Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20473	0.812
27DAP/17DAP	1.08868	0.873
39DAP/27DAP	0.96172	0.67
41DAP/39DAP	1.26939	0.464
42DAP/41DAP	1.15329	0.852
43DAP/42DAP	1.11516	1
47DAP/43DAP	0.9555	0.821
52DAP/47DAP	0.83945	0.587
57DAP/52DAP	1.11203	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16572	0.814
17DAP/reference	0.90132	0.368
27DAP/reference	0.82683	0.417
39DAP/reference	1.19084	0.101
41DAP/reference	1.2032	0.338
42DAP/reference	0.97456	0.372
43DAP/reference	0.94389	0.5
47DAP/reference	1.13494	0.794
52DAP/reference	1.04472	1
57DAP/reference	1.10441	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90775	0.376
27DAP/17DAP	0.98298	0.887
39DAP/27DAP	1.08461	0.57
41DAP/39DAP	1.11055	0.914
42DAP/41DAP	0.94176	0.568
43DAP/42DAP	1.07747	0.413
47DAP/43DAP	0.98647	0.93
52DAP/47DAP	0.9966	0.941
57DAP/52DAP	0.99613	0.869
57DAP/7DAP	0.86029	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75001	0.073
17DAP/reference	0.94545	0.389
27DAP/reference	0.94616	0.325
39DAP/reference	0.57816	0.039
41DAP/reference	0.78279	0.122
42DAP/reference	0.6875	0.023
43DAP/reference	0.90836	0.305
47DAP/reference	0.78841	0.168
52DAP/reference	0.7704	0.049
57DAP/reference	0.81195	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75281	0.019
17DAP/reference	1.01741	0.747
27DAP/reference	0.7395	0.053
39DAP/reference	1.04132	1
41DAP/reference	1.04035	0.718
42DAP/reference	1.07906	1
43DAP/reference	1.00226	0.569
47DAP/reference	1.08557	0.675
52DAP/reference	1.21801	0.498
57DAP/reference	0.90292	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87943	0.077
17DAP/reference	1.35942	0.518
27DAP/reference	0.86712	0.113
39DAP/reference	0.90429	0.271
41DAP/reference	1.06115	0.796
42DAP/reference	0.88089	0.22
43DAP/reference	0.97584	0.59
47DAP/reference	1.27402	0.847
52DAP/reference	0.82907	0.177
57DAP/reference	1.22215	0.614

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1429	1
26DAP/20DAP	0.95074	1
34DAP/26DAP	1.13618	1
51DAP/34DAP	0.8077	0.145
52DAP/51DAP	1.24193	0.085
53DAP/52DAP	0.98635	0.951
55DAP/53DAP	1.08471	0.689
57DAP/55DAP	1.09733	0.865
62DAP/57DAP	1.04933	1
68DAP/62DAP	0.90274	0.769
68DAP/14DAP	1.19231

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77812	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.47949	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.34199
Mature Eggplant/Ripe Tomato	0.92403	1

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	0.70061
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	N/A	N/A
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	0.89478
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.97665	1
IL2-6/WTpooled	1.11498	0.788
IL7-5/WTpooled	1.35189	1
IL7-3/WTpooled	0.92988	0.418
IL12-4/WTpooled	0.96554	1
IL1-4/WTpooled	1.026	1
WT/WTpooled	0.89616

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	1.10157	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15384	0.823
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05855	1
DC3000/delta hrp 24h	0.96891	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18267	0.333
DC3000 delta B/DC3000 delta AB	1.01921	0.726

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	0.94613	1
Var 0h	0.55702	1
Var 12h I row2-row1	1.02766	0.473
Var 12h NI row2-row1	0.84768	0.82
Var 36h I row2-row1	0.77455	0.575
Var 36h NI row2-row1	1.13048	1
Var 60h I row2-row1	1.50501	0.562
Var 60h NI row2-row1	1.19405	0.904
Time course 0hI-0hNI	1.07431	0.764
Time course 12hI-12hNI	1.01091	0.888
Time course 36hI-36hNI	0.92217	0.073
Time course 60hI-60hNI	0.81623	0.015

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	1.49261	0.277

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)	1.40693	1
Manapal/WT (red)	0.93293	0.863