Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.9.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.0665	0.291
27DAP/17DAP	0.61118	0.061
39DAP/27DAP	1.49674	0.332
41DAP/39DAP	0.75016	0.183
42DAP/41DAP	0.88581	1
43DAP/42DAP	0.81564	0.554
47DAP/43DAP	0.63416	0.119
52DAP/47DAP	0.85426	0.586
57DAP/52DAP	1.01755	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24786	0.05
17DAP/reference	1.17313	0.122
27DAP/reference	1.01981	0.909
39DAP/reference	1.22407	0.034
41DAP/reference	1.02045	0.91
42DAP/reference	0.93737	0.218
43DAP/reference	0.98584	0.728
47DAP/reference	0.90891	0.106
52DAP/reference	0.78582	0.018
57DAP/reference	0.81562	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8526	0.228
27DAP/17DAP	1.1911	0.383
39DAP/27DAP	0.62588	0.044
41DAP/39DAP	1.45206	0.861
42DAP/41DAP	1.05908	0.916
43DAP/42DAP	0.56971	0.022
47DAP/43DAP	0.80113	0.026
52DAP/47DAP	0.86538	0.498
57DAP/52DAP	0.77488	0.317
57DAP/7DAP	0.43212	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31779	0.037
17DAP/reference	1.43851	0.112
27DAP/reference	1.25841	0.023
39DAP/reference	2.02121	0.005
41DAP/reference	1.79872	0.008
42DAP/reference	1.89677	0.024
43DAP/reference	1.25649	0.124
47DAP/reference	1.88504	0.018
52DAP/reference	1.70858	0.009
57DAP/reference	1.13988	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44918	0.05
17DAP/reference	1.61536	0.007
27DAP/reference	1.60292	0.012
39DAP/reference	1.69061	0.011
41DAP/reference	1.00745	0.631
42DAP/reference	1.54087	0.008
43DAP/reference	1.34826	0.035
47DAP/reference	1.20185	0.079
52DAP/reference	1.43198	0.006
57DAP/reference	1.078	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35092	0.015
17DAP/reference	1.40185	0.071
27DAP/reference	1.16255	0.125
39DAP/reference	1.41301	0.01
41DAP/reference	1.32338	0.017
42DAP/reference	1.15068	0.099
43DAP/reference	0.97505	0.545
47DAP/reference	0.95307	0.371
52DAP/reference	0.71079	0.087
57DAP/reference	0.89535	0.191

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89771	0.961
26DAP/20DAP	1.3555	0.149
34DAP/26DAP	0.88254	0.712
51DAP/34DAP	1.3836	0.719
52DAP/51DAP	0.92081	1
53DAP/52DAP	1.36913	0.296
55DAP/53DAP	1.0909	0.82
57DAP/55DAP	0.92036	0.658
62DAP/57DAP	0.81494	0.466
68DAP/62DAP	1.33711	0.808
68DAP/14DAP	0.68296

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.14789	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.43206	0.078
Mature Green Tomato/Ripe Tomato	5.00586	0.015
Immature Eggplant/Mature Eggplant	1.47612	0.05
Ripe Pepper/Ripe Tomato	4.35666	0.256
Mature Eggplant/Ripe Tomato	1.42102	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92322	0.907
1-1-2/M82	1.08058	1
12-2/M82	1.20111	1
12-4/M82	1.20768
1-3/M82	0.99859	1
2-1-1/M82	1.06072	0.457
2-1/M82	0.71565	0.318
2-6/M82	0.96544	1
3-2/M82	N/A	N/A
4-1-1/M82	0.97336	1
4-1/M82	1.09627	1
4-3-2/M82	1.09981	1
4-3/M82	0.85955	0.72
5-3/M82	1.01392	1
6-2/M82	0.77096	1
6-3/M82	0.96474
7-1/M82	N/A	N/A
7-2/M82	0.96124	1
9-3-2/M82	1.17065

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1194	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16157	1
IL12-4/WTpooled	1.01267	1
IL1-4/WTpooled	1.14947
WT/WTpooled	1.00985	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	1.25885	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0438	0.894
DC3000/delta hrp 6h	0.71028	0.95
DC3000/delta hrp 12h	1.02212	1
DC3000/delta hrp 24h	1.07962	0.467

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	0.6163	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09967	1
Exp 36h	1.59579	1
Exp 60h	1.71376	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03509	1
Var 0h	0.9167	0.457
Var 12h I row2-row1	1.14897	0.473
Var 12h NI row2-row1	0.95333	0.906
Var 36h I row2-row1	0.94299	1
Var 36h NI row2-row1	0.96429	0.791
Var 60h I row2-row1	1.0596	0.543
Var 60h NI row2-row1	1.0384	1
Time course 0hI-0hNI	0.95215	0.771
Time course 12hI-12hNI	1.03777	0.73
Time course 36hI-36hNI	1.42071	0.006
Time course 60hI-60hNI	2.23612	0.009

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)	0.96871	0.789
transgenic ySAMdc/azygous control (breaker)	1.06904	1
transgenic ySAMdc/azygous control (red)	0.80317	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9749	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90271	0.268

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)	1.00066	1
Manapal/WT (red)	0.90305	0.242