Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95712	0.722
27DAP/17DAP	1.04503	1
39DAP/27DAP	1.51189	0.189
41DAP/39DAP	1.14712	0.591
42DAP/41DAP	1.09215	0.913
43DAP/42DAP	1.20545	0.629
47DAP/43DAP	1.07552	0.769
52DAP/47DAP	0.5437	0.125
57DAP/52DAP	1.1882	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89285	0.262
17DAP/reference	0.84523	0.208
27DAP/reference	1.07632	1
39DAP/reference	1.11168	0.903
41DAP/reference	0.73293	0.114
42DAP/reference	1.64308	0.003
43DAP/reference	1.39186	0.017
47DAP/reference	1.63468	0.001
52DAP/reference	1.75819	0.05
57DAP/reference	1.93877	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05127	0.801
27DAP/17DAP	1.07507	0.969
39DAP/27DAP	1.21209	0.596
41DAP/39DAP	1.08179	1
42DAP/41DAP	1.39921	0.241
43DAP/42DAP	0.99856	0.928
47DAP/43DAP	0.99069	0.896
52DAP/47DAP	1.09293	0.9
57DAP/52DAP	0.97926	0.756
57DAP/7DAP	1.10193	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14465	0.231
17DAP/reference	1.26554	0.023
27DAP/reference	1.44069	0.012
39DAP/reference	0.99741	1
41DAP/reference	1.20803	0.402
42DAP/reference	1.06504	0.132
43DAP/reference	1.32166	0.307
47DAP/reference	2.03389	0.019
52DAP/reference	1.29002	0.375
57DAP/reference	1.62114	0.049

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78067	0.115
17DAP/reference	1.03772	0.611
27DAP/reference	1.63568	0.05
39DAP/reference	1.64224	0.075
41DAP/reference	2.52912	0.005
42DAP/reference	2.12411	0.007
43DAP/reference	1.11475	0.697
47DAP/reference	1.85817	0.008
52DAP/reference	1.1726	0.24
57DAP/reference	0.93661	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18756	0.709
17DAP/reference	1.23797	0.689
27DAP/reference	1.50582	0.022
39DAP/reference	1.38956	0.013
41DAP/reference	1.20923	0.093
42DAP/reference	2.3558	0.03
43DAP/reference	2.40664	0.068
47DAP/reference	1.38214	0.085
52DAP/reference	1.18228	0.272
57DAP/reference	4.30368	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.44378	0.586
26DAP/20DAP	2.79403	0.855
34DAP/26DAP	4.19998	0.819
51DAP/34DAP	1.64222	0.967
52DAP/51DAP	2.57174	0.035
53DAP/52DAP	0.71322	0.069
55DAP/53DAP	1.44769	0.093
57DAP/55DAP	0.22943	0.01
62DAP/57DAP	2.75601
68DAP/62DAP	19.5535	0.206
68DAP/14DAP	18.7342	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49474	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85135	0.318
Mature Green Tomato/Ripe Tomato	0.26362	0.018
Immature Eggplant/Mature Eggplant	0.5644	0.063
Ripe Pepper/Ripe Tomato	2.83557	1
Mature Eggplant/Ripe Tomato	1.98075	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.98985
12-2/M82	N/A	N/A
12-4/M82	1.47726	1
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	1.03299	1
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	1.80976

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0611	1
IL2-6/WTpooled	0.89961	1
IL7-5/WTpooled	1.09295	0.792
IL7-3/WTpooled	1.02049	1
IL12-4/WTpooled	1.12339	0.624
IL1-4/WTpooled	0.89314	0.699
WT/WTpooled	1.05712	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91506	1
DC3000/delta hrp 6h	1.11856	0.777
DC3000/delta hrp 12h	1.26674	1
DC3000/delta hrp 24h	1.02697	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0426	0.145
DC3000 delta B/DC3000 delta AB	1.42583	0.2

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10669	1
Exp 36h	0.9367	0.82
Exp 60h	0.98442	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00256	1
Var 0h	1.01662	1
Var 12h I row2-row1	0.76257	0.39
Var 12h NI row2-row1	1.18591	0.649
Var 36h I row2-row1	1.07105	1
Var 36h NI row2-row1	1.54035	1
Var 60h I row2-row1	0.81765	0.582
Var 60h NI row2-row1	0.93808	0.977
Time course 0hI-0hNI	1.00468	1
Time course 12hI-12hNI	0.95071	0.799
Time course 36hI-36hNI	0.91354	0.337
Time course 60hI-60hNI	0.71801	0.161

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)	1.00338	1
transgenic ySAMdc/azygous control (breaker)	1.2115	0.178
transgenic ySAMdc/azygous control (red)	1.27187	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28613	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50627	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.23428	0.084
Manapal/WT (break)	1.82209	0.123
Manapal/WT (red)	2.52635	0.133