Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.19.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.67846	0.067
27DAP/17DAP	1.21284	0.845
39DAP/27DAP	1.13233	0.745
41DAP/39DAP	0.92447	0.711
42DAP/41DAP	1.26333	0.619
43DAP/42DAP	1.42125	0.127
47DAP/43DAP	0.72847	0.25
52DAP/47DAP	0.849	0.623
57DAP/52DAP	0.99635	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8952	0.293
17DAP/reference	0.9197	0.24
27DAP/reference	0.93477	0.484
39DAP/reference	1.04603	0.615
41DAP/reference	1.04675	0.808
42DAP/reference	0.95655	0.295
43DAP/reference	1.01449	0.904
47DAP/reference	0.91544	0.224
52DAP/reference	0.96438	0.438
57DAP/reference	0.96937	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12354	1
27DAP/17DAP	1.128	0.909
39DAP/27DAP	1.24467	0.643
41DAP/39DAP	0.97047	0.945
42DAP/41DAP	1.03325	0.762
43DAP/42DAP	1.1515	0.413
47DAP/43DAP	0.99984	0.93
52DAP/47DAP	1.53504	0.194
57DAP/52DAP	0.92655	0.494
57DAP/7DAP	0.91445	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.966	0.495
17DAP/reference	0.94397	0.253
27DAP/reference	0.9404	0.264
39DAP/reference	0.85446	0.23
41DAP/reference	0.87866	0.16
42DAP/reference	0.66513	0.013
43DAP/reference	0.87227	0.159
47DAP/reference	0.8504	0.293
52DAP/reference	0.81802	0.09
57DAP/reference	1.10122	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99829	0.72
17DAP/reference	1.00883	0.626
27DAP/reference	1.37748	0.093
39DAP/reference	0.86611	0.195
41DAP/reference	0.98778	0.531
42DAP/reference	0.96249	0.482
43DAP/reference	1.32149	0.13
47DAP/reference	0.99949	0.714
52DAP/reference	0.74821	0.22
57DAP/reference	1.04586	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93397	0.362
17DAP/reference	0.9231	0.477
27DAP/reference	0.93265	0.302
39DAP/reference	0.89397	0.133
41DAP/reference	0.83694	0.058
42DAP/reference	0.98333	0.671
43DAP/reference	0.8522	0.256
47DAP/reference	0.89758	0.076
52DAP/reference	1.49607	0.917
57DAP/reference	0.86632	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3738	0.945
26DAP/20DAP	0.81365	0.317
34DAP/26DAP	0.95455	0.97
51DAP/34DAP	1.06336	0.84
52DAP/51DAP	1.08362	0.431
53DAP/52DAP	0.93433	0.897
55DAP/53DAP	0.99966	0.939
57DAP/55DAP	1.17905	0.927
62DAP/57DAP	1.10286	0.833
68DAP/62DAP	0.76723	0.464
68DAP/14DAP	1.37972	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20964	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.09646	0.063
Mature Green Tomato/Ripe Tomato	0.95551	0.611
Immature Eggplant/Mature Eggplant	1.0348	0.633
Ripe Pepper/Ripe Tomato	0.58281	0.224
Mature Eggplant/Ripe Tomato	0.66199	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99987	1
1-1-2/M82	0.98477	1
12-2/M82	0.97748	0.955
12-4/M82	1.57463	1
1-3/M82	N/A	N/A
2-1-1/M82	1.1455
2-1/M82	1.13684
2-6/M82	1.78481
3-2/M82	0.93339
4-1-1/M82	1.2182
4-1/M82	2.23339
4-3-2/M82	N/A	N/A
4-3/M82	1.16407
5-3/M82	0.90221	1
6-2/M82	0.76875
6-3/M82	0.87541	0.916
7-1/M82	N/A	N/A
7-2/M82	0.97429
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29864
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.19551
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	3.97145
WT/WTpooled	N/A	N/A

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	1.2319	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92398	1
DC3000/delta hrp 6h	1.03506	1
DC3000/delta hrp 12h	1.08104	1
DC3000/delta hrp 24h	1.23238	0.072

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	0.92421	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.46289	1
Exp 36h	1.88967	0.489
Exp 60h	2.0032	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03342	1
Var 0h	0.53632	0.457
Var 12h I row2-row1	0.97315	0.705
Var 12h NI row2-row1	1.14563	1
Var 36h I row2-row1	1.09784	0.305
Var 36h NI row2-row1	1.06484	1
Var 60h I row2-row1	0.77918	0.439
Var 60h NI row2-row1	0.87202	0.977
Time course 0hI-0hNI	1.09747	0.344
Time course 12hI-12hNI	1.10684	0.422
Time course 36hI-36hNI	1.14385	0.128
Time course 60hI-60hNI	1.16391	0.096

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)	0.908	0.32
transgenic ySAMdc/azygous control (breaker)	0.54093	0.129
transgenic ySAMdc/azygous control (red)	0.87799	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02786	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74345	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03897	0.307
Manapal/WT (break)	0.86529	1
Manapal/WT (red)	0.85561	0.36