Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6803	0.096
27DAP/17DAP	1.16733	0.845
39DAP/27DAP	0.92935	0.652
41DAP/39DAP	0.66216	0.097
42DAP/41DAP	0.62519	0.774
43DAP/42DAP	1.27367	0.899
47DAP/43DAP	1.73794	0.285
52DAP/47DAP	1.60293	0.266
57DAP/52DAP	1.58547	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28767	0.01
17DAP/reference	1.2666	0.092
27DAP/reference	1.14345	0.322
39DAP/reference	1.09035	0.119
41DAP/reference	1.43378	0.015
42DAP/reference	1.19758	0.017
43DAP/reference	1.1559	0.021
47DAP/reference	1.51964	0.004
52DAP/reference	1.27819	0.059
57DAP/reference	1.33637	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.81327	0.782
39DAP/27DAP	1.58054
41DAP/39DAP	1.06574	1
42DAP/41DAP	0.81131	0.565
43DAP/42DAP	N/A	N/A
47DAP/43DAP	1.54902	0.865
52DAP/47DAP	0.78248	0.666
57DAP/52DAP	1.45061
57DAP/7DAP	0.6078	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4054	0.025
17DAP/reference	1.10698	0.361
27DAP/reference	1.20242	0.551
39DAP/reference	1.24831	0.012
41DAP/reference	1.37434	0.018
42DAP/reference	1.2272	0.132
43DAP/reference	2.05489	0.289
47DAP/reference	1.04296	0.996
52DAP/reference	1.16395	0.058
57DAP/reference	0.90686	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34753	0.139
17DAP/reference	1.80202	0.009
27DAP/reference	1.83695	0.032
39DAP/reference	1.46298	0.016
41DAP/reference	1.2913	0.036
42DAP/reference	1.52165	0.027
43DAP/reference	0.98072	0.581
47DAP/reference	1.04271	0.712
52DAP/reference	1.28534	0.079
57DAP/reference	1.06199	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16883	0.347
17DAP/reference	0.97936	0.647
27DAP/reference	0.98741	0.657
39DAP/reference	1.12439	0.254
41DAP/reference	1.02059	0.984
42DAP/reference	0.99244	0.816
43DAP/reference	1.19984	0.355
47DAP/reference	1.04067	0.901
52DAP/reference	1.12677	0.542
57DAP/reference	1.31012	0.25

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97217	1
26DAP/20DAP	1.25344
34DAP/26DAP	0.89013
51DAP/34DAP	1.25765	0.627
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.06847	0.961
55DAP/53DAP	1.49767	0.537
57DAP/55DAP	0.90473	0.795
62DAP/57DAP	1.13557	0.8
68DAP/62DAP	1.00762	0.885
68DAP/14DAP	1.39859	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79347	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9019	0.481
Mature Green Tomato/Ripe Tomato	0.9713	0.611
Immature Eggplant/Mature Eggplant	1.1218	0.348
Ripe Pepper/Ripe Tomato	0.38683	0.224
Mature Eggplant/Ripe Tomato	0.20019	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03328	1
1-1-2/M82	1.19829	1
12-2/M82	0.92476	0.955
12-4/M82	0.83999	1
1-3/M82	1.22403	0.277
2-1-1/M82	1.07413	0.764
2-1/M82	1.59057	1
2-6/M82	1.01989	1
3-2/M82	1.23255	0.717
4-1-1/M82	1.49909	1
4-1/M82	1.02789	1
4-3-2/M82	1.29357	0.253
4-3/M82	1.41505	1
5-3/M82	1.35844	1
6-2/M82	1.22253
6-3/M82	0.97879	1
7-1/M82	1.30381	0.598
7-2/M82	0.97105	1
9-3-2/M82	1.22307	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7649	0.243
IL2-6/WTpooled	0.95287	1
IL7-5/WTpooled	1.26378	1
IL7-3/WTpooled	1.18335	1
IL12-4/WTpooled	1.05477	0.891
IL1-4/WTpooled	0.89358	0.699
WT/WTpooled	0.99611	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01885	0.921
DC3000/delta hrp 6h	0.85862	0.95
DC3000/delta hrp 12h	1.05888	1
DC3000/delta hrp 24h	1.76865	0.09

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16736	1
Exp 36h	1.39853	1
Exp 60h	1.19892	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.95897	0.529
transgenic ySAMdc/azygous control (breaker)	0.47625	0.118
transgenic ySAMdc/azygous control (red)	0.88376	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.69398	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17649	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78063	0.172
Manapal/WT (break)	1.32156	0.183
Manapal/WT (red)	1.51983	0.222