Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.5.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85763	0.339
27DAP/17DAP	1.10286	0.849
39DAP/27DAP	0.94799	0.682
41DAP/39DAP	1.40917	0.293
42DAP/41DAP	1.05985	1
43DAP/42DAP	0.84372	0.713
47DAP/43DAP	1.0196	0.804
52DAP/47DAP	1.73386	0.236
57DAP/52DAP	0.86893	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95515	0.489
17DAP/reference	0.73309	0.02
27DAP/reference	0.95215	0.457
39DAP/reference	0.78504	0.026
41DAP/reference	0.718	0.016
42DAP/reference	0.85745	0.085
43DAP/reference	0.82491	0.031
47DAP/reference	1.03297	0.72
52DAP/reference	1.44601	0.023
57DAP/reference	1.16534	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90318	0.402
27DAP/17DAP	1.20384	0.511
39DAP/27DAP	1.19632	0.512
41DAP/39DAP	1.22494	0.868
42DAP/41DAP	0.98786	0.768
43DAP/42DAP	0.92068	0.618
47DAP/43DAP	0.94879	0.796
52DAP/47DAP	1.00458	0.907
57DAP/52DAP	1.01699	1
57DAP/7DAP	1.18322	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76402	0.063
17DAP/reference	0.83927	0.049
27DAP/reference	0.9102	0.048
39DAP/reference	0.85737	0.073
41DAP/reference	0.88494	0.184
42DAP/reference	0.93666	0.289
43DAP/reference	0.78539	0.031
47DAP/reference	0.86848	0.293
52DAP/reference	0.77469	0.019
57DAP/reference	0.80305	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8153	0.119
17DAP/reference	0.72755	0.009
27DAP/reference	0.96419	0.483
39DAP/reference	1.10179	0.764
41DAP/reference	1.10203	0.471
42DAP/reference	1.04403	0.649
43DAP/reference	0.82674	0.175
47DAP/reference	0.82341	0.035
52DAP/reference	1.02633	1
57DAP/reference	0.67859	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83269	0.038
17DAP/reference	0.96727	0.647
27DAP/reference	0.75677	0.032
39DAP/reference	0.84477	0.024
41DAP/reference	0.9781	0.618
42DAP/reference	1.13679	1
43DAP/reference	1.24404	0.779
47DAP/reference	1.13909	0.73
52DAP/reference	0.75173	0.131
57DAP/reference	2.46613	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17643	0.966
26DAP/20DAP	0.92533	1
34DAP/26DAP	0.83644	0.783
51DAP/34DAP	0.87402	0.508
52DAP/51DAP	1.13188	0.776
53DAP/52DAP	1.02897	0.944
55DAP/53DAP	1.12168	0.876
57DAP/55DAP	0.63752	0.213
62DAP/57DAP	1.54869
68DAP/62DAP	3.70806	0.017
68DAP/14DAP	4.37022	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14851	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.3451	0.577
Immature Eggplant/Mature Eggplant	0.91817	0.448
Ripe Pepper/Ripe Tomato	0.87363
Mature Eggplant/Ripe Tomato	1.43911

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06042	0.591
1-1-2/M82	0.99262	1
12-2/M82	N/A	N/A
12-4/M82	1.02833	1
1-3/M82	0.559
2-1-1/M82	1.24905
2-1/M82	N/A	N/A
2-6/M82	1.04871	1
3-2/M82	0.76568
4-1-1/M82	N/A	N/A
4-1/M82	1.82093
4-3-2/M82	N/A	N/A
4-3/M82	1.26913
5-3/M82	1.02032	1
6-2/M82	N/A	N/A
6-3/M82	0.95675
7-1/M82	0.52746
7-2/M82	0.59747	0.553
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05608	0.493
IL2-6/WTpooled	0.97008	1
IL7-5/WTpooled	1.07651	1
IL7-3/WTpooled	0.98971
IL12-4/WTpooled	1.06945	1
IL1-4/WTpooled	1.0584	1
WT/WTpooled	1.51971	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	1.59711	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06379	0.758
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03307	1
DC3000/delta hrp 24h	1.17061	0.633

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	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	1.0937	1
Var 0h	1.04568	1
Var 12h I row2-row1	1.34855	0.283
Var 12h NI row2-row1	0.70865	0.427
Var 36h I row2-row1	0.97563	1
Var 36h NI row2-row1	1.21143	1
Var 60h I row2-row1	1.32234	0.562
Var 60h NI row2-row1	1.27765	0.904
Time course 0hI-0hNI	0.98254	0.945
Time course 12hI-12hNI	0.9311	0.568
Time course 36hI-36hNI	1.10683	0.453
Time course 60hI-60hNI	1.36812	0.019

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)	0.93231	0.324
transgenic ySAMdc/azygous control (breaker)	1.25748	1
transgenic ySAMdc/azygous control (red)	1.18974	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98753	0.517

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)	0.69803	1
Manapal/WT (break)	0.6291	0.299
Manapal/WT (red)	0.92107	0.503