Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.6.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96782	0.76
27DAP/17DAP	1.16559	0.829
39DAP/27DAP	0.91274	0.529
41DAP/39DAP	1.42245	0.3
42DAP/41DAP	1.01342	1
43DAP/42DAP	1.04931	0.94
47DAP/43DAP	0.97661	0.868
52DAP/47DAP	1.16934	0.639
57DAP/52DAP	1.0364	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95351	0.379
17DAP/reference	1.06071	0.068
27DAP/reference	1.00528	0.966
39DAP/reference	0.99275	0.855
41DAP/reference	1.01587	0.91
42DAP/reference	0.93704	0.052
43DAP/reference	0.99419	0.861
47DAP/reference	0.94232	0.161
52DAP/reference	0.81162	0.118
57DAP/reference	0.94472	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96472	0.578
27DAP/17DAP	0.99454	0.943
39DAP/27DAP	1.06257	0.534
41DAP/39DAP	1.01291	1
42DAP/41DAP	0.95931	0.687
43DAP/42DAP	1.01126	0.699
47DAP/43DAP	0.99959	1
52DAP/47DAP	1.06005	0.776
57DAP/52DAP	1.05223	0.654
57DAP/7DAP	1.08765	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82777	0.1
17DAP/reference	0.92066	0.192
27DAP/reference	0.88594	0.094
39DAP/reference	1.00876	1
41DAP/reference	1.01223	0.848
42DAP/reference	0.84191	0.2
43DAP/reference	0.79614	0.082
47DAP/reference	0.92509	0.383
52DAP/reference	1.02478	1
57DAP/reference	1.04493	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98542	0.77
17DAP/reference	0.93993	0.23
27DAP/reference	0.88421	0.292
39DAP/reference	0.99112	0.603
41DAP/reference	0.89841	0.036
42DAP/reference	0.90528	0.121
43DAP/reference	0.959	0.43
47DAP/reference	1.05219	0.556
52DAP/reference	1.01846	0.667
57DAP/reference	1.07676	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9006	0.169
17DAP/reference	0.99654	0.792
27DAP/reference	0.96992	0.319
39DAP/reference	1.0036	1
41DAP/reference	1.05406	0.796
42DAP/reference	1.00255	0.816
43DAP/reference	1.18763	0.186
47DAP/reference	0.95495	0.371
52DAP/reference	0.99061	0.763
57DAP/reference	0.75494	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0191	0.966
26DAP/20DAP	0.88875	0.317
34DAP/26DAP	1.01506	1
51DAP/34DAP	0.98498	0.844
52DAP/51DAP	0.98746	1
53DAP/52DAP	0.93659	0.604
55DAP/53DAP	1.02522	1
57DAP/55DAP	0.9084	0.49
62DAP/57DAP	0.99713	1
68DAP/62DAP	1.06414	0.89
68DAP/14DAP	1.26649	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9656	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88187	0.539
Mature Green Tomato/Ripe Tomato	0.963	0.611
Immature Eggplant/Mature Eggplant	1.27118	0.288
Ripe Pepper/Ripe Tomato	1.42278	1
Mature Eggplant/Ripe Tomato	1.77065	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09161	0.591
1-1-2/M82	1.05227	1
12-2/M82	1.18603	0.519
12-4/M82	0.89299	1
1-3/M82	1.07688	0.26
2-1-1/M82	1.14618	0.457
2-1/M82	1.70433
2-6/M82	1.08686	0.695
3-2/M82	0.99505	1
4-1-1/M82	1.02091	1
4-1/M82	0.62111
4-3-2/M82	0.98755	1
4-3/M82	1.21547	1
5-3/M82	0.96981	1
6-2/M82	0.9897
6-3/M82	1.23132
7-1/M82	1.10623	0.992
7-2/M82	1.2838	1
9-3-2/M82	0.91363	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72202
IL2-6/WTpooled	0.74802	0.348
IL7-5/WTpooled	2.56275
IL7-3/WTpooled	1.06698	1
IL12-4/WTpooled	0.91709	0.71
IL1-4/WTpooled	0.71913	0.699
WT/WTpooled	0.95528	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	1.06618	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96731	1
DC3000/delta hrp 6h	1.28022	1
DC3000/delta hrp 12h	0.95494	1
DC3000/delta hrp 24h	1.11914	0.107

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20653	0.333
DC3000 delta B/DC3000 delta AB	1.15188	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95673	1
Exp 36h	N/A	N/A
Exp 60h	0.7201	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03765	1
Var 0h	0.95095	1
Var 12h I row2-row1	1.09805	0.242
Var 12h NI row2-row1	0.9354	0.713
Var 36h I row2-row1	0.82721	0.805
Var 36h NI row2-row1	0.92186	0.645
Var 60h I row2-row1	1.05247	1
Var 60h NI row2-row1	1.18887	0.904
Time course 0hI-0hNI	1.10936	0.574
Time course 12hI-12hNI	1.12377	0.265
Time course 36hI-36hNI	1.15512	0.218
Time course 60hI-60hNI	1.42929	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)	1.01655	0.863
transgenic ySAMdc/azygous control (breaker)	1.53263	0.248
transgenic ySAMdc/azygous control (red)	1.23746	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96006	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97743	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.72087	0.09
Manapal/WT (break)	1.31433	0.183
Manapal/WT (red)	1.2687	1