Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24806	0.863
27DAP/17DAP	1.33613	0.788
39DAP/27DAP	1.18302	0.575
41DAP/39DAP	0.72112	0.099
42DAP/41DAP	1.2633	0.38
43DAP/42DAP	1.51335	0.299
47DAP/43DAP	1.14942	0.856
52DAP/47DAP	1.21269	0.633
57DAP/52DAP	0.78901	0.777

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10842	0.872
17DAP/reference	1.00566	0.957
27DAP/reference	1.08816	0.648
39DAP/reference	0.92122	0.24
41DAP/reference	0.97787	0.667
42DAP/reference	1.36926	0.002
43DAP/reference	1.02103	1
47DAP/reference	1.41226	0.006
52DAP/reference	1.89407	0.012
57DAP/reference	1.85668	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99608	0.826
27DAP/17DAP	0.85842	0.195
39DAP/27DAP	1.2039	0.259
41DAP/39DAP	0.89954	0.361
42DAP/41DAP	1.1506	0.334
43DAP/42DAP	1.76728	0.017
47DAP/43DAP	0.9696	0.833
52DAP/47DAP	0.89473	0.56
57DAP/52DAP	1.08109	0.571
57DAP/7DAP	0.94996	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05685	0.625
17DAP/reference	0.99668	0.693
27DAP/reference	1.01813	0.551
39DAP/reference	1.03781	0.198
41DAP/reference	1.04583	0.475
42DAP/reference	1.02344	0.405
43DAP/reference	1.03192	0.344
47DAP/reference	1.30439	0.049
52DAP/reference	0.99346	0.621
57DAP/reference	1.00268	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02188	0.848
17DAP/reference	1.18667	0.271
27DAP/reference	1.20092	0.419
39DAP/reference	1.55968	0.014
41DAP/reference	1.4627	0.013
42DAP/reference	1.36183	0.01
43DAP/reference	1.14886	0.769
47DAP/reference	1.15615	0.095
52DAP/reference	1.3922	0.02
57DAP/reference	1.31018	0.538

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01313	0.918
17DAP/reference	1.12698	0.343
27DAP/reference	1.06686	0.357
39DAP/reference	1.04558	0.14
41DAP/reference	1.08577	0.296
42DAP/reference	1.13411	0.408
43DAP/reference	1.41649	0.139
47DAP/reference	1.18021	0.309
52DAP/reference	0.92543	0.395
57DAP/reference	1.70312	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84763	0.915
26DAP/20DAP	1.61701	0.102
34DAP/26DAP	0.99192	1
51DAP/34DAP	0.88385	0.281
52DAP/51DAP	1.01914	0.904
53DAP/52DAP	0.88791	0.465
55DAP/53DAP	0.80596	0.102
57DAP/55DAP	1.45713	0.063
62DAP/57DAP	1.16208	1
68DAP/62DAP	2.06444	0.16
68DAP/14DAP	1.22973	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41459	0.036

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.40598	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.83274
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.05126
4-1-1/M82	N/A	N/A
4-1/M82	1.89814
4-3-2/M82	1.34897	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.68361
7-2/M82	N/A	N/A
9-3-2/M82	1.23532	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00206	1
IL2-6/WTpooled	0.60549	0.348
IL7-5/WTpooled	0.81307	1
IL7-3/WTpooled	1.12865	1
IL12-4/WTpooled	0.97641	1
IL1-4/WTpooled	0.84227	0.562
WT/WTpooled	0.94614	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	0.97974	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.21949
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.87976	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86334	0.183
DC3000 delta B/DC3000 delta AB	0.99428	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99456	1
Exp 36h	N/A	N/A
Exp 60h	1.05292	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02348	1
Var 0h	1.04586	0.98
Var 12h I row2-row1	0.89463	0.514
Var 12h NI row2-row1	1.17731	1
Var 36h I row2-row1	0.98305	1
Var 36h NI row2-row1	0.83263	0.549
Var 60h I row2-row1	0.97693	0.952
Var 60h NI row2-row1	0.88937	0.516
Time course 0hI-0hNI	0.82481	0.096
Time course 12hI-12hNI	1.15339	0.047
Time course 36hI-36hNI	0.99859	0.601
Time course 60hI-60hNI	0.57463	0.006

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.56787	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.83316	0.333
Manapal/WT (red)	1.0291	1