Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89649	0.543
27DAP/17DAP	1.13365	0.873
39DAP/27DAP	0.87474	0.529
41DAP/39DAP	1.19889	0.451
42DAP/41DAP	0.67444	0.262
43DAP/42DAP	0.8849	0.775
47DAP/43DAP	1.07487	0.828
52DAP/47DAP	1.7356	0.41
57DAP/52DAP	0.87393	0.687

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40193	0.047
17DAP/reference	1.21897	0.22
27DAP/reference	1.11102	0.415
39DAP/reference	1.30552	0.017
41DAP/reference	1.22104	0.05
42DAP/reference	1.37489	0.001
43DAP/reference	1.26862	0.053
47DAP/reference	1.29424	0.057
52DAP/reference	1.09913	0.476
57DAP/reference	1.21028	0.211

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68703	0.062
27DAP/17DAP	1.09624	0.826
39DAP/27DAP	1.02427	1
41DAP/39DAP	0.8914	0.42
42DAP/41DAP	0.9147	0.384
43DAP/42DAP	1.01785	1
47DAP/43DAP	0.95712	0.823
52DAP/47DAP	1.01531	0.986
57DAP/52DAP	0.70319	0.137
57DAP/7DAP	0.6807	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94658	0.445
17DAP/reference	0.82759	0.108
27DAP/reference	1.13644	0.088
39DAP/reference	1.14499	0.141
41DAP/reference	1.0525	0.336
42DAP/reference	0.96569	0.436
43DAP/reference	0.9572	0.252
47DAP/reference	0.82505	0.026
52DAP/reference	1.05002	0.886
57DAP/reference	1.29861	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50341	0.048
17DAP/reference	1.66324	0.018
27DAP/reference	1.72771	0.02
39DAP/reference	1.2787	0.103
41DAP/reference	1.15477	0.209
42DAP/reference	1.59772	0.008
43DAP/reference	1.92144	0.012
47DAP/reference	1.39763	0.023
52DAP/reference	1.50824	0.02
57DAP/reference	1.33526	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91269	0.158
17DAP/reference	1.03909	0.792
27DAP/reference	1.04813	1
39DAP/reference	1.09223	0.546
41DAP/reference	1.20542	0.455
42DAP/reference	1.25296	0.251
43DAP/reference	1.39006	0.183
47DAP/reference	1.04527	0.543
52DAP/reference	1.04087	0.979
57DAP/reference	1.32993	0.167

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88923	1
26DAP/20DAP	0.97911	1
34DAP/26DAP	0.84545	0.455
51DAP/34DAP	0.67382	0.06
52DAP/51DAP	1.02037	0.808
53DAP/52DAP	0.71228	0.08
55DAP/53DAP	0.8266	0.067
57DAP/55DAP	0.90744	0.633
62DAP/57DAP	0.95556	0.871
68DAP/62DAP	0.73911	0.464
68DAP/14DAP	0.51624	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9415	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.80815	0.058
Mature Green Tomato/Ripe Tomato	1.11481	0.69
Immature Eggplant/Mature Eggplant	0.5914	0.063
Ripe Pepper/Ripe Tomato	0.71555	0.224
Mature Eggplant/Ripe Tomato	2.08728	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98714	1
1-1-2/M82	0.89663	1
12-2/M82	N/A	N/A
12-4/M82	1.06212
1-3/M82	0.69009
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.17204
3-2/M82	0.98312
4-1-1/M82	1.0578	1
4-1/M82	0.63298
4-3-2/M82	0.91107	0.487
4-3/M82	0.8164
5-3/M82	1.0851	0.572
6-2/M82	0.71095
6-3/M82	N/A	N/A
7-1/M82	0.88624
7-2/M82	1.15192	0.385
9-3-2/M82	1.1445	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1813	0.277
IL2-6/WTpooled	0.94835	0.473
IL7-5/WTpooled	1.16767	1
IL7-3/WTpooled	1.17484	1
IL12-4/WTpooled	1.01545	1
IL1-4/WTpooled	1.09198	1
WT/WTpooled	0.99743	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	0.74535	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0381	0.921
DC3000/delta hrp 6h	0.9762	0.95
DC3000/delta hrp 12h	1.07323	1
DC3000/delta hrp 24h	1.14815	0.212

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.5422	0.025
DC3000 delta B/DC3000 delta AB	0.53689	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07362	1
Exp 36h	0.70214	0.426
Exp 60h	0.68395	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04428	1
Var 0h	1.10969	0.594
Var 12h I row2-row1	0.91132	0.705
Var 12h NI row2-row1	0.86735	0.494
Var 36h I row2-row1	0.89393	1
Var 36h NI row2-row1	1.30253	1
Var 60h I row2-row1	1.26325	0.562
Var 60h NI row2-row1	1.04712	0.904
Time course 0hI-0hNI	1.08146	0.719
Time course 12hI-12hNI	0.96784	0.806
Time course 36hI-36hNI	0.84831	0.029
Time course 60hI-60hNI	0.36615	0.006

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)	0.78161	0.222
transgenic ySAMdc/azygous control (breaker)	1.15817	1
transgenic ySAMdc/azygous control (red)	0.972	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92883	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.12277	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23911	0.14
Manapal/WT (break)	1.14884	1
Manapal/WT (red)	1.09013	1