Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25571	0.303
27DAP/17DAP	1.55868	0.402
39DAP/27DAP	1.00731	1
41DAP/39DAP	0.81375	0.317
42DAP/41DAP	0.84685	0.774
43DAP/42DAP	0.94434	0.895
47DAP/43DAP	1.32231	0.42
52DAP/47DAP	1.24389	0.674
57DAP/52DAP	1.38413	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86237	0.046
17DAP/reference	0.95845	0.474
27DAP/reference	0.97872	0.668
39DAP/reference	0.99216	0.841
41DAP/reference	1.02747	1
42DAP/reference	0.88734	0.007
43DAP/reference	0.96898	0.576
47DAP/reference	0.98854	0.568
52DAP/reference	0.9895	0.58
57DAP/reference	1.08436	0.109

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42873	0.06
27DAP/17DAP	0.93719	0.782
39DAP/27DAP	1.13809	0.514
41DAP/39DAP	0.8837	0.586
42DAP/41DAP	1.12794	0.495
43DAP/42DAP	0.96087	0.522
47DAP/43DAP	0.99385	0.971
52DAP/47DAP	1.02724	0.9
57DAP/52DAP	0.98987	0.798
57DAP/7DAP	1.25727	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08097	0.409
17DAP/reference	1.00011	1
27DAP/reference	0.92497	0.071
39DAP/reference	1.26145	0.149
41DAP/reference	1.10833	0.35
42DAP/reference	0.96324	0.371
43DAP/reference	1.0464	1
47DAP/reference	1.03504	1
52DAP/reference	1.03251	1
57DAP/reference	1.04314	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98888	0.655
17DAP/reference	0.90274	0.189
27DAP/reference	1.00823	0.765
39DAP/reference	1.08393	0.588
41DAP/reference	0.84295	0.091
42DAP/reference	0.87544	0.025
43DAP/reference	1.04219	0.835
47DAP/reference	0.84836	0.075
52DAP/reference	1.00029	0.713
57DAP/reference	0.88093	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9058	0.169
17DAP/reference	0.97933	0.658
27DAP/reference	0.94073	0.243
39DAP/reference	0.95993	0.393
41DAP/reference	0.97238	0.512
42DAP/reference	0.83728	0.361
43DAP/reference	0.87205	0.171
47DAP/reference	1.02964	1
52DAP/reference	1.05746	0.779
57DAP/reference	1.20352	0.121

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9082	1
26DAP/20DAP	1.4832	0.12
34DAP/26DAP	0.89955	0.627
51DAP/34DAP	0.88554	0.681
52DAP/51DAP	1.41403	0.556
53DAP/52DAP	0.81578	0.505
55DAP/53DAP	0.92485	0.663
57DAP/55DAP	1.28621	0.074
62DAP/57DAP	1.13005	0.833
68DAP/62DAP	0.82066	0.543
68DAP/14DAP	1.95558	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.11387	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.32461	0.063
Mature Green Tomato/Ripe Tomato	0.89285	0.522
Immature Eggplant/Mature Eggplant	0.79789	0.07
Ripe Pepper/Ripe Tomato	0.33794	0.224
Mature Eggplant/Ripe Tomato	0.72457	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94772	0.944
1-1-2/M82	1.18563	1
12-2/M82	0.87011	0.955
12-4/M82	0.82895	1
1-3/M82	1.07244	1
2-1-1/M82	0.93361	1
2-1/M82	1.50389
2-6/M82	0.82842	0.501
3-2/M82	0.97472
4-1-1/M82	1.08656	1
4-1/M82	1.03383
4-3-2/M82	0.68699	0.487
4-3/M82	0.8037
5-3/M82	1.19766	1
6-2/M82	0.85196
6-3/M82	1.14194	1
7-1/M82	1.36372
7-2/M82	1.10483	1
9-3-2/M82	0.87795

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.82109
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.3643	1
IL12-4/WTpooled	1.02659	1
IL1-4/WTpooled	1.21009	0.426
WT/WTpooled	1.08095	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	1.58881	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13123	0.846
DC3000/delta hrp 6h	0.92989	0.95
DC3000/delta hrp 12h	0.99652	1
DC3000/delta hrp 24h	1.26223	0.09

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.21912	0.042
DC3000 delta B/DC3000 delta AB	1.4065	0.141

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.22178	0.371
Exp 60h	1.29725	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.006	1
Var 0h	0.71306	0.98
Var 12h I row2-row1	1.563	0.473
Var 12h NI row2-row1	1.07233	0.161
Var 36h I row2-row1	0.82664	0.908
Var 36h NI row2-row1	0.98252	1
Var 60h I row2-row1	0.8803	0.292
Var 60h NI row2-row1	0.95517	0.932
Time course 0hI-0hNI	1.09244	0.833
Time course 12hI-12hNI	1.07535	0.654
Time course 36hI-36hNI	1.20105	0.218
Time course 60hI-60hNI	1.39118	0.575

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)	0.84477	0.3
transgenic ySAMdc/azygous control (breaker)	1.37832	0.178
transgenic ySAMdc/azygous control (red)	1.12049	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09515	0.142

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05558	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72415	0.172
Manapal/WT (break)	0.66071	0.299
Manapal/WT (red)	1.5867	0.164