Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.4.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00723	0.951
27DAP/17DAP	1.10295	0.868
39DAP/27DAP	0.80329	0.458
41DAP/39DAP	1.34163	0.323
42DAP/41DAP	1.12524	0.945
43DAP/42DAP	0.91593	0.741
47DAP/43DAP	0.95044	0.815
52DAP/47DAP	1.03367	0.941
57DAP/52DAP	0.97033	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99286	0.743
17DAP/reference	1.02381	0.787
27DAP/reference	1.14275	0.904
39DAP/reference	0.74539	0.475
41DAP/reference	0.81365	0.201
42DAP/reference	0.97769	0.326
43DAP/reference	N/A	N/A
47DAP/reference	0.9814	0.418
52DAP/reference	1.18557
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08618	0.508
27DAP/17DAP	1.05047	0.848
39DAP/27DAP	0.96841	0.721
41DAP/39DAP	0.93333	0.567
42DAP/41DAP	1.00779	1
43DAP/42DAP	0.9809	0.665
47DAP/43DAP	0.96565	0.666
52DAP/47DAP	1.01453	0.945
57DAP/52DAP	0.98148	0.716
57DAP/7DAP	1.06252	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97852	0.402
17DAP/reference	0.9751	0.064
27DAP/reference	0.91121	0.024
39DAP/reference	0.98954	0.474
41DAP/reference	0.96555	0.079
42DAP/reference	1.05264	0.1
43DAP/reference	0.96716	0.064
47DAP/reference	0.91896	0.057
52DAP/reference	0.98855	0.398
57DAP/reference	0.963	0.156

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88845	0.487
17DAP/reference	1.03319	0.756
27DAP/reference	1.027	0.888
39DAP/reference	1.03867	0.67
41DAP/reference	0.98275	0.531
42DAP/reference	0.95587	0.289
43DAP/reference	1.01026	0.919
47DAP/reference	0.94584	0.129
52DAP/reference	0.98642	0.537
57DAP/reference	1.05775	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96806	0.052
17DAP/reference	0.97804	0.499
27DAP/reference	0.95548	0.155
39DAP/reference	0.9701	0.179
41DAP/reference	0.95689	0.237
42DAP/reference	0.91199	0.087
43DAP/reference	0.9505	0.171
47DAP/reference	0.95441	0.215
52DAP/reference	0.90168	0.166
57DAP/reference	0.77166	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0244	0.966
26DAP/20DAP	0.98264	1
34DAP/26DAP	0.92493	0.565
51DAP/34DAP	1.02139	0.883
52DAP/51DAP	1.02799	0.733
53DAP/52DAP	0.96343	0.824
55DAP/53DAP	1.02104	1
57DAP/55DAP	0.99551	0.944
62DAP/57DAP	1.03759	0.902
68DAP/62DAP	1.02912	0.926
68DAP/14DAP	1.05819	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.01757	0.075
Mature Green Tomato/Ripe Tomato	1.40176	0.058
Immature Eggplant/Mature Eggplant	0.7394
Ripe Pepper/Ripe Tomato	0.93937	1
Mature Eggplant/Ripe Tomato	1.59447	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98966	0.961
1-1-2/M82	0.80988	0.804
12-2/M82	1.17683	0.519
12-4/M82	1.06278	1
1-3/M82	0.96751	1
2-1-1/M82	1.13276	1
2-1/M82	N/A	N/A
2-6/M82	0.95428	1
3-2/M82	1.04815
4-1-1/M82	0.96413	1
4-1/M82	1.13468
4-3-2/M82	N/A	N/A
4-3/M82	0.8912	0.72
5-3/M82	1.08703	1
6-2/M82	0.97267	0.481
6-3/M82	0.85227
7-1/M82	0.96217
7-2/M82	0.99432	1
9-3-2/M82	0.66112	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80641	0.321
IL2-6/WTpooled	1.48551	0.531
IL7-5/WTpooled	1.35898	0.792
IL7-3/WTpooled	0.97471	1
IL12-4/WTpooled	1.16217	0.673
IL1-4/WTpooled	1.0494	1
WT/WTpooled	0.94899	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	0.85417	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07891	0.846
DC3000/delta hrp 6h	1.09906	1
DC3000/delta hrp 12h	1.07952	1
DC3000/delta hrp 24h	1.0433	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61738	0.028
DC3000 delta B/DC3000 delta AB	0.82864	0.036

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89447	1
Exp 36h	0.60766	0.41
Exp 60h	0.49728	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07403	1
Var 0h	1.11148	0.936
Var 12h I row2-row1	0.8567
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.00662	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.9353	0.734
Time course 12hI-12hNI	1.01963	0.818
Time course 36hI-36hNI	1.15492	0.08
Time course 60hI-60hNI	0.87888	0.161

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)	0.9244	0.289
transgenic ySAMdc/azygous control (breaker)	1.01031	1
transgenic ySAMdc/azygous control (red)	0.9914	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01788	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4143	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93458	1
Manapal/WT (break)	1.41675	0.381
Manapal/WT (red)	1.37608	0.164