Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.14.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00906	0.839
27DAP/17DAP	1.50808	0.606
39DAP/27DAP	0.99509	0.769
41DAP/39DAP	0.83622	0.501
42DAP/41DAP	0.86024	1
43DAP/42DAP	0.81615	0.694
47DAP/43DAP	1.18984	0.52
52DAP/47DAP	0.77269	0.502
57DAP/52DAP	1.03535	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78583	0.037
17DAP/reference	0.89293	0.158
27DAP/reference	1.06614	0.709
39DAP/reference	0.86125	0.083
41DAP/reference	0.73363	0.031
42DAP/reference	0.77389	0.001
43DAP/reference	0.99729	0.84
47DAP/reference	0.90302	0.012
52DAP/reference	0.78073	0.096
57DAP/reference	1.01631	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97668	0.716
27DAP/17DAP	0.84982	0.648
39DAP/27DAP	1.27695	0.925
41DAP/39DAP	0.85475	0.158
42DAP/41DAP	1.38783	0.836
43DAP/42DAP	0.77478	0.076
47DAP/43DAP	0.92533	0.701
52DAP/47DAP	1.3794	0.308
57DAP/52DAP	1.0011	0.828
57DAP/7DAP	1.58898	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32245	0.041
17DAP/reference	1.02716	1
27DAP/reference	1.04697	0.131
39DAP/reference	0.74389	0.012
41DAP/reference	0.78798	0.031
42DAP/reference	0.84546	0.06
43DAP/reference	0.71121	0.011
47DAP/reference	0.78125	0.128
52DAP/reference	0.73278	0.016
57DAP/reference	0.80293	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87213	0.318
17DAP/reference	0.94232	0.41
27DAP/reference	0.85099	0.134
39DAP/reference	0.91391	0.257
41DAP/reference	0.8999	0.237
42DAP/reference	0.86886	0.15
43DAP/reference	0.95842	0.486
47DAP/reference	0.95699	0.41
52DAP/reference	1.10193	0.938
57DAP/reference	0.86748	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10925	0.338
17DAP/reference	1.04223	0.956
27DAP/reference	0.98518	0.624
39DAP/reference	1.01608	1
41DAP/reference	0.94931	0.371
42DAP/reference	0.91184	0.22
43DAP/reference	0.80234	0.102
47DAP/reference	1.00872	1
52DAP/reference	0.90876	0.472
57DAP/reference	0.80725	0.118

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97407	1
26DAP/20DAP	2.23093
34DAP/26DAP	0.639	0.763
51DAP/34DAP	0.6442	0.555
52DAP/51DAP	0.60404	0.151
53DAP/52DAP	1.22651	0.608
55DAP/53DAP	0.7425	0.363
57DAP/55DAP	0.96714	0.88
62DAP/57DAP	1.05189	1
68DAP/62DAP	0.84128	0.609
68DAP/14DAP	1.34802	0.2

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.50487	0.081

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.05576	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.90449
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.96776	0.277
IL2-6/WTpooled	0.63283
IL7-5/WTpooled	1.21819
IL7-3/WTpooled	1.91156	1
IL12-4/WTpooled	1.28536	0.737
IL1-4/WTpooled	3.03866	1
WT/WTpooled	0.99688	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	0.99647

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.70456	0.642
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.98635

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.89732	1
Var 0h	0.95158	0.936
Var 12h I row2-row1	0.97145	0.948
Var 12h NI row2-row1	1.01531	1
Var 36h I row2-row1	1.16942	0.908
Var 36h NI row2-row1	0.67177	1
Var 60h I row2-row1	0.90309	0.582
Var 60h NI row2-row1	0.6555	1
Time course 0hI-0hNI	0.90036	0.764
Time course 12hI-12hNI	0.87494	0.275
Time course 36hI-36hNI	0.83079	0.125
Time course 60hI-60hNI	1.20096	0.359

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	37.926	0.248
transgenic ySAMdc/azygous control (red)	1.27831	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.27286	0.026

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12189	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.25273	0.222