Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86843	0.381
27DAP/17DAP	0.90571	0.791
39DAP/27DAP	1.17813	0.588
41DAP/39DAP	1.07874	0.765
42DAP/41DAP	1.41399	0.236
43DAP/42DAP	0.91746	0.829
47DAP/43DAP	1.01535	0.904
52DAP/47DAP	0.93583	0.754
57DAP/52DAP	0.86791	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30408	0.179
17DAP/reference	0.92735	0.419
27DAP/reference	1.34821	0.146
39DAP/reference	1.12159	0.377
41DAP/reference	0.99537	0.814
42DAP/reference	1.15816	0.005
43DAP/reference	1.3975	0.018
47DAP/reference	1.59347	0.001
52DAP/reference	1.33746	0.038
57DAP/reference	1.61581	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88528	0.131
27DAP/17DAP	0.94406	0.58
39DAP/27DAP	1.10376	0.337
41DAP/39DAP	1.0744	0.59
42DAP/41DAP	1.04877	0.8
43DAP/42DAP	1.13491	0.049
47DAP/43DAP	0.97637	0.796
52DAP/47DAP	0.93358	0.746
57DAP/52DAP	0.92194	0.463
57DAP/7DAP	0.99159	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65565	0.028
17DAP/reference	1.48127	0.008
27DAP/reference	1.3469	0.007
39DAP/reference	1.48603	0.007
41DAP/reference	1.58061	0.012
42DAP/reference	1.67593	0.059
43DAP/reference	1.51677	0.007
47DAP/reference	1.84483	0.014
52DAP/reference	1.55369	0.02
57DAP/reference	1.37644	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99553	0.831
17DAP/reference	1.0001	0.747
27DAP/reference	1.06014	0.888
39DAP/reference	1.17926	0.255
41DAP/reference	1.354	0.021
42DAP/reference	0.97246	0.433
43DAP/reference	1.12556	0.633
47DAP/reference	1.56885	0.008
52DAP/reference	0.73442	0.111
57DAP/reference	0.76496	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48986	0.027
17DAP/reference	1.12446	0.572
27DAP/reference	1.07019	0.644
39DAP/reference	1.40455	0.012
41DAP/reference	1.22458	0.06
42DAP/reference	1.44562	0.021
43DAP/reference	1.65591	0.008
47DAP/reference	1.55016	0.031
52DAP/reference	1.66845	0.03
57DAP/reference	2.03083	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8954	1
26DAP/20DAP	1.23272	0.208
34DAP/26DAP	1.06156	0.304
51DAP/34DAP	1.1141	0.429
52DAP/51DAP	0.97046	1
53DAP/52DAP	1.27834	0.044
55DAP/53DAP	1.09424	0.741
57DAP/55DAP	0.94761	0.731
62DAP/57DAP	0.977	0.994
68DAP/62DAP	1.07082	0.926
68DAP/14DAP	0.4899

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99475	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93617	0.551
Mature Green Tomato/Ripe Tomato	1.12546	0.437
Immature Eggplant/Mature Eggplant	1.01302	1
Ripe Pepper/Ripe Tomato	0.82524	1
Mature Eggplant/Ripe Tomato	1.3427	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1979
1-1-2/M82	1.0438
12-2/M82	0.97308
12-4/M82	1.00368	1
1-3/M82	N/A	N/A
2-1-1/M82	1.31055	1
2-1/M82	N/A	N/A
2-6/M82	1.43436
3-2/M82	1.46295
4-1-1/M82	N/A	N/A
4-1/M82	1.51569	0.283
4-3-2/M82	0.95479
4-3/M82	1.17699	1
5-3/M82	1.28046	0.572
6-2/M82	1.38521	1
6-3/M82	1.14882	1
7-1/M82	1.1211	1
7-2/M82	1.3827	0.385
9-3-2/M82	1.19881	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85697	0.247
IL2-6/WTpooled	0.8567	0.473
IL7-5/WTpooled	0.61406	1
IL7-3/WTpooled	0.82537	0.31
IL12-4/WTpooled	0.82452	0.71
IL1-4/WTpooled	0.78551	0.444
WT/WTpooled	1.0238	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	1.0215	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90693	1
DC3000/delta hrp 6h	0.91005	0.95
DC3000/delta hrp 12h	0.96729	1
DC3000/delta hrp 24h	0.87731	0.186

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03697	0.355
DC3000 delta B/DC3000 delta AB	1.04162	0.528

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29575	1
Exp 36h	0.95927	0.879
Exp 60h	1.07277	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01865	1
Var 0h	0.51085	1
Var 12h I row2-row1	1.05089	0.58
Var 12h NI row2-row1	1.08482	1
Var 36h I row2-row1	1.09535	0.41
Var 36h NI row2-row1	0.87183	0.469
Var 60h I row2-row1	1.18614	1
Var 60h NI row2-row1	0.89098	0.63
Time course 0hI-0hNI	1.03533	0.852
Time course 12hI-12hNI	1.01284	0.82
Time course 36hI-36hNI	1.36797	0.005
Time course 60hI-60hNI	2.19732	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)	1.08217	0.612
transgenic ySAMdc/azygous control (breaker)	1.00779	1
transgenic ySAMdc/azygous control (red)	1.06054	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.84059	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71781	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07919	0.14
Manapal/WT (break)	1.06711	0.381
Manapal/WT (red)	1.04433	1