Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17859	0.77
27DAP/17DAP	1.6265	0.265
39DAP/27DAP	0.71827	0.435
41DAP/39DAP	1.27019	0.742
42DAP/41DAP	1.16826	0.844
43DAP/42DAP	1.08427	1
47DAP/43DAP	1.16886	0.659
52DAP/47DAP	1.17695	0.615
57DAP/52DAP	1.24684	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93698	0.293
17DAP/reference	1.02624	0.258
27DAP/reference	1.03089	0.709
39DAP/reference	0.97369	0.565
41DAP/reference	0.92858	0.341
42DAP/reference	0.92211	0.027
43DAP/reference	0.90705	0.18
47DAP/reference	0.92684	0.015
52DAP/reference	0.91343	0.258
57DAP/reference	0.83655	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01834	0.785
27DAP/17DAP	0.96627	0.887
39DAP/27DAP	1.17329	0.331
41DAP/39DAP	0.91978	0.586
42DAP/41DAP	1.02529	0.824
43DAP/42DAP	1.13615	0.162
47DAP/43DAP	1.01723	0.948
52DAP/47DAP	0.99211	0.947
57DAP/52DAP	0.95196	0.473
57DAP/7DAP	1.1895	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97432	0.613
17DAP/reference	0.83281	0.056
27DAP/reference	0.78178	0.01
39DAP/reference	0.98804	0.552
41DAP/reference	0.85956	0.07
42DAP/reference	0.999	0.612
43DAP/reference	1.02628	1
47DAP/reference	1.07566	0.43
52DAP/reference	1.13515	0.328
57DAP/reference	1.30031	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06923	0.337
17DAP/reference	0.96637	0.399
27DAP/reference	0.95394	0.317
39DAP/reference	0.89739	0.074
41DAP/reference	0.91803	0.105
42DAP/reference	0.84829	0.011
43DAP/reference	1.10423	0.373
47DAP/reference	0.92526	0.033
52DAP/reference	0.89407	0.034
57DAP/reference	0.96443	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7565	0.037
17DAP/reference	0.9243	0.426
27DAP/reference	0.8576	0.073
39DAP/reference	0.86058	0.018
41DAP/reference	0.7984	0.07
42DAP/reference	0.83251	0.087
43DAP/reference	1.00857	0.767
47DAP/reference	0.93919	0.24
52DAP/reference	1.41084	0.118
57DAP/reference	0.80228	0.05

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95807	1
26DAP/20DAP	1.01124	1
34DAP/26DAP	0.98781	0.991
51DAP/34DAP	1.67983	0.032
52DAP/51DAP	0.95914	1
53DAP/52DAP	1.49874	0.034
55DAP/53DAP	0.9148	0.031
57DAP/55DAP	0.84716	0.437
62DAP/57DAP	0.97677	0.994
68DAP/62DAP	0.94355	0.722
68DAP/14DAP	1.21656	0.504

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94324	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57353	0.147
Mature Green Tomato/Ripe Tomato	0.93071	0.522
Immature Eggplant/Mature Eggplant	1.24756	0.278
Ripe Pepper/Ripe Tomato	0.92402	0.224
Mature Eggplant/Ripe Tomato	0.53203	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06235	1
1-1-2/M82	1.19007
12-2/M82	0.9922
12-4/M82	1.10171
1-3/M82	1.41677
2-1-1/M82	1.29276
2-1/M82	N/A	N/A
2-6/M82	1.21045	0.505
3-2/M82	1.10361	0.395
4-1-1/M82	1.89191	1
4-1/M82	0.87742	0.737
4-3-2/M82	1.05262	1
4-3/M82	1.28254
5-3/M82	1.01468	1
6-2/M82	1.05389
6-3/M82	1.09969
7-1/M82	0.90289
7-2/M82	1.00713
9-3-2/M82	1.14975	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98588	1
IL2-6/WTpooled	1.07527	0.419
IL7-5/WTpooled	0.93841	1
IL7-3/WTpooled	1.11109	1
IL12-4/WTpooled	0.94949	0.71
IL1-4/WTpooled	0.94816	0.834
WT/WTpooled	0.96548	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.14646	0.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03266	0.921
DC3000/delta hrp 6h	1.01532	1
DC3000/delta hrp 12h	1.0099	1
DC3000/delta hrp 24h	1.09461	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.51849	0.042
DC3000 delta B/DC3000 delta AB	1.53781	0.081

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.3016	1
Exp 36h	1.8835	0.326
Exp 60h	2.13291	0.237

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.01553	1
Var 0h	0.98513	1
Var 12h I row2-row1	1.00469	1
Var 12h NI row2-row1	0.83302	0.546
Var 36h I row2-row1	1.11345	0.908
Var 36h NI row2-row1	1.09078	0.482
Var 60h I row2-row1	1.07128	1
Var 60h NI row2-row1	1.02179	0.904
Time course 0hI-0hNI	1.07322	0.486
Time course 12hI-12hNI	0.97973	0.847
Time course 36hI-36hNI	0.94014	0.175
Time course 60hI-60hNI	1.0384	0.426

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.92428	0.33
transgenic ySAMdc/azygous control (breaker)	1.72006	0.161
transgenic ySAMdc/azygous control (red)	1.04647	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02348	0.092

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58131	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00262	1
Manapal/WT (break)	0.97008	1
Manapal/WT (red)	1.0374	1