Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94206	0.627
27DAP/17DAP	1.01687	0.92
39DAP/27DAP	1.05063	1
41DAP/39DAP	1.02399	0.96
42DAP/41DAP	0.92222	1
43DAP/42DAP	1.06447	1
47DAP/43DAP	0.93333	0.76
52DAP/47DAP	0.99962	0.934
57DAP/52DAP	1.00245	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00045	0.844
17DAP/reference	1.00593	0.813
27DAP/reference	1.03785	0.291
39DAP/reference	1.03651	0.434
41DAP/reference	1.08446	0.365
42DAP/reference	1.0621	0.504
43DAP/reference	1.01658	0.899
47DAP/reference	1.0667	0.085
52DAP/reference	1.18354	0.186
57DAP/reference	1.25942	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97334	0.663
27DAP/17DAP	1.00584	1
39DAP/27DAP	0.98217	0.898
41DAP/39DAP	0.98667	0.997
42DAP/41DAP	1.04559	0.708
43DAP/42DAP	1.04768	0.25
47DAP/43DAP	0.99339	0.977
52DAP/47DAP	0.99426	0.962
57DAP/52DAP	0.94634	0.467
57DAP/7DAP	1.01248	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96707	0.445
17DAP/reference	0.86639	0.012
27DAP/reference	0.87028	0.039
39DAP/reference	0.85708	0.015
41DAP/reference	0.92598	0.133
42DAP/reference	0.92304	0.03
43DAP/reference	0.8092	0.011
47DAP/reference	1.04474	0.915
52DAP/reference	0.84411	0.046
57DAP/reference	0.79299	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04789	0.577
17DAP/reference	1.10076	0.015
27DAP/reference	1.06858	0.212
39DAP/reference	1.08392	0.207
41DAP/reference	1.08271	0.48
42DAP/reference	1.07328	0.214
43DAP/reference	1.11379	0.048
47DAP/reference	1.03327	0.247
52DAP/reference	1.12351	0.013
57DAP/reference	1.07466	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97175	0.335
17DAP/reference	1.08258	0.585
27DAP/reference	0.8772
39DAP/reference	0.89983	0.05
41DAP/reference	0.88734	0.03
42DAP/reference	0.93914	0.287
43DAP/reference	0.94039	0.305
47DAP/reference	1.103	0.187
52DAP/reference	0.87395	0.342
57DAP/reference	1.25751	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97616	1
26DAP/20DAP	1.02843	1
34DAP/26DAP	0.9423	0.771
51DAP/34DAP	0.99144	0.917
52DAP/51DAP	0.95828	1
53DAP/52DAP	0.99014	0.951
55DAP/53DAP	0.9481	0.43
57DAP/55DAP	0.90114	0.691
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.27473	0.126
68DAP/14DAP	1.14625	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95265	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00862	0.847
Mature Green Tomato/Ripe Tomato	1.1166	0.752
Immature Eggplant/Mature Eggplant	1.05899	0.267
Ripe Pepper/Ripe Tomato	0.88434	0.293
Mature Eggplant/Ripe Tomato	0.98837	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94436	0.944
1-1-2/M82	0.96041	0.958
12-2/M82	0.88852	0.955
12-4/M82	1.00328	1
1-3/M82	0.9806	1
2-1-1/M82	0.92683	0.465
2-1/M82	1.4845	1
2-6/M82	0.92662	1
3-2/M82	0.97016	1
4-1-1/M82	0.9599	1
4-1/M82	0.85209	0.737
4-3-2/M82	0.90424	1
4-3/M82	1.07451	1
5-3/M82	0.8921	1
6-2/M82	0.97148	1
6-3/M82	0.98318	1
7-1/M82	0.99651	1
7-2/M82	0.93285	0.881
9-3-2/M82	0.96311	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96514	1
IL2-6/WTpooled	1.04743	0.788
IL7-5/WTpooled	0.96679	1
IL7-3/WTpooled	1.01062	1
IL12-4/WTpooled	0.99148	1
IL1-4/WTpooled	1.07442	1
WT/WTpooled	1.05917	0.874

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	1.02095	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95654	1
DC3000/delta hrp 6h	1.02799	0.95
DC3000/delta hrp 12h	1.00175	1
DC3000/delta hrp 24h	1.04761	0.595

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	1.21519	0.163

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95126	1
Exp 36h	1.09089	0.693
Exp 60h	0.80477	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96248	1
Var 0h	0.5403	0.594
Var 12h I row2-row1	1.14137	0.263
Var 12h NI row2-row1	1.01806	1
Var 36h I row2-row1	1.08031	1
Var 36h NI row2-row1	0.95088	0.61
Var 60h I row2-row1	1.26909	1
Var 60h NI row2-row1	1.13362	0.904
Time course 0hI-0hNI	1.06041	0.764
Time course 12hI-12hNI	0.97326	0.739
Time course 36hI-36hNI	0.95559	0.099
Time course 60hI-60hNI	1.12881	0.06

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)	1.10788	0.283
transgenic ySAMdc/azygous control (breaker)	0.75879	0.137
transgenic ySAMdc/azygous control (red)	1.01165	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9835	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86902	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07477	1
Manapal/WT (break)	0.9322	1
Manapal/WT (red)	1.13262	0.413