Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39628	0.452
27DAP/17DAP	1.28738	0.747
39DAP/27DAP	1.22379	0.933
41DAP/39DAP	1.73304	0.323
42DAP/41DAP	1.41527	0.843
43DAP/42DAP	1.02856	1
47DAP/43DAP	1.09377	0.689
52DAP/47DAP	0.97585	0.873
57DAP/52DAP	1.0953	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42504	0.012
17DAP/reference	1.38039	0.024
27DAP/reference	1.2699	0.071
39DAP/reference	1.32634	0.149
41DAP/reference	1.49776	0.014
42DAP/reference	1.3383	0.002
43DAP/reference	1.28031	0.252
47DAP/reference	1.18814	0.006
52DAP/reference	1.31153	0.024
57DAP/reference	0.86319	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89756	0.299
27DAP/17DAP	0.9789	0.887
39DAP/27DAP	1.18693	0.331
41DAP/39DAP	1.22838	0.603
42DAP/41DAP	1.03825	1
43DAP/42DAP	1.07485	0.413
47DAP/43DAP	1.05636	0.827
52DAP/47DAP	1.00999	0.962
57DAP/52DAP	1.02788	0.877
57DAP/7DAP	1.11913	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9146	0.091
17DAP/reference	0.91479	0.049
27DAP/reference	0.80918	0.011
39DAP/reference	0.92329	0.043
41DAP/reference	1.02014	1
42DAP/reference	0.87243	0.012
43DAP/reference	0.85041	0.014
47DAP/reference	1.05618	0.804
52DAP/reference	0.8928	0.09
57DAP/reference	0.84851	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24338	0.09
17DAP/reference	1.55559	0.01
27DAP/reference	1.31774	0.025
39DAP/reference	1.08051	0.436
41DAP/reference	1.19338	0.126
42DAP/reference	1.20985	0.086
43DAP/reference	1.37326	0.15
47DAP/reference	1.21381	0.039
52DAP/reference	1.45071	0.012
57DAP/reference	1.84157	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94696	0.422
17DAP/reference	1.05803	0.585
27DAP/reference	0.91821	0.056
39DAP/reference	0.91499	0.222
41DAP/reference	0.91222	0.077
42DAP/reference	0.87245	0.22
43DAP/reference	1.07471	0.803
47DAP/reference	1.31425	0.008
52DAP/reference	0.84032	0.204
57DAP/reference	0.80275	0.069

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95806
26DAP/20DAP	0.83639	0.317
34DAP/26DAP	1.00981	1
51DAP/34DAP	1.03034	0.925
52DAP/51DAP	1.1471	0.253
53DAP/52DAP	1.01884	0.901
55DAP/53DAP	1.11408	0.666
57DAP/55DAP	0.92889	0.644
62DAP/57DAP	1.03423	1
68DAP/62DAP	0.98584	0.81
68DAP/14DAP	0.80588	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90956	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.9247	0.715
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	0.8012
12-2/M82	N/A	N/A
12-4/M82	0.84932
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	1.0177	1
IL2-6/WTpooled	0.90704	1
IL7-5/WTpooled	0.53203	1
IL7-3/WTpooled	0.84772	1
IL12-4/WTpooled	0.99355	1
IL1-4/WTpooled	1.01105	1
WT/WTpooled	1.04825	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	0.88163	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.16708	1
DC3000/delta hrp 24h	1.20043	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96788	1
DC3000 delta B/DC3000 delta AB	1.12039	0.368

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	0.94843	1
Var 0h	1.10807	1
Var 12h I row2-row1	1.10095	0.324
Var 12h NI row2-row1	1.06247	1
Var 36h I row2-row1	0.94809	1
Var 36h NI row2-row1	0.99973	1
Var 60h I row2-row1	1.47131	1
Var 60h NI row2-row1	1.19897	0.904
Time course 0hI-0hNI	1.11358	0.719
Time course 12hI-12hNI	1.05123	0.747
Time course 36hI-36hNI	0.87705	0.07
Time course 60hI-60hNI	0.96815	0.646

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)	0.97859	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92256	0.16

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25064	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05894	1
Manapal/WT (break)	0.89822	1
Manapal/WT (red)	N/A	N/A