Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04424	0.912
27DAP/17DAP	1.11435	0.866
39DAP/27DAP	1.23637	0.718
41DAP/39DAP	0.99117	0.911
42DAP/41DAP	1.03367	1
43DAP/42DAP	0.83299	0.477
47DAP/43DAP	1.02826	0.965
52DAP/47DAP	1.15178	0.91
57DAP/52DAP	1.01467	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90829	0.145
17DAP/reference	0.88497	0.085
27DAP/reference	1.00031	1
39DAP/reference	0.92898	0.178
41DAP/reference	0.87322	0.031
42DAP/reference	0.95292	0.099
43DAP/reference	0.89291	0.045
47DAP/reference	0.92765	0.06
52DAP/reference	1.08196	0.633
57DAP/reference	1.0647	0.22

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98234	0.732
27DAP/17DAP	1.02682	0.938
39DAP/27DAP	1.06347	0.553
41DAP/39DAP	1.04825	1
42DAP/41DAP	0.99363	0.87
43DAP/42DAP	1.03351	0.699
47DAP/43DAP	1.03852	0.88
52DAP/47DAP	1.00833	0.991
57DAP/52DAP	0.9051	0.232
57DAP/7DAP	1.03009	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96025	0.27
17DAP/reference	0.91909	0.014
27DAP/reference	0.94593	0.017
39DAP/reference	0.98322	0.126
41DAP/reference	0.91582	0.022
42DAP/reference	0.9608	0.13
43DAP/reference	0.92051	0.079
47DAP/reference	0.95647	0.383
52DAP/reference	0.91722	0.09
57DAP/reference	0.91093	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0551	0.41
17DAP/reference	0.94396	0.195
27DAP/reference	0.96473	0.407
39DAP/reference	0.95099	0.281
41DAP/reference	1.01167	1
42DAP/reference	0.98224	0.594
43DAP/reference	0.94498	0.328
47DAP/reference	0.95808	0.232
52DAP/reference	0.9602	0.239
57DAP/reference	0.93341	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00808	1
17DAP/reference	0.99173	0.763
27DAP/reference	0.93829	0.051
39DAP/reference	0.96081	0.179
41DAP/reference	0.97878	0.086
42DAP/reference	0.99807	0.816
43DAP/reference	0.9345	0.044
47DAP/reference	0.95671	0.183
52DAP/reference	0.85417	0.134
57DAP/reference	1.16255	0.324

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96795	1
26DAP/20DAP	0.91155	1
34DAP/26DAP	0.91993	0.753
51DAP/34DAP	0.92686	0.246
52DAP/51DAP	1.01256	0.848
53DAP/52DAP	1.02535	0.858
55DAP/53DAP	0.97424	0.775
57DAP/55DAP	0.99023	0.911
62DAP/57DAP	1.05704	0.393
68DAP/62DAP	0.92319	0.7
68DAP/14DAP	0.96639	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05026	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.00843	0.898
Immature Eggplant/Mature Eggplant	8.47941	0.05
Ripe Pepper/Ripe Tomato	0.1101	0.224
Mature Eggplant/Ripe Tomato	1.12436	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98843	1
1-1-2/M82	0.87039	0.958
12-2/M82	1.11434	1
12-4/M82	0.89646	1
1-3/M82	0.97132	1
2-1-1/M82	1.0459
2-1/M82	1.24128
2-6/M82	0.95591	1
3-2/M82	0.87107
4-1-1/M82	1.14542	1
4-1/M82	1.04452
4-3-2/M82	0.84356	0.487
4-3/M82	0.86268	1
5-3/M82	0.9872	1
6-2/M82	1.0048	1
6-3/M82	1.05584	1
7-1/M82	0.68043
7-2/M82	1.02324	1
9-3-2/M82	0.87134	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09177	0.277
IL2-6/WTpooled	1.24432	0.531
IL7-5/WTpooled	0.93065	1
IL7-3/WTpooled	1.22501	1
IL12-4/WTpooled	1.20463	0.673
IL1-4/WTpooled	0.86918	0.457
WT/WTpooled	0.93343	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	1.0797	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01749	0.921
DC3000/delta hrp 6h	0.92174	0.95
DC3000/delta hrp 12h	1.07997	1
DC3000/delta hrp 24h	0.99763	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00507	1
DC3000 delta B/DC3000 delta AB	1.03283	0.601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05469	1
Exp 36h	1.86131	0.693
Exp 60h	1.70538	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.993	1
Var 0h	1.3577	0.421
Var 12h I row2-row1	1.09338	0.228
Var 12h NI row2-row1	0.95276	0.82
Var 36h I row2-row1	0.92883	0.805
Var 36h NI row2-row1	0.86688	0.522
Var 60h I row2-row1	1.04332	1
Var 60h NI row2-row1	1.08431	1
Time course 0hI-0hNI	1.06986	0.799
Time course 12hI-12hNI	1.0547	0.63
Time course 36hI-36hNI	1.24076	0.006
Time course 60hI-60hNI	2.76798	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)	1.13394	0.326
transgenic ySAMdc/azygous control (breaker)	0.58223	0.173
transgenic ySAMdc/azygous control (red)	0.62933	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03964	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.41146	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35236	0.307
Manapal/WT (break)	0.94391	1
Manapal/WT (red)	1.27874	0.863