Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88888	0.496
27DAP/17DAP	1.04549	1
39DAP/27DAP	0.80754	0.286
41DAP/39DAP	1.26687	0.516
42DAP/41DAP	0.88231	1
43DAP/42DAP	0.88158	0.77
47DAP/43DAP	0.97006	0.815
52DAP/47DAP	1.14413	0.942
57DAP/52DAP	0.87381	0.857

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08453	0.207
17DAP/reference	1.04153	0.33
27DAP/reference	0.95567	0.286
39DAP/reference	1.09109	0.157
41DAP/reference	1.14285	0.026
42DAP/reference	0.94802	0.075
43DAP/reference	0.992	0.82
47DAP/reference	0.94883	0.191
52DAP/reference	0.94089	0.283
57DAP/reference	0.97553	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92287	0.363
27DAP/17DAP	1.02306	0.957
39DAP/27DAP	1.12032	0.478
41DAP/39DAP	0.97961	0.968
42DAP/41DAP	1.05479	0.8
43DAP/42DAP	1.08113	0.413
47DAP/43DAP	0.99497	0.985
52DAP/47DAP	1.01576	0.956
57DAP/52DAP	0.92892	0.498
57DAP/7DAP	1.13566	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18213	0.129
17DAP/reference	1.3721	0.025
27DAP/reference	1.05435	0.974
39DAP/reference	1.22218	0.027
41DAP/reference	1.3695	0.027
42DAP/reference	1.20904	0.076
43DAP/reference	1.36002	0.043
47DAP/reference	1.12693	0.595
52DAP/reference	1.27833	0.009
57DAP/reference	1.33083	0.046

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12254	0.269
17DAP/reference	1.13706	0.216
27DAP/reference	0.94211	0.393
39DAP/reference	0.89358	0.06
41DAP/reference	1.23198	0.587
42DAP/reference	0.89311	0.089
43DAP/reference	1.02825	0.814
47DAP/reference	0.92736	0.09
52DAP/reference	1.02776	0.938
57DAP/reference	1.23857	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28765	0.019
17DAP/reference	1.16795	0.163
27DAP/reference	1.30432	0.024
39DAP/reference	1.24671	0.018
41DAP/reference	1.30771	0.01
42DAP/reference	1.1262	0.521
43DAP/reference	1.16392	0.499
47DAP/reference	0.98651	0.574
52DAP/reference	1.21411	0.247
57DAP/reference	0.88087	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05813	0.966
26DAP/20DAP	0.89493	1
34DAP/26DAP	1.11798	1
51DAP/34DAP	0.86413	0.472
52DAP/51DAP	1.11431	0.742
53DAP/52DAP	0.99472	0.978
55DAP/53DAP	1.16329	0.118
57DAP/55DAP	0.91283	0.521
62DAP/57DAP	1.17168	0.158
68DAP/62DAP	1.45354	0.931
68DAP/14DAP	1.9474	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96583	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.2649	0.69
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.89739

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96005	0.883
1-1-2/M82	1.54566
12-2/M82	N/A	N/A
12-4/M82	0.95522	1
1-3/M82	0.68608
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.02318	1
3-2/M82	0.96494
4-1-1/M82	1.04001
4-1/M82	1.28087
4-3-2/M82	0.85648	1
4-3/M82	N/A	N/A
5-3/M82	0.95465	1
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	1.00124

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.0753
WT/WTpooled	N/A	N/A

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	1.02754	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00806	1
DC3000/delta hrp 6h	1.03936	1
DC3000/delta hrp 12h	1.03285	1
DC3000/delta hrp 24h	1.0638	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.36606
DC3000 delta B/DC3000 delta AB	1.03203	0.726

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01898	1
Exp 36h	1.16853	1
Exp 60h	1.01985	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01299	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12446
Var 12h NI row2-row1	0.89939
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.81895	0.522
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.76863	0.301
Time course 0hI-0hNI	1.12545	0.799
Time course 12hI-12hNI	0.93449	0.495
Time course 36hI-36hNI	0.90135	0.023
Time course 60hI-60hNI	1.28331	0.575

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)	0.9389	0.299
transgenic ySAMdc/azygous control (breaker)	0.84451	0.173
transgenic ySAMdc/azygous control (red)	0.93876	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00506	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00106	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96873	1
Manapal/WT (break)	0.92918	1
Manapal/WT (red)	0.90291	0.503