Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.14.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94552	0.689
27DAP/17DAP	1.32596	0.766
39DAP/27DAP	1.19956	0.59
41DAP/39DAP	0.8964	0.602
42DAP/41DAP	1.02155	1
43DAP/42DAP	1.01514	1
47DAP/43DAP	1.17839	0.965
52DAP/47DAP	1.62472	0.307
57DAP/52DAP	1.11767	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10194	0.611
17DAP/reference	1.0775	0.653
27DAP/reference	0.91898	0.395
39DAP/reference	0.73373	0.025
41DAP/reference	0.72104	0.085
42DAP/reference	1.41673	0.003
43DAP/reference	0.81801	0.073
47DAP/reference	1.39219	0.685
52DAP/reference	0.99708	0.598
57DAP/reference	0.77902	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.70409	0.144
27DAP/17DAP	0.98611	0.919
39DAP/27DAP	0.95738	0.737
41DAP/39DAP	1.0171	1
42DAP/41DAP	1.04291	1
43DAP/42DAP	1.17688	0.134
47DAP/43DAP	1.09849	0.873
52DAP/47DAP	1.42052	0.21
57DAP/52DAP	1.23697	0.67
57DAP/7DAP	1.13012

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88105	0.224
17DAP/reference	0.89835	0.167
27DAP/reference	0.96974	0.43
39DAP/reference	0.9607	0.411
41DAP/reference	0.95892	0.431
42DAP/reference	0.84066	0.136
43DAP/reference	0.87218	0.038
47DAP/reference	1.04996	1
52DAP/reference	0.76738	0.012
57DAP/reference	0.94833	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19925	0.36
17DAP/reference	1.44298	0.028
27DAP/reference	1.41713	0.12
39DAP/reference	0.93262	0.281
41DAP/reference	0.97037	0.432
42DAP/reference	1.66659	0.02
43DAP/reference	1.14216	0.986
47DAP/reference	1.09972	0.274
52DAP/reference	0.82991	0.072
57DAP/reference	1.10762	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93709	0.362
17DAP/reference	1.2557	0.511
27DAP/reference	1.06605	1
39DAP/reference	1.00785	0.819
41DAP/reference	1.01912	1
42DAP/reference	1.11985	0.658
43DAP/reference	1.05445	0.858
47DAP/reference	2.19195	0.006
52DAP/reference	1.62625	0.448
57DAP/reference	1.78489	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33854	0.966
26DAP/20DAP	0.84683	0.244
34DAP/26DAP	1.07163	1
51DAP/34DAP	0.83041	0.385
52DAP/51DAP	1.0611	1
53DAP/52DAP	1.08913	1
55DAP/53DAP	1.07039	0.855
57DAP/55DAP	1.03979	0.944
62DAP/57DAP	6.56576	0.8
68DAP/62DAP	0.94729	0.834
68DAP/14DAP	1.06097	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87938	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	1.22269
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	0.86124	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	0.85153
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8585	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.96582	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.95262
IL1-4/WTpooled	0.92863	0.834
WT/WTpooled	0.65957	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	0.83807	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00279	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09638	1
DC3000/delta hrp 24h	3.4721	0.356

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	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	N/A	N/A
Var 0h	0.69533	0.332
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.01115	1
Var 36h I row2-row1	1.01971
Var 36h NI row2-row1	0.64659	1
Var 60h I row2-row1	1.08807
Var 60h NI row2-row1	1.03749	1
Time course 0hI-0hNI	1.0664
Time course 12hI-12hNI	0.97182	0.86
Time course 36hI-36hNI	0.89147	0.099
Time course 60hI-60hNI	0.12833	0.015

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)	0.79464	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13197	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.56342	0.277

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)	N/A	N/A
Manapal/WT (red)	N/A	N/A