Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0321	0.912
27DAP/17DAP	1.33257	0.708
39DAP/27DAP	0.91928	0.487
41DAP/39DAP	1.33899	0.149
42DAP/41DAP	1.15611	0.949
43DAP/42DAP	0.96324	0.898
47DAP/43DAP	0.98953	0.949
52DAP/47DAP	1.54615	0.335
57DAP/52DAP	0.99427	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05095	0.544
17DAP/reference	1.05655	0.21
27DAP/reference	1.00252	0.923
39DAP/reference	1.01053	0.771
41DAP/reference	1.11468	0.03
42DAP/reference	0.98054	0.384
43DAP/reference	1.00176	0.924
47DAP/reference	1.02489	0.575
52DAP/reference	1.04565	0.476
57DAP/reference	0.81555	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9401	0.542
27DAP/17DAP	1.01744	0.973
39DAP/27DAP	1.05615	0.603
41DAP/39DAP	1.09132	0.774
42DAP/41DAP	1.00397	1
43DAP/42DAP	1.09002	0.23
47DAP/43DAP	1.07791	0.406
52DAP/47DAP	1.02951	0.915
57DAP/52DAP	1.00864	1
57DAP/7DAP	1.17171	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93195	0.168
17DAP/reference	0.96675	0.144
27DAP/reference	0.94667	0.019
39DAP/reference	1.02148	0.237
41DAP/reference	0.95248	0.103
42DAP/reference	0.95551	0.053
43DAP/reference	0.9643	0.175
47DAP/reference	0.95316	0.128
52DAP/reference	0.93833	0.163
57DAP/reference	0.9228	0.021

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1534	0.049
17DAP/reference	1.17281	0.008
27DAP/reference	1.12442	0.244
39DAP/reference	1.11843	0.182
41DAP/reference	1.09626	0.293
42DAP/reference	0.9454	0.289
43DAP/reference	1.03633	0.641
47DAP/reference	0.94465	0.149
52DAP/reference	1.10917	0.012
57DAP/reference	1.1356	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04181	0.846
17DAP/reference	0.99256	0.763
27DAP/reference	0.99252	0.566
39DAP/reference	1.05285	0.146
41DAP/reference	0.99321	0.754
42DAP/reference	0.99595	0.816
43DAP/reference	1.01895	0.828
47DAP/reference	1.03565	0.655
52DAP/reference	0.88702	0.118
57DAP/reference	0.87766	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01352	0.966
26DAP/20DAP	0.86075	0.512
34DAP/26DAP	1.09202	1
51DAP/34DAP	0.90298	0.197
52DAP/51DAP	0.91838	1
53DAP/52DAP	0.99208	0.97
55DAP/53DAP	1.00043	0.964
57DAP/55DAP	0.93253	0.698
62DAP/57DAP	23.7973	0.678
68DAP/62DAP	0.78623	0.378
68DAP/14DAP	0.97741	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92402	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71773	0.194
Mature Green Tomato/Ripe Tomato	0.67425	0.033
Immature Eggplant/Mature Eggplant	1.03816	0.58
Ripe Pepper/Ripe Tomato	0.39502	0.224
Mature Eggplant/Ripe Tomato	0.28442	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04142	1
1-1-2/M82	0.80568
12-2/M82	1.14281	1
12-4/M82	0.86885	1
1-3/M82	0.93149	0.501
2-1-1/M82	1.1694	0.457
2-1/M82	1.08255
2-6/M82	1.09207	0.695
3-2/M82	0.62501
4-1-1/M82	0.86606	1
4-1/M82	0.90158
4-3-2/M82	0.86694	0.487
4-3/M82	0.73345	0.72
5-3/M82	1.02487	1
6-2/M82	N/A	N/A
6-3/M82	0.98228	1
7-1/M82	1.13633
7-2/M82	0.93544	0.881
9-3-2/M82	0.70732	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.06342	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.85332
IL7-3/WTpooled	1.61452	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	2.50449	1
WT/WTpooled	1.04411	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	0.9576	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00528	0.921
DC3000/delta hrp 6h	1.02533	1
DC3000/delta hrp 12h	1.04362	1
DC3000/delta hrp 24h	1.00501	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98908	1
DC3000 delta B/DC3000 delta AB	1.01454	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98462	1
Exp 36h	0.98682	1
Exp 60h	0.984	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99527	1
Var 0h	1.14716	0.98
Var 12h I row2-row1	1.03417	0.613
Var 12h NI row2-row1	0.98813	1
Var 36h I row2-row1	0.9108	0.805
Var 36h NI row2-row1	1.09552	1
Var 60h I row2-row1	1.11252	0.523
Var 60h NI row2-row1	1.21646	0.793
Time course 0hI-0hNI	1.01406	0.852
Time course 12hI-12hNI	0.91317	0.283
Time course 36hI-36hNI	0.85942	0.081
Time course 60hI-60hNI	0.59979	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)	1.18534	0.431
transgenic ySAMdc/azygous control (breaker)	0.76422	0.137
transgenic ySAMdc/azygous control (red)	0.92669	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02174	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04932	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19607	0.087
Manapal/WT (break)	0.76257	1
Manapal/WT (red)	1.04847	1