Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0597	0.938
27DAP/17DAP	0.93386	0.857
39DAP/27DAP	1.10458	1
41DAP/39DAP	1.03807	0.978
42DAP/41DAP	1.11541	0.949
43DAP/42DAP	0.98318	0.914
47DAP/43DAP	0.8495	0.51
52DAP/47DAP	1.36347	0.641
57DAP/52DAP	1.11482	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90569	0.269
17DAP/reference	0.8132	0.017
27DAP/reference	1.05107	0.559
39DAP/reference	0.90618	0.37
41DAP/reference	0.77263	0.014
42DAP/reference	0.88056	0.006
43DAP/reference	0.91348	0.41
47DAP/reference	0.99686	0.602
52DAP/reference	1.00789	0.668
57DAP/reference	1.081	0.332

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03279	0.975
27DAP/17DAP	1.04381	0.942
39DAP/27DAP	1.20744	0.465
41DAP/39DAP	1.45038	0.115
42DAP/41DAP	0.91328	0.434
43DAP/42DAP	0.7209	0.065
47DAP/43DAP	1.12001	0.708
52DAP/47DAP	0.88897	0.546
57DAP/52DAP	1.22967	0.718
57DAP/7DAP	1.41417

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06613	0.545
17DAP/reference	0.90454	0.192
27DAP/reference	0.9987	0.614
39DAP/reference	0.94546	0.354
41DAP/reference	0.90481	0.174
42DAP/reference	0.88122	0.09
43DAP/reference	0.87999	0.22
47DAP/reference	0.77821	0.101
52DAP/reference	0.91458	0.097
57DAP/reference	0.83348	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90743	0.386
17DAP/reference	0.85206	0.089
27DAP/reference	0.91066	0.24
39DAP/reference	0.93087	0.274
41DAP/reference	0.85798	0.115
42DAP/reference	0.90304	0.108
43DAP/reference	1.11402	0.435
47DAP/reference	0.97757	0.527
52DAP/reference	0.72866	0.006
57DAP/reference	0.87392	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9753	0.566
17DAP/reference	0.95058	0.407
27DAP/reference	0.86657	0.133
39DAP/reference	0.89804	0.122
41DAP/reference	0.87184	0.132
42DAP/reference	0.97628	0.671
43DAP/reference	1.02332	0.738
47DAP/reference	1.06913	0.847
52DAP/reference	1.13187	0.908
57DAP/reference	1.24276	0.126

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80891	0.131
26DAP/20DAP	3.73641	0.555
34DAP/26DAP	1.28937	0.819
51DAP/34DAP	0.8466	0.482
52DAP/51DAP	0.88784	1
53DAP/52DAP	0.67785	0.27
55DAP/53DAP	1.1095	0.806
57DAP/55DAP	1.08961	0.935
62DAP/57DAP	0.93404	0.871
68DAP/62DAP	0.78198	0.7
68DAP/14DAP	0.89771	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93765	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.41225	0.016
Immature Eggplant/Mature Eggplant	1.26566	0.157
Ripe Pepper/Ripe Tomato	0.28801	0.293
Mature Eggplant/Ripe Tomato	0.71855

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.62197
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	3.15694

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14024	0.365
IL2-6/WTpooled	0.98145	1
IL7-5/WTpooled	1.81998	0.75
IL7-3/WTpooled	1.0864	1
IL12-4/WTpooled	0.98296	1
IL1-4/WTpooled	1.1171	1
WT/WTpooled	0.91892	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	1.09352	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10597	0.921
DC3000/delta hrp 6h	1.02031	1
DC3000/delta hrp 12h	1.09053	1
DC3000/delta hrp 24h	1.5222	0.048

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.56403	0.042
DC3000 delta B/DC3000 delta AB	2.97151	0.096

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29277	0.254
Exp 36h	1.63671	0.693
Exp 60h	1.31081	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9886	1
Var 0h	1.01575	1
Var 12h I row2-row1	0.91089	0.514
Var 12h NI row2-row1	0.93939	0.627
Var 36h I row2-row1	1.1328	0.291
Var 36h NI row2-row1	0.90535	0.645
Var 60h I row2-row1	0.84487	0.582
Var 60h NI row2-row1	0.90504	0.977
Time course 0hI-0hNI	1.06788	0.833
Time course 12hI-12hNI	1.26954	0.01
Time course 36hI-36hNI	1.42498	0.006
Time course 60hI-60hNI	1.40194	0.115

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)	1.21932	0.312
transgenic ySAMdc/azygous control (breaker)	0.6347	0.251
transgenic ySAMdc/azygous control (red)	1.11276	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04395	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68904	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.73445	0.14
Manapal/WT (break)	1.1002	1
Manapal/WT (red)	0.90808	0.274