Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08019	0.827
27DAP/17DAP	1.0906	0.92
39DAP/27DAP	1.11044	0.922
41DAP/39DAP	0.95239	0.73
42DAP/41DAP	1.04075	1
43DAP/42DAP	1.098	1
47DAP/43DAP	0.97819	0.828
52DAP/47DAP	0.75358	0.461
57DAP/52DAP	1.03178	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00178	0.63
17DAP/reference	1.01731	1
27DAP/reference	1.06112	0.612
39DAP/reference	1.0781	0.628
41DAP/reference	1.02454	1
42DAP/reference	1.19702	0.098
43DAP/reference	1.00587	0.904
47DAP/reference	1.01221	0.72
52DAP/reference	1.29653	0.065
57DAP/reference	1.20272	0.229

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04557	0.662
27DAP/17DAP	0.93671	0.58
39DAP/27DAP	1.17525	0.15
41DAP/39DAP	0.93856	0.662
42DAP/41DAP	1.01727	0.991
43DAP/42DAP	1.07595	0.382
47DAP/43DAP	1.00952	0.973
52DAP/47DAP	0.95145	0.797
57DAP/52DAP	0.97444	0.716
57DAP/7DAP	0.93875	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82875	0.138
17DAP/reference	0.82813	0.025
27DAP/reference	0.87308	0.088
39DAP/reference	0.79406	0.039
41DAP/reference	1.03637	1
42DAP/reference	0.86417	0.151
43DAP/reference	0.96411	0.421
47DAP/reference	1.01382	1
52DAP/reference	1.00764	0.571
57DAP/reference	0.97334	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73122	0.277
17DAP/reference	0.98299	0.673
27DAP/reference	1.22026	0.715
39DAP/reference	1.49508	0.316
41DAP/reference	1.13234	0.893
42DAP/reference	1.16056	0.532
43DAP/reference	1.15815	0.662
47DAP/reference	0.95671	0.4
52DAP/reference	1.19521	0.471
57DAP/reference	1.08881	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93713	0.422
17DAP/reference	1.01562	1
27DAP/reference	0.84226	0.053
39DAP/reference	1.06299	0.596
41DAP/reference	0.99602	0.754
42DAP/reference	1.16455	0.45
43DAP/reference	1.11259	0.867
47DAP/reference	0.99899	0.708
52DAP/reference	1.1104	0.592
57DAP/reference	1.16339	0.856

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.50898	0.945
26DAP/20DAP	0.9797	1
34DAP/26DAP	1.07061	1
51DAP/34DAP	0.92332	0.546
52DAP/51DAP	0.94231	1
53DAP/52DAP	0.92473	0.505
55DAP/53DAP	1.00721	0.951
57DAP/55DAP	1.22396	0.222
62DAP/57DAP	1.25758	0.35
68DAP/62DAP	0.94599	0.722
68DAP/14DAP	2.01141	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94581	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96649	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.52827
Mature Eggplant/Ripe Tomato	0.76607	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84863
1-1-2/M82	1.04185	1
12-2/M82	0.74246	0.721
12-4/M82	0.98389	1
1-3/M82	1.40529	0.479
2-1-1/M82	1.00507	1
2-1/M82	1.06801	0.271
2-6/M82	1.03757	0.329
3-2/M82	1.07861
4-1-1/M82	0.93761	1
4-1/M82	1.07333	0.853
4-3-2/M82	0.91263	0.487
4-3/M82	1.0096	1
5-3/M82	1.05563	1
6-2/M82	0.80918
6-3/M82	1.09815	1
7-1/M82	0.89391	0.803
7-2/M82	0.86723	0.57
9-3-2/M82	0.85277	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.24786	1
WT/WTpooled	1.25356	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	1.26129	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03547	0.921
DC3000/delta hrp 6h	0.67309
DC3000/delta hrp 12h	0.4009	1
DC3000/delta hrp 24h	1.1543	0.085

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15776	0.208
DC3000 delta B/DC3000 delta AB	1.08283	0.423

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	1.02208	1
Var 0h	0.93315	1
Var 12h I row2-row1	1.22166	0.272
Var 12h NI row2-row1	1.09089	0.34
Var 36h I row2-row1	1.16601	0.298
Var 36h NI row2-row1	0.90143	0.549
Var 60h I row2-row1	0.85722	0.285
Var 60h NI row2-row1	0.91242	0.516
Time course 0hI-0hNI	1.03832	0.833
Time course 12hI-12hNI	0.97525	0.874
Time course 36hI-36hNI	1.20477	0.006
Time course 60hI-60hNI	1.80986	0.008

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.85551	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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)	N/A	N/A
Manapal/WT (break)	1.07739	0.381
Manapal/WT (red)	1.31449	0.142