Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.20.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21027	0.697
27DAP/17DAP	1.36642	0.847
39DAP/27DAP	0.88579	0.421
41DAP/39DAP	0.96272	0.766
42DAP/41DAP	1.16418	0.962
43DAP/42DAP	1.18789	1
47DAP/43DAP	1.55572	0.429
52DAP/47DAP	0.89738	0.641
57DAP/52DAP	1.01415	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96502	0.352
17DAP/reference	0.95383	0.26
27DAP/reference	0.97171	0.581
39DAP/reference	0.97831	0.611
41DAP/reference	0.9908	0.814
42DAP/reference	0.97971	0.25
43DAP/reference	1.00053	1
47DAP/reference	1.01096	0.84
52DAP/reference	0.9338	0.215
57DAP/reference	0.92144	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00771	1
27DAP/17DAP	1.02282	0.912
39DAP/27DAP	1.01049	0.811
41DAP/39DAP	1.07298	0.514
42DAP/41DAP	0.96429	0.704
43DAP/42DAP	0.96645	0.308
47DAP/43DAP	1.00232	0.973
52DAP/47DAP	1.01428	0.939
57DAP/52DAP	0.97248	0.56
57DAP/7DAP	1.01361	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89151	0.06
17DAP/reference	0.93269	0.035
27DAP/reference	0.86386	0.01
39DAP/reference	0.95365	0.095
41DAP/reference	0.89758	0.026
42DAP/reference	0.94916	0.2
43DAP/reference	0.88962	0.015
47DAP/reference	0.9187	0.222
52DAP/reference	0.89615	0.035
57DAP/reference	0.852	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95039	0.353
17DAP/reference	0.93739	0.214
27DAP/reference	0.93868	0.257
39DAP/reference	0.93391	0.183
41DAP/reference	0.88534	0.085
42DAP/reference	0.97919	0.355
43DAP/reference	0.99526	0.774
47DAP/reference	0.97218	0.319
52DAP/reference	0.9552	0.239
57DAP/reference	1.07288	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88789	0.037
17DAP/reference	0.97391	0.47
27DAP/reference	0.91955	0.126
39DAP/reference	0.90706	0.031
41DAP/reference	0.91253	0.04
42DAP/reference	0.81756	0.087
43DAP/reference	0.87861	0.02
47DAP/reference	1.02768	0.847
52DAP/reference	0.89885	0.22
57DAP/reference	0.8456	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0435	0.817
26DAP/20DAP	0.94588	0.244
34DAP/26DAP	0.98907	1
51DAP/34DAP	0.99582	0.946
52DAP/51DAP	0.99114	1
53DAP/52DAP	0.95545	0.79
55DAP/53DAP	1.06891	0.722
57DAP/55DAP	0.99978	0.914
62DAP/57DAP	0.98879	1
68DAP/62DAP	1.06485	0.821
68DAP/14DAP	1.4966	0.119

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9528	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94029	0.234
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.12186	0.485
Ripe Pepper/Ripe Tomato	1.35116
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91814	0.944
1-1-2/M82	0.97069	1
12-2/M82	0.8906	0.678
12-4/M82	1.00925	1
1-3/M82	0.93591	0.378
2-1-1/M82	1.01756	1
2-1/M82	1.31533	1
2-6/M82	0.98785	1
3-2/M82	0.97739
4-1-1/M82	1.03205	1
4-1/M82	0.85947
4-3-2/M82	0.98441
4-3/M82	0.91907	0.72
5-3/M82	1.01537	1
6-2/M82	1.01944	1
6-3/M82	1.01926	1
7-1/M82	1.01992	0.598
7-2/M82	1.00931	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02571
IL2-6/WTpooled	0.94697	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16547	1
IL12-4/WTpooled	1.23502	0.673
IL1-4/WTpooled	0.77096	0.444
WT/WTpooled	1.03117	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	1.51237	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11628	0.758
DC3000/delta hrp 6h	1.06503	0.95
DC3000/delta hrp 12h	0.95336	1
DC3000/delta hrp 24h	1.14281	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19054	0.042
DC3000 delta B/DC3000 delta AB	1.1464	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89401	1
Exp 36h	0.88102	0.82
Exp 60h	1.00467	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98473	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.24612	0.196
Var 12h NI row2-row1	1.05809	1
Var 36h I row2-row1	1.09062	1
Var 36h NI row2-row1	0.99067	0.852
Var 60h I row2-row1	1.05002	1
Var 60h NI row2-row1	1.01099	1
Time course 0hI-0hNI	1.02404	1
Time course 12hI-12hNI	1.05423	0.741
Time course 36hI-36hNI	0.99684	0.753
Time course 60hI-60hNI	1.307	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)	1.0809	0.921
transgenic ySAMdc/azygous control (breaker)	1.5278	0.248
transgenic ySAMdc/azygous control (red)	1.39978	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95517	0.201

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.40378	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17868	0.083
Manapal/WT (break)	0.87207	0.333
Manapal/WT (red)	0.66456	0.184