Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34557	0.336
27DAP/17DAP	1.83752	0.758
39DAP/27DAP	1.64174	0.489
41DAP/39DAP	0.96548	0.807
42DAP/41DAP	0.9089	1
43DAP/42DAP	1.52883	0.906
47DAP/43DAP	1.4095	0.793
52DAP/47DAP	0.98507	0.698
57DAP/52DAP	1.0537	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08871	0.421
17DAP/reference	0.90821	0.368
27DAP/reference	0.94687	0.654
39DAP/reference	0.80139	0.118
41DAP/reference	0.99321	0.814
42DAP/reference	1.23592	0.017
43DAP/reference	0.65422	0.5
47DAP/reference	1.37713	0.001
52DAP/reference	0.77417	0.267
57DAP/reference	0.96262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58905	0.431
27DAP/17DAP	0.7639	0.648
39DAP/27DAP	1.10069	0.492
41DAP/39DAP	0.64511	0.446
42DAP/41DAP	1.65186
43DAP/42DAP	0.8777	0.576
47DAP/43DAP	1.0934	0.877
52DAP/47DAP	0.81629	0.778
57DAP/52DAP	0.57949	0.272
57DAP/7DAP	0.91951	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27354	0.344
17DAP/reference	1.13771	0.477
27DAP/reference	1.08473	0.974
39DAP/reference	1.15066	0.186
41DAP/reference	1.37135	0.251
42DAP/reference	1.48977	0.233
43DAP/reference	1.19147	0.483
47DAP/reference	2.00896	0.048
52DAP/reference	1.56223	0.01
57DAP/reference	1.28258	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59521	0.231
17DAP/reference	2.14541
27DAP/reference	0.9262	0.501
39DAP/reference	0.52998	0.047
41DAP/reference	1.37536	0.01
42DAP/reference	1.12965
43DAP/reference	1.09495	0.863
47DAP/reference	1.37321	0.232
52DAP/reference	N/A	N/A
57DAP/reference	0.81772

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97651	0.566
17DAP/reference	1.14533	0.833
27DAP/reference	2.04105	0.014
39DAP/reference	0.94827	0.693
41DAP/reference	1.25221	0.062
42DAP/reference	1.1104	0.943
43DAP/reference	1.52524	0.223
47DAP/reference	0.87067	0.114
52DAP/reference	1.48702	0.683
57DAP/reference	2.35578	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.37051	0.966
26DAP/20DAP	1.7097	0.099
34DAP/26DAP	0.72461	0.735
51DAP/34DAP	0.92457	0.703
52DAP/51DAP	1.44762
53DAP/52DAP	0.80536
55DAP/53DAP	0.97866	0.908
57DAP/55DAP	N/A	N/A
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.88082

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.48282	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80165	0.321
IL2-6/WTpooled	0.65396	1
IL7-5/WTpooled	1.24238	1
IL7-3/WTpooled	0.8144	0.294
IL12-4/WTpooled	0.775	0.71
IL1-4/WTpooled	1.05397	1
WT/WTpooled	0.93385	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.5154	0.183