Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78757	0.217
27DAP/17DAP	1.03362	0.996
39DAP/27DAP	1.65478	0.254
41DAP/39DAP	0.57213	0.048
42DAP/41DAP	1.44607	0.863
43DAP/42DAP	1.06177	1
47DAP/43DAP	0.80354	0.395
52DAP/47DAP	0.97196	0.837
57DAP/52DAP	1.45014	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10623	0.116
17DAP/reference	1.04591	0.631
27DAP/reference	0.9447	0.314
39DAP/reference	1.01491	0.691
41DAP/reference	1.16247	0.022
42DAP/reference	1.12841	0.174
43DAP/reference	1.02732	0.646
47DAP/reference	1.26379	0.003
52DAP/reference	1.0487	0.476
57DAP/reference	0.98199	0.553

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33423	0.121
27DAP/17DAP	0.93562	0.614
39DAP/27DAP	0.89375	0.287
41DAP/39DAP	1.24606	0.719
42DAP/41DAP	1.04932	0.893
43DAP/42DAP	0.75979	0.022
47DAP/43DAP	1.06493	0.765
52DAP/47DAP	1.04586	0.819
57DAP/52DAP	1.13705	0.567
57DAP/7DAP	0.83736	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43292	0.037
17DAP/reference	1.85528	0.008
27DAP/reference	1.58736	0.008
39DAP/reference	1.6914	0.006
41DAP/reference	1.53087	0.011
42DAP/reference	1.43428	0.016
43DAP/reference	1.27102	0.021
47DAP/reference	1.36051	0.022
52DAP/reference	1.48193	0.013
57DAP/reference	1.71789	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10975	0.315
17DAP/reference	1.30779	0.014
27DAP/reference	1.10345	0.404
39DAP/reference	1.20497	0.106
41DAP/reference	1.03753	1
42DAP/reference	1.0586	1
43DAP/reference	1.09995	0.509
47DAP/reference	1.06343	0.695
52DAP/reference	0.96646	0.351
57DAP/reference	1.07879	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38739	0.09
17DAP/reference	1.12699	0.699
27DAP/reference	1.63118	0.034
39DAP/reference	1.73413	0.017
41DAP/reference	1.29234	0.016
42DAP/reference	1.32497	0.111
43DAP/reference	1.2656	0.038
47DAP/reference	1.04669	0.704
52DAP/reference	1.46363	0.035
57DAP/reference	1.49367	0.074

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93839	0.997
26DAP/20DAP	1.36619	0.308
34DAP/26DAP	0.90302	0.682
51DAP/34DAP	1.38636	0.049
52DAP/51DAP	0.73564	0.151
53DAP/52DAP	1.09013	0.489
55DAP/53DAP	0.74349	0.022
57DAP/55DAP	1.2079	0.881
62DAP/57DAP	0.98667	0.994
68DAP/62DAP	1.0684	0.939
68DAP/14DAP	1.049	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13984	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.7811	0.236
Mature Green Tomato/Ripe Tomato	1.32813	0.07
Immature Eggplant/Mature Eggplant	1.37576	0.054
Ripe Pepper/Ripe Tomato	1.21346	1
Mature Eggplant/Ripe Tomato	0.739	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90721	0.736
1-1-2/M82	1.34196
12-2/M82	0.80288	0.862
12-4/M82	1.04738	1
1-3/M82	2.02564	0.277
2-1-1/M82	1.07485	0.764
2-1/M82	1.16732	1
2-6/M82	0.98671	1
3-2/M82	1.14923	0.967
4-1-1/M82	0.88343	1
4-1/M82	2.10185	0.466
4-3-2/M82	1.20753	1
4-3/M82	1.33348	1
5-3/M82	1.34077	0.572
6-2/M82	0.92012	1
6-3/M82	0.70699	1
7-1/M82	0.98397
7-2/M82	1.15898	1
9-3-2/M82	1.32779	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82468	0.243
IL2-6/WTpooled	1.43383	0.46
IL7-5/WTpooled	1.14772	1
IL7-3/WTpooled	0.95503	1
IL12-4/WTpooled	1.07979	0.737
IL1-4/WTpooled	1.21348	1
WT/WTpooled	0.98176	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	0.93163	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12611	0.846
DC3000/delta hrp 6h	0.96008	0.95
DC3000/delta hrp 12h	1.0367	1
DC3000/delta hrp 24h	0.96834	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0741	0.183
DC3000 delta B/DC3000 delta AB	1.08663	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08821	1
Exp 36h	1.17265	0.693
Exp 60h	1.07781	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0023	1
Var 0h	0.05891	1
Var 12h I row2-row1	0.98442	1
Var 12h NI row2-row1	1.55992	1
Var 36h I row2-row1	1.21477	0.908
Var 36h NI row2-row1	0.98307	0.852
Var 60h I row2-row1	0.85618	0.582
Var 60h NI row2-row1	0.89505	0.38
Time course 0hI-0hNI	0.86509	0.126
Time course 12hI-12hNI	0.99734	1
Time course 36hI-36hNI	1.09424	0.651
Time course 60hI-60hNI	1.03106	0.575

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)	0.99629	0.931
transgenic ySAMdc/azygous control (breaker)	1.02625	1
transgenic ySAMdc/azygous control (red)	0.99249	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19171	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97573	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96699	1
Manapal/WT (break)	1.20301	0.381
Manapal/WT (red)	0.9676	0.728