Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.4.4.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31555	0.348
27DAP/17DAP	1.24058	0.749
39DAP/27DAP	0.64568	0.382
41DAP/39DAP	1.32351	0.289
42DAP/41DAP	0.90641	1
43DAP/42DAP	1.02527	0.937
47DAP/43DAP	0.80561	0.33
52DAP/47DAP	1.00498	0.956
57DAP/52DAP	1.15375	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99435	0.727
17DAP/reference	1.0609	0.074
27DAP/reference	1.05054	0.426
39DAP/reference	1.02732	0.514
41DAP/reference	0.98866	0.814
42DAP/reference	0.98473	0.305
43DAP/reference	0.9982	0.924
47DAP/reference	0.99751	0.674
52DAP/reference	0.92431	0.244
57DAP/reference	0.93248	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.91401	0.036
27DAP/17DAP	1.2422	0.154
39DAP/27DAP	0.82456	0.149
41DAP/39DAP	1.0487	0.997
42DAP/41DAP	1.05175	0.893
43DAP/42DAP	0.68406	0.022
47DAP/43DAP	0.92086	0.122
52DAP/47DAP	1.23803	0.319
57DAP/52DAP	0.97775	0.756
57DAP/7DAP	1.05918	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86423	0.071
17DAP/reference	0.88788	0.049
27DAP/reference	0.85076	0.017
39DAP/reference	0.95807	0.23
41DAP/reference	0.96997	0.449
42DAP/reference	0.89773	0.02
43DAP/reference	0.90599	0.064
47DAP/reference	0.9461	0.293
52DAP/reference	0.88134	0.106
57DAP/reference	0.90239	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03006	0.538
17DAP/reference	1.14009	0.04
27DAP/reference	0.96874	0.519
39DAP/reference	1.07145	0.436
41DAP/reference	0.99	0.57
42DAP/reference	1.0094	1
43DAP/reference	0.96295	0.423
47DAP/reference	1.03273	0.426
52DAP/reference	1.07953	0.156
57DAP/reference	0.99486	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92576	0.104
17DAP/reference	0.91168	0.234
27DAP/reference	0.81407	0.031
39DAP/reference	0.84735	0.009
41DAP/reference	0.93787	0.264
42DAP/reference	0.8496	0.071
43DAP/reference	0.89874	0.049
47DAP/reference	0.94563	0.231
52DAP/reference	0.81601	0.139
57DAP/reference	0.75207	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02975	0.966
26DAP/20DAP	0.92786	0.512
34DAP/26DAP	1.02475	1
51DAP/34DAP	1.0991	0.581
52DAP/51DAP	0.98064	1
53DAP/52DAP	1.15487	0.37
55DAP/53DAP	0.9448	0.592
57DAP/55DAP	0.99241	0.944
62DAP/57DAP	1.06644	0.833
68DAP/62DAP	1.39229	0.1
68DAP/14DAP	0.79827	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.70252	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81218	0.287
Immature Eggplant/Mature Eggplant	1.90291	0.142
Ripe Pepper/Ripe Tomato	0.94598	N/A
Mature Eggplant/Ripe Tomato	0.40514	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97535	0.961
1-1-2/M82	1.06028	1
12-2/M82	1.11235	1
12-4/M82	1.04818	1
1-3/M82	0.83363	0.441
2-1-1/M82	0.97129	0.465
2-1/M82	1.08565	N/A
2-6/M82	1.08503	0.695
3-2/M82	0.92427	1
4-1-1/M82	0.90318	1
4-1/M82	0.86145	N/A
4-3-2/M82	0.84216	0.698
4-3/M82	1.09729	1
5-3/M82	0.88833	0.447
6-2/M82	1.12257	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.03108	1
9-3-2/M82	0.81636	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.69948	0.484
IL1-4/WTpooled	1.66084	N/A
WT/WTpooled	1.87884	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	1.0955	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99394	1
DC3000/delta hrp 6h	1.19779	0.95
DC3000/delta hrp 12h	0.96402	1
DC3000/delta hrp 24h	1.04021	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87212	0.66
DC3000 delta B/DC3000 delta AB	1.17831	0.209

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8529	0.265
Exp 36h	0.77387	0.623
Exp 60h	0.93147	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01192	1
Var 0h	0.42681	0.933
Var 12h I row2-row1	0.98193	0.948
Var 12h NI row2-row1	0.96918	0.82
Var 36h I row2-row1	1.07567	1
Var 36h NI row2-row1	0.90628	0.478
Var 60h I row2-row1	1.10618	1
Var 60h NI row2-row1	1.13212	0.904
Time course 0hI-0hNI	1.07115	0.764
Time course 12hI-12hNI	0.96288	0.739
Time course 36hI-36hNI	1.11837	0.166
Time course 60hI-60hNI	1.22416	0.069

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)	0.95845	0.722
transgenic ySAMdc/azygous control (breaker)	1.03483	1
transgenic ySAMdc/azygous control (red)	1.05667	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00569	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99141	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.50608	0.172
Manapal/WT (break)	0.69672	0.299
Manapal/WT (red)	0.89318	0.315