Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94267	0.683
27DAP/17DAP	1.21758	0.793
39DAP/27DAP	0.80998	0.474
41DAP/39DAP	1.32442	0.326
42DAP/41DAP	1.00477	1
43DAP/42DAP	0.94607	0.887
47DAP/43DAP	1.0541	0.999
52DAP/47DAP	1.26394	0.543
57DAP/52DAP	0.94318	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96718	0.476
17DAP/reference	0.97019	0.63
27DAP/reference	0.89738	0.275
39DAP/reference	0.96387	0.587
41DAP/reference	1.05278	0.587
42DAP/reference	0.87036	0.007
43DAP/reference	0.91296	0.073
47DAP/reference	0.95697	0.258
52DAP/reference	1.04124	0.912
57DAP/reference	0.87234	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.845	0.148
27DAP/17DAP	1.14949	0.957
39DAP/27DAP	1.03729	0.751
41DAP/39DAP	0.98655	0.997
42DAP/41DAP	1.04639	1
43DAP/42DAP	1.41976	0.147
47DAP/43DAP	0.83351	0.247
52DAP/47DAP	0.9714	0.902
57DAP/52DAP	0.83916	0.32
57DAP/7DAP	0.71736	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79811	0.065
17DAP/reference	0.81256	0.031
27DAP/reference	0.91612	0.125
39DAP/reference	0.589	0.014
41DAP/reference	0.60439	0.012
42DAP/reference	0.66174	0.011
43DAP/reference	0.75872	0.018
47DAP/reference	0.75402	0.079
52DAP/reference	0.65708	0.012
57DAP/reference	0.68328	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98004	0.72
17DAP/reference	0.75856	0.004
27DAP/reference	0.76163	0.026
39DAP/reference	0.79725	0.037
41DAP/reference	0.87952	0.112
42DAP/reference	0.82834	0.021
43DAP/reference	0.91103	0.263
47DAP/reference	0.97508	0.487
52DAP/reference	0.99187	0.576
57DAP/reference	0.97242	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95886	0.29
17DAP/reference	0.89558	0.292
27DAP/reference	0.82456	0.092
39DAP/reference	0.93414	0.328
41DAP/reference	0.86225	0.022
42DAP/reference	0.98987	0.816
43DAP/reference	0.79196	0.04
47DAP/reference	0.96528	0.434
52DAP/reference	1.07582	0.871
57DAP/reference	0.89608	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.57611	0.631
26DAP/20DAP	1.14091	0.778
34DAP/26DAP	1.18699	1
51DAP/34DAP	0.86436	0.419
52DAP/51DAP	1.33956	0.534
53DAP/52DAP	1.38987	0.095
55DAP/53DAP	0.85432	0.604
57DAP/55DAP	0.73369	0.09
62DAP/57DAP	1.39392	0.515
68DAP/62DAP	1.11673	0.85
68DAP/14DAP	1.3164	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.86929	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.24776	0.073
Mature Green Tomato/Ripe Tomato	0.71354	0.027
Immature Eggplant/Mature Eggplant	1.09051	0.528
Ripe Pepper/Ripe Tomato	0.60595	1
Mature Eggplant/Ripe Tomato	0.65715	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96536	0.961
1-1-2/M82	1.13958	1
12-2/M82	1.15284	1
12-4/M82	0.76045	1
1-3/M82	0.77365
2-1-1/M82	0.99077	1
2-1/M82	1.43715
2-6/M82	0.68883	0.501
3-2/M82	0.81269
4-1-1/M82	0.67194	1
4-1/M82	0.89797	1
4-3-2/M82	0.89115
4-3/M82	0.70041	0.551
5-3/M82	1.05678	1
6-2/M82	0.62062	0.473
6-3/M82	1.04726	1
7-1/M82	0.8641	0.803
7-2/M82	0.73981	0.565
9-3-2/M82	1.02845	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.73577	1
IL7-5/WTpooled	1.42182
IL7-3/WTpooled	1.05895
IL12-4/WTpooled	1.65266	0.737
IL1-4/WTpooled	1.15217	1
WT/WTpooled	1.24549	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	1.2345	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99542	1
DC3000/delta hrp 6h	1.17397	1
DC3000/delta hrp 12h	1.19016	1
DC3000/delta hrp 24h	0.99416	1

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	0.79374	1
Exp 36h	1.08335	1
Exp 60h	1.09256	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97701	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.36731	0.406
Var 12h NI row2-row1	2.13133	1
Var 36h I row2-row1	1.14776	0.742
Var 36h NI row2-row1	0.85032	0.645
Var 60h I row2-row1	0.99108	0.952
Var 60h NI row2-row1	1.04206	1
Time course 0hI-0hNI	0.93507	0.548
Time course 12hI-12hNI	1.13853	0.774
Time course 36hI-36hNI	1.20727	0.08
Time course 60hI-60hNI	0.85548	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)	0.83131	0.338
transgenic ySAMdc/azygous control (breaker)	0.79944	0.142
transgenic ySAMdc/azygous control (red)	1.04212	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91065	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27356	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73955	0.172
Manapal/WT (break)	1.12313	1
Manapal/WT (red)	0.61581	0.181