Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4032	0.414
27DAP/17DAP	1.77729	0.364
39DAP/27DAP	0.69041	0.449
41DAP/39DAP	0.92702	0.6
42DAP/41DAP	0.93066	1
43DAP/42DAP	1.01498	0.937
47DAP/43DAP	1.59411	0.269
52DAP/47DAP	0.76227	0.517
57DAP/52DAP	0.90771	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04822	0.928
17DAP/reference	0.86072	0.025
27DAP/reference	0.95551	0.654
39DAP/reference	0.99682	0.734
41DAP/reference	0.88509	0.434
42DAP/reference	0.79597	0.078
43DAP/reference	1.28912	0.287
47DAP/reference	0.84397	0.006
52DAP/reference	1.02167	1
57DAP/reference	0.65713

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98316	0.75
27DAP/17DAP	0.98824	0.919
39DAP/27DAP	0.91286	0.52
41DAP/39DAP	1.14153	0.763
42DAP/41DAP	1.00444	0.932
43DAP/42DAP	0.90417	0.503
47DAP/43DAP	1.06359	0.805
52DAP/47DAP	0.97809	0.901
57DAP/52DAP	0.96289	0.691
57DAP/7DAP	0.84761	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80894	0.095
17DAP/reference	0.81941	0.064
27DAP/reference	0.98593	0.53
39DAP/reference	0.86356	0.146
41DAP/reference	0.87425	0.054
42DAP/reference	0.89373	0.275
43DAP/reference	0.77889	0.013
47DAP/reference	0.93514	0.383
52DAP/reference	0.78245	0.046
57DAP/reference	0.94137	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9098	0.386
17DAP/reference	0.73633	0.005
27DAP/reference	0.96698	0.501
39DAP/reference	1.09455	0.705
41DAP/reference	1.17345	0.285
42DAP/reference	1.03882	0.777
43DAP/reference	0.89244	0.263
47DAP/reference	0.92153	0.154
52DAP/reference	0.97479	0.469
57DAP/reference	0.89335	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82748	0.087
17DAP/reference	1.09301	0.784
27DAP/reference	1.03537	0.967
39DAP/reference	0.85175	0.111
41DAP/reference	0.93897	0.459
42DAP/reference	1.15885	0.73
43DAP/reference	1.12229	0.828
47DAP/reference	1.18131	0.519
52DAP/reference	0.81599	0.208
57DAP/reference	1.70734	0.111

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87533	1
26DAP/20DAP	0.70531	0.228
34DAP/26DAP	0.98518	0.991
51DAP/34DAP	0.90052	0.419
52DAP/51DAP	1.13614	0.542
53DAP/52DAP	0.9846	0.917
55DAP/53DAP	1.0779	0.689
57DAP/55DAP	0.80098	0.141
62DAP/57DAP	1.19702	0.393
68DAP/62DAP	1.47217	0.707
68DAP/14DAP	2.91401	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74775	0.027

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.3988	0.078
Mature Green Tomato/Ripe Tomato	3.44401	0.016
Immature Eggplant/Mature Eggplant	0.99015	1
Ripe Pepper/Ripe Tomato	2.71985	0.256
Mature Eggplant/Ripe Tomato	4.00685	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.61324
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	0.96221
2-1/M82	N/A	N/A
2-6/M82	1.39058
3-2/M82	N/A	N/A
4-1-1/M82	1.19835
4-1/M82	N/A	N/A
4-3-2/M82	0.83202
4-3/M82	N/A	N/A
5-3/M82	1.16284	1
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.62747
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.08743	0.839
IL1-4/WTpooled	0.87621
WT/WTpooled	1.21096

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	0.81119	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06633	0.921
DC3000/delta hrp 6h	0.81996	0.95
DC3000/delta hrp 12h	1.0757	1
DC3000/delta hrp 24h	1.34402	0.174

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.59084	0.025
DC3000 delta B/DC3000 delta AB	0.77398	0.029

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12839	1
Exp 36h	0.91732	0.456
Exp 60h	1.12558	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01736	1
Var 0h	1.05178	1
Var 12h I row2-row1	0.84764	0.418
Var 12h NI row2-row1	0.97451	0.906
Var 36h I row2-row1	1.00926	1
Var 36h NI row2-row1	1.19611	1
Var 60h I row2-row1	1.08618	0.523
Var 60h NI row2-row1	1.04332	1
Time course 0hI-0hNI	0.98823	0.991
Time course 12hI-12hNI	0.92321	0.426
Time course 36hI-36hNI	0.72267	0.023
Time course 60hI-60hNI	0.29666	0.006

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)	0.69784	0.246
transgenic ySAMdc/azygous control (breaker)	0.93941	0.251
transgenic ySAMdc/azygous control (red)	0.9973	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06247	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7942	0.238

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)	1.16965	1