Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.3.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94281	0.617
27DAP/17DAP	1.90325	0.825
39DAP/27DAP	0.91195	0.641
41DAP/39DAP	1.68734	0.822
42DAP/41DAP	1.64995	0.852
43DAP/42DAP	0.97857	0.925
47DAP/43DAP	0.80319	0.484
52DAP/47DAP	0.75893	0.54
57DAP/52DAP	0.94622	0.936

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26468	0.207
17DAP/reference	1.46252	0.492
27DAP/reference	1.39216	0.098
39DAP/reference	1.42982
41DAP/reference	2.48722	0.007
42DAP/reference	1.23834
43DAP/reference	0.39264
47DAP/reference	N/A	N/A
52DAP/reference	0.55272
57DAP/reference	1.48977

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.59238	0.112
27DAP/17DAP	1.13063	0.598
39DAP/27DAP	0.65036	0.54
41DAP/39DAP	1.19855	0.868
42DAP/41DAP	1.2285	0.622
43DAP/42DAP	1.15957
47DAP/43DAP	0.48632
52DAP/47DAP	0.71789	0.169
57DAP/52DAP	0.96135	0.581
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88932	0.063
17DAP/reference	0.89923	0.011
27DAP/reference	0.91383	0.016
39DAP/reference	0.9326	0.056
41DAP/reference	0.84164	0.018
42DAP/reference	0.80066	0.01
43DAP/reference	0.91967	0.175
47DAP/reference	0.81175	0.168
52DAP/reference	0.94146	0.304
57DAP/reference	0.89406	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43315	0.131
17DAP/reference	1.10451	0.92
27DAP/reference	1.48312	0.041
39DAP/reference	1.39186	0.012
41DAP/reference	1.6156	0.008
42DAP/reference	1.25199	0.066
43DAP/reference	1.29114	0.121
47DAP/reference	1.38421	0.095
52DAP/reference	1.41567	0.006
57DAP/reference	1.85592	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93132	0.063
17DAP/reference	1.08264	0.746
27DAP/reference	0.87752	0.195
39DAP/reference	0.94522	0.076
41DAP/reference	0.98256	0.459
42DAP/reference	0.91239	0.049
43DAP/reference	0.98923	0.59
47DAP/reference	1.15767	0.63
52DAP/reference	0.9523	0.573
57DAP/reference	0.72227	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01293	0.966
26DAP/20DAP	3.91273
34DAP/26DAP	0.27769
51DAP/34DAP	0.49212	0.328
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.80691	0.715
55DAP/53DAP	0.75146	0.218
57DAP/55DAP	0.85365
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.58233	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.53286

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.22006
Mature Eggplant/Ripe Tomato	3.65337

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04352	1
1-1-2/M82	0.98623	1
12-2/M82	0.93795	0.955
12-4/M82	1.055	1
1-3/M82	0.88138	0.441
2-1-1/M82	1.15523	0.764
2-1/M82	1.15685	1
2-6/M82	1.04782	0.695
3-2/M82	0.94293
4-1-1/M82	0.90077	1
4-1/M82	1.21803
4-3-2/M82	0.91574
4-3/M82	1.03391	1
5-3/M82	1.03846	1
6-2/M82	1.0688	1
6-3/M82	0.94389	0.982
7-1/M82	1.00748	1
7-2/M82	1.02788	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93506	0.321
IL2-6/WTpooled	0.82872	1
IL7-5/WTpooled	0.6338	1
IL7-3/WTpooled	0.80293	0.294
IL12-4/WTpooled	0.77377	0.581
IL1-4/WTpooled	0.94556	1
WT/WTpooled	1.04508	0.686

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97497	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.106	0.308

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.95858
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.96483
Var 60h NI row2-row1	0.98795
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	0.95973
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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	N/A	N/A

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)	N/A	N/A
Manapal/WT (red)	1.39061	0.222