Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.11.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89829	0.532
27DAP/17DAP	3.91502	0.622
39DAP/27DAP	1.098	0.825
41DAP/39DAP	0.92218	0.67
42DAP/41DAP	1.20147	0.899
43DAP/42DAP	1.09334	1
47DAP/43DAP	0.97505	0.895
52DAP/47DAP	2.38275	0.496
57DAP/52DAP	1.41488	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9629	0.326
17DAP/reference	1.13825	0.031
27DAP/reference	1.0214	0.981
39DAP/reference	1.04085	0.453
41DAP/reference	1.07926	0.158
42DAP/reference	0.86908	0.005
43DAP/reference	1.04821	0.306
47DAP/reference	0.95051	0.161
52DAP/reference	1.01143	1
57DAP/reference	1.01181	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09883	0.65
27DAP/17DAP	1.02427	1
39DAP/27DAP	0.72804	0.126
41DAP/39DAP	1.05584	0.921
42DAP/41DAP	1.22496	0.225
43DAP/42DAP	0.97268	0.875
47DAP/43DAP	1.02844	0.951
52DAP/47DAP	0.84992	0.778
57DAP/52DAP	1.18385	0.722
57DAP/7DAP	2.1692	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14202	0.213
17DAP/reference	1.61618	0.007
27DAP/reference	1.42234	0.012
39DAP/reference	1.615	0.006
41DAP/reference	1.4355	0.077
42DAP/reference	1.77499	0.006
43DAP/reference	1.54231	0.009
47DAP/reference	1.34671	0.331
52DAP/reference	1.41132	0.012
57DAP/reference	1.53561	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02609	0.719
17DAP/reference	0.96732	0.378
27DAP/reference	0.87492	0.108
39DAP/reference	1.00918	1
41DAP/reference	0.84365	0.127
42DAP/reference	0.86335	0.022
43DAP/reference	0.97317	0.569
47DAP/reference	0.95048	0.292
52DAP/reference	1.06276	0.279
57DAP/reference	1.05307	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3055	0.116
17DAP/reference	1.16782	0.689
27DAP/reference	1.73919	0.023
39DAP/reference	1.41841	0.048
41DAP/reference	1.49258	0.044
42DAP/reference	1.31904	0.22
43DAP/reference	1.52891	0.081
47DAP/reference	0.9099	0.259
52DAP/reference	1.57	0.076
57DAP/reference	0.96742	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01981	0.966
26DAP/20DAP	1.26795	0.654
34DAP/26DAP	1.00264	1
51DAP/34DAP	1.356	0.84
52DAP/51DAP	1.53623	0.186
53DAP/52DAP	1.44117	0.552
55DAP/53DAP	0.82459	0.35
57DAP/55DAP	1.05723	0.969
62DAP/57DAP	1.0498	0.935
68DAP/62DAP	1.00375	0.885
68DAP/14DAP	0.78791	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68412	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.0405	0.068
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.70289	1
Mature Eggplant/Ripe Tomato	0.35425

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	1.04313
IL2-6/WTpooled	0.58131	0.348
IL7-5/WTpooled	0.30864
IL7-3/WTpooled	1.53168	0.362
IL12-4/WTpooled	1.16559	0.595
IL1-4/WTpooled	0.98317	0.834
WT/WTpooled	1.02234	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	0.63202	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89131	0.868
DC3000/delta hrp 6h	1.44021	1
DC3000/delta hrp 12h	1.20877	1
DC3000/delta hrp 24h	0.88032	0.412

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	1.30796	0.223

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	1.04564	1
Var 0h	0.78105	1
Var 12h I row2-row1	0.98185	1
Var 12h NI row2-row1	1.31236	0.281
Var 36h I row2-row1	1.08207	0.41
Var 36h NI row2-row1	1.01347	1
Var 60h I row2-row1	0.89424	0.287
Var 60h NI row2-row1	0.98135	1
Time course 0hI-0hNI	0.93575	0.612
Time course 12hI-12hNI	0.88796	0.16
Time course 36hI-36hNI	0.87316	0.119
Time course 60hI-60hNI	0.79637	0.007

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)	0.96592	0.722
transgenic ySAMdc/azygous control (breaker)	0.90759	0.49
transgenic ySAMdc/azygous control (red)	1.23177	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95579	0.052

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)	0.72857	0.172
Manapal/WT (break)	0.63113	0.297
Manapal/WT (red)	0.95572	0.863