title: SLN:1761 - B - mAdbID:39212

description: mAdb experiment ID: 39212

value: Follow up years:10.83

value: Stage >2:no

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: IPI score:NA

value: Immune response 1:9.31

value: Immune response 2:8.55

value: With translocation:no


title: SLN:1683 - B - mAdbID:39201

status: Public on Jun 03 2009

type: RNA

city: Bethesda

first: Louis

middle: M.

last: Staudt

state: MD

address: 9000 Rockville Pike, Bldg 10, Rm 4N114

department: Lymphoid Malignancies Branch

country: USA

institute: National Cancer Institute

description: mAdb experiment ID: 39201

hyb_protocol: Affymetrix Hybridization Protocol Other: Following fragmentation, 20 micrograms of cRNA were hybridized for 16 hours at 45C on U133A/B GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: Affy Scanning Protocol Other: Scanning was performed by the Affymetrix 3000 Scanner.

data_processing:
MAS 5.0 Data Processing Protocol
Calculation Method: The data were analyzed with Microarray Suite version 5.0 (MA S 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.

label: biotin

molecule: polyA RNA

organism: Homo sapiens

label_protocol:
Affymetrix Labeling Protocol
Other: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 microg mRNA (Expression Analysis Technical Manual, 2001, Affymetrix).

extract_protocol:
FastTrack 2.0 mRNA Isolation Kit
Extraction method: oligo dt cellulose
Other: mRNA was extracted using the FastTrack 2.0 mRNA Isolation Kit according to manufacturer's instructions (Invitrogen, Carlsbad, CA).

tag: tissue

value: Lymph node

tag: disease state

value: Follicular Lymphoma

tag: individual

tag: clinical info

value: Follow up status:dead

value: Follow up years:4.03

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: Age >60:yes

value: IPI score:3

value: Immune response 1:9.95

value: Immune response 2:9.1

value: With translocation:NA


title: SLN:1684 - B - mAdbID:39202

description: mAdb experiment ID: 39202

value: Follow up years:2.88

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:2

value: Immune response 1:9.53

value: Immune response 2:8.73

value: With translocation:yes


title: SLN:1670 - B - mAdbID:39107

description: mAdb experiment ID: 39107

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:1.88

value: IPI score:1

value: Immune response 1:9.64

value: Immune response 2:9.45


title: SLN:1718 - B - mAdbID:39206

description: mAdb experiment ID: 39206

value: Follow up years:10.35

value: Stage >2:no

value: Immune response 1:9.23

value: Immune response 2:8.13


title: SLN:1720 - B - mAdbID:39207

description: mAdb experiment ID: 39207

value: Follow up status:dead

value: Follow up years:3.91

value: LDH ratio >1:NA

value: Number of extranodal sites >1:yes

value: Age >60:yes

value: IPI score:NA

value: Immune response 1:8.78

value: Immune response 2:8.88


title: SLN:1842 - A - mAdbID:39396

description: mAdb experiment ID: 39396

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:4.56

value: Stage >2:yes

value: Immune response 1:9.73

value: Immune response 2:8.87

value: With translocation:yes


title: SLN:1681 - B - mAdbID:39200

description: mAdb experiment ID: 39200

value: Follow up years:4.23

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.52

value: Immune response 2:8.63


title: SLN:1829 - A - mAdbID:39386

description: mAdb experiment ID: 39386

value: Follow up years:4.11

value: Stage >2:no

value: LDH ratio >1:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.57

value: Immune response 2:8.73


title: SLN:1675 - B - mAdbID:39108

description: mAdb experiment ID: 39108

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:4.57

value: Stage >2:yes

value: Immune response 1:9.36

value: Immune response 2:8.46


title: SLN:1830 - A - mAdbID:39387

description: mAdb experiment ID: 39387

value: Follow up status:dead

value: Follow up years:5.65

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Immune response 1:9.01

value: Immune response 2:8.68

value: With translocation:yes


title: SLN:1828 - A - mAdbID:39385

description: mAdb experiment ID: 39385

value: Follow up years:11.51

value: LDH ratio >1:NA

value: Age >60:no

value: IPI score:NA

value: Immune response 1:8.99

value: Immune response 2:8.09


title: SLN:1716 - B - mAdbID:39204

description: mAdb experiment ID: 39204

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:9.69

value: Stage >2:no

value: Immune response 1:8.95

value: Immune response 2:8.35


title: SLN:1827 - A - mAdbID:39384

description: mAdb experiment ID: 39384

value: Follow up years:3.66

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:yes

value: IPI score:1

value: Immune response 1:9.8

value: Immune response 2:8.84


title: SLN:1735 - B - mAdbID:39211

description: mAdb experiment ID: 39211

value: Follow up status:NA

value: Follow up years:

value: Stage >2:NA

value: LDH ratio >1:NA

value: Age >60:NA

value: IPI score:NA

value: Immune response 1:7.32

value: Immune response 2:8.3

value: With translocation:yes


title: SLN:1662 - B - mAdbID:38996

description: mAdb experiment ID: 38996

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:0.74

value: Stage >2:yes

value: Age >60:no

value: Immune response 1:9.57

value: Immune response 2:9.15


title: SLN:1661 - B - mAdbID:39106

description: mAdb experiment ID: 39106

value: Follow up status:alive

value: Follow up years:1.48

value: Stage >2:no

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:yes

value: IPI score:1

value: Immune response 1:9.86

value: Immune response 2:8.9


title: SLN:1810 - A - mAdbID:39218

description: mAdb experiment ID: 39218

value: Lymph node

value: Follow up years:9.91

value: LDH ratio >1:yes

value: IPI score:2

value: Immune response 1:8.66

value: Immune response 2:8.41

value: With translocation:no


title: SLN:1664 - B - mAdbID:38997

description: mAdb experiment ID: 38997

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:4.53

value: Stage >2:yes

value: Immune response 1:9.34

value: Immune response 2:8.62

value: With translocation:yes


title: SLN:1669 - B - mAdbID:38998

description: mAdb experiment ID: 38998

value: Follow up years:4.4

value: Number of extranodal sites >1:no

value: Age >60:yes

value: IPI score:3

value: Immune response 1:8.87

value: Immune response 2:8.58


title: SLN:1660 - B - mAdbID:38995

description: mAdb experiment ID: 38995

value: Lymph node

value: Follow up status:alive

value: Follow up years:2.32

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:8.81

value: Immune response 2:8.38


title: SLN:1797 - A - mAdbID:39216

description: mAdb experiment ID: 39216

value: Follicular Lymphoma

value: Follow up years:7.17

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: Immune response 1:9.34

value: Immune response 2:8.92


title: SLN:1825 - A - mAdbID:39383

description: mAdb experiment ID: 39383

value: Follow up years:2.98

value: Number of extranodal sites >1:no

value: Immune response 1:9.46

value: Immune response 2:9.07

value: With translocation:yes


title: SLN:1792 - A - mAdbID:39214

description: mAdb experiment ID: 39214

value: Lymph node

value: Follow up status:dead

value: Follow up years:2.01

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:9.33

value: Immune response 2:8.72


title: SLN:1657 - B - mAdbID:38973

description: mAdb experiment ID: 38973

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:10.09

value: Stage >2:yes

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.53

value: Immune response 2:8.46


title: SLN:1795 - A - mAdbID:39215

description: mAdb experiment ID: 39215

value: Follow up years:0.71

value: Number of extranodal sites >1:no

value: Immune response 1:10.19

value: Immune response 2:9.27

value: With translocation:yes


title: SLN:1788 - A - mAdbID:39158

description: mAdb experiment ID: 39158

value: Lymph node

value: Follow up status:dead

value: Follow up years:1

value: Stage >2:no

value: Age >60:yes

value: Immune response 1:9.09

value: Immune response 2:9.13

value: With translocation:no


title: SLN:1790 - A - mAdbID:39159

description: mAdb experiment ID: 39159

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:1.42

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: IPI score:3

value: Immune response 1:9.85

value: Immune response 2:9.4


title: SLN:1771 - A - mAdbID:39156

description: mAdb experiment ID: 39156

value: Lymph node

value: Follow up years:9.26

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: IPI score:NA

value: Immune response 2:8.67

value: With translocation:yes


title: SLN:1772 - A - mAdbID:39157

description: mAdb experiment ID: 39157

value: Follow up status:dead

value: Follow up years:13.64

value: Stage >2:no

value: Age >60:no

value: Immune response 1:9.49

value: Immune response 2:8.49


title: SLN:1648 - B - mAdbID:38966

description: mAdb experiment ID: 38966

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:11.01

value: Stage >2:yes

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.13

value: Immune response 2:8.12


title: SLN:1652 - B - mAdbID:38970

description: mAdb experiment ID: 38970

value: Lymph node

value: Follow up years:3.72

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:9.5

value: Immune response 2:9.14


title: SLN:1656 - B - mAdbID:38968

description: mAdb experiment ID: 38968

value: Follow up years:9.36

value: Age >60:no

value: Immune response 1:9.06

value: Immune response 2:8.58

value: With translocation:yes


title: SLN:1647 - B - mAdbID:38967

description: mAdb experiment ID: 38967

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:1.22

value: Stage >2:yes

value: LDH ratio >1:NA

value: Age >60:yes

value: Immune response 1:9.12

value: Immune response 2:8.89


title: SLN:1655 - B - mAdbID:38972

description: mAdb experiment ID: 38972

value: Lymph node

value: Follow up status:alive

value: Follow up years:8.45

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9.51

value: Immune response 2:8.85


title: SLN:1654 - B - mAdbID:38971

description: mAdb experiment ID: 38971

value: Follow up years:0.3

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:8.74

value: Immune response 2:8.28

value: With translocation:NA


title: SLN:1799 - A - mAdbID:39217

description: mAdb experiment ID: 39217

value: Follicular Lymphoma

value: Follow up years:14.18

value: Stage >2:no

value: Age >60:yes

value: Immune response 1:9.32

value: Immune response 2:8.63

value: With translocation:no


title: SLN:1768 - A - mAdbID:39154

description: mAdb experiment ID: 39154

value: Lymph node

value: Follow up status:alive

value: Follow up years:13.04

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: IPI score:NA

value: Immune response 1:9.42

value: Immune response 2:8.47

value: With translocation:yes


title: SLN:1646 - B - mAdbID:38964

description: mAdb experiment ID: 38964

value: Follow up status:dead

value: Follow up years:1.97

value: Stage >2:yes

value: Number of extranodal sites >1:yes

value: Immune response 1:9.25

value: Immune response 2:8.61


title: SLN:1643 - B - mAdbID:38965

description: mAdb experiment ID: 38965

value: Follicular Lymphoma

value: Follow up years:0.77

value: Stage >2:no

value: LDH ratio >1:no

value: Age >60:yes

value: IPI score:1

value: Immune response 1:9.73

value: Immune response 2:9.06


title: SLN:1764 - A - mAdbID:39153

description: mAdb experiment ID: 39153

value: Lymph node

value: Follow up years:0.42

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: IPI score:NA

value: Immune response 2:8.87


title: SLN:1761 - A - mAdbID:39155

description: mAdb experiment ID: 39155

value: Follow up status:alive

value: Follow up years:10.83

value: Age >60:no

value: Immune response 1:9.31

value: Immune response 2:8.55

value: With translocation:no


title: SLN:1628 - B - mAdbID:39104

description: mAdb experiment ID: 39104

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:0.82

value: Stage >2:no

value: LDH ratio >1:no

value: Immune response 1:9.8

value: Immune response 2:8.72

value: With translocation:NA


title: SLN:1735 - A - mAdbID:39152

description: mAdb experiment ID: 39152

value: Lymph node

value: Follow up status:NA

value: Follow up years:

value: Stage >2:NA

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: Age >60:NA

value: Immune response 1:7.32

value: Immune response 2:8.3

value: With translocation:yes


title: SLN:1639 - B - mAdbID:38961

description: mAdb experiment ID: 38961

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:4.75

value: Stage >2:yes

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.53

value: Immune response 2:8.89


title: SLN:1732 - A - mAdbID:39151

description: mAdb experiment ID: 39151

value: Lymph node

value: Follow up status:dead

value: Follow up years:0.71

value: LDH ratio >1:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:7.81

value: Immune response 2:8.59


title: SLN:1729 - A - mAdbID:39150

description: mAdb experiment ID: 39150

value: Follow up years:8.06

value: Stage >2:no

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Immune response 1:9.35

value: Immune response 2:8.65

value: With translocation:yes


title: SLN:1638 - B - mAdbID:38960

description: mAdb experiment ID: 38960

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:4.06

value: Stage >2:yes

value: LDH ratio >1:NA

value: Age >60:no

value: IPI score:NA

value: Immune response 1:9.13

value: Immune response 2:8.88


title: SLN:1720 - A - mAdbID:39148

description: mAdb experiment ID: 39148

value: Lymph node

value: Follow up status:dead

value: Follow up years:3.91

value: Number of extranodal sites >1:yes

value: Age >60:yes

value: Immune response 1:8.78


title: SLN:1684 - A - mAdbID:39142

description: mAdb experiment ID: 39142

value: Follow up years:2.88

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:9.53

value: Immune response 2:8.73


title: SLN:1683 - A - mAdbID:39141

description: mAdb experiment ID: 39141

value: Follicular Lymphoma

value: Follow up years:4.03

value: Stage >2:yes

value: LDH ratio >1:yes

value: IPI score:3

value: Immune response 1:9.95

value: Immune response 2:9.1

value: With translocation:NA


title: SLN:1717 - A - mAdbID:39145

description: mAdb experiment ID: 39145

value: Lymph node

value: Follow up status:dead

value: Follow up years:2.01

value: Stage >2:NA

value: IPI score:NA

value: Immune response 1:9.35

value: Immune response 2:8.88

value: With translocation:yes


title: SLN:1645 - B - mAdbID:38963

description: mAdb experiment ID: 38963

value: Follow up status:alive

value: Follow up years:3.56

value: Stage >2:no

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.49

value: Immune response 2:8.7

value: With translocation:no


title: SLN:1718 - A - mAdbID:39146

description: mAdb experiment ID: 39146

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:10.35

value: Immune response 1:9.23

value: Immune response 2:8.13


title: SLN:1716 - A - mAdbID:39144

description: mAdb experiment ID: 39144

value: Follow up years:9.69

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:8.95

value: Immune response 2:8.35


title: SLN:1681 - A - mAdbID:39140

description: mAdb experiment ID: 39140

value: Follow up status:alive

value: Follow up years:4.23

value: Stage >2:yes

value: LDH ratio >1:no

value: Immune response 1:9.52

value: Immune response 2:8.63

value: With translocation:yes


title: SLN:1675 - A - mAdbID:39000

description: mAdb experiment ID: 39000

value: Lymph node

value: Follow up years:4.57

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.36

value: Immune response 2:8.46


title: SLN:1670 - A - mAdbID:38999

description: mAdb experiment ID: 38999

value: Follicular Lymphoma

value: Follow up years:1.88

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.64

value: Immune response 2:9.45


title: SLN:1624 - B - mAdbID:38698

description: mAdb experiment ID: 38698

value: Follow up status:dead

value: Follow up years:3.98

value: Stage >2:yes

value: Immune response 1:9.05

value: Immune response 2:8.5


title: SLN:1627 - B - mAdbID:38729

description: mAdb experiment ID: 38729

value: Lymph node

value: Follow up status:NA

value: Follow up years:

value: LDH ratio >1:yes

value: Immune response 1:9.6

value: Immune response 2:8.51

value: With translocation:yes


title: SLN:1606 - B - mAdbID:38838

description: mAdb experiment ID: 38838

value: Follicular Lymphoma

value: Follow up years:4.22

value: LDH ratio >1:no

value: Number of extranodal sites >1:yes

value: IPI score:2

value: Immune response 1:9.45

value: Immune response 2:9.18

value: With translocation:NA


title: SLN:1620 - B - mAdbID:38689

description: mAdb experiment ID: 38689

value: Follow up status:dead

value: Follow up years:9.36

value: Stage >2:yes

value: Age >60:no

value: Immune response 1:9.14

value: Immune response 2:8.35


title: SLN:1637 - B - mAdbID:38731

description: mAdb experiment ID: 38731

value: Lymph node

value: Follow up status:alive

value: Follow up years:18.81

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: IPI score:NA

value: Immune response 1:9.95

value: Immune response 2:9.58


title: SLN:1611 - B - mAdbID:38682

description: mAdb experiment ID: 38682

value: Follicular Lymphoma

value: Follow up years:10.15

value: LDH ratio >1:no

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.42

value: Immune response 2:8.69


title: SLN:1625 - B - mAdbID:38699

description: mAdb experiment ID: 38699

value: Follow up years:11.16

value: Stage >2:yes

value: Number of extranodal sites >1:yes

value: Age >60:no

value: Immune response 1:8.98

value: Immune response 2:8.47

value: With translocation:NA


title: SLN:1669 - A - mAdbID:38910

description: mAdb experiment ID: 38910

value: Lymph node

value: Follow up status:dead

value: Follow up years:4.4

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: IPI score:3

value: Immune response 1:8.87

value: Immune response 2:8.58

value: With translocation:yes


title: SLN:1619 - B - mAdbID:38687

description: mAdb experiment ID: 38687

value: Follicular Lymphoma

value: Follow up years:9.24

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.43

value: Immune response 2:8.56


title: SLN:1622 - B - mAdbID:38691

description: mAdb experiment ID: 38691

value: Follow up status:alive

value: Follow up years:14.01

value: Stage >2:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.23

value: Immune response 2:8.53


title: SLN:1623 - B - mAdbID:38697

description: mAdb experiment ID: 38697

value: Lymph node

value: Follow up years:9.72

value: Number of extranodal sites >1:no

value: Age >60:no

value: Immune response 1:9.67

value: Immune response 2:8.93

value: With translocation:NA


title: SLN:1616 - B - mAdbID:38685

description: mAdb experiment ID: 38685

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:2.36

value: LDH ratio >1:yes

value: Immune response 1:9.38

value: Immune response 2:8.82


title: SLN:1617 - B - mAdbID:38686

description: mAdb experiment ID: 38686

value: Follow up status:alive

value: Follow up years:7.85

value: Stage >2:yes

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:8.96

value: Immune response 2:8.49

value: With translocation:yes


title: SLN:1662 - A - mAdbID:38908

description: mAdb experiment ID: 38908

value: Lymph node

value: Follow up years:0.74

value: Number of extranodal sites >1:no

value: Age >60:no

value: Immune response 1:9.57

value: Immune response 2:9.15


title: SLN:1661 - A - mAdbID:38907

description: mAdb experiment ID: 38907

value: Follicular Lymphoma

value: Follow up years:1.48

value: Stage >2:no

value: Age >60:yes

value: Immune response 1:9.86

value: Immune response 2:8.9


title: SLN:1608 - B - mAdbID:38680

description: mAdb experiment ID: 38680

value: Follow up status:alive

value: Follow up years:9.7

value: Stage >2:yes

value: LDH ratio >1:no

value: Immune response 1:8.92

value: Immune response 2:8.41


title: SLN:1610 - B - mAdbID:38681

description: mAdb experiment ID: 38681

value: Lymph node

value: Follow up status:dead

value: Follow up years:2.05

value: IPI score:2

value: Immune response 1:9.33

value: Immune response 2:9.35

value: With translocation:NA


title: SLN:1719 - A - mAdbID:39147

description: mAdb experiment ID: 39147

value: Follicular Lymphoma

value: Follow up years:7.7

value: Stage >2:no

value: LDH ratio >1:NA

value: Number of extranodal sites >1:yes

value: Age >60:no

value: IPI score:NA

value: Immune response 1:9.13

value: Immune response 2:8.5

value: With translocation:yes


title: SLN:1656 - A - mAdbID:38865

description: mAdb experiment ID: 38865

value: Lymph node

value: Follow up status:alive

value: Follow up years:9.36

value: Stage >2:yes

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: IPI score:1

value: Immune response 1:9.06

value: Immune response 2:8.58


title: SLN:1604 - B - mAdbID:38678

description: mAdb experiment ID: 38678

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:3.98

value: Immune response 1:9.24

value: Immune response 2:8.86


title: SLN:1607 - B - mAdbID:38679

description: mAdb experiment ID: 38679

value: Follow up years:8.12

value: Number of extranodal sites >1:yes

value: Age >60:no

value: IPI score:2

value: Immune response 1:9.4

value: Immune response 2:8.6


title: SLN:1655 - A - mAdbID:38864

description: mAdb experiment ID: 38864

value: Lymph node

value: Follow up status:alive

value: Follow up years:8.45

value: Stage >2:yes

value: LDH ratio >1:yes

value: Immune response 1:9.51

value: Immune response 2:8.85

value: With translocation:yes


title: SLN:1660 - A - mAdbID:38906

description: mAdb experiment ID: 38906

value: Follicular Lymphoma

value: Follow up years:2.32

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: IPI score:1

value: Immune response 1:8.81

value: Immune response 2:8.38


title: SLN:1603 - B - mAdbID:38677

description: mAdb experiment ID: 38677

value: Follow up status:dead

value: Follow up years:5.17

value: Age >60:no

value: Immune response 1:9.66

value: Immune response 2:9.75

value: With translocation:NA


title: SLN:1599 - B - mAdbID:38676

description: mAdb experiment ID: 38676

value: Lymph node

value: Follow up status:alive

value: Follow up years:6.17

value: Stage >2:no

value: Immune response 1:9.48

value: Immune response 2:8.65


title: SLN:1594 - B - mAdbID:38598

description: mAdb experiment ID: 38598

value: Follicular Lymphoma

value: Follow up years:11.19

value: Stage >2:yes

value: LDH ratio >1:no

value: Immune response 1:9.25

value: Immune response 2:8.59


title: SLN:1598 - B - mAdbID:38607

description: mAdb experiment ID: 38607

value: Follow up status:dead

value: Follow up years:2.8

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:8.81

value: Immune response 2:8.33

value: With translocation:yes


title: SLN:1626 - B - mAdbID:38728

description: mAdb experiment ID: 38728

value: Lymph node

value: Follow up years:6.47

value: Age >60:yes

value: Immune response 1:8.59

value: Immune response 2:8.14


title: SLN:1657 - A - mAdbID:38863

description: mAdb experiment ID: 38863

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:10.09

value: Stage >2:yes

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.53

value: Immune response 2:8.46


title: SLN:1652 - A - mAdbID:38860

description: mAdb experiment ID: 38860

value: Follow up status:dead

value: Follow up years:3.72

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:9.5

value: Immune response 2:9.14


title: SLN:1643 - A - mAdbID:38851

description: mAdb experiment ID: 38851

value: Lymph node

value: Follow up years:0.77

value: Stage >2:no

value: LDH ratio >1:no

value: Age >60:yes

value: Immune response 1:9.73

value: Immune response 2:9.06

value: With translocation:yes


title: SLN:1654 - A - mAdbID:38862

description: mAdb experiment ID: 38862

value: Follicular Lymphoma

value: Follow up years:0.3

value: Stage >2:yes

value: Age >60:no

value: IPI score:1

value: Immune response 1:8.74

value: Immune response 2:8.28

value: With translocation:NA


title: SLN:1591 - B - mAdbID:38597

description: mAdb experiment ID: 38597

value: Follow up status:alive

value: Follow up years:11.22

value: Number of extranodal sites >1:no

value: Immune response 1:9.49

value: Immune response 2:8.62


title: SLN:1648 - A - mAdbID:38857

description: mAdb experiment ID: 38857

value: Lymph node

value: Follow up years:11.01

value: LDH ratio >1:no

value: Immune response 1:9.13

value: Immune response 2:8.12


title: SLN:1427 - B - mAdbID:38338

description: mAdb experiment ID: 38338

value: Follicular Lymphoma

value: Follow up years:5.22

value: Stage >2:no

value: Immune response 1:8.57

value: With translocation:yes


title: SLN:1646 - A - mAdbID:38855

description: mAdb experiment ID: 38855

value: Follow up status:dead

value: Follow up years:1.97

value: Stage >2:yes

value: LDH ratio >1:NA

value: Number of extranodal sites >1:yes

value: Age >60:yes

value: IPI score:NA

value: Immune response 1:9.25

value: Immune response 2:8.61


title: SLN:1645 - A - mAdbID:38854

description: mAdb experiment ID: 38854

value: Lymph node

value: Follow up status:alive

value: Follow up years:3.56

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.49

value: Immune response 2:8.7

value: With translocation:no


title: SLN:1595 - B - mAdbID:38605

description: mAdb experiment ID: 38605

value: Follicular Lymphoma

value: Follow up years:8.03

value: Stage >2:no

value: IPI score:2

value: Immune response 1:9.75

value: Immune response 2:9.6

value: With translocation:NA


title: SLN:1647 - A - mAdbID:38856

description: mAdb experiment ID: 38856

value: Lymph node

value: Follow up status:dead

value: Follow up years:1.22

value: Stage >2:yes

value: LDH ratio >1:NA

value: Age >60:yes

value: Immune response 1:9.12

value: Immune response 2:8.89

value: With translocation:yes


title: SLN:1418 - B - mAdbID:38337

description: mAdb experiment ID: 38337

value: Follow up status:alive

value: Follow up years:3.59

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: Age >60:no

value: IPI score:3

value: Immune response 1:8.94

value: Immune response 2:8.42


title: SLN:1639 - A - mAdbID:38849

description: mAdb experiment ID: 38849

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:4.75

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: IPI score:1

value: Immune response 1:9.53


title: SLN:1637 - A - mAdbID:38652

description: mAdb experiment ID: 38652

value: Follow up years:18.81

value: Stage >2:yes

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:9.95

value: Immune response 2:9.58


title: SLN:1476 - B - mAdbID:38481

description: mAdb experiment ID: 38481

value: Follow up status:dead

value: Follow up years:4.08

value: LDH ratio >1:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.51

value: Immune response 2:8.87

value: With translocation:yes


title: SLN:1075 - B - mAdbID:38331

description: mAdb experiment ID: 38331

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:4.52

value: LDH ratio >1:no

value: Number of extranodal sites >1:yes

value: Age >60:no

value: Immune response 1:8.97

value: Immune response 2:8.69


title: SLN:1076 - B - mAdbID:38332

description: mAdb experiment ID: 38332

value: Follow up years:3.22

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9.2

value: Immune response 2:8.55

value: With translocation:no


title: SLN:1638 - A - mAdbID:38848

description: mAdb experiment ID: 38848

value: Follow up status:alive

value: Follow up years:4.06

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:9.13

value: Immune response 2:8.88


title: SLN:1589 - B - mAdbID:38274

description: mAdb experiment ID: 38274

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:3.15

value: Stage >2:no

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.72

value: Immune response 2:8.74

value: With translocation:yes


title: SLN:879 - B - mAdbID:38328

description: mAdb experiment ID: 38328

value: Follow up status:dead

value: Follow up years:4.34

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:2

value: Immune response 1:8.95


title: SLN:1432 - B - mAdbID:38336

description: mAdb experiment ID: 38336

value: Follow up status:alive

value: Follow up years:3.66

value: Immune response 1:9.22

value: Immune response 2:8.95


title: SLN:1073 - B - mAdbID:38330

description: mAdb experiment ID: 38330

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:7.68

value: Age >60:yes

value: Immune response 1:9.2

value: Immune response 2:8.67

value: With translocation:no


title: SLN:1626 - A - mAdbID:38647

description: mAdb experiment ID: 38647

value: Follow up status:dead

value: Follow up years:6.47

value: LDH ratio >1:no

value: Immune response 1:8.59

value: Immune response 2:8.14

value: With translocation:yes


title: SLN:1584 - B - mAdbID:38268

description: mAdb experiment ID: 38268

value: Follow up years:15.73

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:2

value: Immune response 1:9.44

value: Immune response 2:8.55

value: With translocation:NA


title: SLN:1625 - A - mAdbID:38646

description: mAdb experiment ID: 38646

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:11.16

value: Number of extranodal sites >1:yes

value: Immune response 1:8.98

value: Immune response 2:8.47


title: SLN:1627 - A - mAdbID:38649

description: mAdb experiment ID: 38649

value: Follow up status:NA

value: Follow up years:

value: Immune response 1:9.6

value: Immune response 2:8.51

value: With translocation:yes


title: SLN:1622 - A - mAdbID:38643

description: mAdb experiment ID: 38643

value: Follow up years:14.01

value: Stage >2:yes

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:yes

value: Immune response 1:9.23

value: Immune response 2:8.53


title: SLN:1623 - A - mAdbID:38644

description: mAdb experiment ID: 38644

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:9.72

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.67

value: Immune response 2:8.93

value: With translocation:NA


title: SLN:1585 - B - mAdbID:38270

description: mAdb experiment ID: 38270

value: Follow up years:0.01

value: Stage >2:NA

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:8.96

value: With translocation:yes


title: SLN:1624 - A - mAdbID:38645

description: mAdb experiment ID: 38645

value: Follow up status:dead

value: Follow up years:3.98

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:9.05

value: Immune response 2:8.5


title: SLN:1588 - B - mAdbID:38273

description: mAdb experiment ID: 38273

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:0.49

value: Number of extranodal sites >1:yes

value: Age >60:no

value: Immune response 1:9.52

value: Immune response 2:9.06


title: SLN:1581 - B - mAdbID:38265

description: mAdb experiment ID: 38265

value: Follow up years:9.52

value: LDH ratio >1:NA

value: Age >60:yes

value: Immune response 1:9.08

value: Immune response 2:9.02


title: SLN:1620 - A - mAdbID:38642

description: mAdb experiment ID: 38642

value: Follow up status:dead

value: Follow up years:9.36

value: Stage >2:yes

value: LDH ratio >1:yes

value: Immune response 1:9.14

value: Immune response 2:8.35

value: With translocation:NA


title: SLN:1611 - A - mAdbID:38619

description: mAdb experiment ID: 38619

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:10.15

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:9.42

value: Immune response 2:8.69


title: SLN:1583 - B - mAdbID:38267

description: mAdb experiment ID: 38267

value: Follow up years:15.26

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.47

value: Immune response 2:8.79

value: With translocation:yes


title: SLN:1586 - B - mAdbID:38271

description: mAdb experiment ID: 38271

value: Follow up years:3.11

value: Stage >2:yes

value: Immune response 1:9.38

value: Immune response 2:8.55


title: SLN:1619 - A - mAdbID:38641

description: mAdb experiment ID: 38641

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:9.24

value: Immune response 1:9.43

value: Immune response 2:8.56


title: SLN:1617 - A - mAdbID:38640

description: mAdb experiment ID: 38640

value: Follow up status:alive

value: Follow up years:7.85

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Immune response 1:8.96

value: Immune response 2:8.49


title: SLN:1579 - B - mAdbID:38263

description: mAdb experiment ID: 38263

value: Follow up years:8.22

value: LDH ratio >1:yes

value: Age >60:no

value: IPI score:2

value: Immune response 1:8.81

value: Immune response 2:8.44

value: With translocation:yes


title: SLN:1480 - B - mAdbID:38262

description: mAdb experiment ID: 38262

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:16.29

value: Stage >2:no

value: IPI score:1

value: Immune response 1:9.4

value: Immune response 2:8.67

value: With translocation:no


title: SLN:1610 - A - mAdbID:38617

description: mAdb experiment ID: 38617

value: Follow up status:dead

value: Follow up years:2.05

value: Stage >2:yes

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:yes

value: Immune response 1:9.33

value: Immune response 2:9.35

value: With translocation:NA


title: SLN:1479 - B - mAdbID:38261

description: mAdb experiment ID: 38261

value: Lymph node

value: Follow up years:2.29

value: IPI score:2

value: Immune response 1:8.71

value: Immune response 2:9.07

value: With translocation:yes


title: SLN:1580 - B - mAdbID:38264

description: mAdb experiment ID: 38264

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:19.3

value: LDH ratio >1:NA

value: Age >60:no

value: IPI score:NA

value: Immune response 1:9.58

value: Immune response 2:8.52


title: SLN:1478 - B - mAdbID:38260

description: mAdb experiment ID: 38260

value: Follow up status:dead

value: Follow up years:12.47

value: Stage >2:no

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: IPI score:1

value: Immune response 1:9.6

value: Immune response 2:8.87

value: With translocation:no


title: SLN:1477 - B - mAdbID:38259

description: mAdb experiment ID: 38259

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:0.59

value: Stage >2:yes

value: LDH ratio >1:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.64

value: Immune response 2:9.06

value: With translocation:yes


title: SLN:1608 - A - mAdbID:38616

description: mAdb experiment ID: 38616

value: Follow up status:alive

value: Follow up years:9.7

value: Age >60:no

value: Immune response 1:8.92

value: Immune response 2:8.41


title: SLN:1616 - A - mAdbID:38637

description: mAdb experiment ID: 38637

value: Follow up status:dead

value: Follow up years:2.36

value: Number of extranodal sites >1:no

value: Immune response 1:9.38

value: Immune response 2:8.82

value: With translocation:NA


title: SLN:1664 - A - mAdbID:38909

description: mAdb experiment ID: 38909

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:4.53

value: Stage >2:yes

value: LDH ratio >1:no

value: Immune response 1:9.34

value: Immune response 2:8.62


title: SLN:1607 - A - mAdbID:38615

description: mAdb experiment ID: 38615

value: Follow up status:alive

value: Follow up years:8.12

value: Number of extranodal sites >1:yes

value: IPI score:2

value: Immune response 1:9.4

value: Immune response 2:8.6

value: With translocation:yes


title: SLN:1606 - A - mAdbID:38611

description: mAdb experiment ID: 38611

value: Follow up status:dead

value: Follow up years:4.22

value: Age >60:no

value: Immune response 1:9.45

value: Immune response 2:9.18


title: SLN:1450 - B - mAdbID:38254

description: mAdb experiment ID: 38254

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:0.65

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9.83

value: Immune response 2:9.99


title: SLN:1473 - B - mAdbID:38256

description: mAdb experiment ID: 38256

value: Follow up status:alive

value: Follow up years:15.07

value: Stage >2:yes

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.75

value: Immune response 2:8.5


title: SLN:1598 - A - mAdbID:38533

description: mAdb experiment ID: 38533

value: Follow up status:dead

value: Follow up years:2.8

value: Age >60:no

value: IPI score:2

value: Immune response 1:8.81

value: Immune response 2:8.33

value: With translocation:yes


title: SLN:1603 - A - mAdbID:38603

description: mAdb experiment ID: 38603

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:5.17

value: Number of extranodal sites >1:no

value: Immune response 1:9.66

value: Immune response 2:9.75

value: With translocation:NA


title: SLN:1474 - B - mAdbID:38257

description: mAdb experiment ID: 38257

value: Follow up years:2.75

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: IPI score:3

value: Immune response 1:9.34

value: Immune response 2:9.1


title: SLN:1604 - A - mAdbID:38609

description: mAdb experiment ID: 38609

value: Follow up status:dead

value: Follow up years:3.98

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.24

value: Immune response 2:8.86


title: SLN:1472 - B - mAdbID:38255

description: mAdb experiment ID: 38255

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:16.72

value: Number of extranodal sites >1:no

value: Immune response 1:8.85

value: Immune response 2:8.49

value: With translocation:yes


title: SLN:1595 - A - mAdbID:38532

description: mAdb experiment ID: 38532

value: Follow up years:8.03

value: Stage >2:no

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.75

value: Immune response 2:9.6

value: With translocation:NA


title: grape bud 2000hr vs 0hr chilling rep 3

city: Brookings

first: Kathy

last: Mathiason

state: SD

address: NPB 201 Box 2140A

department: Horticulture, Forestry, Landscape, Parks

institute: South Dakota State University

description: This experiment compares the differences in gene expression of grape buds during the chilling requirement fulfillment period.

hyb_protocol: University of Arizona 2006 International Microarray Workshop http://www.ag.arizona.edu/microarray/

scan_protocol: Arrays were scanned with a GenePix 4000B Microarray Scanner.  Spots were identified and signal intensities calculated using GenePix Pro 6.0 software provided with the scanner.

data_processing: Signal intensities were normalized and analyzed using the R software package LIMMA.  Within-array normalization was performed by print-tip loess normalization.  Differential expression analysis, based on the single channel intensities, used a mixed model representation.  ANOVA (p<0.05) identified significant expression

molecule: total RNA

organism: Vitis riparia

source_name: axillary buds collected at 2000 hr of accumulated chilling

label_protocol: Indirect labelling of 1 ug total RNA using Ambion Amino Allyl MessageAmp II aRNA amplification kit, and Amersham Pharmacia's monoreactive dyes.

growth_protocol: Potted, spur-pruned, 5- to 6-year old V. riparia Michx vines were grown in climated controlled greenhouses under a natural long photoperiod at 25/20C day/night temperatures for 45 to 60 days.  Endodormancy was induced by natural daylength shortening.  Once periderm had developed up through 15 nodes and leaves had senesced from the bottom 4 nodes, canes were trimmed to 15 nodes, defoliated, and the pots were moved to cold storage (4C).

extract_protocol: Total RNA was isolated from ground axillary buds using the Pine tree extraction method (Chang et al. 1993).

treatment_protocol: Axillary buds were collected from intact plants after 2000 hours of chilling.  Buds were excised, frozen in liquid nitrogen, and stored at -80C until RNA extractions were performed.

tag: Axillary buds harvested from shoot basal nodes 3 to 12. Buds were harvested from plants that had accumulated 2000 hr of chilling.

source_name: axillary buds collected at 0 hr of accumulated chilling

treatment_protocol: Axillary buds were collected from intact plants after 0 hours of chilling.  Buds were excised, frozen in liquid nitrogen, and stored at -80C until RNA extractions were performed.

tag: Axillary buds harvested from shoot basal nodes 3 to 12. Buds were harvested from plants that had accumulated 0 hr of chilling.


title: SLN:1599 - A - mAdbID:38606

description: mAdb experiment ID: 38606

value: Follow up years:6.17

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.48

value: Immune response 2:8.65


title: SLN:1429 - B - mAdbID:38052

description: mAdb experiment ID: 38052

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:NA

value: Follow up years:

value: Stage >2:yes

value: LDH ratio >1:NA

value: Number of extranodal sites >1:no

value: IPI score:NA

value: Immune response 1:8.69

value: Immune response 2:8.28


title: grape buds 500hr vs 1000hr chilling rep 3

source_name: axillary buds collected at 500 hr of accumulated chilling

treatment_protocol: Axillary buds were collected from intact plants after 500 hours of chilling.  Buds were excised, frozen in liquid nitrogen, and stored at -80C until RNA extractions were performed.

tag: Axillary buds harvestedf rom shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 500 hr of chilling.

source_name: axillary buds collected at 1000 hr of accumulated chilling

treatment_protocol: Axillary buds were collected from intact plants after 1000 hours of chilling.  Buds were excised, frozen in liquid nitrogen, and stored at -80C until RNA extractions were performed.

tag: Axillary buds harvestedf rom shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 1000 hr of chilling.


title: grape buds 1000hr vs 1500hr chilling rep 3

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 1000 hr of chilling.

source_name: axillary buds collected at 1500 hr of accumulated chilling

treatment_protocol: Axillary buds were collected from intact plants after 1500 hours of chilling.  Buds were excised, frozen in liquid nitrogen, and stored at -80C until RNA extractions were performed.

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 1500 hr of chilling.


title: grape buds 2000hr vs 0hr chilling rep 2

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 2000 hr of chilling.

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 0 hr of chilling.


title: grape buds 1500hr vs 2000hr chilling rep 2


title: SLN:1594 - A - mAdbID:38531

description: mAdb experiment ID: 38531

value: Follow up status:alive

value: Follow up years:11.19

value: Immune response 1:9.25

value: Immune response 2:8.59

value: With translocation:NA


title: grape buds 1500hr vs 2000hr chilling rep 3


title: grape buds 0hr vs 500hr chilling rep 3

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 500 hr of chilling.


title: SLN:1628 - A - mAdbID:38650

description: mAdb experiment ID: 38650

value: Follow up status:dead

value: Follow up years:0.82

value: Stage >2:no

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.8

value: Immune response 2:8.72


title: grape buds 0hr vs 500hr chilling rep 2

source_name: axillary bud collected at 0 hr of accumulated chilling


title: grape buds 1000hr vs 1500hr chilling rep 2


title: SLN:1426 - B - mAdbID:38050

description: mAdb experiment ID: 38050

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:7.32

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9.08

value: Immune response 2:8.26

value: With translocation:yes


title: SLN:1425 - B - mAdbID:38049

description: mAdb experiment ID: 38049

value: Follow up status:alive

value: Follow up years:4.26

value: Age >60:yes

value: IPI score:2

value: Immune response 1:8.93

value: Immune response 2:8.5


title: SLN:1428 - B - mAdbID:38051

description: mAdb experiment ID: 38051

value: Follow up status:dead

value: Follow up years:5.41

value: Stage >2:no

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:9.22

value: Immune response 2:8.44


title: grape buds 2000hr vs 0hr chilling rep 1

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that has accumulated 2000 hr of chilling.

tag: Axillary buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that has accumulated 0 hr of chilling.


title: grape buds 1000hr vs 1500hr chilling rep 1

tag: Axillarys buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 1000 hr of chilling.

tag: Axillarys buds harvested from shoot basal nodes 3 to 12.  Buds were harvested from plants that had accumulated 1500 hr of chilling.


title: SLN:1591 - A - mAdbID:38530

description: mAdb experiment ID: 38530

tag: tissue

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:11.22

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.49

value: Immune response 2:8.62


title: grape buds 500hr vs 1000hr chilling rep 2


title: grape buds 0hr vs 500hr chilling rep 1


title: grape buds 1500hr vs 2000hr chilling rep 1


title: SLN:1419 - B - mAdbID:38047

description: mAdb experiment ID: 38047

tag: disease state

value: Follow up status:alive

value: Follow up years:3.85

value: Stage >2:yes

value: Immune response 1:9.82

value: Immune response 2:8.56

value: With translocation:no


title: SLN:1422 - B - mAdbID:38048

description: mAdb experiment ID: 38048

tag: individual

value: Follow up years:5.72

value: Stage >2:no

value: Immune response 1:9.46

value: Immune response 2:8.49

value: With translocation:NA


title: grape buds 500hr vs 1000hr chilling rep 1


title: SLN:1589 - A - mAdbID:38200

description: mAdb experiment ID: 38200

value: Lymph node

value: Follicular Lymphoma

tag: clinical info

value: Follow up years:3.15

value: LDH ratio >1:no

value: Immune response 1:9.72

value: Immune response 2:8.74

value: With translocation:yes


title: SLN:1588 - A - mAdbID:38201

description: mAdb experiment ID: 38201

value: Follow up status:dead

value: Follow up years:0.49

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: Age >60:no

value: IPI score:2

value: Immune response 1:9.52

value: Immune response 2:9.06


title: SLN:1586 - A - mAdbID:38198

description: mAdb experiment ID: 38198

value: Follow up status:alive

value: Follow up years:3.11

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: IPI score:1

value: Immune response 1:9.38

value: Immune response 2:8.55


title: SLN:1416 - B - mAdbID:38045

description: mAdb experiment ID: 38045

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:6.21

value: LDH ratio >1:no

value: Immune response 1:9.5

value: Immune response 2:8.67


title: SLN:1585 - A - mAdbID:38197

description: mAdb experiment ID: 38197

value: Follow up years:0.01

value: Stage >2:NA

value: LDH ratio >1:NA

value: Age >60:yes

value: IPI score:NA

value: Immune response 1:8.96

value: Immune response 2:8.53

value: With translocation:yes


title: SLN:1417 - B - mAdbID:38046

description: mAdb experiment ID: 38046

value: Follow up status:dead

value: Follow up years:2.4

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:8.47

value: Immune response 2:8.39


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_Hyb3

city: Vancouver

first: Joerg

last: Bohlmann

state: BC

department: Michael Smith Laboratories

country: Canada

institute: University of British Columbia

description: Gene expression.

hyb_protocol: cDNAs samples were precipitated with linear acrylamide and resuspended in a 45 µL hybridization solution consisting of 25% formamide, 4x SSC, 0.5% SDS, 2x Denhardt’s solution, 1 mM EDTA, 4.0 µL LNA d(T) blocker, 2 µg sheared salmon testes DNA (Invitrogen) and 0.75 µL of Cy5-labeled GFP cDNA (Cy5-dUTP and Ready-To-Go labeling beads, Amersham Pharmacia Biotech). Immediately prior to use, arrays were pre-washed 3´ in 0.1% SDS at room temperature for 5 min each, followed by two washes in MilliQ-H2O for 2 min each, 3 min at 95°C in MilliQ-H2O, and dried by centrifugation (3 minutes at 2000 rpm in an IEC Centra CL2 centrifuge with rotor IEC 2367-00 in 50 mL conical tube). The cDNA probe was heat denatured at 80°C for 10 min, then maintained at 65°C prior to adding to a microarray slide heated to 55°C, covered with a 22 ´ 60 ´ 1.5 mm glass coverslip (Fisher Scientific), and incubated for 16 h at 48°C. Arrays were washed in 2´ SSC, 0.2% SDS at room temperature for 5 min to remove the coverslip, followed by 15 min at 65°C in the same solution, then three washes of 5 min in 2´ SSC at room temperature, and three washes of 5 min in 0.2´ SSC at room temperature, and dried by centrifugation. The Cy3 and Cy5 3DNA capture reagent (Genisphere) were then hybridized to the bound cDNA on the microarray in a 45 µL volume consisting of 25% formamide, 4x SSC, 0.5% SDS, 2x Denhardt’s solution, 1 mM EDTA,, 2.5 µL Cy3 capture reagent and 2.5 µL Cy5 capture reagent. The 3DNA capture reagent is bound to its complementary cDNA capture sequence on the Cy3 or Cy5 oligo d(T) primers. The second hybridization was performed for 3 h at 48°C, then washed and dried as before.

scan_protocol: Fluorescent images of hybridized arrays were acquired by using ScanArray Express (PerkinElmer, Foster City, USA). The Cy3 and Cy5 cyanine fluors were excited at 543 nm and 633 nm, respectively. All scans were performed at the same laser power (90%), but with the photomultiplier tube settings for the two channels adjusted such that the ratio of the mean signal intensities was ~1, and the percentage of saturated array elements was < 0.5% but > 0%, while minimizing background fluorescence. Fluorescent intensity data were extracted by using the ImaGene 5.5 software (Biodiscovery, El Segundo, USA).

data_processing: Before data normalization, the lowest 10% of median foreground intensities was subtracted from the median foreground intensities to correct for background intensity. After quantification of the signal intensities, data were normalized to compensate for non-linearity of intensity distributions using the vsn method (Huber et al., 2002 Bioinformatics 18: S96-S104). For the oral secretion treatment using pooled biological replicates, pooled total RNA from sink leaves of treated and untreated trees was compared using four hybridizations, with dye balance. For the oral secretion treatment using independent biological replicates, total RNA from leaves of four individual treated trees and four individual control trees was compared using four hybridizations, with dye balance. To assess the transcriptional response to stress treatments, a linear mixed-effects model was fitted to the normalized intensities in the Cy3 and Cy5 channels of each experiment using 8 microarray slides. The model contained an adjustment for dye effect, an array effect indicating which Cy5/Cy3 pair was on each array, and a treatment effect. Expression variance was obtained from a combination of technical and biological variance. Next, the ratio of the treatment minus untreated control parameter estimate to the standard error was used to calculate a t statistic and P value. The Q value for each effect and gene was calculated for each of the models to adjust for the false discovery rate (Storey and Tibshirani et al., 2003). All statistical analyses were performed within the R statistical package (version 2.5.1; http://www.r-project.org/).

organism: Populus trichocarpa x Populus deltoides

source_name: Hybrid poplar, untreated control for 2 hours, systemic sink leaves

label_protocol: Hybridizations were performed using the Genisphere Array350 kit (Genisphere) following manufacturer’s instructions. Forty µg total RNA was reverse transcribed using Superscript II reverse transcriptase (Invitrogen) and oligo d(T18) primers with a 5’ unique sequence overhang specific to either the Cy3 or Cy5 labeling reactions. The RNA strand of the resulting cDNA:RNA hybrid was hydrolyzed in 0.075 M NaOH / 0.0075 M EDTA at 65°C for 15 min followed by neutralization in 0.175 M Tris-HCl (pH 8.0).

growth_protocol: Trees were grown under standard greenhouse conditions. See Ralph et al. (2006) Molecular Ecology 15: 1275-1297.

extract_protocol: Total RNA was isolated according to procedures described in Kolosova et al. (2004) (Biotechniques 36: 821-824). Total RNA was quantified and quality checked by spectrophotometer and agarose gel. Poly(A)+ RNA was isolated by oligo d(T) cellulose using the Poly(A) Pure kit (Ambion, Austin, USA), following manufacturer's instructions. RNA was also evaluated for integrity and the presence of contaminants using reverse transcription with Superscript II reverse transcriptase (Invitrogen, Carlsbad, USA) with an oligo d(T18) primer and _P32 dGTP incorporation. After removal of unincorporated nucleotides using gel filtration columns (Microspin S-300 HR columns, Amersham Pharmacia Biotech, Buckinghamshire, UK) the resulting cDNA smear was resolved using a vertical 1% agarose alkaline gel and visualized using a Storm 860 phosphorimager (Amersham Pharmacia Biotech).

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic sink leaves were harvested 2 hours after the initiation of the experiment.

value: sink leaf

tag: genotype

tag: experimental protocol

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic sink leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic sink leaves were harvested 2 hours after the initiation of treatment.


title: SLN:1184 - B - mAdbID:38042

description: mAdb experiment ID: 38042

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:6.93

value: Stage >2:no

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.66

value: Immune response 2:8.83


title: SLN:1583 - A - mAdbID:38195

description: mAdb experiment ID: 38195

value: Follow up status:dead

value: Follow up years:15.26

value: Age >60:no

value: Immune response 1:9.47

value: Immune response 2:8.79

value: With translocation:yes


title: SLN:1185 - B - mAdbID:38043

description: mAdb experiment ID: 38043

value: Follow up years:7.02

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9.23

value: Immune response 2:9.09


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_IndividualTree_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 2 hours, systemic sink leaves, tree #3

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic sink leaves, tree #3


title: SLN:1186 - B - mAdbID:38044

description: mAdb experiment ID: 38044

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:1.34

value: LDH ratio >1:no

value: Immune response 1:9.01

value: Immune response 2:8.84


title: SLN:1183 - B - mAdbID:38041

description: mAdb experiment ID: 38041

value: Follow up status:dead

value: Follow up years:11.56

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.31

value: Immune response 2:8.53


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_Hyb4

description: Gene expression.

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: SLN:1584 - A - mAdbID:38196

description: mAdb experiment ID: 38196

value: Follow up years:15.73

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: IPI score:2

value: Immune response 1:9.44

value: Immune response 2:8.55

value: With translocation:NA


title: SLN:1580 - A - mAdbID:38186

description: mAdb experiment ID: 38186

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:19.3

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:9.58

value: Immune response 2:8.52


title: SLN:1581 - A - mAdbID:38187

description: mAdb experiment ID: 38187

value: Follow up status:dead

value: Follow up years:9.52

value: Age >60:yes

value: Immune response 1:9.08

value: Immune response 2:9.02

value: With translocation:yes


title: SLN:1107 - B - mAdbID:38040

description: mAdb experiment ID: 38040

value: Follow up years:5.01

value: Stage >2:yes

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.41

value: Immune response 2:9.32


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_IndividualTree_Hyb2

description: Gene expression.

source_name: Hybrid poplar, untreated control for 2 hours, systemic sink leaves, tree #5

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic sink leaves, tree #4


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_IndividualTree_Hyb4

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic sink leaves, tree #5

source_name: Hybrid poplar, untreated control for 2 hours, systemic sink leaves, tree #2


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_IndividualTree_Hyb3

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic sink leaves, tree #2

source_name: Hybrid poplar, untreated control for 2 hours, systemic sink leaves, tree #4


title: SLN:1106 - B - mAdbID:38039

description: mAdb experiment ID: 38039

value: Lymph node

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:7.94

value: Number of extranodal sites >1:yes

value: IPI score:2

value: Immune response 1:9.13

value: Immune response 2:9.19


title: SLN:1479 - A - mAdbID:38183

description: mAdb experiment ID: 38183

value: Follow up status:dead

value: Follow up years:2.29

value: Stage >2:yes

value: Age >60:yes

value: Immune response 1:8.71

value: Immune response 2:9.07

value: With translocation:yes


title: SLN:1081 - B - mAdbID:38038

description: mAdb experiment ID: 38038

value: Follow up years:6.61

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9

value: Immune response 2:8.22


title: HybridPoplar_H11-11_UntreatedControl2hSource_vs_UntreatedControl2hSink_Hyb1

description: Gene expression.

hyb_protocol: Following pooling of the appropriate cDNAs, samples were precipitated with linear acrylamide and resuspended in a 45 µL hybridization solution consisting of 25% formamide, 4x SSC, 0.5% SDS, 2x Denhardt’s solution, 1 mM EDTA, 4.0 µL LNA d(T) blocker, 2 µg sheared salmon testes DNA (Invitrogen) and 0.75 µL of Cy5-labeled GFP cDNA (Cy5-dUTP and Ready-To-Go labeling beads, Amersham Pharmacia Biotech). Immediately prior to use, arrays were pre-washed 3´ in 0.1% SDS at room temperature for 5 min each, followed by two washes in MilliQ-H2O for 2 min each, 3 min at 95°C in MilliQ-H2O, and dried by centrifugation (3 minutes at 2000 rpm in an IEC Centra CL2 centrifuge with rotor IEC 2367-00 in 50 mL conical tube). The cDNA probe was heat denatured at 80°C for 10 min, then maintained at 65°C prior to adding to a microarray slide heated to 55°C, covered with a 22 ´ 60 ´ 1.5 mm glass coverslip (Fisher Scientific), and incubated for 16 h at 48°C. Arrays were washed in 2´ SSC, 0.2% SDS at room temperature for 5 min to remove the coverslip, followed by 15 min at 65°C in the same solution, then three washes of 5 min in 2´ SSC at room temperature, and three washes of 5 min in 0.2´ SSC at room temperature, and dried by centrifugation. The Cy3 and Cy5 3DNA capture reagent (Genisphere) were then hybridized to the bound cDNA on the microarray in a 45 µL volume consisting of 25% formamide, 4x SSC, 0.5% SDS, 2x Denhardt’s solution, 1 mM EDTA,, 2.5 µL Cy3 capture reagent and 2.5 µL Cy5 capture reagent. The 3DNA capture reagent is bound to its complementary cDNA capture sequence on the Cy3 or Cy5 oligo d(T) primers. The second hybridization was performed for 3 h at 48°C, then washed and dried as before.

data_processing: Before data normalization, the lowest 10% of median foreground intensities was subtracted from the median foreground intensities to correct for background intensity. After quantification of the signal intensities, data were normalized to compensate for non-linearity of intensity distributions using the vsn method (Huber et al., 2002 Bioinformatics 18: S96-S104). For the oral secretion treatment using pooled biological replicates, total RNA from treated and untreated control leaves of the same source/sink group was compared using a balanced loop consisting of direct and indirect comparisons across treatments and time points, with dye balance, using a total of 54 hybridizations. To assess the transcriptional response to stress treatments, a linear mixed-effects model was fitted to the normalized intensities in the Cy3 and Cy5 channels of each experiment using 54 microarray slides. The model contained an adjustment for dye effect, an array effect indicating which Cy5/Cy3 pair was on each array, and a treatment effect indicating treatment and time point. Expression variance was obtained from technical variance among slides. Next, the ratio of the treatment minus untreated control parameter estimate to the standard error was used to calculate a t statistic and P value. The Q value for each effect and gene was calculated for each of the models to adjust for the false discovery rate (Storey and Tibshirani et al., 2003). All statistical analyses were performed within the R statistical package (version 2.5.1; http://www.r-project.org/).

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, untreated control for 2 hours, systemic source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic source leaves were harvested 2 hours after the initiation of the experiment.

value: Six month old clonal trees grown under greenhouse conditions. Five leaves acropetally adjacent to treatment leaves were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sources in relation to treated source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: HybridPoplar_H11-11_UntreatedControl24hLocal_vs_UntreatedControl24hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 24 hours, local source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Local/treated source leaves were harvested 24 hours after the initiation of the experiment.

value: Six month old clonal trees grown under greenhouse conditions. The five lowest, fully-expanded, healthy leaves with petioles removed were harvested from five trees subjected to the same treatment. Leaves act as carbon sources in relation to systemic source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, untreated control for 24 hours, systemic sink leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic sink leaves were harvested 24 hours after the initiation of the experiment.


title: HybridPoplar_H11-11_UntreatedControl6hLocal_vs_UntreatedControl6hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 6 hours, local source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Local/treated source leaves were harvested 6 hours after the initiation of the experiment.

source_name: Hybrid poplar, untreated control for 6 hours, systemic sink leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic sink leaves were harvested 6 hours after the initiation of the experiment.


title: HybridPoplar_H11-11_OralSecretion24hLocal_vs_OralSecretion24hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 24 hours, local source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Local/treated source leaves were harvested 24 hours after the initiation of treatment.

source_name: Hybrid poplar, oral secretion treatment for 24 hours, systemic sink leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic sink leaves were harvested 24 hours after the initiation of treatment.


title: SLN:1579 - A - mAdbID:38185

description: mAdb experiment ID: 38185

value: Lymph node

value: Follicular Lymphoma

value: Follow up years:8.22

value: Age >60:no

value: IPI score:2

value: Immune response 1:8.81

value: Immune response 2:8.44


title: SLN:1478 - A - mAdbID:38181

description: mAdb experiment ID: 38181

value: Follow up status:dead

value: Follow up years:12.47

value: Stage >2:no

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.6

value: Immune response 2:8.87

value: With translocation:no


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_UntreatedControl6hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 2 hours, systemic sink leaves

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: SLN:1477 - A - mAdbID:38180

description: mAdb experiment ID: 38180

value: Lymph node

value: Follow up years:0.59

value: Stage >2:yes

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Age >60:yes

value: Immune response 1:9.64

value: Immune response 2:9.06

value: With translocation:yes


title: SLN:1104 - B - mAdbID:37974

description: mAdb experiment ID: 37974

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:8.42

value: Stage >2:no

value: IPI score:2

value: Immune response 1:9.3

value: Immune response 2:8.27


title: SLN:1476 - A - mAdbID:38179

description: mAdb experiment ID: 38179

value: Follow up years:4.08

value: Immune response 1:9.51

value: Immune response 2:8.87


title: SLN:1473 - A - mAdbID:38177

description: mAdb experiment ID: 38177

value: Lymph node

value: Follow up status:alive

value: Follow up years:15.07

value: Stage >2:yes

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.75

value: Immune response 2:8.5


title: HybridPoplar_H11-11_UntreatedControl6hSource_vs_UntreatedControl24hSource_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 6 hours, systemic source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic source leaves were harvested 6 hours after the initiation of the experiment.

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Five leaves acropetally adjacent to treatment leaves were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sources in relation to treated source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, untreated control for 24 hours, systemic source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic source leaves were harvested 24 hours after the initiation of the experiment.


title: SLN:888 - B - mAdbID:37975

description: mAdb experiment ID: 37975

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:1.32

value: Number of extranodal sites >1:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:8.76

value: Immune response 2:8.49

value: With translocation:yes


title: SLN:739 - B - mAdbID:37971

description: mAdb experiment ID: 37971

value: Lymph node

value: Follow up years:10.8

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: Immune response 1:9.29

value: Immune response 2:8.77


title: SLN:738 - B - mAdbID:37970

description: mAdb experiment ID: 37970

value: Follow up years:10.15

value: LDH ratio >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.19

value: Immune response 2:8.79


title: SLN:1474 - A - mAdbID:38178

description: mAdb experiment ID: 38178

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:2.75

value: LDH ratio >1:yes

value: Number of extranodal sites >1:yes

value: IPI score:3

value: Immune response 1:9.34

value: Immune response 2:9.1


title: HybridPoplar_H11-11_UntreatedControl2hLocal_vs_UntreatedControl24hLocal_Hyb1

description: Gene expression.

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. The five lowest, fully-expanded, healthy leaves with petioles removed were harvested from five trees subjected to the same treatment. Leaves act as carbon sources in relation to systemic source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, untreated control for 2 hours, local source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Local/treated source leaves were harvested 2 hours after the initiation of the experiment.


title: SLN:878 - B - mAdbID:37972

description: mAdb experiment ID: 37972

value: Lymph node

value: Follow up years:3.87

value: Stage >2:yes

value: Age >60:yes

value: Immune response 1:8.85

value: Immune response 2:8.54

value: With translocation:yes


title: SLN:1472 - A - mAdbID:38176

description: mAdb experiment ID: 38176

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:16.72

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 2:8.49


title: HybridPoplar_H11-11_OralSecretion2hLocal_vs_OralSecretion2hSource_Hyb1

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic source leaves were harvested 2 hours after the initiation of treatment.

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Five leaves acropetally adjacent to treatment leaves were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sources in relation to treated source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, local source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Local/treated source leaves were harvested 2 hours after the initiation of treatment.


title: SLN:886 - B - mAdbID:37973

description: mAdb experiment ID: 37973

value: Lymph node

value: Follow up years:3.29

value: Immune response 1:9.43

value: Immune response 2:8.72


title: HybridPoplar_H11-11_OralSecretion6hSource_vs_OralSecretion24hSource_Hyb1

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 6 hours, systemic source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic source leaves were harvested 6 hours after the initiation of treatment.

source_name: Hybrid poplar, oral secretion treatment for 24 hours, systemic source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic source leaves were harvested 24 hours after the initiation of treatment.


title: HybridPoplar_H11-11_UntreatedControl2hLocal_vs_UntreatedControl6hLocal_Hyb1

description: Gene expression.

value: Six month old clonal trees grown under greenhouse conditions. The five lowest, fully-expanded, healthy leaves with petioles removed were harvested from five trees subjected to the same treatment. Leaves act as carbon sources in relation to systemic source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: HybridPoplar_H11-11_UntreatedControl2hSource_vs_UntreatedControl6hSource_Hyb1

description: Gene expression.


title: SLN:1099 - B - mAdbID:37964

description: mAdb experiment ID: 37964

value: Follow up years:7.65

value: Stage >2:no

value: LDH ratio >1:NA

value: Immune response 1:9.73

value: Immune response 2:9.04


title: SLN:1432 - A - mAdbID:38000

description: mAdb experiment ID: 38000

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:3.66

value: LDH ratio >1:no

value: Immune response 1:9.22

value: Immune response 2:8.95

value: With translocation:yes


title: SLN:1429 - A - mAdbID:37996

description: mAdb experiment ID: 37996

value: Lymph node

value: Follow up status:NA

value: Follow up years:

value: Stage >2:yes

value: Number of extranodal sites >1:no

value: Age >60:yes

value: IPI score:NA

value: Immune response 1:8.69

value: Immune response 2:8.28


title: SLN:1450 - A - mAdbID:38175

description: mAdb experiment ID: 38175

value: Follow up status:dead

value: Follow up years:0.65

value: LDH ratio >1:yes

value: Age >60:no

value: IPI score:2

value: Immune response 1:9.83

value: Immune response 2:9.99


title: SLN:1097 - B - mAdbID:37962

description: mAdb experiment ID: 37962

value: Follicular Lymphoma

value: Follow up years:8.79

value: Stage >2:no

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.87

value: Immune response 2:8.92

value: With translocation:yes


title: SLN:1102 - B - mAdbID:37965

description: mAdb experiment ID: 37965

value: Lymph node

value: Follow up years:13.2

value: Stage >2:yes

value: Number of extranodal sites >1:yes

value: Immune response 1:9.45

value: Immune response 2:8.89


title: SLN:1098 - B - mAdbID:37963

description: mAdb experiment ID: 37963

value: Follow up status:dead

value: Follow up years:5.34

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:2

value: Immune response 1:9.33

value: Immune response 2:8.81


title: SLN:1418 - A - mAdbID:37993

description: mAdb experiment ID: 37993

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:3.59

value: LDH ratio >1:yes

value: IPI score:3

value: Immune response 1:8.94

value: Immune response 2:8.42


title: SLN:1088 - B - mAdbID:37951

description: mAdb experiment ID: 37951

value: Lymph node

value: Follow up years:5.3

value: Stage >2:yes

value: LDH ratio >1:no

value: IPI score:1

value: Immune response 1:9.22

value: Immune response 2:8.47

value: With translocation:yes


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_Hyb2

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 2 hours, systemic sink leaves

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: SLN:1090 - B - mAdbID:37960

description: mAdb experiment ID: 37960

value: Follicular Lymphoma

value: Follow up years:10.2

value: Number of extranodal sites >1:no

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.27

value: Immune response 2:8.37


title: SLN:1081 - A - mAdbID:38006

description: mAdb experiment ID: 38006

value: Lymph node

value: Follow up status:alive

value: Follow up years:6.61

value: LDH ratio >1:yes

value: Immune response 1:9

value: Immune response 2:8.22


title: SLN:1428 - A - mAdbID:37995

description: mAdb experiment ID: 37995

value: Follow up status:dead

value: Follow up years:5.41

value: Stage >2:no

value: LDH ratio >1:NA

value: IPI score:NA

value: Immune response 1:9.22

value: Immune response 2:8.44


title: SLN:1427 - A - mAdbID:37992

description: mAdb experiment ID: 37992

value: Follicular Lymphoma

value: Follow up years:5.22

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:8.57

value: Immune response 2:8.28

value: With translocation:yes


title: SLN:1089 - B - mAdbID:37959

description: mAdb experiment ID: 37959

value: Lymph node

value: Follow up status:alive

value: Follow up years:10.72

value: Stage >2:yes

value: Immune response 1:9.42

value: Immune response 2:8.35


title: SLN:1087 - B - mAdbID:37950

description: mAdb experiment ID: 37950

value: Follow up years:8.19

value: Stage >2:no

value: Immune response 1:9.98

value: Immune response 2:9.27


title: HybridPoplar_H11-11_OralSecretion6hSource_vs_OralSecretion6hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 6 hours, systemic sink leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic sink leaves were harvested 6 hours after the initiation of treatment.

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

value: Six month old clonal trees grown under greenhouse conditions. Five leaves acropetally adjacent to treatment leaves were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sources in relation to treated source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: HybridPoplar_H11-11_UntreatedControl2hSource_vs_OralSecretion2hSource_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 2 hours, systemic source leaves


title: HybridPoplar_H11-11_OralSecretion2hSource_vs_OralSecretion6hSource_Hyb1

description: Gene expression.


title: SLN:1426 - A - mAdbID:37991

description: mAdb experiment ID: 37991

value: Follicular Lymphoma

value: Follow up years:7.32

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.08

value: Immune response 2:8.26


title: SLN:1086 - B - mAdbID:37949

description: mAdb experiment ID: 37949

value: Lymph node

value: Follow up status:dead

value: Follow up years:1.98

value: Stage >2:yes

value: Immune response 1:9.49

value: Immune response 2:9.09

value: With translocation:yes


title: HybridPoplar_H11-11_UntreatedControl24hSource_vs_OralSecretion24hSource_Hyb2

description: Gene expression.

value: sink leaf


title: HybridPoplar_H11-11_OralSecretion2hSource_vs_OralSecretion24hSource_Hyb1

description: Gene expression.

value: Six month old clonal trees grown under greenhouse conditions. Five leaves acropetally adjacent to treatment leaves were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sources in relation to treated source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: HybridPoplar_H11-11_OralSecretion6hSink_vs_OralSecretion24hSink_Hyb1

description: Gene expression.

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: SLN:1417 - A - mAdbID:37994

description: mAdb experiment ID: 37994

value: Follicular Lymphoma

value: Follow up years:2.4

value: Age >60:yes

value: IPI score:2

value: Immune response 1:8.47

value: Immune response 2:8.39


title: HybridPoplar_H11-11_UntreatedControl6hLocal_vs_UntreatedControl6hSource_Hyb1

description: Gene expression.

value: Six month old clonal trees grown under greenhouse conditions. The five lowest, fully-expanded, healthy leaves with petioles removed were harvested from five trees subjected to the same treatment. Leaves act as carbon sources in relation to systemic source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: HybridPoplar_H11-11_OralSecretion6hLocal_vs_OralSecretion6hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 6 hours, local source leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Local/treated source leaves were harvested 6 hours after the initiation of treatment.


title: SLN:1083 - B - mAdbID:37947

description: mAdb experiment ID: 37947

value: Lymph node

value: Follow up status:alive

value: Follow up years:10.01

value: Stage >2:no

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.82

value: Immune response 2:8.72


title: SLN:1080 - B - mAdbID:37946

description: mAdb experiment ID: 37946

value: Follicular Lymphoma

value: Follow up years:6.05

value: Stage >2:yes

value: Immune response 1:9.45

value: Immune response 2:8.94

value: With translocation:yes


title: SLN:1085 - B - mAdbID:37948

description: mAdb experiment ID: 37948

value: Follow up years:8.84

value: LDH ratio >1:yes

value: Age >60:yes

value: IPI score:2

value: Immune response 1:9.31

value: Immune response 2:8.58


title: SLN:1422 - A - mAdbID:37989

description: mAdb experiment ID: 37989

value: Lymph node

value: Follow up status:alive

value: Follow up years:5.72

value: Stage >2:no

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Immune response 1:9.46

value: Immune response 2:8.49

value: With translocation:NA


title: SLN:1416 - A - mAdbID:37987

description: mAdb experiment ID: 37987

value: Follicular Lymphoma

value: Follow up years:6.21

value: Stage >2:yes

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.5

value: Immune response 2:8.67


title: SLN:1419 - A - mAdbID:37988

description: mAdb experiment ID: 37988

value: Follow up years:3.85

value: Immune response 1:9.82

value: Immune response 2:8.56

value: With translocation:no


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_UntreatedControl24hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 24 hours, systemic sink leaves

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic sink leaves were harvested 2 hours after the initiation of the experiment.


title: SLN:1186 - A - mAdbID:37985

description: mAdb experiment ID: 37985

value: Lymph node

value: Follow up status:dead

value: Follow up years:1.34

value: LDH ratio >1:no

value: Number of extranodal sites >1:no

value: Immune response 1:9.01

value: Immune response 2:8.84

value: With translocation:yes


title: SLN:1077 - B - mAdbID:37942

description: mAdb experiment ID: 37942

value: Follicular Lymphoma

value: Follow up status:alive

value: Follow up years:7.06

value: Stage >2:yes

value: Age >60:no

value: IPI score:1

value: Immune response 1:9.8

value: Immune response 2:8.46


title: SLN:1078 - B - mAdbID:37945

description: mAdb experiment ID: 37945

value: Follow up years:4.95

value: Stage >2:no

value: Immune response 1:9.32

value: Immune response 2:8.23


title: SLN:1425 - A - mAdbID:37990

description: mAdb experiment ID: 37990

value: Lymph node

value: Follow up years:4.26

value: LDH ratio >1:no

value: Age >60:yes

value: IPI score:2

value: Immune response 1:8.93

value: Immune response 2:8.5


title: SLN:1185 - A - mAdbID:37983

description: mAdb experiment ID: 37983

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:7.02

value: Number of extranodal sites >1:no

value: Immune response 1:9.23

value: Immune response 2:9.09

value: With translocation:yes


title: UPF2_knockdown_biological_replicate_3

city: Berkeley

first: Kasper

middle: Daniel

last: Hansen

state: CA

address: 461 Koshland Hall

department: PMB

institute: UC Berkeley

hyb_protocol: A custom protocol, see Blanchette et al. (2005) Genes Dev, PMID: 15937219 as well as Castle et al. (2003) Genome Biology, PMID: 14519201

scan_protocol: Feature Extractor version 7.5.1. Scanner settings can be found in the raw data file.

data_processing: Arrays were background corrected using the normexp methods with an offset of 10, from the limma package from Bioconductor version 2.2. After background correction, the two channels were normalized using loess. The normalized data are on the log2 scale.

organism: Drosophila melanogaster

source_name: Schneider SL2

label_protocol: A custom labeling protocol described in Blanchette et al. (2005) Genes Dev., PMID: 15937219

extract_protocol: Total RNA was isolated using TRIzol Reagent (Life Technologies). For more detail see  Rehwinkel et al. (2005) RNA, PMID: 16199763

tag: RNAi knockdown of Upf2, extracted at day 8 after a re-knockdown at day 4, as described in Rehwinkel et al. (2005) RNA, PMID

tag: SL2 Cell line, for more detail see Rehwinkel et al. (2005) RNA, PMID


title: SLN:1074 - B - mAdbID:37932

description: mAdb experiment ID: 37932

value: Follow up years:4.52

value: Stage >2:yes

value: Immune response 1:9.1

value: Immune response 2:8.57


title: UPF2_knockdown_biological_replicate_2


title: UPF1_knockdown_biological_replicate_2

tag: RNAi knockdown of Upf1, extracted at day 8 after a re-knockdown at day 4, as described in Rehwinkel et al. (2005) RNA, PMID


title: HybridPoplar_H11-11_UntreatedControl6hLocal_vs_OralSecretion6hLocal_Hyb2

description: Gene expression.

value: sink leaf

value: Six month old clonal trees grown under greenhouse conditions. The five lowest, fully-expanded, healthy leaves with petioles removed were harvested from five trees subjected to the same treatment. Leaves act as carbon sources in relation to systemic source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

source_name: Hybrid poplar, untreated control for 6 hours, local source leaves


title: HybridPoplar_H11-11_UntreatedControl6hSource_vs_UntreatedControl6hSink_Hyb1

description: Gene expression.

source_name: Hybrid poplar, untreated control for 6 hours, systemic sink leaves

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic sinkleaves were harvested 6 hours after the initiation of the experiment.

value: Six month old clonal trees grown under greenhouse conditions. Leaves at the crown with a midvein length < 6cm were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sinks in relation to systemic source and treated source leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.

value: Six month old clonal trees grown under greenhouse conditions. Five leaves acropetally adjacent to treatment leaves were harvested with petioles removed from five trees subjected to the same treatment. Leaves act as carbon sources in relation to treated source and systemic sink leaves. RNA was isolated individually from each of the five trees and then pooled prior to cDNA synthesis.


title: HybridPoplar_H11-11_UntreatedControl2hSink_vs_OralSecretion2hSink_Hyb1

description: Gene expression.

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags. For oral secretion treatments, four 10 cm strips were punctured parallel to the midrib on each of the five caged leaves with a pattern wheel, and 20 microL of forest tent caterpillar oral secretion was also applied to the wound sites. Systemic sink leaves were harvested 2 hours after the initiation of treatment.


title: HybridPoplar_H11-11_OralSecretion2hLocal_vs_OralSecretion24hLocal_Hyb1

description: Gene expression.

source_name: Hybrid poplar, oral secretion treatment for 24 hours, local source leaves


title: SLN:1184 - A - mAdbID:37982

description: mAdb experiment ID: 37982

value: Lymph node

value: Follow up years:6.93

value: Stage >2:no

value: LDH ratio >1:no

value: Age >60:yes

value: IPI score:1

value: Immune response 1:9.66

value: Immune response 2:8.83


title: HybridPoplar_H11-11_UntreatedControl2hSource_vs_UntreatedControl24hSource_Hyb1

description: Gene expression.

treatment_protocol: Five lowest, fully-expanded, healthy source leaves were caged on each tree using nylon mesh bags, but were otherwise left untreated. Systemic source leaves were harvested 2 hours after the initiation of the experiment.


title: UPF1_knockdown_biological_replicate_3


title: UPF2_knockdown_biological_replicate_1


title: SLN:735 - B - mAdbID:36966

description: mAdb experiment ID: 36966

value: Follicular Lymphoma

value: Follow up status:dead

value: Follow up years:11.05

value: LDH ratio >1:yes

value: Number of extranodal sites >1:no

value: Age >60:no

value: IPI score:2

value: Immune response 1:8.81

value: Immune response 2:8.23

value: With translocation:yes