Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.9.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19474	0.414
27DAP/17DAP	1.01781	1
39DAP/27DAP	1.01483	0.782
41DAP/39DAP	0.93783	0.727
42DAP/41DAP	0.98009	1
43DAP/42DAP	0.99456	0.937
47DAP/43DAP	1.12169	0.909
52DAP/47DAP	0.96324	0.873
57DAP/52DAP	1.1383	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.87782	0.006
17DAP/reference	1.26016	0.342
27DAP/reference	1.04971	0.721
39DAP/reference	1.05961	0.545
41DAP/reference	1.0922	0.48
42DAP/reference	1.19599	0.007
43DAP/reference	0.95129	0.48
47DAP/reference	1.15557	0.048
52DAP/reference	1.02908	0.951
57DAP/reference	1.20266	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17875	0.464
27DAP/17DAP	0.9182	0.446
39DAP/27DAP	0.9931	1
41DAP/39DAP	1.10141	0.417
42DAP/41DAP	0.97827	0.77
43DAP/42DAP	0.89132	0.068
47DAP/43DAP	1.08044	0.63
52DAP/47DAP	1.03622	0.907
57DAP/52DAP	0.97079	0.721
57DAP/7DAP	1.38753	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1517	0.564
17DAP/reference	0.92948	0.021
27DAP/reference	0.91633	0.03
39DAP/reference	0.98324	0.411
41DAP/reference	1.06126	1
42DAP/reference	0.86698	0.024
43DAP/reference	0.84788	0.047
47DAP/reference	1.42366	0.331
52DAP/reference	1.00617	1
57DAP/reference	0.96849	0.328

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26414	0.289
17DAP/reference	2.13941	0.007
27DAP/reference	1.76388	0.018
39DAP/reference	1.44576	0.077
41DAP/reference	1.46052	0.086
42DAP/reference	1.77186	0.009
43DAP/reference	1.1592	0.605
47DAP/reference	1.5972	0.008
52DAP/reference	1.45596	0.006
57DAP/reference	0.96536	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93236	0.071
17DAP/reference	1.09834	0.585
27DAP/reference	1.08479	0.695
39DAP/reference	1.04182	0.691
41DAP/reference	0.96457	0.185
42DAP/reference	0.92733	0.361
43DAP/reference	0.96937	0.545
47DAP/reference	0.69229	0.009
52DAP/reference	0.81559	0.089
57DAP/reference	1.02597	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03341	0.966
26DAP/20DAP	1.03882	0.855
34DAP/26DAP	0.99319	1
51DAP/34DAP	1.37449	0.207
52DAP/51DAP	0.93947	1
53DAP/52DAP	1.22867	0.413
55DAP/53DAP	1.1096	0.666
57DAP/55DAP	0.93369	0.664
62DAP/57DAP	1.05519	0.935
68DAP/62DAP	1.38344	0.383
68DAP/14DAP	1.9205	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02801	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8378	0.295
Mature Green Tomato/Ripe Tomato	1.4744	0.267
Immature Eggplant/Mature Eggplant	1.0397	0.439
Ripe Pepper/Ripe Tomato	2.09253	0.256
Mature Eggplant/Ripe Tomato	1.92193	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.54783	0.536
1-1-2/M82	1.05783	1
12-2/M82	N/A	N/A
12-4/M82	0.83397	0.619
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	0.86928
3-2/M82	1.01992
4-1-1/M82	0.66066
4-1/M82	N/A	N/A
4-3-2/M82	0.9601	1
4-3/M82	0.8584	1
5-3/M82	1.05969	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.30366	1
7-2/M82	0.87704	0.796
9-3-2/M82	0.97008	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82625	0.243
IL2-6/WTpooled	0.85406	0.383
IL7-5/WTpooled	0.8485	1
IL7-3/WTpooled	0.73765	0.31
IL12-4/WTpooled	0.86087	0.71
IL1-4/WTpooled	0.81237	0.562
WT/WTpooled	0.93658	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	0.90893	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14426	0.921
DC3000/delta hrp 6h	1.06509	1
DC3000/delta hrp 12h	0.96369	1
DC3000/delta hrp 24h	1.00315	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06161	0.134
DC3000 delta B/DC3000 delta AB	1.00057	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83778	1
Exp 36h	1.15322	1
Exp 60h	1.07128	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98603	1
Var 0h	1.20605	0.421
Var 12h I row2-row1	1.03171	0.58
Var 12h NI row2-row1	1.05919	1
Var 36h I row2-row1	1.01945	1
Var 36h NI row2-row1	0.87335	0.706
Var 60h I row2-row1	0.86515	0.582
Var 60h NI row2-row1	0.91715	0.866
Time course 0hI-0hNI	1.03966	0.662
Time course 12hI-12hNI	1.01473	0.816
Time course 36hI-36hNI	1.1667	0.014
Time course 60hI-60hNI	1.49702	0.008

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)	1.10445	0.654
transgenic ySAMdc/azygous control (breaker)	0.57653	0.131
transgenic ySAMdc/azygous control (red)	0.98268	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.24905	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.39682	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94904	1
Manapal/WT (break)	1.03812	1
Manapal/WT (red)	1.4314	0.142