Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49043	0.264
27DAP/17DAP	1.23553	0.833
39DAP/27DAP	0.94049	0.641
41DAP/39DAP	1.10523	0.696
42DAP/41DAP	1.61369	0.608
43DAP/42DAP	0.69683	0.522
47DAP/43DAP	1.2884	0.463
52DAP/47DAP	0.98105	0.843
57DAP/52DAP	1.43664	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8421	0.053
17DAP/reference	0.87045	0.26
27DAP/reference	0.90242	0.265
39DAP/reference	0.92815	0.213
41DAP/reference	0.74621	0.014
42DAP/reference	0.77346	0.157
43DAP/reference	0.94267	0.594
47DAP/reference	1.02735	0.568
52DAP/reference	1.1577	0.388
57DAP/reference	1.18513	0.173

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03754	0.736
27DAP/17DAP	0.98591	0.943
39DAP/27DAP	0.94423	0.607
41DAP/39DAP	1.24986	0.735
42DAP/41DAP	0.91613	0.515
43DAP/42DAP	1.10241	0.513
47DAP/43DAP	1.03131	0.969
52DAP/47DAP	0.92777	0.824
57DAP/52DAP	0.87938	0.457
57DAP/7DAP	1.46654	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86865	0.27
17DAP/reference	1.14021	0.199
27DAP/reference	1.22481	0.197
39DAP/reference	0.98633	0.474
41DAP/reference	1.24976	0.251
42DAP/reference	1.08695	0.534
43DAP/reference	1.10355	0.511
47DAP/reference	0.89535	0.504
52DAP/reference	1.18209	0.636
57DAP/reference	1.05617	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89327	0.362
17DAP/reference	0.79296	0.039
27DAP/reference	0.90536	0.229
39DAP/reference	0.89381	0.129
41DAP/reference	0.96047	0.307
42DAP/reference	0.97099	0.482
43DAP/reference	1.033	0.875
47DAP/reference	0.96803	0.423
52DAP/reference	0.7973	0.011
57DAP/reference	1.05193	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01311	0.653
17DAP/reference	0.93779	0.528
27DAP/reference	1.34173	0.137
39DAP/reference	0.94589	0.43
41DAP/reference	0.97714	0.618
42DAP/reference	0.94021	0.552
43DAP/reference	0.92549	0.398
47DAP/reference	1.03272	0.934
52DAP/reference	1.79616	0.113
57DAP/reference	1.12141	0.192

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9682	1
26DAP/20DAP	1.4344	0.421
34DAP/26DAP	1.21512	1
51DAP/34DAP	1.81075	0.089
52DAP/51DAP	1.11086	0.704
53DAP/52DAP	1.54732	0.058
55DAP/53DAP	0.99588	0.876
57DAP/55DAP	0.97846	0.904
62DAP/57DAP	1.00998	1
68DAP/62DAP	1.08082	1
68DAP/14DAP	0.79272

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15114	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.77925	0.282
Mature Green Tomato/Ripe Tomato	0.7772	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.60485	1
Mature Eggplant/Ripe Tomato	0.76362	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10417	0.591
1-1-2/M82	1.05679	1
12-2/M82	0.97789	1
12-4/M82	0.93437	0.619
1-3/M82	1.84814
2-1-1/M82	1.03914	1
2-1/M82	0.63213	0.318
2-6/M82	1.44535	0.352
3-2/M82	2.1949
4-1-1/M82	1.04592	1
4-1/M82	0.55326
4-3-2/M82	1.17787
4-3/M82	1.19903	1
5-3/M82	0.83553	0.642
6-2/M82	1.193
6-3/M82	1.1278
7-1/M82	1.21071
7-2/M82	0.95103	1
9-3-2/M82	1.02414	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.45878	0.493
IL2-6/WTpooled	1.30519	0.788
IL7-5/WTpooled	0.5839	1
IL7-3/WTpooled	1.4581	1
IL12-4/WTpooled	1.17237	0.516
IL1-4/WTpooled	0.93377	0.834
WT/WTpooled	1.10132	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	0.81245	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.24085	0.75
DC3000/delta hrp 6h	1.39982	0.285
DC3000/delta hrp 12h	1.04262	1
DC3000/delta hrp 24h	0.76344	0.131

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	0.85724	0.117

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08451	1
Exp 36h	1.11618	1
Exp 60h	1.12864	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98935	1
Var 0h	1.16065	1
Var 12h I row2-row1	0.66227	0.338
Var 12h NI row2-row1	1.04014	1
Var 36h I row2-row1	1.01718	1
Var 36h NI row2-row1	1.34617	0.482
Var 60h I row2-row1	0.94236	0.952
Var 60h NI row2-row1	0.96902	1
Time course 0hI-0hNI	1.06154	0.323
Time course 12hI-12hNI	0.87884	0.216
Time course 36hI-36hNI	0.81011	0.024
Time course 60hI-60hNI	0.3213	0.006

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)	0.98023	0.789
transgenic ySAMdc/azygous control (breaker)	1.17638	0.248
transgenic ySAMdc/azygous control (red)	0.97267	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99229	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22537	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97595	1
Manapal/WT (break)	1.03058	1
Manapal/WT (red)	0.95816	0.728