Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13169	0.786
27DAP/17DAP	0.95026	0.939
39DAP/27DAP	1.26976	0.782
41DAP/39DAP	0.88447	0.483
42DAP/41DAP	1.14286	1
43DAP/42DAP	0.76637	0.554
47DAP/43DAP	1.24693	0.647
52DAP/47DAP	0.87866	0.693
57DAP/52DAP	1.36051	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06419	0.788
17DAP/reference	1.09874	0.178
27DAP/reference	0.98132	0.694
39DAP/reference	0.94018	0.446
41DAP/reference	1.00473	1
42DAP/reference	1.09301	0.324
43DAP/reference	0.94809	0.287
47DAP/reference	1.04012	0.885
52DAP/reference	1.03323	1
57DAP/reference	0.97859	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84216	0.323
27DAP/17DAP	1.073	0.842
39DAP/27DAP	0.94042	0.628
41DAP/39DAP	2.19192	0.021
42DAP/41DAP	0.71771	0.023
43DAP/42DAP	0.64397	0.025
47DAP/43DAP	1.18054	1
52DAP/47DAP	1.00648	0.935
57DAP/52DAP	1.54735	0.352
57DAP/7DAP	1.25205	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98161	0.613
17DAP/reference	0.96227	0.389
27DAP/reference	0.91707	0.185
39DAP/reference	0.95589	0.411
41DAP/reference	0.88164	0.203
42DAP/reference	0.92376	0.211
43DAP/reference	0.72595	0.016
47DAP/reference	0.87342	0.222
52DAP/reference	1.09138	0.781
57DAP/reference	1.05103	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07932	0.712
17DAP/reference	1.14341	0.024
27DAP/reference	1.08987	0.463
39DAP/reference	0.99801	0.682
41DAP/reference	0.9902	0.557
42DAP/reference	0.92647	0.289
43DAP/reference	1.22336	0.063
47DAP/reference	1.05603	0.498
52DAP/reference	1.02316	0.882
57DAP/reference	1.05489	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89535	0.183
17DAP/reference	1.01077	1
27DAP/reference	0.87007	0.184
39DAP/reference	0.84065	0.031
41DAP/reference	0.85239	0.03
42DAP/reference	0.90427	0.287
43DAP/reference	0.87447	0.125
47DAP/reference	1.1473	0.519
52DAP/reference	0.96016	0.562
57DAP/reference	1.27591	0.164

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07057	0.966
26DAP/20DAP	1.45752	0.172
34DAP/26DAP	1.39864	0.304
51DAP/34DAP	0.91493	0.537
52DAP/51DAP	1.19771	0.358
53DAP/52DAP	0.70468	0.099
55DAP/53DAP	0.94917	0.709
57DAP/55DAP	0.86748	0.496
62DAP/57DAP	1.12382	0.902
68DAP/62DAP	1.17758	0.653
68DAP/14DAP	0.84391	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56613	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76827	0.228
Mature Green Tomato/Ripe Tomato	1.05175	0.814
Immature Eggplant/Mature Eggplant	1.55137	0.05
Ripe Pepper/Ripe Tomato	3.21913	0.258
Mature Eggplant/Ripe Tomato	1.93422	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.72776	0.33
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	1.05139
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.72496	0.387
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.35406
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92188	0.243
IL2-6/WTpooled	1.08917	0.584
IL7-5/WTpooled	0.97916	1
IL7-3/WTpooled	0.91701	1
IL12-4/WTpooled	1.11236	0.737
IL1-4/WTpooled	0.91256	0.699
WT/WTpooled	1.01277	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	1.24516	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10271	0.823
DC3000/delta hrp 6h	0.96858	0.95
DC3000/delta hrp 12h	1.11985	1
DC3000/delta hrp 24h	1.34746	0.322

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	1.28291	0.368

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09833	1
Exp 36h	1.18636	0.693
Exp 60h	1.42886	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.18643	1
Var 0h	0.98687	1
Var 12h I row2-row1	0.99942	1
Var 12h NI row2-row1	1.91704	0.34
Var 36h I row2-row1	1.09821	1
Var 36h NI row2-row1	0.67309	0.522
Var 60h I row2-row1	0.81572	0.374
Var 60h NI row2-row1	0.92415	1
Time course 0hI-0hNI	1.14343	0.799
Time course 12hI-12hNI	1.4523	0.057
Time course 36hI-36hNI	3.17664	0.005
Time course 60hI-60hNI	5.16281	0.008

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)	1.11016	0.331
transgenic ySAMdc/azygous control (breaker)	0.77751	0.251
transgenic ySAMdc/azygous control (red)	1.10857	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11114	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5767	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02207	1
Manapal/WT (break)	0.90827	1
Manapal/WT (red)	0.84148	0.229