Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.8.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.22034	0.13
27DAP/17DAP	2.4485	0.066
39DAP/27DAP	1.24702	0.677
41DAP/39DAP	0.86081	0.459
42DAP/41DAP	0.96878	1
43DAP/42DAP	1.52888	0.186
47DAP/43DAP	1.24427	0.187
52DAP/47DAP	1.29816	0.491
57DAP/52DAP	0.99724	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78103	0.059
17DAP/reference	1.02753	0.957
27DAP/reference	1.36477	0.013
39DAP/reference	1.50872	0.017
41DAP/reference	1.23108	0.047
42DAP/reference	1.58682	0.001
43DAP/reference	1.90351	0.007
47DAP/reference	1.974	0.001
52DAP/reference	1.51782	0.045
57DAP/reference	1.51813	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4227	0.054
27DAP/17DAP	1.58185	0.053
39DAP/27DAP	1.7399	0.163
41DAP/39DAP	0.60839	0.049
42DAP/41DAP	2.4596	0.002
43DAP/42DAP	3.28809	0.014
47DAP/43DAP	0.90887	0.554
52DAP/47DAP	0.98729	0.917
57DAP/52DAP	0.84476	0.418
57DAP/7DAP	4.04046	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89478	0.146
17DAP/reference	0.8261	0.012
27DAP/reference	0.87528	0.039
39DAP/reference	1.09897	0.141
41DAP/reference	1.05683	0.812
42DAP/reference	0.99075	0.612
43DAP/reference	1.00772	0.727
47DAP/reference	1.15754	0.285
52DAP/reference	0.82876	0.066
57DAP/reference	0.94084	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81727	0.035
17DAP/reference	0.75314	0.12
27DAP/reference	0.95664	0.423
39DAP/reference	0.991	0.586
41DAP/reference	0.9473	0.348
42DAP/reference	1.01575	1
43DAP/reference	0.91945	0.32
47DAP/reference	1.12358	0.153
52DAP/reference	1.00212	0.761
57DAP/reference	0.73043	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72584	0.071
17DAP/reference	0.90665	0.374
27DAP/reference	0.91325	0.055
39DAP/reference	1.02348	0.773
41DAP/reference	0.91086	0.293
42DAP/reference	1.23039	0.053
43DAP/reference	1.27438	0.047
47DAP/reference	1.66459	0.007
52DAP/reference	1.46889	0.087
57DAP/reference	1.44368	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01919	1
26DAP/20DAP	1.16769	0.415
34DAP/26DAP	1.24389	0.154
51DAP/34DAP	2.22468	0.032
52DAP/51DAP	0.94287	1
53DAP/52DAP	1.30126	0.049
55DAP/53DAP	0.8353	0.102
57DAP/55DAP	1.03338	1
62DAP/57DAP	0.96905	0.871
68DAP/62DAP	1.43044	0.367
68DAP/14DAP	2.54238	0.047

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12246	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.24977	0.067
Mature Green Tomato/Ripe Tomato	0.62965	0.347
Immature Eggplant/Mature Eggplant	1.08966	0.239
Ripe Pepper/Ripe Tomato	2.38822	0.258
Mature Eggplant/Ripe Tomato	0.56845	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16823	0.877
1-1-2/M82	1.31824	1
12-2/M82	0.99579	1
12-4/M82	0.99647	1
1-3/M82	1.54716	0.248
2-1-1/M82	1.01026	1
2-1/M82	1.06557	1
2-6/M82	1.31483	0.339
3-2/M82	0.97099	1
4-1-1/M82	1.34232	1
4-1/M82	0.9891	1
4-3-2/M82	1.07397	1
4-3/M82	1.47772	0.268
5-3/M82	1.06885	1
6-2/M82	1.30345	1
6-3/M82	0.88683	1
7-1/M82	0.95867	1
7-2/M82	1.12841	0.385
9-3-2/M82	1.38368	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.48335	0.277
IL2-6/WTpooled	1.22856	0.419
IL7-5/WTpooled	0.73475	1
IL7-3/WTpooled	1.98499	1
IL12-4/WTpooled	1.16609	0.785
IL1-4/WTpooled	1.33128	0.426
WT/WTpooled	1.02394	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	1.5748	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9519	1
DC3000/delta hrp 6h	0.92922	0.95
DC3000/delta hrp 12h	0.90561	1
DC3000/delta hrp 24h	1.14339	0.085

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	1.1886	0.381

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	1.57976	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05626	1
Var 0h	0.80804	0.263
Var 12h I row2-row1	1.25438	0.224
Var 12h NI row2-row1	1.08788	0.649
Var 36h I row2-row1	1.01329	1
Var 36h NI row2-row1	0.90385	0.706
Var 60h I row2-row1	1.21279	1
Var 60h NI row2-row1	1.13614	0.904
Time course 0hI-0hNI	1.09436	0.377
Time course 12hI-12hNI	0.99803	1
Time course 36hI-36hNI	1.11992	0.722
Time course 60hI-60hNI	2.23331	0.008

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)	0.8615	0.246
transgenic ySAMdc/azygous control (breaker)	1.11438	1
transgenic ySAMdc/azygous control (red)	1.03064	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95508	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92748	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74738	0.172
Manapal/WT (break)	0.73971	1
Manapal/WT (red)	0.75549	0.184