Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.7.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8894	0.503
27DAP/17DAP	0.69453	0.18
39DAP/27DAP	1.1566	0.635
41DAP/39DAP	0.89309	0.617
42DAP/41DAP	1.52211	0.434
43DAP/42DAP	0.9379	0.877
47DAP/43DAP	1.22474	0.463
52DAP/47DAP	0.98728	0.92
57DAP/52DAP	1.15963	0.944

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20868	0.685
17DAP/reference	1.03843	0.858
27DAP/reference	1.11364	0.672
39DAP/reference	1.00511	1
41DAP/reference	0.88141
42DAP/reference	1.39995
43DAP/reference	N/A	N/A
47DAP/reference	0.74778	0.191
52DAP/reference	3.14291	0.053
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.52149	0.036
27DAP/17DAP	0.97572	0.878
39DAP/27DAP	1.15371	0.496
41DAP/39DAP	0.79313	0.096
42DAP/41DAP	1.37537	0.034
43DAP/42DAP	1.00825	1
47DAP/43DAP	0.93793	0.712
52DAP/47DAP	1.33132	0.239
57DAP/52DAP	1.2964	0.183
57DAP/7DAP	1.69005	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28081	0.056
17DAP/reference	0.86216	0.518
27DAP/reference	0.88039	0.135
39DAP/reference	0.90104	0.264
41DAP/reference	1.11	0.512
42DAP/reference	0.72739	0.066
43DAP/reference	1.09022	1
47DAP/reference	1.07351
52DAP/reference	1.33602	0.113
57DAP/reference	0.91448	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.6161	0.289
17DAP/reference	0.99895	0.851
27DAP/reference	0.8807	0.393
39DAP/reference	0.9871	0.603
41DAP/reference	1.24099	0.262
42DAP/reference	1.35844
43DAP/reference	0.9619
47DAP/reference	0.71078
52DAP/reference	0.93853	0.407
57DAP/reference	0.98499	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.43347
17DAP/reference	1.30982	0.07
27DAP/reference	1.23017	0.425
39DAP/reference	1.27204
41DAP/reference	2.85539
42DAP/reference	0.7376	0.445
43DAP/reference	0.81685	0.484
47DAP/reference	N/A	N/A
52DAP/reference	1.9385	0.601
57DAP/reference	N/A	N/A

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01224	1
26DAP/20DAP	1.91126	0.113
34DAP/26DAP	0.97764	0.954
51DAP/34DAP	0.69734	0.167
52DAP/51DAP	2.55666	0.034
53DAP/52DAP	0.72089	0.131
55DAP/53DAP	1.36976	0.047
57DAP/55DAP	0.61062	0.056
62DAP/57DAP	0.96185	0.994
68DAP/62DAP	0.74551	0.579
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.57076	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.90111	0.446
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.69459
12-2/M82	N/A	N/A
12-4/M82	1.12797
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	0.99395	1
4-3-2/M82	0.5984	0.487
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	0.99188	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07925	1
IL2-6/WTpooled	0.98697	1
IL7-5/WTpooled	0.70193	1
IL7-3/WTpooled	0.96418	1
IL12-4/WTpooled	0.80085	0.543
IL1-4/WTpooled	1.01624	1
WT/WTpooled	0.98325	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	1.1452	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.67293
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16724	0.384
DC3000 delta B/DC3000 delta AB	0.93924	0.511

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	1.00554	1
Var 0h	1.05071	1
Var 12h I row2-row1	0.83943	0.338
Var 12h NI row2-row1	0.93774	0.906
Var 36h I row2-row1	0.85926	0.575
Var 36h NI row2-row1	1.11179	1
Var 60h I row2-row1	1.03357	1
Var 60h NI row2-row1	1.10647	0.904
Time course 0hI-0hNI	0.9494	0.679
Time course 12hI-12hNI	0.96384	0.734
Time course 36hI-36hNI	0.82819	0.148
Time course 60hI-60hNI	0.39	0.006

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	N/A	N/A

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)	N/A	N/A
Manapal/WT (red)	1.39018	0.222