Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10431	0.681
27DAP/17DAP	1.17836	0.809
39DAP/27DAP	1.07164	1
41DAP/39DAP	1.26569	0.349
42DAP/41DAP	1.03098	1
43DAP/42DAP	1.01034	0.94
47DAP/43DAP	1.24478	0.463
52DAP/47DAP	0.92709	0.615
57DAP/52DAP	0.94826	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99968	0.787
17DAP/reference	0.9664	0.448
27DAP/reference	0.97763	0.525
39DAP/reference	0.99235	0.921
41DAP/reference	0.98788	0.814
42DAP/reference	0.99838	0.645
43DAP/reference	0.9766	0.576
47DAP/reference	1.06507	0.154
52DAP/reference	1.16477	0.114
57DAP/reference	1.0682	0.097

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05438	0.797
27DAP/17DAP	1.00858	0.995
39DAP/27DAP	1.0772	0.615
41DAP/39DAP	1.07579	0.921
42DAP/41DAP	1.00188	0.882
43DAP/42DAP	1.06916	0.23
47DAP/43DAP	1.03358	0.889
52DAP/47DAP	0.99981	0.969
57DAP/52DAP	0.90074	0.426
57DAP/7DAP	0.85778	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91051	0.1
17DAP/reference	1.00658	1
27DAP/reference	0.95216	0.125
39DAP/reference	0.93995	0.016
41DAP/reference	0.86839	0.017
42DAP/reference	0.92977	0.05
43DAP/reference	0.99544	0.637
47DAP/reference	0.98499	0.671
52DAP/reference	0.93677	0.115
57DAP/reference	0.93629	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97497	0.639
17DAP/reference	0.94897	0.083
27DAP/reference	0.99075	0.686
39DAP/reference	0.98115	0.554
41DAP/reference	1.00239	1
42DAP/reference	0.96461	0.392
43DAP/reference	0.98596	0.681
47DAP/reference	0.98673	0.459
52DAP/reference	1.00134	0.761
57DAP/reference	0.91009	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96251	0.104
17DAP/reference	0.98777	0.696
27DAP/reference	1.00265	1
39DAP/reference	0.95072	0.046
41DAP/reference	0.98616	0.459
42DAP/reference	1.00074	1
43DAP/reference	0.99014	0.66
47DAP/reference	0.98697	0.558
52DAP/reference	0.95572	0.464
57DAP/reference	1.20208	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99531	1
26DAP/20DAP	0.93239	1
34DAP/26DAP	1.01882	1
51DAP/34DAP	1.06489	0.677
52DAP/51DAP	1.16098	0.096
53DAP/52DAP	1.12466	0.662
55DAP/53DAP	1.09616	0.589
57DAP/55DAP	0.95904	0.647
62DAP/57DAP	1.02919	0.868
68DAP/62DAP	1.05992	0.936
68DAP/14DAP	1.07987	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0227	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06067	0.287
Mature Green Tomato/Ripe Tomato	0.94397	0.522
Immature Eggplant/Mature Eggplant	0.98488	1
Ripe Pepper/Ripe Tomato	0.56315	0.224
Mature Eggplant/Ripe Tomato	0.69731	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93737	0.944
1-1-2/M82	0.95958	1
12-2/M82	0.92756	0.862
12-4/M82	1.1094	1
1-3/M82	0.81021	0.441
2-1-1/M82	1.186	0.764
2-1/M82	N/A	N/A
2-6/M82	1.06534	0.695
3-2/M82	0.69169
4-1-1/M82	1.18562	0.968
4-1/M82	1.03497
4-3-2/M82	1.09198	0.262
4-3/M82	0.9299	1
5-3/M82	0.99794	1
6-2/M82	0.75802
6-3/M82	0.95334	0.916
7-1/M82	1.13148
7-2/M82	0.93754	0.57
9-3-2/M82	0.98883

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.26118	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.12631
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.87503	0.394
WT/WTpooled	N/A	N/A

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	0.98513	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02639	0.921
DC3000/delta hrp 6h	0.94235	0.95
DC3000/delta hrp 12h	0.9968	1
DC3000/delta hrp 24h	1.08885	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.52802	0.25
DC3000 delta B/DC3000 delta AB	1.03257	0.687

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84377	1
Exp 36h	1.17571	0.371
Exp 60h	1.10114	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.03391	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.69596
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.49961
Time course 0hI-0hNI	1.03921	0.867
Time course 12hI-12hNI	1.04887
Time course 36hI-36hNI	0.99707	0.742
Time course 60hI-60hNI	0.75194	0.081

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)	1.22674	0.287
transgenic ySAMdc/azygous control (breaker)	0.8523	0.251
transgenic ySAMdc/azygous control (red)	0.95142	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03552	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75764	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90731	1
Manapal/WT (break)	1.14049	1
Manapal/WT (red)	1.10537	0.222