hybridization.


title: E12_4

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E12 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = neural crest stem cells Schwann glia
Lot batch = 4


title: E9_3

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E9.5 the trunk region was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
Keywords = neural crest stem cells Schwann glia
Lot batch = 3

source_name: neural crest stem cells


title: E12_1

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E12 the sciatic nerve was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = neural crest stem cells Schwann glia
Lot batch = 1


title: E9_1

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E9.5 the trunk region was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
RNA extracted with RNeasy kits (Qiagen).
Target preparation by two rounds of in vitro transcription (Hoffmann, R., Seidl, T., Neeb, M., Rolink, A. & Melchers, F. Changes in gene expression profiles in developing B cells of murine bone marrow. Genome Res 12, 98-111 (2002)).
Labeling protocol: Standard Affymetrix biotin labeling protocol (Affymetrix, Expression Analysis: Technical manual, 2000)  in 2nd round of in vitro transcription.
See also Buchstaller_suplTab1.xls for yields of cRNA.
Hybridization procedure: Standard Affymetrix protocols (Affymetrix, Expression analysis: Technical manual, 2000).
Scanning with Affymetrix scanner and MAS 5.0 software. The original images (.dat files) and .cel files are available on request (mantei@cell.biol.ethz.ch) The .cel files produced by MAS 5.0 were normalized using the program dChip (smoothing spline normalization; Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol. 2, research0032.0031-0032.0011 (2001); http://www.dchip.org). dChip was also used to calculate a probe sensitivity index for each probe on the basis of 18 arrays, and then a "model-based expression index" (MBEI) for each gene on each array (Li, C. & Wong, W.H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl. Acad. Sci. U.S.A. 98, 31-36 (2001)).
Keywords = neural crest stem cells Schwann glia
Lot batch = 1


title: Wt Control 1

status: Public on Feb 17 2004

city: Rehovot

first: Robert

last: Fluhr

department: Plant Sciences

country: Israel

institute: Weizmann Institute of Science

description:
Wild Type Control. Sample is leaf from an unwounded plant.
Replicate 1

organism: Solanum lycopersicum

source_name: Pooled Reference (all  samples in this series together)

source_name: Wild Type Control (leaf from unwounded plant)


title: Human myometrial cells stably-transfected with the CREB gene, replicate 3


title: Mut Systemic wounded 2

description:
Mutant systemic wounded : Mutant is antisense of Rboh gene. Sample is leaf from wounded plant.
Replicate 2

source_name: Mutant systemic wounded (leaf from wounded plant)


title: Mut Systemic wounded 3

description:
Mutant systemic wounded : Mutant is antisense of Rboh gene. Sample is leaf from wounded plant.
Replicate 3.


title: Mut Systemic wounded 1

description:
Mutant systemic wounded : Mutant is antisense of Rboh gene. Sample is leaf from wounded plant.
Replicate 1

source_name: Mutant systemic wounded(leaf from wounded plant)


title: E9_2

description:
Origin of sample: mouse embryos expressing green fluorescent protein (GFP) in neural crest stem cells and later glial cells under the control of the proteolipid protein gene (Plp) promoter. At E9.5 the trunk region was dissected out. GFP-expressing cells were isolated by FACS sorting. See also Buchstaller_suplTab1.xls in publication.
Keywords = neural crest stem cells Schwann glia
Lot batch = 2


title: Wt Control 2

description:
Wild Type Control. Sample is leaf from an unwounded plant.
Replicate 2


title: Wt Systemic Wounded 2

description:
Wild Type Systemic Wounded. Sample is leaf from wounded plant.
Replicate 2

source_name: Wild Type Systemic Wounded (leaf from wounded plant)


title: Mut Control 2

description: Mutant Control: Mutant is antisense of Rboh gene. Sample is leaf from an unwounded plant. Replicate 1

source_name: Mutant Control (leaf from unwounded plant)


title: Primary B cells vs Primary B cells 360min (set 9)

status: Public on Feb 16 2004

city: Pasadena

first: Sangdun

last: Choi

address: 1200 E. California Blvd

department: Biology

institute: California Institute of Technology

description:
Control total RNA was extracted from primary B cells cultured for 0 min.
Test total RNA was extracted from primary B cells cultured for 360min.

source_name: Total RNA from primary B cells was labeled with Cyanine-3 (green).

source_name: Total RNA from primary B cells cultured for 360min was labeled with Cyanine-5 (red).


title: Mut Control 3

description: Mutant Control: Mutant is antisense of Rboh gene. Sample is leaf from an unwounded plant. Replicate 2


title: Primary B cells vs Primary B cells 60min (set 9)

description:
Control total RNA was extracted from primary B cells cultured for 0 min.
Test total RNA was extracted from primary B cells cultured for 60min.

source_name: Total RNA from primary B cells cultured for 60min was labeled with Cyanine-5 (red).


title: Wt Control 3

description:
Wild Type Control. Sample is leaf from an unwounded plant.
Replicate 3


title: Primary B cells vs Primary B cells 60min (set 8)


title: Primary B cells vs Primary B cells 60min (set 14)


title: Primary B cells vs Primary B cells 60min (set 4)


title: Primary B cells vs Primary B cells 60min (set 13)


title: Primary B cells vs Primary B cells 60min (set 3)


title: Primary B cells vs Primary B cells 60min (set 6)


title: Primary B cells vs Primary B cells 60min (set 7)


title: Primary B cells vs Primary B cells 60min (set 2)


title: Primary B cells vs Primary B cells 60min (set 5)


title: Primary B cells vs Primary B cells 60min (set 16)


title: Primary B cells vs Primary B cells 60min (set 1)


title: Primary B cells vs Primary B cells 60min (set 10)


title: Primary B cells vs Primary B cells 60min (set 15)


title: Primary B cells vs Primary B cells 60min (set 11)


title: Primary B cells vs Primary B cells 60min (set 12)


title: Primary B cells vs Primary B cells 360min (set 8)


title: Primary B cells vs Primary B cells 360min (set 7)


title: Primary B cells vs Primary B cells 360min (set 4)


title: Primary B cells vs Primary B cells 360min (set 5)


title: Primary B cells vs Primary B cells 360min (set 6)


title: Primary B cells vs Primary B cells 360min (set 2)


title: Primary B cells vs Primary B cells 360min (set 16)


title: Primary B cells vs Primary B cells 360min (set 11)


title: Primary B cells vs Primary B cells 180min (set 8)

description:
Control total RNA was extracted from primary B cells cultured for 0 min.
Test total RNA was extracted from primary B cells cultured for 180min.

source_name: Total RNA from primary B cells cultured for 180min was labeled with Cyanine-5 (red).


title: Primary B cells vs Primary B cells 180min (set 7)