Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20443	0.838
27DAP/17DAP	1.12705	0.868
39DAP/27DAP	0.90425	0.573
41DAP/39DAP	1.1676	0.663
42DAP/41DAP	0.8576	1
43DAP/42DAP	1.09998	1
47DAP/43DAP	1.06542	0.909
52DAP/47DAP	0.85683	0.612
57DAP/52DAP	0.97027	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99416	0.743
17DAP/reference	0.99038	0.819
27DAP/reference	0.95672	0.552
39DAP/reference	0.9704	0.611
41DAP/reference	1.03695	0.516
42DAP/reference	1.01703	0.68
43DAP/reference	0.97628	0.653
47DAP/reference	1.04578	0.365
52DAP/reference	0.83698	0.036
57DAP/reference	0.89218	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00153	1
27DAP/17DAP	1.01819	0.98
39DAP/27DAP	1.04356	0.672
41DAP/39DAP	1.06486	0.773
42DAP/41DAP	0.98108	0.797
43DAP/42DAP	1.04044	0.049
47DAP/43DAP	0.99401	0.985
52DAP/47DAP	1.01043	0.986
57DAP/52DAP	0.89922	0.356
57DAP/7DAP	0.92275	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85108	0.088
17DAP/reference	0.91666	0.253
27DAP/reference	0.92987	0.215
39DAP/reference	1.06541	0.634
41DAP/reference	0.91213	0.127
42DAP/reference	0.93146	0.304
43DAP/reference	0.85355	0.145
47DAP/reference	0.83006	0.168
52DAP/reference	0.95935	0.435
57DAP/reference	0.94618	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03501	0.712
17DAP/reference	0.99517	0.747
27DAP/reference	1.01772	0.917
39DAP/reference	0.90385	0.165
41DAP/reference	0.95058	0.237
42DAP/reference	0.98067	0.433
43DAP/reference	0.94343	0.361
47DAP/reference	0.95854	0.126
52DAP/reference	1.02668	0.528
57DAP/reference	1.06205	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95999	0.455
17DAP/reference	1.09388	0.706
27DAP/reference	0.8275	0.092
39DAP/reference	0.90405	0.179
41DAP/reference	1.11186	0.471
42DAP/reference	0.91308	0.361
43DAP/reference	0.98939	0.685
47DAP/reference	0.94752	0.325
52DAP/reference	0.91434	0.455
57DAP/reference	0.72995	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0193	0.966
26DAP/20DAP	1.03457	0.941
34DAP/26DAP	1.04436	0.819
51DAP/34DAP	1.09016	0.429
52DAP/51DAP	1.09217	0.454
53DAP/52DAP	1.05569	0.961
55DAP/53DAP	0.90906	0.592
57DAP/55DAP	1.10133	0.854
62DAP/57DAP	0.85431	0.28
68DAP/62DAP	1.01582	1
68DAP/14DAP	0.84288	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03147	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.57487
Mature Green Tomato/Ripe Tomato	1.05338	0.774
Immature Eggplant/Mature Eggplant	6.69719	0.053
Ripe Pepper/Ripe Tomato	1.06659
Mature Eggplant/Ripe Tomato	3.69186	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9779	0.944
1-1-2/M82	1.03054	1
12-2/M82	1.10123	1
12-4/M82	1.0012	1
1-3/M82	1.00649	1
2-1-1/M82	1.205	0.295
2-1/M82	1.15962	1
2-6/M82	0.99823	1
3-2/M82	0.85369	0.752
4-1-1/M82	0.94058	1
4-1/M82	0.955	1
4-3-2/M82	0.94961	1
4-3/M82	1.03924	1
5-3/M82	0.98385	1
6-2/M82	0.98257
6-3/M82	0.88747	0.982
7-1/M82	0.95813
7-2/M82	1.11033	1
9-3-2/M82	0.892	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88425	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.38238
IL7-3/WTpooled	0.65567	0.293
IL12-4/WTpooled	0.76377	0.71
IL1-4/WTpooled	1.03947	1
WT/WTpooled	1.24608	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	0.90318	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95653	1
DC3000/delta hrp 6h	1.39761	1
DC3000/delta hrp 12h	0.99835	1
DC3000/delta hrp 24h	0.99843	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01939	0.556
DC3000 delta B/DC3000 delta AB	0.97802	0.873

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87183	1
Exp 36h	1.09456	1
Exp 60h	0.84604	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97707	1
Var 0h	0.80369	0.98
Var 12h I row2-row1	0.96284	0.77
Var 12h NI row2-row1	1.02428	1
Var 36h I row2-row1	1.13888	0.41
Var 36h NI row2-row1	1.05897	1
Var 60h I row2-row1	1.06555	0.543
Var 60h NI row2-row1	1.12284	0.904
Time course 0hI-0hNI	0.95984	0.721
Time course 12hI-12hNI	1.02554	0.779
Time course 36hI-36hNI	1.00845	0.89
Time course 60hI-60hNI	0.87382	0.047

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)	0.96533	0.662
transgenic ySAMdc/azygous control (breaker)	1.28917	1
transgenic ySAMdc/azygous control (red)	1.08433	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9643	0.256

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)	1.15464	0.096
Manapal/WT (break)	1.04002	1
Manapal/WT (red)	1.09347	1