Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04386	0.912
27DAP/17DAP	1.37803	0.772
39DAP/27DAP	0.8866	0.447
41DAP/39DAP	1.10908	0.88
42DAP/41DAP	1.05973	0.983
43DAP/42DAP	0.95928	0.895
47DAP/43DAP	1.09562	0.793
52DAP/47DAP	0.91935	0.734
57DAP/52DAP	1.10201	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99377	0.707
17DAP/reference	0.99725	0.957
27DAP/reference	0.98292	0.642
39DAP/reference	0.93279	0.437
41DAP/reference	0.91894	0.267
42DAP/reference	0.95926	0.072
43DAP/reference	0.96243	0.594
47DAP/reference	0.96445	0.242
52DAP/reference	0.9285	0.275
57DAP/reference	0.96756	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96533	0.578
27DAP/17DAP	1.03294	0.915
39DAP/27DAP	1.04124	0.615
41DAP/39DAP	1.0765	0.382
42DAP/41DAP	1.01345	0.947
43DAP/42DAP	0.99853	1
47DAP/43DAP	0.99717	0.997
52DAP/47DAP	0.98797	0.925
57DAP/52DAP	0.96504	0.637
57DAP/7DAP	0.98371	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88921	0.1
17DAP/reference	0.95822	0.013
27DAP/reference	0.91483	0.011
39DAP/reference	0.97327	0.109
41DAP/reference	0.99527	0.677
42DAP/reference	1.00665	0.889
43DAP/reference	0.95257	0.054
47DAP/reference	0.88737	0.066
52DAP/reference	0.95235	0.09
57DAP/reference	0.96359	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02621	0.832
17DAP/reference	0.97319	0.461
27DAP/reference	0.8799	0.053
39DAP/reference	0.95315	0.339
41DAP/reference	0.88473	0.042
42DAP/reference	0.93461	0.169
43DAP/reference	0.9905	0.748
47DAP/reference	0.94852	0.085
52DAP/reference	0.99756	0.713
57DAP/reference	0.99185	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91044	0.041
17DAP/reference	0.96094	0.205
27DAP/reference	0.96385	0.195
39DAP/reference	0.97905	0.246
41DAP/reference	0.93957	0.046
42DAP/reference	0.882	0.015
43DAP/reference	0.88697	0.095
47DAP/reference	1.00182	1
52DAP/reference	0.93536	0.385
57DAP/reference	0.81674	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02155	0.966
26DAP/20DAP	1.02879	0.988
34DAP/26DAP	1.02789	0.819
51DAP/34DAP	1.02684	0.785
52DAP/51DAP	0.98378	1
53DAP/52DAP	1.07727	0.552
55DAP/53DAP	1.02454	0.955
57DAP/55DAP	0.97119	0.845
62DAP/57DAP	0.94003	0.871
68DAP/62DAP	0.87412	0.543
68DAP/14DAP	0.89068	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9458	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21337	0.666
Mature Green Tomato/Ripe Tomato	0.83167	0.287
Immature Eggplant/Mature Eggplant	2.29519	0.05
Ripe Pepper/Ripe Tomato	1.27891	1
Mature Eggplant/Ripe Tomato	2.31642	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10852	0.877
1-1-2/M82	1.06404	1
12-2/M82	1.07462	0.61
12-4/M82	0.94295	1
1-3/M82	0.96912	1
2-1-1/M82	0.97512	1
2-1/M82	1.33356	1
2-6/M82	0.98081	1
3-2/M82	1.0013
4-1-1/M82	1.07422	1
4-1/M82	1.00126
4-3-2/M82	0.90609	1
4-3/M82	0.96879	1
5-3/M82	0.93106	1
6-2/M82	1.03103	1
6-3/M82	1.08125
7-1/M82	1.00119	1
7-2/M82	0.95795	1
9-3-2/M82	0.94561	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.913
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.01609	0.426
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	1.11647	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00173	1
DC3000/delta hrp 6h	1.05479	1
DC3000/delta hrp 12h	1.023	1
DC3000/delta hrp 24h	1.12712	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03187	0.25
DC3000 delta B/DC3000 delta AB	0.98507	0.849

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0637	1
Exp 36h	1.22053	0.693
Exp 60h	1.61182	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01622	1
Var 0h	0.93142	1
Var 12h I row2-row1	1.05297	0.473
Var 12h NI row2-row1	0.92425	0.546
Var 36h I row2-row1	1.0041	1
Var 36h NI row2-row1	0.94794	0.584
Var 60h I row2-row1	0.93381	0.439
Var 60h NI row2-row1	1.06087	0.904
Time course 0hI-0hNI	1.06237	0.719
Time course 12hI-12hNI	1.03528	0.693
Time course 36hI-36hNI	1.10855	0.011
Time course 60hI-60hNI	1.35096	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)	0.86369	0.315
transgenic ySAMdc/azygous control (breaker)	0.66761	0.132
transgenic ySAMdc/azygous control (red)	1.14464	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9635	0.136

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96686	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04534	0.307
Manapal/WT (break)	0.99784	1
Manapal/WT (red)	0.85664	0.274