Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.3.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9739	0.77
27DAP/17DAP	1.09515	0.859
39DAP/27DAP	0.90665	0.583
41DAP/39DAP	1.26786	0.293
42DAP/41DAP	0.94993	1
43DAP/42DAP	1.0599	1
47DAP/43DAP	1.47577	0.232
52DAP/47DAP	0.89271	0.683
57DAP/52DAP	1.00053	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88786	0.172
17DAP/reference	1.00565	0.907
27DAP/reference	1.08547	0.246
39DAP/reference	1.02506	0.628
41DAP/reference	0.87643	0.267
42DAP/reference	0.96329	0.202
43DAP/reference	1.00653	1
47DAP/reference	0.97408	0.366
52DAP/reference	1.08476	0.607
57DAP/reference	1.00084	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94504	0.56
27DAP/17DAP	1.14107	0.506
39DAP/27DAP	0.99142	1
41DAP/39DAP	1.03173	0.827
42DAP/41DAP	0.95906	0.63
43DAP/42DAP	1.00518	1
47DAP/43DAP	0.98779	0.933
52DAP/47DAP	0.97473	0.9
57DAP/52DAP	0.98777	0.81
57DAP/7DAP	1.06046	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09598	0.452
17DAP/reference	1.40216	0.007
27DAP/reference	1.34328	0.008
39DAP/reference	1.24348	0.022
41DAP/reference	1.51638	0.012
42DAP/reference	1.59175	0.016
43DAP/reference	1.43192	0.018
47DAP/reference	1.20059	0.404
52DAP/reference	1.3846	0.033
57DAP/reference	1.45729	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83974	0.022
17DAP/reference	0.82401	0.02
27DAP/reference	0.8511	0.09
39DAP/reference	0.85349	0.105
41DAP/reference	0.86196	0.177
42DAP/reference	0.85736	0.135
43DAP/reference	0.98202	0.486
47DAP/reference	0.95691	0.338
52DAP/reference	0.92023	0.22
57DAP/reference	1.04761	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26064	0.031
17DAP/reference	1.1511	0.657
27DAP/reference	1.4375	0.028
39DAP/reference	1.43292	0.015
41DAP/reference	1.4444	0.013
42DAP/reference	1.21733	0.189
43DAP/reference	1.01902	0.796
47DAP/reference	1.07163	0.68
52DAP/reference	1.21073	0.33
57DAP/reference	0.99552	0.753

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07814	0.966
26DAP/20DAP	0.89756	0.512
34DAP/26DAP	1.09398	0.819
51DAP/34DAP	1.02006	0.936
52DAP/51DAP	1.12582	0.492
53DAP/52DAP	0.9582	0.807
55DAP/53DAP	1.12128	0.2
57DAP/55DAP	1.00852	1
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.23283	0.113
68DAP/14DAP	1.28069	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08009	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92268	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.58982	0.224
Mature Eggplant/Ripe Tomato	0.14571	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97191	0.961
1-1-2/M82	0.85756	0.958
12-2/M82	0.82469
12-4/M82	0.86154	0.619
1-3/M82	1.45056	1
2-1-1/M82	0.96843	1
2-1/M82	0.9535
2-6/M82	0.72248	1
3-2/M82	0.96533	1
4-1-1/M82	1.01188
4-1/M82	0.80938
4-3-2/M82	1.00805	1
4-3/M82	0.89876	0.72
5-3/M82	1.11705	1
6-2/M82	0.80195
6-3/M82	0.98176	1
7-1/M82	N/A	N/A
7-2/M82	1.5829	1
9-3-2/M82	0.99408	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04167	0.365
IL2-6/WTpooled	1.102	1
IL7-5/WTpooled	1.00646	1
IL7-3/WTpooled	0.99588	1
IL12-4/WTpooled	1.39054	0.522
IL1-4/WTpooled	1.02295	1
WT/WTpooled	1.04352	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	1.21579	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00009	1
DC3000/delta hrp 6h	1.18672	0.95
DC3000/delta hrp 12h	0.92504	1
DC3000/delta hrp 24h	0.90533	0.236

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91666	0.033
DC3000 delta B/DC3000 delta AB	1.02814	0.614

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99233	1
Exp 36h	1.08783	1
Exp 60h	0.94095	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9073	1
Var 0h	0.49902	1
Var 12h I row2-row1	0.88419	0.514
Var 12h NI row2-row1	1.15376	0.649
Var 36h I row2-row1	1.38836	0.908
Var 36h NI row2-row1	0.97039	0.584
Var 60h I row2-row1	0.81175	0.582
Var 60h NI row2-row1	1.0846	0.904
Time course 0hI-0hNI	1.01383	0.852
Time course 12hI-12hNI	0.95526	0.382
Time course 36hI-36hNI	1.02693	1
Time course 60hI-60hNI	1.05024	0.359

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)	1.0261	0.511
transgenic ySAMdc/azygous control (breaker)	1.15804	0.248
transgenic ySAMdc/azygous control (red)	0.96138	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95494	0.064

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27159	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89297	1
Manapal/WT (break)	0.95564	1
Manapal/WT (red)	0.97897	0.863