Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06959	0.912
27DAP/17DAP	1.36026	0.755
39DAP/27DAP	0.89603	0.564
41DAP/39DAP	1.57127	0.168
42DAP/41DAP	0.88979	1
43DAP/42DAP	1.18337	0.968
47DAP/43DAP	1.03784	0.95
52DAP/47DAP	0.80378	0.589
57DAP/52DAP	1.01652	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87871	0.103
17DAP/reference	1.10395	0.22
27DAP/reference	1.11854	0.322
39DAP/reference	1.03723	0.664
41DAP/reference	1.34913	0.073
42DAP/reference	0.87734	0.034
43DAP/reference	1.18273	0.078
47DAP/reference	1.08993	0.207
52DAP/reference	1.11948	0.335
57DAP/reference	1.08853	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93106	0.526
27DAP/17DAP	0.90582	0.782
39DAP/27DAP	1.09682	0.553
41DAP/39DAP	1.13454	0.469
42DAP/41DAP	1.05624	1
43DAP/42DAP	0.88884	0.351
47DAP/43DAP	1.38981	0.14
52DAP/47DAP	1.30948	0.296
57DAP/52DAP	0.8365	0.086
57DAP/7DAP	0.98527	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11528	0.292
17DAP/reference	1.23134	0.221
27DAP/reference	1.09241	0.551
39DAP/reference	0.72459	0.034
41DAP/reference	0.89049	0.133
42DAP/reference	0.90935	0.304
43DAP/reference	0.85371	0.202
47DAP/reference	0.77566	0.128
52DAP/reference	1.14102	0.375
57DAP/reference	1.02936	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11138	0.832
17DAP/reference	0.90844	0.239
27DAP/reference	0.92921	0.407
39DAP/reference	0.78407	0.031
41DAP/reference	0.88568	0.121
42DAP/reference	0.84903	0.073
43DAP/reference	1.12625	0.845
47DAP/reference	0.96903	0.434
52DAP/reference	0.85558	0.051
57DAP/reference	0.86086	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00346	0.804
17DAP/reference	1.09495	0.612
27DAP/reference	0.93582	0.397
39DAP/reference	1.01275	0.962
41DAP/reference	0.99179	0.682
42DAP/reference	0.89183	0.032
43DAP/reference	0.98259	0.614
47DAP/reference	0.92802	0.357
52DAP/reference	0.94221	0.538
57DAP/reference	1.03786	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13033	0.966
26DAP/20DAP	0.92114	1
34DAP/26DAP	0.84265	0.666
51DAP/34DAP	1.32984	0.154
52DAP/51DAP	0.81005	1
53DAP/52DAP	1.07169	0.753
55DAP/53DAP	1.39616	0.562
57DAP/55DAP	0.95149	0.819
62DAP/57DAP	0.92752	0.871
68DAP/62DAP	1.27466	0.237
68DAP/14DAP	1.16396	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83218	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84339	0.304
Mature Green Tomato/Ripe Tomato	0.7054	0.03
Immature Eggplant/Mature Eggplant	1.27172	0.181
Ripe Pepper/Ripe Tomato	0.28847	0.224
Mature Eggplant/Ripe Tomato	1.88351	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00226	1
1-1-2/M82	1.29297	1
12-2/M82	1.1432	1
12-4/M82	0.94099	1
1-3/M82	0.89591	0.501
2-1-1/M82	0.82203
2-1/M82	N/A	N/A
2-6/M82	0.92247	1
3-2/M82	0.83906	0.752
4-1-1/M82	1.21691	0.968
4-1/M82	1.00312	1
4-3-2/M82	0.80914	0.698
4-3/M82	N/A	N/A
5-3/M82	1.07497	1
6-2/M82	0.8336	1
6-3/M82	0.87453
7-1/M82	N/A	N/A
7-2/M82	0.99739	1
9-3-2/M82	0.78554	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96879	1
IL2-6/WTpooled	1.02017	0.659
IL7-5/WTpooled	1.44469	1
IL7-3/WTpooled	0.64079	0.294
IL12-4/WTpooled	0.84635	0.581
IL1-4/WTpooled	0.96486	0.834
WT/WTpooled	1.01943	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	0.88075	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06083	0.921
DC3000/delta hrp 6h	1.02303	1
DC3000/delta hrp 12h	1.01503	1
DC3000/delta hrp 24h	1.09086	0.516

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	1.17494	1
Exp 36h	0.9889	1
Exp 60h	1.12714	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93657
Var 0h	N/A	N/A
Var 12h I row2-row1	1.08472	0.473
Var 12h NI row2-row1	0.88421	0.82
Var 36h I row2-row1	1.05783	1
Var 36h NI row2-row1	0.58969	0.645
Var 60h I row2-row1	1.01022	1
Var 60h NI row2-row1	0.8374	0.977
Time course 0hI-0hNI	1.04056	0.63
Time course 12hI-12hNI	1.03974	0.684
Time course 36hI-36hNI	1.22588	0.035
Time course 60hI-60hNI	2.27706	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)	0.97058	0.377
transgenic ySAMdc/azygous control (breaker)	0.73526	0.137
transgenic ySAMdc/azygous control (red)	0.89859	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96792	0.156

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67841	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97325	1
Manapal/WT (break)	1.31646	1
Manapal/WT (red)	0.89593	0.503