Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69278	0.069
27DAP/17DAP	1.04598	1
39DAP/27DAP	1.02482	0.82
41DAP/39DAP	0.9683	0.833
42DAP/41DAP	1.3067	0.647
43DAP/42DAP	0.9663	0.909
47DAP/43DAP	1.21701	0.746
52DAP/47DAP	1.00656	0.984
57DAP/52DAP	0.83731	0.727

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89048	0.238
17DAP/reference	1.16331	0.492
27DAP/reference	1.07366	0.996
39DAP/reference	1.0457	0.8
41DAP/reference	1.04863	0.855
42DAP/reference	1.23832	0.119
43DAP/reference	0.96208	0.653
47DAP/reference	0.95362	0.258
52DAP/reference	0.9888	0.598
57DAP/reference	1.00062	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95119	0.578
27DAP/17DAP	0.95543	0.648
39DAP/27DAP	1.13651	0.3
41DAP/39DAP	1.16235	0.407
42DAP/41DAP	1.01182	1
43DAP/42DAP	0.88877	0.121
47DAP/43DAP	1.01172	0.95
52DAP/47DAP	0.81851	0.321
57DAP/52DAP	0.91719	0.531
57DAP/7DAP	1.38908	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80367	0.074
17DAP/reference	0.80246	0.039
27DAP/reference	0.81774	0.024
39DAP/reference	1.27802	0.12
41DAP/reference	0.93876	0.284
42DAP/reference	1.04005	1
43DAP/reference	0.86274	0.175
47DAP/reference	0.83332	0.383
52DAP/reference	0.85308	0.012
57DAP/reference	0.84897	0.047

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09025	0.823
17DAP/reference	0.98161	0.659
27DAP/reference	1.02364	0.663
39DAP/reference	1.05975	0.868
41DAP/reference	1.3367	0.248
42DAP/reference	0.89785	0.237
43DAP/reference	1.07125	0.735
47DAP/reference	1.05685	0.544
52DAP/reference	0.87595	0.259
57DAP/reference	1.1028	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99233	0.653
17DAP/reference	1.15819	0.563
27DAP/reference	0.79336	0.165
39DAP/reference	0.94868	0.544
41DAP/reference	0.80641	0.132
42DAP/reference	0.80952	0.108
43DAP/reference	0.87525	0.246
47DAP/reference	1.23119	0.48
52DAP/reference	0.81785	0.174
57DAP/reference	0.97895	0.623

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.49578	0.182
26DAP/20DAP	1.17977	0.39
34DAP/26DAP	0.92422	0.857
51DAP/34DAP	0.80385	0.145
52DAP/51DAP	0.95763	1
53DAP/52DAP	0.89995	0.35
55DAP/53DAP	0.63435	0.016
57DAP/55DAP	1.16796	0.997
62DAP/57DAP	1.07151	0.868
68DAP/62DAP	0.87296	0.747
68DAP/14DAP	0.88141	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.53619	0.03

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.43701	0.023
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	0.80297
12-2/M82	N/A	N/A
12-4/M82	0.98364
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	1.14123	0.505
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.23377
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	0.99472	1
IL2-6/WTpooled	0.93761	1
IL7-5/WTpooled	1.0731	0.75
IL7-3/WTpooled	0.90355	1
IL12-4/WTpooled	1.07832	0.532
IL1-4/WTpooled	0.96995	1
WT/WTpooled	1.11981	0.777

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	0.85634	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88792	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.93686
DC3000/delta hrp 24h	7.28602	0.027

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.90871	0.252
DC3000 delta B/DC3000 delta AB	0.79063	0.054

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92275	1
Exp 36h	0.60221	0.406
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	0.97974	1
Var 0h	1.04016	1
Var 12h I row2-row1	1.11042	0.654
Var 12h NI row2-row1	0.86769	0.494
Var 36h I row2-row1	0.93301	0.805
Var 36h NI row2-row1	0.93032	0.645
Var 60h I row2-row1	1.08728	0.543
Var 60h NI row2-row1	1.05123	1
Time course 0hI-0hNI	0.8648	0.161
Time course 12hI-12hNI	0.95665	0.725
Time course 36hI-36hNI	0.96655	0.46
Time course 60hI-60hNI	0.57422	0.011

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)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.77358	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.08484	1

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)	0.72939	0.503