Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78008	0.131
27DAP/17DAP	0.88688	0.736
39DAP/27DAP	2.21083	0.042
41DAP/39DAP	0.77104	0.235
42DAP/41DAP	0.88856	1
43DAP/42DAP	0.91206	0.829
47DAP/43DAP	0.44186	0.052
52DAP/47DAP	1.8032	0.251
57DAP/52DAP	1.91262	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07838	0.685
17DAP/reference	0.95555	0.503
27DAP/reference	1.01563	0.904
39DAP/reference	0.8805	0.141
41DAP/reference	0.92324	0.434
42DAP/reference	1.03869	1
43DAP/reference	1.00342	0.924
47DAP/reference	1.19574	0.275
52DAP/reference	0.92434	0.292
57DAP/reference	1.28693	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08687	1
27DAP/17DAP	1.32347	0.712
39DAP/27DAP	1.45383	0.615
41DAP/39DAP	1.86285	0.266
42DAP/41DAP	0.82807	0.238
43DAP/42DAP	0.72522	0.085
47DAP/43DAP	1.22336	0.581
52DAP/47DAP	0.8806	0.66
57DAP/52DAP	1.18432	0.552
57DAP/7DAP	0.88433	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04319	0.857
17DAP/reference	0.85266	0.035
27DAP/reference	0.86317	0.01
39DAP/reference	0.79516	0.013
41DAP/reference	0.85072	0.049
42DAP/reference	0.68217	0.016
43DAP/reference	0.86158	0.017
47DAP/reference	1.38697	0.292
52DAP/reference	0.89025	0.106
57DAP/reference	0.84878	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92992	0.386
17DAP/reference	0.82424	0.059
27DAP/reference	1.08188	1
39DAP/reference	1.34005	0.033
41DAP/reference	1.06562	0.846
42DAP/reference	1.17363	0.19
43DAP/reference	0.89117	0.269
47DAP/reference	1.39741	0.067
52DAP/reference	0.79753	0.037
57DAP/reference	0.68609	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90795	0.158
17DAP/reference	0.89173	0.154
27DAP/reference	0.80102	0.038
39DAP/reference	0.80896	0.018
41DAP/reference	0.83057	0.031
42DAP/reference	0.9239	0.361
43DAP/reference	0.9062	0.256
47DAP/reference	0.85341	0.041
52DAP/reference	1.17043	0.813
57DAP/reference	2.02115	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.4841	0.85
26DAP/20DAP	2.94991	0.099
34DAP/26DAP	0.84246	0.498
51DAP/34DAP	1.38213	0.111
52DAP/51DAP	0.87463	1
53DAP/52DAP	0.88889	0.527
55DAP/53DAP	0.56596	0.02
57DAP/55DAP	1.61764	0.065
62DAP/57DAP	1.42207	0.35
68DAP/62DAP	2.04589	0.069
68DAP/14DAP	2.3884	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93427	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74042	0.208
Mature Green Tomato/Ripe Tomato	1.76255	0.023
Immature Eggplant/Mature Eggplant	1.23089	0.23
Ripe Pepper/Ripe Tomato	1.53181	0.258
Mature Eggplant/Ripe Tomato	1.75373	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15282	0.742
1-1-2/M82	1.29747	1
12-2/M82	0.80444	0.955
12-4/M82	0.86707	1
1-3/M82	3.69921	0.479
2-1-1/M82	1.00697	1
2-1/M82	1.16959	1
2-6/M82	0.64938	0.501
3-2/M82	1.6806
4-1-1/M82	0.80874	1
4-1/M82	2.75326	0.853
4-3-2/M82	1.31293	0.508
4-3/M82	1.27544	1
5-3/M82	1.85438	0.436
6-2/M82	1.12884	1
6-3/M82	1.19073	1
7-1/M82	N/A	N/A
7-2/M82	1.53804	0.324
9-3-2/M82	1.02609	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1103	0.365
IL2-6/WTpooled	1.03303	1
IL7-5/WTpooled	1.35881	0.792
IL7-3/WTpooled	1.37578	1
IL12-4/WTpooled	1.07247	1
IL1-4/WTpooled	1.22202	1
WT/WTpooled	0.84763	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	1.38021	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12062
DC3000/delta hrp 6h	0.92868	0.95
DC3000/delta hrp 12h	0.96762	1
DC3000/delta hrp 24h	0.97013	0.851

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2923	0.121
DC3000 delta B/DC3000 delta AB	1.38832	0.123

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85751	1
Exp 36h	2.01225	0.693
Exp 60h	2.03451	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98702	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.96645	0.948
Var 12h NI row2-row1	1.62119	0.266
Var 36h I row2-row1	1.18266	1
Var 36h NI row2-row1	0.76652	0.478
Var 60h I row2-row1	0.72488	0.439
Var 60h NI row2-row1	0.86285	0.932
Time course 0hI-0hNI	0.88873	0.294
Time course 12hI-12hNI	1.07568	0.756
Time course 36hI-36hNI	1.65444	0.005
Time course 60hI-60hNI	3.48441	0.008

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)	0.91443	0.391
transgenic ySAMdc/azygous control (breaker)	0.86845	0.49
transgenic ySAMdc/azygous control (red)	1.28952	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.38788	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.46983	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03799	1
Manapal/WT (break)	1.75349	0.381
Manapal/WT (red)	1.9635	0.222