Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.7.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.42434	0.014
27DAP/17DAP	0.78543	0.442
39DAP/27DAP	1.00266	0.769
41DAP/39DAP	1.02043	0.96
42DAP/41DAP	1.61599	0.141
43DAP/42DAP	1.19793	0.957
47DAP/43DAP	1.04619	0.842
52DAP/47DAP	0.88498	0.668
57DAP/52DAP	1.16434	0.904

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07743	0.76
17DAP/reference	1.24494	0.027
27DAP/reference	0.99191	0.779
39DAP/reference	1.02274	0.8
41DAP/reference	1.0429	0.587
42DAP/reference	0.97755	0.425
43DAP/reference	1.05755	0.382
47DAP/reference	1.06952	0.524
52DAP/reference	0.87978	0.102
57DAP/reference	0.94297	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.52462	0.03
27DAP/17DAP	1.10978	0.751
39DAP/27DAP	1.16581	0.347
41DAP/39DAP	0.54226	0.013
42DAP/41DAP	1.28025	0.039
43DAP/42DAP	2.4724	0.013
47DAP/43DAP	0.99519	0.985
52DAP/47DAP	1.09661	0.756
57DAP/52DAP	0.85657	0.308
57DAP/7DAP	0.78925	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78665	0.115
17DAP/reference	0.91081	0.295
27DAP/reference	1.29265
39DAP/reference	1.03771	1
41DAP/reference	0.93374	0.357
42DAP/reference	0.93586	0.371
43DAP/reference	0.90325	0.252
47DAP/reference	0.91621	0.383
52DAP/reference	1.22725	0.781
57DAP/reference	1.077	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03197	0.77
17DAP/reference	1.17957	0.32
27DAP/reference	1.00327	0.711
39DAP/reference	1.09335	1
41DAP/reference	1.03117	1
42DAP/reference	0.86724	0.169
43DAP/reference	1.1562	0.54
47DAP/reference	0.91415	0.149
52DAP/reference	1.15642	0.114
57DAP/reference	1.07876	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82249	0.249
17DAP/reference	1.12552	0.283
27DAP/reference	1.13744	0.672
39DAP/reference	1.14239	0.496
41DAP/reference	0.74294	0.024
42DAP/reference	0.81556
43DAP/reference	1.04198	0.614
47DAP/reference	0.98742	0.593
52DAP/reference	0.98455	0.747
57DAP/reference	0.72328	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1071	0.966
26DAP/20DAP	0.78304	0.512
34DAP/26DAP	0.51643
51DAP/34DAP	0.97753	0.835
52DAP/51DAP	0.29552
53DAP/52DAP	0.98919	0.891
55DAP/53DAP	1.13641	0.335
57DAP/55DAP	0.7326
62DAP/57DAP	0.91723	0.994
68DAP/62DAP	0.87838	0.464
68DAP/14DAP	1.05069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.88479	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8964	0.418
Mature Green Tomato/Ripe Tomato	1.04288	0.948
Immature Eggplant/Mature Eggplant	1.02886	0.606
Ripe Pepper/Ripe Tomato	1.53519	1
Mature Eggplant/Ripe Tomato	1.05187

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16046	0.742
1-1-2/M82	N/A	N/A
12-2/M82	1.22702	1
12-4/M82	1.22766	1
1-3/M82	1.46291	0.479
2-1-1/M82	1.05209	0.375
2-1/M82	1.31279	0.345
2-6/M82	1.09138	0.594
3-2/M82	0.9238
4-1-1/M82	1.29568	1
4-1/M82	N/A	N/A
4-3-2/M82	1.31318	0.508
4-3/M82	1.51622	0.268
5-3/M82	0.9413	1
6-2/M82	1.06047	1
6-3/M82	0.97247	1
7-1/M82	1.05406	1
7-2/M82	1.10768	1
9-3-2/M82	1.38333	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83753	0.321
IL2-6/WTpooled	0.80355	1
IL7-5/WTpooled	1.12668	0.792
IL7-3/WTpooled	0.90409	1
IL12-4/WTpooled	1.03812	1
IL1-4/WTpooled	0.9222	0.699
WT/WTpooled	1.05713	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	0.98001	1
DC3000/delta hrp 6h	0.87185	0.95
DC3000/delta hrp 12h	1.04768	1
DC3000/delta hrp 24h	0.67169	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02963	0.598
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	1.47755	1
Exp 60h	1.19622	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03111	1
Var 0h	0.89842	1
Var 12h I row2-row1	0.97851	0.948
Var 12h NI row2-row1	1.00584	1
Var 36h I row2-row1	1.20704	1
Var 36h NI row2-row1	0.87574	0.706
Var 60h I row2-row1	1.15856	0.562
Var 60h NI row2-row1	1.06687	1
Time course 0hI-0hNI	0.83566	0.127
Time course 12hI-12hNI	0.87266	0.188
Time course 36hI-36hNI	1.16488	0.798
Time course 60hI-60hNI	0.79413	0.081

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)	1.05712	0.326
transgenic ySAMdc/azygous control (breaker)	0.88464	0.137
transgenic ySAMdc/azygous control (red)	1.08069	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01967	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27151	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90081	1
Manapal/WT (break)	0.98905	1
Manapal/WT (red)	0.92634	0.36