Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.7.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13506	0.838
27DAP/17DAP	0.93974	0.899
39DAP/27DAP	1.29713	0.583
41DAP/39DAP	0.88672	0.387
42DAP/41DAP	1.12503	0.903
43DAP/42DAP	0.94708	0.877
47DAP/43DAP	0.73662	0.245
52DAP/47DAP	1.12942	0.809
57DAP/52DAP	1.08455	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23141	0.012
17DAP/reference	1.06736	0.606
27DAP/reference	1.0932	0.221
39DAP/reference	1.05482	0.514
41DAP/reference	0.97007	0.542
42DAP/reference	1.07549	0.231
43DAP/reference	1.0579	0.403
47DAP/reference	1.10315	0.021
52DAP/reference	0.94298	0.341
57DAP/reference	1.00887	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.50354	0.043
27DAP/17DAP	1.05135	0.909
39DAP/27DAP	0.75457	0.037
41DAP/39DAP	1.019	1
42DAP/41DAP	1.05498	1
43DAP/42DAP	0.71234	0.022
47DAP/43DAP	1.02447	0.941
52DAP/47DAP	0.91486	0.528
57DAP/52DAP	0.99594	0.869
57DAP/7DAP	0.93873	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96291	0.55
17DAP/reference	0.88263	0.011
27DAP/reference	0.86699	0.022
39DAP/reference	0.84084	0.011
41DAP/reference	0.81546	0.079
42DAP/reference	0.82758	0.01
43DAP/reference	0.91715	0.22
47DAP/reference	1.02356	1
52DAP/reference	0.90639	0.137
57DAP/reference	0.9887	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04791	0.634
17DAP/reference	1.32191	0.042
27DAP/reference	1.48508	0.018
39DAP/reference	1.53542	0.011
41DAP/reference	1.24928	0.025
42DAP/reference	1.18702	0.274
43DAP/reference	1.02152	0.761
47DAP/reference	1.23174	0.108
52DAP/reference	1.12804	0.01
57DAP/reference	1.19371	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95004	0.391
17DAP/reference	0.99367	0.778
27DAP/reference	0.98556	0.691
39DAP/reference	0.90091	0.015
41DAP/reference	0.95478	0.331
42DAP/reference	1.00103	0.816
43DAP/reference	1.2118	0.403
47DAP/reference	0.92454	0.269
52DAP/reference	0.89845	0.368
57DAP/reference	1.38189	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00074	1
26DAP/20DAP	1.60584	0.099
34DAP/26DAP	0.88773	0.237
51DAP/34DAP	1.08307	0.55
52DAP/51DAP	0.88892	1
53DAP/52DAP	0.99087	0.97
55DAP/53DAP	0.7451	0.102
57DAP/55DAP	1.37048	0.088
62DAP/57DAP	1.10825	0.902
68DAP/62DAP	1.37488	0.073
68DAP/14DAP	0.52536

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9412	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.07489	0.058
Mature Green Tomato/Ripe Tomato	1.38019	0.119
Immature Eggplant/Mature Eggplant	1.24462	0.067
Ripe Pepper/Ripe Tomato	1.17098	1
Mature Eggplant/Ripe Tomato	1.45947	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88104	0.883
1-1-2/M82	1.22783	1
12-2/M82	0.81332	0.535
12-4/M82	1.15401	1
1-3/M82	1.76069	0.479
2-1-1/M82	1.0861	1
2-1/M82	0.88088	0.322
2-6/M82	0.91764	1
3-2/M82	1.61925
4-1-1/M82	1.20125	1
4-1/M82	1.54455	1
4-3-2/M82	1.68138	0.241
4-3/M82	1.48265	1
5-3/M82	1.23431	0.572
6-2/M82	1.21344
6-3/M82	0.98786	1
7-1/M82	0.9323
7-2/M82	1.22682	1
9-3-2/M82	1.30028	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.52993	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10005	1
IL12-4/WTpooled	0.93372	1
IL1-4/WTpooled	1.30136	1
WT/WTpooled	1.13129	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	1.16497	0.083

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01451	0.921
DC3000/delta hrp 6h	0.98512	0.95
DC3000/delta hrp 12h	0.89167	1
DC3000/delta hrp 24h	0.94949	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.42091	0.145
DC3000 delta B/DC3000 delta AB	1.14823	0.336

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	1.00325	1
Var 0h	0.81991	1
Var 12h I row2-row1	1.06854	0.736
Var 12h NI row2-row1	1.13598	0.649
Var 36h I row2-row1	1.31737	0.368
Var 36h NI row2-row1	0.79588	0.584
Var 60h I row2-row1	0.91225	0.952
Var 60h NI row2-row1	0.84517	0.351
Time course 0hI-0hNI	0.87837	0.161
Time course 12hI-12hNI	1.08323	0.242
Time course 36hI-36hNI	1.21112	0.114
Time course 60hI-60hNI	1.31957	0.019

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)	1.01665	0.863
transgenic ySAMdc/azygous control (breaker)	1.18787	0.178
transgenic ySAMdc/azygous control (red)	1.1897	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15587	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88226	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74117	0.172
Manapal/WT (break)	0.89006	0.285
Manapal/WT (red)	1.21967	0.137