Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.12.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89056	0.419
27DAP/17DAP	1.01951	1
39DAP/27DAP	1.51358	0.128
41DAP/39DAP	0.87284	0.516
42DAP/41DAP	1.34471	0.608
43DAP/42DAP	0.87795	0.572
47DAP/43DAP	1.08612	0.825
52DAP/47DAP	0.87702	0.641
57DAP/52DAP	0.97135	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10107	0.116
17DAP/reference	0.9231	0.298
27DAP/reference	0.91149	0.201
39DAP/reference	0.88153	0.09
41DAP/reference	0.75199	0.012
42DAP/reference	0.99992	0.645
43DAP/reference	0.92252	0.234
47DAP/reference	0.96464	0.258
52DAP/reference	0.90385	0.073
57DAP/reference	0.93598	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34849	1
27DAP/17DAP	1.10297
39DAP/27DAP	0.47861	0.279
41DAP/39DAP	1.09647
42DAP/41DAP	0.59746	0.047
43DAP/42DAP	0.20527
47DAP/43DAP	1.65916	0.25
52DAP/47DAP	1.08341	0.969
57DAP/52DAP	0.92717	0.179
57DAP/7DAP	0.9351	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36222	0.029
17DAP/reference	1.15311	0.162
27DAP/reference	1.15243	0.06
39DAP/reference	0.85322	0.043
41DAP/reference	0.97093	0.298
42DAP/reference	1.07179	0.686
43DAP/reference	1.33182	0.241
47DAP/reference	1.03657	0.901
52DAP/reference	1.51365	0.008
57DAP/reference	1.43497	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97872	0.639
17DAP/reference	0.8691	0.083
27DAP/reference	0.97737	0.554
39DAP/reference	0.99637	0.603
41DAP/reference	1.0924	0.45
42DAP/reference	1.00734	1
43DAP/reference	0.97085	0.516
47DAP/reference	0.91849	0.208
52DAP/reference	0.88079	0.066
57DAP/reference	0.75025	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16641	0.069
17DAP/reference	1.13234	0.45
27DAP/reference	3.35937	0.237
39DAP/reference	1.12591	0.151
41DAP/reference	1.20538	0.145
42DAP/reference	0.98485	0.671
43DAP/reference	0.8567	0.054
47DAP/reference	0.87168	0.069
52DAP/reference	0.86376	0.186
57DAP/reference	0.91455	0.288

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94341	1
26DAP/20DAP	0.66322
34DAP/26DAP	41.4937
51DAP/34DAP	N/A	N/A
52DAP/51DAP	0.68377	1
53DAP/52DAP	2.09841
55DAP/53DAP	0.80807	0.149
57DAP/55DAP	1.23648	0.898
62DAP/57DAP	1.0152	1
68DAP/62DAP	0.95637	0.885
68DAP/14DAP	0.84176	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10799	0.089
Mature Green Tomato/Ripe Tomato	1.34959	0.149
Immature Eggplant/Mature Eggplant	1.05038	0.606
Ripe Pepper/Ripe Tomato	1.00872	1
Mature Eggplant/Ripe Tomato	1.60718	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.80844	0.883
1-1-2/M82	1.19595	0.977
12-2/M82	0.81648
12-4/M82	1.03794	1
1-3/M82	N/A	N/A
2-1-1/M82	0.98505	0.465
2-1/M82	0.87507
2-6/M82	N/A	N/A
3-2/M82	1.07848	0.84
4-1-1/M82	1.02243	1
4-1/M82	1.80114	0.328
4-3-2/M82	1.14206
4-3/M82	1.02686	1
5-3/M82	1.13367	0.572
6-2/M82	1.08305	1
6-3/M82	1.09348	1
7-1/M82	1.16909
7-2/M82	1.18253	0.318
9-3-2/M82	1.31303	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.91569	0.473
IL7-5/WTpooled	0.41446
IL7-3/WTpooled	0.91969	1
IL12-4/WTpooled	0.79795	0.554
IL1-4/WTpooled	0.97164	1
WT/WTpooled	1.07921	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00336	1
DC3000/delta hrp 6h	0.7851	0.95
DC3000/delta hrp 12h	1.02885	1
DC3000/delta hrp 24h	1.84197	0.062

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	1.29938	1
Exp 36h	1.17487	1
Exp 60h	1.13997	1

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	0.95657	1
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)	1.26035	0.339
transgenic ySAMdc/azygous control (breaker)	0.67979	0.131
transgenic ySAMdc/azygous control (red)	0.97398	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.2347	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83033	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89875	1
Manapal/WT (break)	0.87966	1
Manapal/WT (red)	0.65693	0.181