Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.10.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4462	0.153
27DAP/17DAP	1.12273	0.881
39DAP/27DAP	1.51486	0.128
41DAP/39DAP	0.88633	0.582
42DAP/41DAP	1.13398	0.825
43DAP/42DAP	1.29803	0.829
47DAP/43DAP	0.65775	0.111
52DAP/47DAP	0.86881	0.634
57DAP/52DAP	0.94956	0.936

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19209	0.218
17DAP/reference	1.13164	0.057
27DAP/reference	0.91403	0.157
39DAP/reference	0.98004	0.611
41DAP/reference	1.0651	0.265
42DAP/reference	1.09353	0.366
43DAP/reference	0.9295	0.049
47DAP/reference	1.09717	0.593
52DAP/reference	0.87114	0.067
57DAP/reference	0.86137	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.40432	0.036
27DAP/17DAP	0.74129	0.121
39DAP/27DAP	1.0145	1
41DAP/39DAP	0.97468	0.923
42DAP/41DAP	0.9227	0.548
43DAP/42DAP	2.04016	0.014
47DAP/43DAP	1.09455	0.744
52DAP/47DAP	0.8572	0.255
57DAP/52DAP	0.61783	0.078
57DAP/7DAP	1.13345	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93489	0.361
17DAP/reference	0.91725	0.144
27DAP/reference	0.79163	0.01
39DAP/reference	0.9762	0.474
41DAP/reference	0.82318	0.194
42DAP/reference	0.80442	0.027
43DAP/reference	0.82235	0.028
47DAP/reference	0.90393	0.383
52DAP/reference	0.88266	0.15
57DAP/reference	0.86653	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39994	0.137
17DAP/reference	1.27132	0.156
27DAP/reference	1.17721	0.143
39DAP/reference	1.19563	0.188
41DAP/reference	1.08675	0.587
42DAP/reference	1.2358	0.031
43DAP/reference	1.23619	0.447
47DAP/reference	1.1588	0.03
52DAP/reference	1.09538	0.417
57DAP/reference	1.34857	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96469	0.526
17DAP/reference	1.0522	0.932
27DAP/reference	0.80698	0.038
39DAP/reference	0.83346	0.023
41DAP/reference	0.94376	0.417
42DAP/reference	0.84418	0.172
43DAP/reference	0.92005	0.179
47DAP/reference	1.12583	0.077
52DAP/reference	0.84687	0.319
57DAP/reference	0.82059	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89738	1
26DAP/20DAP	1.76891	0.099
34DAP/26DAP	1.04672	1
51DAP/34DAP	0.80062	0.1
52DAP/51DAP	0.80941	1
53DAP/52DAP	1.07769	0.783
55DAP/53DAP	0.6542	0.025
57DAP/55DAP	0.98438	0.765
62DAP/57DAP	0.84433	0.28
68DAP/62DAP	0.64034	0.135
68DAP/14DAP	0.60766	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.42074	0.049

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0191	0.863
Mature Green Tomato/Ripe Tomato	1.60319	0.07
Immature Eggplant/Mature Eggplant	0.94487	0.545
Ripe Pepper/Ripe Tomato	1.59847	1
Mature Eggplant/Ripe Tomato	1.35549	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.25115	0.432
1-1-2/M82	1.54382	1
12-2/M82	0.98219	1
12-4/M82	1.29736	1
1-3/M82	0.75902
2-1-1/M82	0.95478	0.92
2-1/M82	1.05165	1
2-6/M82	1.01759	1
3-2/M82	1.51236	0.717
4-1-1/M82	0.79245	1
4-1/M82	1.53821	1
4-3-2/M82	1.85054	0.508
4-3/M82	0.74164	0.72
5-3/M82	1.12077	1
6-2/M82	0.73744	0.497
6-3/M82	0.90199	0.982
7-1/M82	0.81112	0.803
7-2/M82	0.92176	0.881
9-3-2/M82	1.53414	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11066
IL12-4/WTpooled	0.99034
IL1-4/WTpooled	1.21056	1
WT/WTpooled	1.04325	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	1.129	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99531	1
DC3000/delta hrp 6h	1.06159	1
DC3000/delta hrp 12h	1.08426	1
DC3000/delta hrp 24h	0.98035	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1999	0.055
DC3000 delta B/DC3000 delta AB	1.13163	0.304

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99789	1
Exp 36h	0.72988	0.539
Exp 60h	0.57998	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97433	1
Var 0h	1.15037	0.936
Var 12h I row2-row1	0.89728	0.565
Var 12h NI row2-row1	0.9727	0.906
Var 36h I row2-row1	1.35466	0.309
Var 36h NI row2-row1	1.0312	1
Var 60h I row2-row1	0.78426	0.439
Var 60h NI row2-row1	0.95621	1
Time course 0hI-0hNI	1.13519	0.603
Time course 12hI-12hNI	1.02481	0.82
Time course 36hI-36hNI	0.97084	0.46
Time course 60hI-60hNI	1.61265	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)	0.95235	0.33
transgenic ySAMdc/azygous control (breaker)	1.50843	0.162
transgenic ySAMdc/azygous control (red)	1.11878	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96312	0.146

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.64844	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.65742	0.083
Manapal/WT (break)	1.38812	0.13
Manapal/WT (red)	1.21319	0.413