Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.15.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.59734	0.041
27DAP/17DAP	0.75007	0.354
39DAP/27DAP	1.06473	0.985
41DAP/39DAP	1.1074	0.964
42DAP/41DAP	1.2264	1
43DAP/42DAP	0.95299	0.892
47DAP/43DAP	1.59694	0.442
52DAP/47DAP	1.12219	0.983
57DAP/52DAP	1.2367	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82254	0.06
17DAP/reference	1.05773	0.427
27DAP/reference	1.0307	0.863
39DAP/reference	1.06746	0.294
41DAP/reference	0.93144	0.341
42DAP/reference	0.90228	0.014
43DAP/reference	0.97899	0.708
47DAP/reference	0.94793	0.207
52DAP/reference	0.8618	0.064
57DAP/reference	0.93088	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30752	0.099
27DAP/17DAP	0.8141	0.259
39DAP/27DAP	1.22213	0.296
41DAP/39DAP	0.70957	0.154
42DAP/41DAP	1.23152	0.526
43DAP/42DAP	1.05232	0.664
47DAP/43DAP	0.8712	0.325
52DAP/47DAP	0.91229	0.397
57DAP/52DAP	0.93095	0.641
57DAP/7DAP	0.97866	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90975	0.203
17DAP/reference	1.05441	0.754
27DAP/reference	0.88975	0.101
39DAP/reference	1.02294	1
41DAP/reference	0.9094	0.16
42DAP/reference	0.75812	0.012
43DAP/reference	1.0639	0.923
47DAP/reference	0.99824	1
52DAP/reference	0.81662	0.04
57DAP/reference	0.8294	0.048

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10844	0.719
17DAP/reference	0.82348	0.046
27DAP/reference	0.80542	0.1
39DAP/reference	0.86834	0.132
41DAP/reference	0.92739	0.237
42DAP/reference	0.82576	0.067
43DAP/reference	0.84332	0.162
47DAP/reference	0.9281	0.173
52DAP/reference	0.95726	0.351
57DAP/reference	0.92097	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00406	1
17DAP/reference	0.92352	0.322
27DAP/reference	1.19551	0.092
39DAP/reference	1.04246	0.451
41DAP/reference	0.91854	0.417
42DAP/reference	0.85617	0.041
43DAP/reference	0.87672	0.226
47DAP/reference	0.98576	0.558
52DAP/reference	1.29205	0.463
57DAP/reference	0.84331	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92856	1
26DAP/20DAP	2.80527	0.099
34DAP/26DAP	1.06894	1
51DAP/34DAP	0.94912	0.703
52DAP/51DAP	0.9731	1
53DAP/52DAP	0.67851	0.374
55DAP/53DAP	0.79176	0.048
57DAP/55DAP	1.0737	0.841
62DAP/57DAP	1.82566	0.081
68DAP/62DAP	1.03986	0.834
68DAP/14DAP	1.32167	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.2914	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.18841	0.417
Mature Green Tomato/Ripe Tomato	0.94927	0.377
Immature Eggplant/Mature Eggplant	1.85105	0.417
Ripe Pepper/Ripe Tomato	1.22761	1
Mature Eggplant/Ripe Tomato	0.29509	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.37549	0.574
1-1-2/M82	0.95426	0.754
12-2/M82	1.24771
12-4/M82	0.97621	1
1-3/M82	1.14009
2-1-1/M82	1.68013	0.689
2-1/M82	1.43566	0.345
2-6/M82	N/A	N/A
3-2/M82	1.06293
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.97824
4-3/M82	1.22716
5-3/M82	0.63309	0.419
6-2/M82	N/A	N/A
6-3/M82	0.95149
7-1/M82	N/A	N/A
7-2/M82	0.99473	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.16832	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93225	1
IL12-4/WTpooled	1.34927	0.426
IL1-4/WTpooled	0.8919
WT/WTpooled	1.03093	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	0.95726	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16201	0.921
DC3000/delta hrp 6h	0.80355	0.95
DC3000/delta hrp 12h	1.06997	1
DC3000/delta hrp 24h	1.04624	0.453

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	0.84164	1
Exp 36h	0.96605	0.943
Exp 60h	0.87578	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.87476	1
Var 0h	0.99292	1
Var 12h I row2-row1	1.07185	0.58
Var 12h NI row2-row1	0.92747	0.82
Var 36h I row2-row1	0.85317
Var 36h NI row2-row1	1.36711	1
Var 60h I row2-row1	1.0282	1
Var 60h NI row2-row1	1.33322	0.904
Time course 0hI-0hNI	0.86024	0.548
Time course 12hI-12hNI	1.01652	0.827
Time course 36hI-36hNI	0.91753	0.206
Time course 60hI-60hNI	0.57442	0.047

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)	1.05094	0.273
transgenic ySAMdc/azygous control (breaker)	0.78501	0.142
transgenic ySAMdc/azygous control (red)	0.94052	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98373	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95819	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72021	0.172
Manapal/WT (break)	1.28276	1
Manapal/WT (red)	0.93426	0.607