Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.8.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82009	0.272
27DAP/17DAP	1.04608	0.883
39DAP/27DAP	1.03682	1
41DAP/39DAP	1.03458	0.929
42DAP/41DAP	1.08024	1
43DAP/42DAP	1.04845	1
47DAP/43DAP	1.27405	0.239
52DAP/47DAP	0.93211	0.779
57DAP/52DAP	1.37764	0.944

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96653	0.476
17DAP/reference	1.14179	0.039
27DAP/reference	1.09326	0.587
39DAP/reference	0.9871	0.828
41DAP/reference	0.98697	0.814
42DAP/reference	1.11643	0.366
43DAP/reference	0.95162	0.708
47DAP/reference	1.01893	1
52DAP/reference	1.08898	0.114
57DAP/reference	0.83482	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14097	0.138
27DAP/17DAP	0.84821	0.475
39DAP/27DAP	1.01863	0.832
41DAP/39DAP	1.23697	0.091
42DAP/41DAP	0.96233	0.687
43DAP/42DAP	0.85954	0.076
47DAP/43DAP	1.1419	0.448
52DAP/47DAP	0.90302	0.314
57DAP/52DAP	1.11942	0.471
57DAP/7DAP	1.00051	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30648	0.064
17DAP/reference	1.16073	0.162
27DAP/reference	1.12587	0.026
39DAP/reference	1.16007	0.297
41DAP/reference	1.11135	0.291
42DAP/reference	1.11109	0.076
43DAP/reference	1.05986	0.603
47DAP/reference	0.96513	0.671
52DAP/reference	1.00244	1
57DAP/reference	1.03495	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02578	0.915
17DAP/reference	0.92602	0.253
27DAP/reference	0.86563	0.181
39DAP/reference	0.98263	0.539
41DAP/reference	0.98928	0.557
42DAP/reference	0.86379	0.073
43DAP/reference	0.93139	0.336
47DAP/reference	0.85285	0.054
52DAP/reference	0.90781	0.239
57DAP/reference	0.90286	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24796	0.047
17DAP/reference	1.02068	0.842
27DAP/reference	1.0417	0.447
39DAP/reference	0.93898	0.271
41DAP/reference	1.00705	0.826
42DAP/reference	1.0505	0.863
43DAP/reference	0.99494	0.685
47DAP/reference	0.93241	0.396
52DAP/reference	1.04456	0.941
57DAP/reference	1.06874	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1337	0.966
26DAP/20DAP	1.06383	0.806
34DAP/26DAP	1.1387	0.542
51DAP/34DAP	1.05659	0.854
52DAP/51DAP	0.87147	0.151
53DAP/52DAP	0.87866	0.426
55DAP/53DAP	1.11679	0.566
57DAP/55DAP	1.07874	0.915
62DAP/57DAP	1.07626	0.723
68DAP/62DAP	1.18934	1
68DAP/14DAP	1.2094	0.087

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12079	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88601	0.539
Mature Green Tomato/Ripe Tomato	1.07491	0.881
Immature Eggplant/Mature Eggplant	0.64608	0.079
Ripe Pepper/Ripe Tomato	1.22509	1
Mature Eggplant/Ripe Tomato	1.48652	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14557	0.574
1-1-2/M82	0.99194	1
12-2/M82	N/A	N/A
12-4/M82	0.6768	0.619
1-3/M82	1.47175	0.255
2-1-1/M82	1.14489
2-1/M82	0.70777	0.325
2-6/M82	0.75392	1
3-2/M82	1.09808
4-1-1/M82	1.12709
4-1/M82	0.97473
4-3-2/M82	1.0009	1
4-3/M82	0.59699	0.381
5-3/M82	1.2865	0.572
6-2/M82	N/A	N/A
6-3/M82	0.91787	1
7-1/M82	1.0695	1
7-2/M82	1.21976	0.385
9-3-2/M82	0.78059

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12321	0.277
IL2-6/WTpooled	1.02786	1
IL7-5/WTpooled	1.12526	1
IL7-3/WTpooled	0.99355	1
IL12-4/WTpooled	1.25035	0.673
IL1-4/WTpooled	0.99116	1
WT/WTpooled	1.02216	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	0.8639	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0911	0.846
DC3000/delta hrp 6h	1.01146	1
DC3000/delta hrp 12h	0.86082	1
DC3000/delta hrp 24h	1.20588	0.057

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.90694	0.273
DC3000 delta B/DC3000 delta AB	0.78183	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.63254	1
Exp 36h	0.84795	0.504
Exp 60h	0.53478	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02395	1
Var 0h	0.97831	1
Var 12h I row2-row1	0.8385	0.338
Var 12h NI row2-row1	1.09883	1
Var 36h I row2-row1	1.06958	0.283
Var 36h NI row2-row1	0.95703	0.706
Var 60h I row2-row1	0.89754	0.952
Var 60h NI row2-row1	0.91372	0.63
Time course 0hI-0hNI	0.92407	0.437
Time course 12hI-12hNI	1.00892	0.842
Time course 36hI-36hNI	1.11698	0.101
Time course 60hI-60hNI	0.88064	0.047

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)	1.0538	0.408
transgenic ySAMdc/azygous control (breaker)	1.51641	0.248
transgenic ySAMdc/azygous control (red)	0.96	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03586	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7474	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26344	0.105
Manapal/WT (break)	1.14161	0.381
Manapal/WT (red)	1.58704	0.134