Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.10.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73801	0.187
27DAP/17DAP	0.36623	0.027
39DAP/27DAP	0.67713	0.378
41DAP/39DAP	0.976	0.854
42DAP/41DAP	1.18247	0.888
43DAP/42DAP	0.68238	0.601
47DAP/43DAP	0.92414	0.68
52DAP/47DAP	1.47598	0.676
57DAP/52DAP	0.93892	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39919	0.052
17DAP/reference	0.59533	0.009
27DAP/reference	0.6971	0.036
39DAP/reference	0.71295	0.026
41DAP/reference	0.54954	0.009
42DAP/reference	0.60432	0.002
43DAP/reference	0.49199	0.013
47DAP/reference	0.55894	0.001
52DAP/reference	0.47077	0.023
57DAP/reference	0.58214	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.35978	0.023
27DAP/17DAP	1.06998	0.826
39DAP/27DAP	0.73641	0.058
41DAP/39DAP	0.91733	0.804
42DAP/41DAP	0.87598	0.362
43DAP/42DAP	0.78284	0.105
47DAP/43DAP	1.03524	0.886
52DAP/47DAP	1.04483	0.979
57DAP/52DAP	1.13081	0.483
57DAP/7DAP	0.65048	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99766	0.758
17DAP/reference	1.45343	0.022
27DAP/reference	1.64464	0.007
39DAP/reference	2.17857	0.005
41DAP/reference	2.37833	0.025
42DAP/reference	2.65594	0.007
43DAP/reference	3.05428	0.011
47DAP/reference	1.2309	0.671
52DAP/reference	2.17199	0.025
57DAP/reference	1.31263	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30451	0.265
17DAP/reference	0.81175	0.008
27DAP/reference	0.62994	0.015
39DAP/reference	0.5454	0.01
41DAP/reference	0.79182	0.06
42DAP/reference	0.59421	0.01
43DAP/reference	0.29278	0.002
47DAP/reference	0.53133	0.01
52DAP/reference	0.47533	0.003
57DAP/reference	0.4513	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55099	0.062
17DAP/reference	1.08652	0.966
27DAP/reference	1.40279	0.067
39DAP/reference	1.22242	0.307
41DAP/reference	1.2886	0.605
42DAP/reference	1.02738	1
43DAP/reference	1.2209	0.88
47DAP/reference	0.44211	0.004
52DAP/reference	1.15052	0.623
57DAP/reference	0.84646	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98995	1
26DAP/20DAP	1.03082	1
34DAP/26DAP	1.25024	1
51DAP/34DAP	1.03388	0.988
52DAP/51DAP	1.18903	0.676
53DAP/52DAP	1.02436	0.944
55DAP/53DAP	1.19119	1
57DAP/55DAP	0.88109	0.527
62DAP/57DAP	0.98353	0.994
68DAP/62DAP	1.33652	0.792
68DAP/14DAP	1.08837	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27551	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.99485	0.058
Mature Green Tomato/Ripe Tomato	10.0292	0.015
Immature Eggplant/Mature Eggplant	0.5636	0.062
Ripe Pepper/Ripe Tomato	0.66162	0.224
Mature Eggplant/Ripe Tomato	3.65576

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	1.06989
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	1.31227	0.277
IL2-6/WTpooled	0.96945	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1078	1
IL12-4/WTpooled	0.84714	1
IL1-4/WTpooled	0.58694	0.394
WT/WTpooled	1.00912	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	1.54789	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87206	0.868
DC3000/delta hrp 6h	1.01274	0.95
DC3000/delta hrp 12h	0.89304	1
DC3000/delta hrp 24h	7.88343	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.47283	0.057
DC3000 delta B/DC3000 delta AB	1.15663	0.398

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08247	1
Exp 36h	0.73474	0.589
Exp 60h	0.67989	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.057	1
Var 0h	1.55091	0.374
Var 12h I row2-row1	0.91562	0.77
Var 12h NI row2-row1	0.79338	0.443
Var 36h I row2-row1	0.93974	0.805
Var 36h NI row2-row1	0.94019	0.743
Var 60h I row2-row1	0.92679	0.832
Var 60h NI row2-row1	0.94879	1
Time course 0hI-0hNI	0.99218	1
Time course 12hI-12hNI	1.0706	1
Time course 36hI-36hNI	0.7739	0.027
Time course 60hI-60hNI	0.43641	0.006

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)	1.0109	0.748
transgenic ySAMdc/azygous control (breaker)	0.79574	0.251
transgenic ySAMdc/azygous control (red)	1.18399	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9958	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33565	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.03979	0.096
Manapal/WT (break)	2.07898	0.13
Manapal/WT (red)	N/A	N/A