Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.3.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95121	0.689
27DAP/17DAP	0.79327	0.478
39DAP/27DAP	0.95468	0.749
41DAP/39DAP	0.97177	0.89
42DAP/41DAP	1.04232	0.938
43DAP/42DAP	0.94477	0.877
47DAP/43DAP	1.25031	0.776
52DAP/47DAP	0.90031	0.757
57DAP/52DAP	1.14639	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21306	0.252
17DAP/reference	0.86218	0.111
27DAP/reference	0.93976	0.385
39DAP/reference	0.92542	0.467
41DAP/reference	0.93082	0.542
42DAP/reference	0.82504	0.069
43DAP/reference	0.55483	0.18
47DAP/reference	0.99871	0.636
52DAP/reference	1.02181	1
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03446	1
27DAP/17DAP	0.71939	0.227
39DAP/27DAP	1.09398	0.526
41DAP/39DAP	1.06161	0.876
42DAP/41DAP	0.93328	0.572
43DAP/42DAP	1.06929	0.83
47DAP/43DAP	0.94282	0.823
52DAP/47DAP	1.02862	0.97
57DAP/52DAP	1.17195	0.497
57DAP/7DAP	0.91253	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84303	0.108
17DAP/reference	0.92262	0.253
27DAP/reference	0.94499	0.2
39DAP/reference	0.75623	0.039
41DAP/reference	0.80068	0.09
42DAP/reference	0.70785	0.024
43DAP/reference	0.88359	0.11
47DAP/reference	0.85016	0.222
52DAP/reference	0.67218	0.014
57DAP/reference	0.80657	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12224	0.43
17DAP/reference	1.11101	0.236
27DAP/reference	0.92094	0.123
39DAP/reference	0.98362	0.539
41DAP/reference	0.94818	0.291
42DAP/reference	1.05429	1
43DAP/reference	0.82434	0.066
47DAP/reference	0.90642	0.154
52DAP/reference	0.9887	0.576
57DAP/reference	0.91712	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90774	0.29
17DAP/reference	1.01498	1
27DAP/reference	0.84279	0.063
39DAP/reference	0.95435	0.36
41DAP/reference	0.87893	0.119
42DAP/reference	0.93473	0.445
43DAP/reference	0.92164	0.131
47DAP/reference	1.12204	0.265
52DAP/reference	2.78584	0.363
57DAP/reference	1.2018	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15555	0.966
26DAP/20DAP	0.84303	0.512
34DAP/26DAP	1.09979	1
51DAP/34DAP	1.56019	0.044
52DAP/51DAP	0.94862	1
53DAP/52DAP	0.99175	0.897
55DAP/53DAP	0.89546	0.243
57DAP/55DAP	0.95877	0.828
62DAP/57DAP	0.90772	0.871
68DAP/62DAP	1.14436	0.392
68DAP/14DAP	1.81936	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54499	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74131	0.254
Mature Green Tomato/Ripe Tomato	1.92879	0.017
Immature Eggplant/Mature Eggplant	0.62622	0.069
Ripe Pepper/Ripe Tomato	2.88186	0.258
Mature Eggplant/Ripe Tomato	1.173	1

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	1.00215
12-4/M82	1.09187
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	1.27594
5-3/M82	1.06665	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	1.13597
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.51847	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.28168
IL7-3/WTpooled	2.04212	1
IL12-4/WTpooled	1.48509	0.538
IL1-4/WTpooled	1.78616	1
WT/WTpooled	1.21562

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	0.90362	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83944	1
DC3000/delta hrp 6h	1.11183	1
DC3000/delta hrp 12h	1.03673	1
DC3000/delta hrp 24h	0.71977	0.045

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	0.47477

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97557	1
Exp 36h	0.64091	0.406
Exp 60h	0.51866	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98936	1
Var 0h	1.4445	0.421
Var 12h I row2-row1	0.83885	0.338
Var 12h NI row2-row1	1.0147	1
Var 36h I row2-row1	0.835	0.805
Var 36h NI row2-row1	1.21221	1
Var 60h I row2-row1	1.25157
Var 60h NI row2-row1	1.13315	0.904
Time course 0hI-0hNI	0.87027	0.23
Time course 12hI-12hNI	1.02899	0.849
Time course 36hI-36hNI	0.80257	0.027
Time course 60hI-60hNI	0.15008	0.005

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)	1.16231	0.232
transgenic ySAMdc/azygous control (breaker)	1.57037	0.161
transgenic ySAMdc/azygous control (red)	1.08757	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98153	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.13735	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.12625	0.083
Manapal/WT (break)	2.87469	0.13
Manapal/WT (red)	2.05636	0.126