Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.15.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17221	0.534
27DAP/17DAP	1.30676	0.688
39DAP/27DAP	1.01732	0.749
41DAP/39DAP	1.31953	0.488
42DAP/41DAP	1.02965	1
43DAP/42DAP	1.06933	1
47DAP/43DAP	1.2099	0.538
52DAP/47DAP	1.20652	0.906
57DAP/52DAP	1.03762	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94212	0.238
17DAP/reference	1.06011	0.066
27DAP/reference	1.04986	0.478
39DAP/reference	0.99784	0.991
41DAP/reference	0.95571	0.542
42DAP/reference	0.88697	0.021
43DAP/reference	0.9247	0.148
47DAP/reference	0.91424	0.015
52DAP/reference	0.90475	0.215
57DAP/reference	0.90559	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16788	1
27DAP/17DAP	1.35627	0.271
39DAP/27DAP	1.03603	0.728
41DAP/39DAP	0.91258	0.861
42DAP/41DAP	0.96054	0.734
43DAP/42DAP	1.12193	0.585
47DAP/43DAP	1.39522	0.234
52DAP/47DAP	0.95013	0.839
57DAP/52DAP	1.26059	0.23
57DAP/7DAP	1.20052	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03903	0.761
17DAP/reference	0.85791	0.031
27DAP/reference	0.88653	0.135
39DAP/reference	0.92669	0.23
41DAP/reference	0.83332	0.073
42DAP/reference	0.95393	0.415
43DAP/reference	0.73418	0.015
47DAP/reference	1.03752	0.868
52DAP/reference	1.03952	0.832
57DAP/reference	0.98759	0.549

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12625	0.265
17DAP/reference	0.9436	0.307
27DAP/reference	0.84783	0.111
39DAP/reference	0.86804	0.159
41DAP/reference	0.85983	0.068
42DAP/reference	0.77785	0.035
43DAP/reference	0.91273	0.224
47DAP/reference	0.97328	0.379
52DAP/reference	1.00262	0.761
57DAP/reference	1.02382	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84094	0.047
17DAP/reference	0.97897	0.668
27DAP/reference	0.94285	0.357
39DAP/reference	0.92828	0.246
41DAP/reference	1.00235	0.682
42DAP/reference	0.99584	0.816
43DAP/reference	0.90729	0.256
47DAP/reference	1.05982	0.424
52DAP/reference	1.19902	0.542
57DAP/reference	0.7058	0.058

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12004	0.966
26DAP/20DAP	1.38497	0.562
34DAP/26DAP	1.03226	1
51DAP/34DAP	0.89078	0.779
52DAP/51DAP	0.86639	1
53DAP/52DAP	1.10069	0.944
55DAP/53DAP	1.37461	0.519
57DAP/55DAP	1.11159	0.348
62DAP/57DAP	0.95535	0.994
68DAP/62DAP	1.12407	0.866
68DAP/14DAP	0.69311	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44835	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	0.87268	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.44938	0.224
Mature Eggplant/Ripe Tomato	0.79231

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04721	1
1-1-2/M82	1.27682
12-2/M82	1.06501	1
12-4/M82	1.0294	1
1-3/M82	0.62263
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.11551	0.594
3-2/M82	0.83852
4-1-1/M82	0.92156	1
4-1/M82	0.95696
4-3-2/M82	1.03992	0.508
4-3/M82	N/A	N/A
5-3/M82	0.83663	1
6-2/M82	N/A	N/A
6-3/M82	0.87353	1
7-1/M82	0.73956
7-2/M82	N/A	N/A
9-3-2/M82	1.25551

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.26279
IL2-6/WTpooled	1.14423
IL7-5/WTpooled	0.61061
IL7-3/WTpooled	1.11183	0.362
IL12-4/WTpooled	1.10743	0.785
IL1-4/WTpooled	0.94618	0.699
WT/WTpooled	1.17237	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	0.87895

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14489	0.914
DC3000/delta hrp 6h	0.8875	0.95
DC3000/delta hrp 12h	1.14216	1
DC3000/delta hrp 24h	0.92271	0.725

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87781	1
Exp 36h	1.08288	0.693
Exp 60h	1.03772	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10017	1
Var 0h	1.08896	0.782
Var 12h I row2-row1	0.95951	1
Var 12h NI row2-row1	0.7761	1
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.9009	0.791
Var 60h I row2-row1	1.15556	1
Var 60h NI row2-row1	1.05035	0.904
Time course 0hI-0hNI	1.08449	0.833
Time course 12hI-12hNI	0.96046	0.747
Time course 36hI-36hNI	0.96523	0.433
Time course 60hI-60hNI	2.14049	0.137

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)	0.90227	0.306
transgenic ySAMdc/azygous control (breaker)	0.9769	1
transgenic ySAMdc/azygous control (red)	0.97539	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99072	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06283	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06602	1
Manapal/WT (break)	0.7053	0.236
Manapal/WT (red)	1.08142	1