Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99985	0.83
27DAP/17DAP	1.00455	1
39DAP/27DAP	0.90541	0.529
41DAP/39DAP	0.9876	0.946
42DAP/41DAP	1.25624	0.745
43DAP/42DAP	1.06918	1
47DAP/43DAP	1.3097	0.438
52DAP/47DAP	1.03787	0.916
57DAP/52DAP	1.13198	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9779	0.601
17DAP/reference	0.86676	0.065
27DAP/reference	1.01389	0.847
39DAP/reference	1.01254	1
41DAP/reference	0.92987	0.434
42DAP/reference	1.17483	0.025
43DAP/reference	1.03586	0.812
47DAP/reference	1.27367	0.01
52DAP/reference	1.47185	0.02
57DAP/reference	1.16769	0.259

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03229	1
27DAP/17DAP	0.97282	0.878
39DAP/27DAP	1.0086	0.832
41DAP/39DAP	0.9877	1
42DAP/41DAP	0.97002	0.746
43DAP/42DAP	1.05911	0.446
47DAP/43DAP	0.98633	0.939
52DAP/47DAP	1.03704	0.927
57DAP/52DAP	1.09279	0.708
57DAP/7DAP	1.03915	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87503	0.129
17DAP/reference	0.8171	0.253
27DAP/reference	0.91258	0.101
39DAP/reference	0.79561	0.014
41DAP/reference	0.83767	0.056
42DAP/reference	0.81502	0.042
43DAP/reference	0.86693	0.069
47DAP/reference	0.96073	0.504
52DAP/reference	0.82365	0.072
57DAP/reference	0.8633	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15703	0.812
17DAP/reference	1.04272	1
27DAP/reference	1.11401	0.171
39DAP/reference	1.3898	0.056
41DAP/reference	1.33576	0.038
42DAP/reference	1.13192	0.332
43DAP/reference	1.20221	0.526
47DAP/reference	1.10645	0.321
52DAP/reference	1.40285	0.061
57DAP/reference	1.02411	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97138	0.526
17DAP/reference	0.89013	0.305
27DAP/reference	0.90347	0.302
39DAP/reference	0.89534	0.133
41DAP/reference	1.02932	1
42DAP/reference	1.20758	0.313
43DAP/reference	1.4625	0.179
47DAP/reference	1.08101	0.76
52DAP/reference	0.86159	0.303
57DAP/reference	1.43512	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23326	0.298
26DAP/20DAP	1.22562	0.608
34DAP/26DAP	0.82672	0.343
51DAP/34DAP	0.79668	0.235
52DAP/51DAP	1.07555	0.925
53DAP/52DAP	1.49659	0.284
55DAP/53DAP	0.97873	0.807
57DAP/55DAP	0.82294	0.575
62DAP/57DAP	1.09712	0.902
68DAP/62DAP	1.00529	0.885
68DAP/14DAP	0.59358

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20583	0.105

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.77669	0.182
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.6048
Mature Eggplant/Ripe Tomato	0.76579	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90646
1-1-2/M82	1.17346	1
12-2/M82	0.85429
12-4/M82	0.97565	1
1-3/M82	1.70096
2-1-1/M82	N/A	N/A
2-1/M82	0.99086
2-6/M82	0.96105
3-2/M82	N/A	N/A
4-1-1/M82	1.12782
4-1/M82	0.97921
4-3-2/M82	0.86481	0.698
4-3/M82	1.20368	0.268
5-3/M82	1.14918	0.572
6-2/M82	0.69385
6-3/M82	1.03099	1
7-1/M82	N/A	N/A
7-2/M82	0.94117	0.881
9-3-2/M82	1.04613	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.05192	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89366	0.418
IL12-4/WTpooled	1.12192	0.367
IL1-4/WTpooled	1.05991
WT/WTpooled	1.10801	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	1.00451	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97325	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.93599	1
DC3000/delta hrp 24h	1.07743	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15911
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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9974	1
Var 0h	2.53629	0.98
Var 12h I row2-row1	1.12825	0.544
Var 12h NI row2-row1	1.12235	0.649
Var 36h I row2-row1	0.90952	1
Var 36h NI row2-row1	0.83354	0.469
Var 60h I row2-row1	0.8864	0.582
Var 60h NI row2-row1	0.88136	0.756
Time course 0hI-0hNI	1.01549	1
Time course 12hI-12hNI	1.06224	0.512
Time course 36hI-36hNI	1.4084	0.01
Time course 60hI-60hNI	1.90472	0.009

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)	1.63745	1
transgenic ySAMdc/azygous control (breaker)	1.41364	1
transgenic ySAMdc/azygous control (red)	0.74443	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14871	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.39353	0.164