Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85758	0.427
27DAP/17DAP	2.00354	0.408
39DAP/27DAP	1.06447	0.985
41DAP/39DAP	1.09209	0.994
42DAP/41DAP	0.69477	0.774
43DAP/42DAP	1.12787	0.991
47DAP/43DAP	1.03898	0.972
52DAP/47DAP	0.8612	0.682
57DAP/52DAP	1.36778	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00712	0.771
17DAP/reference	1.01911	0.787
27DAP/reference	1.05537	0.759
39DAP/reference	1.04291	0.262
41DAP/reference	1.04229	0.714
42DAP/reference	0.82653	0.004
43DAP/reference	0.96787	0.631
47DAP/reference	0.88405	0.098
52DAP/reference	0.97976	0.53
57DAP/reference	1.19396	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00734	0.801
27DAP/17DAP	0.92894	0.854
39DAP/27DAP	1.21719	0.707
41DAP/39DAP	1.21824	0.837
42DAP/41DAP	0.78519	0.256
43DAP/42DAP	1.05803	0.991
47DAP/43DAP	0.98932	0.843
52DAP/47DAP	0.84455	0.857
57DAP/52DAP	1.04396	0.804
57DAP/7DAP	1.08474	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81731	0.108
17DAP/reference	0.93129	0.192
27DAP/reference	1.0912	0.371
39DAP/reference	0.73562	0.043
41DAP/reference	0.74203	0.052
42DAP/reference	0.91476	0.235
43DAP/reference	1.05012	1
47DAP/reference	0.76069	0.066
52DAP/reference	0.90423	0.332
57DAP/reference	0.79794	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82601	0.129
17DAP/reference	0.91187	0.287
27DAP/reference	0.97149	0.483
39DAP/reference	0.94051	0.37
41DAP/reference	1.0596	0.562
42DAP/reference	0.98904	0.594
43DAP/reference	1.05095	0.863
47DAP/reference	1.07042	0.572
52DAP/reference	0.76911	0.02
57DAP/reference	0.65632	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77875	0.061
17DAP/reference	0.89988	0.243
27DAP/reference	1.07448	1
39DAP/reference	0.91261	0.147
41DAP/reference	1.011	1
42DAP/reference	0.95861	0.445
43DAP/reference	0.91348	0.226
47DAP/reference	0.99845	0.646
52DAP/reference	0.84135	0.125
57DAP/reference	1.15909	0.175

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40787	0.878
26DAP/20DAP	0.52831
34DAP/26DAP	2.6827	0.542
51DAP/34DAP	1.43734	0.326
52DAP/51DAP	0.6213
53DAP/52DAP	0.71512	0.307
55DAP/53DAP	1.29838	0.842
57DAP/55DAP	0.99889	1
62DAP/57DAP	1.0436	1
68DAP/62DAP	1.61996	0.155
68DAP/14DAP	1.54925	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.7034
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.25804	0.365
IL2-6/WTpooled	1.16373	0.395
IL7-5/WTpooled	0.49487
IL7-3/WTpooled	1.06089	1
IL12-4/WTpooled	1.15264	0.624
IL1-4/WTpooled	0.96735	0.834
WT/WTpooled	1.0692	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	1.77462	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06433	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.9663	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.39412
DC3000 delta B/DC3000 delta AB	2.76471

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13124	1
Exp 36h	1.4047	0.693
Exp 60h	1.16418	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09782	1
Var 0h	1.03886	1
Var 12h I row2-row1	1.26326	0.196
Var 12h NI row2-row1	1.51085	0.649
Var 36h I row2-row1	0.82034	1
Var 36h NI row2-row1	1.03009	1
Var 60h I row2-row1	0.88494	0.439
Var 60h NI row2-row1	0.82141	1
Time course 0hI-0hNI	1.02511	0.852
Time course 12hI-12hNI	2.14612	0.004
Time course 36hI-36hNI	1.56167	0.006
Time course 60hI-60hNI	1.3326	0.009

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)	0.91317	1
transgenic ySAMdc/azygous control (red)	1.20633	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99693	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08961	1

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)	0.88036	0.333
Manapal/WT (red)	0.84469	0.503