Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03873	0.977
27DAP/17DAP	0.7909	0.46
39DAP/27DAP	1.08682	0.768
41DAP/39DAP	1.4158	0.273
42DAP/41DAP	1.03849	0.945
43DAP/42DAP	1.51095	0.075
47DAP/43DAP	1.53168	0.201
52DAP/47DAP	1.50849	0.463
57DAP/52DAP	1.02852	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73959	0.025
17DAP/reference	1.01835	0.813
27DAP/reference	0.96425	0.538
39DAP/reference	1.41297	0.035
41DAP/reference	1.1658	0.027
42DAP/reference	1.66413	0.003
43DAP/reference	1.75106	0.007
47DAP/reference	3.04867	0.001
52DAP/reference	2.36947	0.083
57DAP/reference	1.84411	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23787	0.455
27DAP/17DAP	1.02427	0.995
39DAP/27DAP	1.19384	0.565
41DAP/39DAP	1.25529	0.817
42DAP/41DAP	2.17481	0.007
43DAP/42DAP	2.32065	0.014
47DAP/43DAP	1.0623	0.93
52DAP/47DAP	1.48999	0.367
57DAP/52DAP	0.86107	0.537
57DAP/7DAP	2.56065	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74927	0.08
17DAP/reference	0.76188	0.013
27DAP/reference	0.80311	0.031
39DAP/reference	1.24234	0.056
41DAP/reference	0.93115	0.311
42DAP/reference	1.18682	0.686
43DAP/reference	1.41989	0.132
47DAP/reference	2.15727	0.014
52DAP/reference	0.96846	0.435
57DAP/reference	0.86127	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94758	0.532
17DAP/reference	0.74637	0.102
27DAP/reference	0.80234	0.093
39DAP/reference	1.02949	1
41DAP/reference	0.76636	0.03
42DAP/reference	0.79476	0.024
43DAP/reference	1.0023	0.67
47DAP/reference	1.25075	0.074
52DAP/reference	0.85283	0.043
57DAP/reference	1.32423	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71748	0.092
17DAP/reference	0.78194	0.128
27DAP/reference	0.85226	0.23
39DAP/reference	0.96233	0.464
41DAP/reference	0.88891	0.077
42DAP/reference	1.52761	0.051
43DAP/reference	2.04748	0.029
47DAP/reference	2.6375	0.005
52DAP/reference	1.83703	0.082
57DAP/reference	1.62653	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04459	1
26DAP/20DAP	0.91829	1
34DAP/26DAP	0.80145	0.898
51DAP/34DAP	1.23786	0.597
52DAP/51DAP	1.00795	1
53DAP/52DAP	2.4044	0.086
55DAP/53DAP	1.09035	0.82
57DAP/55DAP	0.64195	0.071
62DAP/57DAP	0.59283	0.05
68DAP/62DAP	1.32384	0.878
68DAP/14DAP	1.00366	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14732	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.56034	0.13
Mature Green Tomato/Ripe Tomato	0.08097
Immature Eggplant/Mature Eggplant	3.88061	0.05
Ripe Pepper/Ripe Tomato	0.1722	0.224
Mature Eggplant/Ripe Tomato	0.14695	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97801	0.944
1-1-2/M82	0.74859	1
12-2/M82	0.96404	0.955
12-4/M82	1.18563	1
1-3/M82	0.85844	1
2-1-1/M82	0.85297	0.465
2-1/M82	0.72778	0.318
2-6/M82	0.92993	1
3-2/M82	0.26533	0.455
4-1-1/M82	0.95956	1
4-1/M82	1.37043	0.853
4-3-2/M82	0.99186	1
4-3/M82	0.90166	0.72
5-3/M82	0.90854	1
6-2/M82	1.03014	1
6-3/M82	0.98531	1
7-1/M82	1.00722	1
7-2/M82	1.13774	1
9-3-2/M82	1.60381	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.13319	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16007	1
IL12-4/WTpooled	0.97133	1
IL1-4/WTpooled	0.94384	0.834
WT/WTpooled	0.92094	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	1.23311

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99428	1
DC3000/delta hrp 6h	1.31672	1
DC3000/delta hrp 12h	1.15402	1
DC3000/delta hrp 24h	1.05097	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.14416
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	1.17349	1
Exp 36h	1.54225	0.693
Exp 60h	1.68019	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.86663	0.291
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.59997	0.261
transgenic ySAMdc/azygous control (breaker)	0.79801	0.173
transgenic ySAMdc/azygous control (red)	0.91103	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08664	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96481	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.55185	0.172
Manapal/WT (break)	1.14683	1
Manapal/WT (red)	0.92914	0.607