Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12561	0.798
27DAP/17DAP	0.88437	0.782
39DAP/27DAP	1.08578	0.922
41DAP/39DAP	1.13094	0.797
42DAP/41DAP	0.84587	1
43DAP/42DAP	1.09698	0.948
47DAP/43DAP	0.74332	0.29
52DAP/47DAP	1.31693	0.63
57DAP/52DAP	1.00487	0.936

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95297	0.262
17DAP/reference	1.02368	0.248
27DAP/reference	0.97509	0.359
39DAP/reference	0.98085	0.704
41DAP/reference	0.97808	0.814
42DAP/reference	0.96062	0.163
43DAP/reference	1.00178	1
47DAP/reference	0.96927	0.161
52DAP/reference	1.01315	0.84
57DAP/reference	1.02677	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92178
27DAP/17DAP	0.95162	0.854
39DAP/27DAP	1.13545	0.534
41DAP/39DAP	1.07398	0.896
42DAP/41DAP	1.27261	0.904
43DAP/42DAP	1.35254	0.017
47DAP/43DAP	1.04331	1
52DAP/47DAP	1.10796	0.8
57DAP/52DAP	0.83824	0.426
57DAP/7DAP	0.98047	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8816	0.224
17DAP/reference	0.85892	0.012
27DAP/reference	0.89478	0.018
39DAP/reference	0.93222	0.015
41DAP/reference	0.88447	0.03
42DAP/reference	0.84447	0.011
43DAP/reference	0.8375	0.013
47DAP/reference	0.92055	0.293
52DAP/reference	0.87356	0.026
57DAP/reference	0.90914	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01217	0.903
17DAP/reference	1.06355	0.294
27DAP/reference	0.91282	0.181
39DAP/reference	0.94596	0.243
41DAP/reference	0.98429	0.493
42DAP/reference	0.92686	0.135
43DAP/reference	1.1123	0.362
47DAP/reference	1.0112	0.943
52DAP/reference	1.04644	0.181
57DAP/reference	1.07743	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85554	0.049
17DAP/reference	0.93384	0.364
27DAP/reference	0.91904	0.062
39DAP/reference	0.82158	0.007
41DAP/reference	0.88978	0.035
42DAP/reference	0.84532	0.017
43DAP/reference	0.89836	0.033
47DAP/reference	0.88911	0.145
52DAP/reference	0.86417	0.228
57DAP/reference	0.78392	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04532	0.966
26DAP/20DAP	1.00823	1
34DAP/26DAP	0.99142	1
51DAP/34DAP	1.39507	0.377
52DAP/51DAP	0.6739
53DAP/52DAP	1.18835	0.868
55DAP/53DAP	1.33668	0.076
57DAP/55DAP	1.12512	0.881
62DAP/57DAP	1.29103	0.833
68DAP/62DAP	0.94896	0.668
68DAP/14DAP	1.00843	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37212	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.41766	0.176
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.40777	0.05
Ripe Pepper/Ripe Tomato	0.24611	0.224
Mature Eggplant/Ripe Tomato	0.31063	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21376	0.742
1-1-2/M82	0.8899	0.958
12-2/M82	1.10025	1
12-4/M82	1.44434
1-3/M82	1.08645	1
2-1-1/M82	1.06689	0.179
2-1/M82	N/A	N/A
2-6/M82	0.97528	1
3-2/M82	N/A	N/A
4-1-1/M82	0.90786	1
4-1/M82	1.01544
4-3-2/M82	0.77186
4-3/M82	1.10618	0.268
5-3/M82	1.02599	1
6-2/M82	1.28397	1
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.96377	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95452	0.321
IL2-6/WTpooled	0.81011	0.473
IL7-5/WTpooled	1.07989	1
IL7-3/WTpooled	1.20058	0.362
IL12-4/WTpooled	0.94599	1
IL1-4/WTpooled	0.96087	0.834
WT/WTpooled	0.95553	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	0.93448	1
DC3000/delta hrp 6h	1.28428	1
DC3000/delta hrp 12h	0.89614	1
DC3000/delta hrp 24h	1.39383	0.031

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.96011	0.489
Exp 60h	1.87474	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	1.20355
Var 0h	1.21607	0.936
Var 12h I row2-row1	0.6326	0.418
Var 12h NI row2-row1	0.80106	0.82
Var 36h I row2-row1	0.60659	1
Var 36h NI row2-row1	1.88617	1
Var 60h I row2-row1	0.93702	0.952
Var 60h NI row2-row1	2.91939	0.904
Time course 0hI-0hNI	0.96691	0.943
Time course 12hI-12hNI	0.99338	1
Time course 36hI-36hNI	1.3199	0.975
Time course 60hI-60hNI	0.75814	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)	1.08759	0.408
transgenic ySAMdc/azygous control (breaker)	0.85905	0.251
transgenic ySAMdc/azygous control (red)	1.05621	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98414	0.172

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25474	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.71591	0.172
Manapal/WT (break)	0.7229	0.297
Manapal/WT (red)	0.79679	0.242