Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95218	0.671
27DAP/17DAP	1.21167	0.825
39DAP/27DAP	1.08201	0.933
41DAP/39DAP	0.87845	0.545
42DAP/41DAP	1.25616	0.825
43DAP/42DAP	1.05303	1
47DAP/43DAP	1.16271	0.756
52DAP/47DAP	1.32248	0.601
57DAP/52DAP	1.17157	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81826	0.071
17DAP/reference	0.97178	0.503
27DAP/reference	0.8959	0.497
39DAP/reference	0.93247	0.446
41DAP/reference	1.02153	1
42DAP/reference	0.87914	0.034
43DAP/reference	0.96747	0.691
47DAP/reference	1.01219	0.764
52DAP/reference	0.82289	0.147
57DAP/reference	0.93768	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.38204	0.398
27DAP/17DAP	1.09442	0.771
39DAP/27DAP	1.01326	1
41DAP/39DAP	1.24212	0.382
42DAP/41DAP	0.95861	0.687
43DAP/42DAP	1.02264	0.788
47DAP/43DAP	0.94909	0.796
52DAP/47DAP	0.94769	0.837
57DAP/52DAP	1.273	0.434
57DAP/7DAP	1.61444	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95961	0.445
17DAP/reference	0.8149	0.015
27DAP/reference	0.76355	0.051
39DAP/reference	0.6577	0.014
41DAP/reference	0.60465	0.009
42DAP/reference	0.71153	0.021
43DAP/reference	0.76273	0.019
47DAP/reference	0.93325	0.383
52DAP/reference	0.92146	0.213
57DAP/reference	0.85356	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92238	0.441
17DAP/reference	0.97431	0.434
27DAP/reference	0.90396	0.352
39DAP/reference	0.78574	0.018
41DAP/reference	0.98188	0.441
42DAP/reference	0.91733	0.237
43DAP/reference	0.89773	0.314
47DAP/reference	0.83376	0.019
52DAP/reference	0.82525	0.04
57DAP/reference	0.85738	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90611	0.071
17DAP/reference	0.99521	0.792
27DAP/reference	0.93282	0.195
39DAP/reference	0.90561	0.054
41DAP/reference	0.93704	0.371
42DAP/reference	0.84336	0.028
43DAP/reference	0.98378	0.66
47DAP/reference	1.12986	0.171
52DAP/reference	0.95418	0.582
57DAP/reference	0.86863	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13756	0.47
26DAP/20DAP	0.98956	1
34DAP/26DAP	1.13641	1
51DAP/34DAP	1.04651	0.692
52DAP/51DAP	1.10203	0.915
53DAP/52DAP	0.88998	0.703
55DAP/53DAP	0.88755	0.478
57DAP/55DAP	0.79715	0.443
62DAP/57DAP	0.71158	0.28
68DAP/62DAP	0.94153	0.885
68DAP/14DAP	1.9695	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05411	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15117	0.176
Mature Green Tomato/Ripe Tomato	0.64203	0.045
Immature Eggplant/Mature Eggplant	1.02196	0.659
Ripe Pepper/Ripe Tomato	1.42979	1
Mature Eggplant/Ripe Tomato	1.05947	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93987	0.708
1-1-2/M82	1.16106	1
12-2/M82	0.9094	0.862
12-4/M82	0.89474
1-3/M82	1.0768	1
2-1-1/M82	1.11369
2-1/M82	0.86791
2-6/M82	1.08665	0.695
3-2/M82	1.18497
4-1-1/M82	1.07477	1
4-1/M82	1.04771
4-3-2/M82	N/A	N/A
4-3/M82	1.3253	1
5-3/M82	1.07619	0.36
6-2/M82	0.91643
6-3/M82	1.11698	1
7-1/M82	0.96191	1
7-2/M82	1.2155	0.385
9-3-2/M82	1.20092

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.02691	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05361	0.914
DC3000/delta hrp 6h	1.64642	1
DC3000/delta hrp 12h	0.98713	1
DC3000/delta hrp 24h	1.13464	0.09

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	1.63881

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09219	1
Exp 36h	1.31909	0.693
Exp 60h	1.59112	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98795	1
Var 0h	1.05091	1
Var 12h I row2-row1	0.94428	0.418
Var 12h NI row2-row1	1.10053	1
Var 36h I row2-row1	1.00203	1
Var 36h NI row2-row1	0.83264	0.645
Var 60h I row2-row1	0.82098	0.832
Var 60h NI row2-row1	0.99326	1
Time course 0hI-0hNI	1.10411	0.377
Time course 12hI-12hNI	1.0316	0.741
Time course 36hI-36hNI	1.05057	0.355
Time course 60hI-60hNI	1.27504	0.019

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)	1.00883	0.798
transgenic ySAMdc/azygous control (breaker)	0.68212	0.173
transgenic ySAMdc/azygous control (red)	1.04209	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13503	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.49165	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75839	0.172
Manapal/WT (break)	0.92466	0.333
Manapal/WT (red)	1.14139	0.164