Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.8.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96283	0.743
27DAP/17DAP	1.1765	0.813
39DAP/27DAP	0.81157	0.378
41DAP/39DAP	1.30451	0.212
42DAP/41DAP	1.20873	0.971
43DAP/42DAP	0.99641	0.931
47DAP/43DAP	0.92272	0.699
52DAP/47DAP	1.02779	1
57DAP/52DAP	1.09828	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92458	0.254
17DAP/reference	1.02362	0.492
27DAP/reference	1.00347	1
39DAP/reference	1.00101	0.941
41DAP/reference	1.1614	0.017
42DAP/reference	0.89563	0.027
43DAP/reference	1.06851	0.202
47DAP/reference	0.90215	0.065
52DAP/reference	0.78263	0.018
57DAP/reference	0.82744	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88246	0.388
27DAP/17DAP	1.03077	1
39DAP/27DAP	1.076	0.532
41DAP/39DAP	0.95595	0.923
42DAP/41DAP	0.99432	0.853
43DAP/42DAP	1.0364	0.627
47DAP/43DAP	0.98536	0.928
52DAP/47DAP	1.00563	1
57DAP/52DAP	1.06429	0.679
57DAP/7DAP	1.1989	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7894	0.06
17DAP/reference	0.96346	0.447
27DAP/reference	1.13394	0.301
39DAP/reference	1.07327	0.411
41DAP/reference	1.08866	1
42DAP/reference	0.93257	0.235
43DAP/reference	1.1098	0.457
47DAP/reference	1.06847	0.67
52DAP/reference	0.76116	0.026
57DAP/reference	1.07771	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08506	0.279
17DAP/reference	1.01382	0.904
27DAP/reference	0.9454	0.34
39DAP/reference	0.97895	0.539
41DAP/reference	0.85497	0.035
42DAP/reference	0.88918	0.046
43DAP/reference	1.19661	0.251
47DAP/reference	0.90354	0.054
52DAP/reference	0.99177	0.619
57DAP/reference	1.01775	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93769	0.249
17DAP/reference	1.00433	0.886
27DAP/reference	1.04064	1
39DAP/reference	0.94956	0.36
41DAP/reference	0.88178	0.167
42DAP/reference	1.05162	0.743
43DAP/reference	0.8572	0.206
47DAP/reference	0.90553	0.199
52DAP/reference	0.85988	0.166
57DAP/reference	0.65536	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9592	1
26DAP/20DAP	1.02695	1
34DAP/26DAP	1.06145	1
51DAP/34DAP	1.14462	0.1
52DAP/51DAP	1.01646	0.848
53DAP/52DAP	1.01567	0.921
55DAP/53DAP	1.14069	0.547
57DAP/55DAP	0.96808	0.831
62DAP/57DAP	1.21154	0.569
68DAP/62DAP	1.37823	0.869
68DAP/14DAP	0.77661	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90436	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.52563	0.1
Mature Green Tomato/Ripe Tomato	0.89156	0.287
Immature Eggplant/Mature Eggplant	1.76343	0.05
Ripe Pepper/Ripe Tomato	1.05851	1
Mature Eggplant/Ripe Tomato	0.74336	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06319	0.473
1-1-2/M82	0.94408	1
12-2/M82	0.97873	0.955
12-4/M82	0.97436	1
1-3/M82	1.01594	1
2-1-1/M82	N/A	N/A
2-1/M82	0.75888
2-6/M82	0.85502	0.501
3-2/M82	0.95874	1
4-1-1/M82	0.80604	1
4-1/M82	0.97088	1
4-3-2/M82	0.89652	1
4-3/M82	0.83641	0.475
5-3/M82	1.14344	1
6-2/M82	0.83099	0.481
6-3/M82	1.01293	1
7-1/M82	1.0145	1
7-2/M82	0.71142
9-3-2/M82	0.92074	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99185	1
IL2-6/WTpooled	1.02351	0.788
IL7-5/WTpooled	1.6415
IL7-3/WTpooled	0.87094	0.418
IL12-4/WTpooled	0.9841	1
IL1-4/WTpooled	1.12789	0.426
WT/WTpooled	0.95726	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	1.1192	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0772	0.823
DC3000/delta hrp 6h	1.06752	1
DC3000/delta hrp 12h	1.00979	1
DC3000/delta hrp 24h	1.1954	0.06

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15582	0.06
DC3000 delta B/DC3000 delta AB	1.04511	0.524

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.53091	1
Exp 36h	1.80966	0.409
Exp 60h	1.59722	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98891	1
Var 0h	1.39438	0.782
Var 12h I row2-row1	1.08993	0.324
Var 12h NI row2-row1	0.91441	0.713
Var 36h I row2-row1	0.86571	0.805
Var 36h NI row2-row1	0.86445	0.522
Var 60h I row2-row1	1.20803	1
Var 60h NI row2-row1	1.19757	0.904
Time course 0hI-0hNI	1.10101	0.486
Time course 12hI-12hNI	1.06828	0.216
Time course 36hI-36hNI	1.17121	0.005
Time course 60hI-60hNI	1.31952	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)	1.03715	0.271
transgenic ySAMdc/azygous control (breaker)	1.14591	1
transgenic ySAMdc/azygous control (red)	0.95968	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03889	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58319	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84125	1
Manapal/WT (break)	0.99816	1
Manapal/WT (red)	1.23774	0.164