Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.5.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9759	0.801
27DAP/17DAP	1.48685	0.742
39DAP/27DAP	0.94455	0.733
41DAP/39DAP	0.99539	0.935
42DAP/41DAP	1.71368	0.485
43DAP/42DAP	0.80276	0.744
47DAP/43DAP	1.20198	0.234
52DAP/47DAP	0.83882	0.557
57DAP/52DAP	0.94039	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10377	0.218
17DAP/reference	1.04175	0.606
27DAP/reference	1.20617	0.135
39DAP/reference	1.27788	0.041
41DAP/reference	1.48237	0.013
42DAP/reference	1.04233	0.449
43DAP/reference	0.96942	0.653
47DAP/reference	0.96955	0.392
52DAP/reference	1.06272	0.407
57DAP/reference	1.10319	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23573	0.445
27DAP/17DAP	1.16323	0.617
39DAP/27DAP	1.11211	0.57
41DAP/39DAP	0.94032	0.959
42DAP/41DAP	0.85052	0.303
43DAP/42DAP	1.07105	0.699
47DAP/43DAP	1.32091	0.857
52DAP/47DAP	1.10129	0.915
57DAP/52DAP	1.23386	0.448
57DAP/7DAP	1.23927	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71698	0.067
17DAP/reference	0.85656	0.049
27DAP/reference	1.14307	0.246
39DAP/reference	0.65166	0.018
41DAP/reference	0.77232	0.038
42DAP/reference	0.78187	0.017
43DAP/reference	0.64753	0.038
47DAP/reference	0.84238	0.222
52DAP/reference	0.81092	0.061
57DAP/reference	0.68365	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08499	0.531
17DAP/reference	1.23122	0.027
27DAP/reference	1.49126	0.025
39DAP/reference	1.08625	0.389
41DAP/reference	1.09024	0.752
42DAP/reference	1.52584	0.008
43DAP/reference	1.87787	0.02
47DAP/reference	1.54521	0.008
52DAP/reference	1.2999	0.013
57DAP/reference	1.08812	0.552

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74493	0.061
17DAP/reference	1.02496	0.918
27DAP/reference	0.79052	0.065
39DAP/reference	0.83101	0.111
41DAP/reference	1.03604	1
42DAP/reference	1.0576	0.775
43DAP/reference	0.87466	0.246
47DAP/reference	1.20111	0.025
52DAP/reference	1.02794	0.763
57DAP/reference	1.22684	0.316

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79033	0.42
26DAP/20DAP	0.65832	0.512
34DAP/26DAP	1.48652	1
51DAP/34DAP	1.14192	0.962
52DAP/51DAP	1.55053	0.096
53DAP/52DAP	1.1988	0.296
55DAP/53DAP	2.0376	0.185
57DAP/55DAP	1.34219	0.779
62DAP/57DAP	1.00361	1
68DAP/62DAP	1.38246	0.035
68DAP/14DAP	1.18768	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65123	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10832	0.277
IL2-6/WTpooled	1.92194	0.584
IL7-5/WTpooled	1.27635	1
IL7-3/WTpooled	1.12908	0.362
IL12-4/WTpooled	0.88349	0.71
IL1-4/WTpooled	1.295	1
WT/WTpooled	1.00225	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	0.86515	0.197

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91944	1
DC3000/delta hrp 6h	1.62511
DC3000/delta hrp 12h	0.95494	1
DC3000/delta hrp 24h	0.90438	0.346

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	0.76641

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05781	1
Exp 36h	1.61466	1
Exp 60h	1.20883	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09098	1
Var 0h	1.19056	0.594
Var 12h I row2-row1	0.82026	0.705
Var 12h NI row2-row1	0.98044	0.906
Var 36h I row2-row1	1.17613	1
Var 36h NI row2-row1	1.26954	0.253
Var 60h I row2-row1	0.95458	0.439
Var 60h NI row2-row1	1.24582	0.904
Time course 0hI-0hNI	0.91662	0.399
Time course 12hI-12hNI	0.91603	0.298
Time course 36hI-36hNI	0.7109	0.023
Time course 60hI-60hNI	0.19117	0.005

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)	1.13711	0.212
transgenic ySAMdc/azygous control (breaker)	0.87034	0.49
transgenic ySAMdc/azygous control (red)	1.04831	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96676	0.201

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79798	1
Manapal/WT (break)	1.15079	1
Manapal/WT (red)	N/A	N/A