Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.16.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79755	0.253
27DAP/17DAP	0.89276	0.779
39DAP/27DAP	1.0041	0.782
41DAP/39DAP	1.07403	0.871
42DAP/41DAP	0.86763	1
43DAP/42DAP	1.16817	0.91
47DAP/43DAP	0.83777	0.496
52DAP/47DAP	0.79878	0.515
57DAP/52DAP	1.1265	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00074	0.771
17DAP/reference	1.20248	0.018
27DAP/reference	0.95542	0.385
39DAP/reference	1.01727	0.903
41DAP/reference	1.18558	0.073
42DAP/reference	0.917	0.043
43DAP/reference	0.98693	0.785
47DAP/reference	0.90515	0.077
52DAP/reference	0.80765	0.073
57DAP/reference	0.85564	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18723	0.482
27DAP/17DAP	0.91749	0.363
39DAP/27DAP	0.87188	0.444
41DAP/39DAP	0.90706	0.696
42DAP/41DAP	1.1009	0.904
43DAP/42DAP	1.00505	1
47DAP/43DAP	1.04633	0.833
52DAP/47DAP	0.85072	0.46
57DAP/52DAP	1.25802	0.917
57DAP/7DAP	1.14285	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87599	0.129
17DAP/reference	0.93823	0.024
27DAP/reference	0.94494	0.045
39DAP/reference	0.97686	0.17
41DAP/reference	0.97596	0.311
42DAP/reference	1.08139	0.534
43DAP/reference	0.93556	0.021
47DAP/reference	0.94487	0.293
52DAP/reference	0.9661	0.304
57DAP/reference	0.93598	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01325	0.951
17DAP/reference	0.89499	0.134
27DAP/reference	0.84175	0.058
39DAP/reference	0.78507	0.014
41DAP/reference	0.88888	0.098
42DAP/reference	0.88565	0.055
43DAP/reference	1.02394	1
47DAP/reference	0.93965	0.221
52DAP/reference	0.9201	0.239
57DAP/reference	1.11474	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98931	0.455
17DAP/reference	0.99892	0.855
27DAP/reference	1.00655	1
39DAP/reference	0.95796	0.054
41DAP/reference	0.95237	0.264
42DAP/reference	0.95901	0.361
43DAP/reference	0.90725	0.281
47DAP/reference	0.90933	0.183
52DAP/reference	0.91424	0.242
57DAP/reference	0.72344	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04707	1
26DAP/20DAP	0.99473	1
34DAP/26DAP	1.31183	0.819
51DAP/34DAP	1.44254	0.785
52DAP/51DAP	0.80874	1
53DAP/52DAP	0.76228	0.374
55DAP/53DAP	0.88816	0.632
57DAP/55DAP	1.41197	0.87
62DAP/57DAP	1.05387	0.8
68DAP/62DAP	0.90091	0.641
68DAP/14DAP	1.00185	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34527	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.37217	0.478
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.38398	1
Mature Eggplant/Ripe Tomato	0.15394	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02402	1
1-1-2/M82	1.09352
12-2/M82	0.9956	1
12-4/M82	0.92702	0.619
1-3/M82	1.02247	1
2-1-1/M82	0.57028	0.565
2-1/M82	N/A	N/A
2-6/M82	0.88101
3-2/M82	0.96512
4-1-1/M82	N/A	N/A
4-1/M82	0.9098
4-3-2/M82	N/A	N/A
4-3/M82	1.00234	1
5-3/M82	1.10379	0.572
6-2/M82	0.87994
6-3/M82	1.31481	1
7-1/M82	0.9851
7-2/M82	0.98183	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.78757	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.07474	1
IL12-4/WTpooled	1.15143	0.523
IL1-4/WTpooled	0.86344
WT/WTpooled	1.03019	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	0.74941	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02914	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.04888	1
DC3000/delta hrp 24h	1.25828	0.065

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	0.94072	1
Exp 36h	0.86041	0.879
Exp 60h	0.92354	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.9976	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.56307
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.88769	0.791
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.99748	1
Time course 0hI-0hNI	0.92961	0.827
Time course 12hI-12hNI	1.55348	0.684
Time course 36hI-36hNI	1.12404	0.799
Time course 60hI-60hNI	0.54031	0.006

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)	1.19791	0.408
transgenic ySAMdc/azygous control (breaker)	0.87478	0.251
transgenic ySAMdc/azygous control (red)	0.85002	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96182	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25904	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74238	0.172
Manapal/WT (break)	0.66531	1
Manapal/WT (red)	1.48071	0.413