Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98853	0.713
27DAP/17DAP	0.97073	1
39DAP/27DAP	0.87671	0.641
41DAP/39DAP	1.24737	0.584
42DAP/41DAP	1.28634	0.852
43DAP/42DAP	1.22632	0.861
47DAP/43DAP	1.74011	0.542
52DAP/47DAP	1.71779	0.398
57DAP/52DAP	1.09817	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74222	0.03
17DAP/reference	0.76024	0.007
27DAP/reference	0.92542	0.395
39DAP/reference	0.84852	0.027
41DAP/reference	0.71101	0.021
42DAP/reference	0.83398	0.01
43DAP/reference	0.90507	0.113
47DAP/reference	0.92379	0.137
52DAP/reference	1.11729	0.149
57DAP/reference	1.32155	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.54573	0.356
27DAP/17DAP	0.8308	0.854
39DAP/27DAP	1.09491	0.845
41DAP/39DAP	0.99864	1
42DAP/41DAP	1.11352	0.74
43DAP/42DAP	1.04003	1
47DAP/43DAP	1.22171	0.833
52DAP/47DAP	1.2962	0.362
57DAP/52DAP	1.26767	0.471
57DAP/7DAP	1.17422	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98058	0.495
17DAP/reference	0.83257	0.056
27DAP/reference	0.90644	0.109
39DAP/reference	0.9738	0.474
41DAP/reference	0.94597	0.247
42DAP/reference	1.09589	0.534
43DAP/reference	1.2235	0.132
47DAP/reference	1.0241	0.965
52DAP/reference	1.07627	0.212
57DAP/reference	1.30244	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70748	0.027
17DAP/reference	0.58862	0.004
27DAP/reference	0.85353	0.097
39DAP/reference	0.78161	0.025
41DAP/reference	0.98093	0.505
42DAP/reference	0.85606	0.022
43DAP/reference	0.70089	0.024
47DAP/reference	0.84627	0.021
52DAP/reference	0.81833	0.023
57DAP/reference	0.71968	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90442	0.169
17DAP/reference	0.78343	0.129
27DAP/reference	0.95555	0.376
39DAP/reference	0.87019	0.022
41DAP/reference	0.99506	0.754
42DAP/reference	0.97132	0.671
43DAP/reference	0.96836	0.545
47DAP/reference	0.93291	0.315
52DAP/reference	0.71751	0.089
57DAP/reference	1.17478	0.25

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28429	0.878
26DAP/20DAP	1.22246	0.806
34DAP/26DAP	0.99538	0.972
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.48243	0.054
53DAP/52DAP	1.32836	0.723
55DAP/53DAP	0.92779	0.784
57DAP/55DAP	0.97701	0.789
62DAP/57DAP	1.11104	0.622
68DAP/62DAP	2.46486	0.049
68DAP/14DAP	3.20294	0.059

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49275	0.172

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	0.45695	0.243
IL2-6/WTpooled	0.81229	0.473
IL7-5/WTpooled	0.60631	1
IL7-3/WTpooled	0.87114	1
IL12-4/WTpooled	1.17972	0.624
IL1-4/WTpooled	0.76683	0.699
WT/WTpooled	0.97134	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	1.06045

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	0.36604
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	0.35954
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	0.963	1
Exp 36h	0.87492	0.504
Exp 60h	0.85957	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03834	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.87603	0.692
Var 12h NI row2-row1	1.18038	0.649
Var 36h I row2-row1	0.87557	0.489
Var 36h NI row2-row1	1.00372	1
Var 60h I row2-row1	0.9029	0.285
Var 60h NI row2-row1	1.09805	0.904
Time course 0hI-0hNI	0.813	0.136
Time course 12hI-12hNI	1.44972	0.526
Time course 36hI-36hNI	1.32504	0.248
Time course 60hI-60hNI	1.73646	0.047

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)	0.87076	0.377
transgenic ySAMdc/azygous control (breaker)	1.90779	0.178
transgenic ySAMdc/azygous control (red)	1.9679	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15849	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16036	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.15931	1
Manapal/WT (break)	1.54411	1
Manapal/WT (red)	1.67124	0.164