Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28412	0.755
27DAP/17DAP	1.21632	0.836
39DAP/27DAP	1.06446	0.899
41DAP/39DAP	1.40461	0.225
42DAP/41DAP	1.02804	1
43DAP/42DAP	1.25329	0.949
47DAP/43DAP	1.08868	1
52DAP/47DAP	1.18125	0.813
57DAP/52DAP	0.93222	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03077	0.587
17DAP/reference	1.0407	0.318
27DAP/reference	1.00934	0.953
39DAP/reference	0.99733	0.991
41DAP/reference	0.98007	0.667
42DAP/reference	0.985	0.326
43DAP/reference	0.99443	0.861
47DAP/reference	1.0469	0.096
52DAP/reference	0.98071	0.489
57DAP/reference	1.07008	0.109

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0174	0.899
27DAP/17DAP	1.02602	0.912
39DAP/27DAP	1.05066	0.499
41DAP/39DAP	1.00044	1
42DAP/41DAP	0.95239	0.484
43DAP/42DAP	1.05298	0.112
47DAP/43DAP	1.00949	0.906
52DAP/47DAP	0.96727	0.719
57DAP/52DAP	1.02173	0.895
57DAP/7DAP	1.03726	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9654	0.088
17DAP/reference	1.00985	0.971
27DAP/reference	0.92672	0.094
39DAP/reference	0.948	0.039
41DAP/reference	0.8872	0.047
42DAP/reference	0.88012	0.022
43DAP/reference	0.90246	0.1
47DAP/reference	0.96194	0.504
52DAP/reference	0.88263	0.083
57DAP/reference	0.82988	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0199	0.794
17DAP/reference	1.02741	0.599
27DAP/reference	0.98056	0.537
39DAP/reference	1.00253	0.769
41DAP/reference	1.10762	0.194
42DAP/reference	0.96832	0.261
43DAP/reference	1.07218	0.347
47DAP/reference	1.03897	0.232
52DAP/reference	1.11379	0.053
57DAP/reference	1.17801	0.048

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93192	0.104
17DAP/reference	1.0086	0.887
27DAP/reference	0.93698	0.089
39DAP/reference	1.07035	0.733
41DAP/reference	0.97042	0.293
42DAP/reference	1.03808	0.627
43DAP/reference	0.96642	0.523
47DAP/reference	1.02874	0.585
52DAP/reference	1.01119	0.979
57DAP/reference	0.91656	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02317	0.966
26DAP/20DAP	0.97709	1
34DAP/26DAP	1.01862	1
51DAP/34DAP	1.01111	0.962
52DAP/51DAP	0.99277	1
53DAP/52DAP	1.01804	0.921
55DAP/53DAP	0.99455	0.908
57DAP/55DAP	1.15136	0.256
62DAP/57DAP	0.93073	0.466
68DAP/62DAP	1.01577	1
68DAP/14DAP	0.79181	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05322	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.56502	0.136
Mature Green Tomato/Ripe Tomato	0.80193	0.086
Immature Eggplant/Mature Eggplant	1.58804	0.05
Ripe Pepper/Ripe Tomato	1.41719	1
Mature Eggplant/Ripe Tomato	0.5165	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07271	1
1-1-2/M82	1.11325	1
12-2/M82	0.94516	0.678
12-4/M82	1.01299	1
1-3/M82	0.94785	0.441
2-1-1/M82	1.05114	1
2-1/M82	1.00025	1
2-6/M82	0.98576	1
3-2/M82	0.99938	1
4-1-1/M82	1.06934	1
4-1/M82	1.03343	1
4-3-2/M82	1.01264	1
4-3/M82	1.05686	1
5-3/M82	0.99538	1
6-2/M82	1.021	1
6-3/M82	0.96965	1
7-1/M82	1.01674	1
7-2/M82	0.97026	0.881
9-3-2/M82	1.45662	1

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	0.95152	1
IL12-4/WTpooled	0.67088	0.554
IL1-4/WTpooled	0.63933
WT/WTpooled	0.98084	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	0.86252	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04397	0.921
DC3000/delta hrp 6h	1.17699	1
DC3000/delta hrp 12h	0.9911	1
DC3000/delta hrp 24h	0.95362	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06018	0.25
DC3000 delta B/DC3000 delta AB	1.07742	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13178	1
Exp 36h	N/A	N/A
Exp 60h	0.87419	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01714	1
Var 0h	0.35203	1
Var 12h I row2-row1	1.11986	0.324
Var 12h NI row2-row1	0.94157	0.546
Var 36h I row2-row1	0.9726	0.805
Var 36h NI row2-row1	0.95185	0.61
Var 60h I row2-row1	1.07753	1
Var 60h NI row2-row1	1.01099	1
Time course 0hI-0hNI	1.08877	0.662
Time course 12hI-12hNI	0.96034	0.632
Time course 36hI-36hNI	1.00827	1
Time course 60hI-60hNI	1.0261	0.426

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)	0.97825	0.362
transgenic ySAMdc/azygous control (breaker)	1.09467	1
transgenic ySAMdc/azygous control (red)	0.87467	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03191	0.1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14425	0.277

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)	1.24262	1
Manapal/WT (red)	1.0228	1