Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04813	0.919
27DAP/17DAP	0.77418	0.478
39DAP/27DAP	0.9904	0.798
41DAP/39DAP	0.86391	0.536
42DAP/41DAP	0.65593	0.259
43DAP/42DAP	1.52947	0.52
47DAP/43DAP	1.1289	0.809
52DAP/47DAP	1.22757	0.898
57DAP/52DAP	1.17015	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81263	0.109
17DAP/reference	0.59855	0.007
27DAP/reference	0.93509	0.444
39DAP/reference	0.68569	0.01
41DAP/reference	0.52675	0.008
42DAP/reference	0.89659	0.085
43DAP/reference	0.92381	0.259
47DAP/reference	1.05918	1
52DAP/reference	1.68922	0.019
57DAP/reference	1.7221	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96943	0.663
27DAP/17DAP	0.92685	0.821
39DAP/27DAP	1.23972	0.337
41DAP/39DAP	0.98529	0.997
42DAP/41DAP	3.73595	0.795
43DAP/42DAP	1.18975	0.273
47DAP/43DAP	1.02616	0.88
52DAP/47DAP	0.8783	0.528
57DAP/52DAP	0.90972	0.532
57DAP/7DAP	1.12835	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94257	0.296
17DAP/reference	1.22971	0.038
27DAP/reference	1.24393	0.014
39DAP/reference	1.32331	0.062
41DAP/reference	1.35577	0.015
42DAP/reference	1.37954	0.037
43DAP/reference	1.65261	0.009
47DAP/reference	1.30144	0.235
52DAP/reference	1.54864	0.016
57DAP/reference	1.46619	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.57688	0.007
17DAP/reference	0.57446	0.003
27DAP/reference	0.86823	0.129
39DAP/reference	0.98376	0.526
41DAP/reference	1.19435	0.102
42DAP/reference	1.03848	0.61
43DAP/reference	0.67392	0.035
47DAP/reference	0.80732	0.032
52DAP/reference	0.90156	0.086
57DAP/reference	0.52906	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97906	0.566
17DAP/reference	1.03538	0.778
27DAP/reference	1.61764	0.024
39DAP/reference	1.28209	0.035
41DAP/reference	1.20236	0.12
42DAP/reference	1.50562	0.034
43DAP/reference	1.16675	0.499
47DAP/reference	0.99138	0.494
52DAP/reference	0.89498	0.405
57DAP/reference	2.24166	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21696	0.966
26DAP/20DAP	0.52709
34DAP/26DAP	1.05765	1
51DAP/34DAP	0.95607	0.779
52DAP/51DAP	1.10521	0.349
53DAP/52DAP	0.73125	0.124
55DAP/53DAP	1.08182	0.991
57DAP/55DAP	0.77059	0.375
62DAP/57DAP	1.07736	0.8
68DAP/62DAP	3.23299	0.148
68DAP/14DAP	4.17215	0.036

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.55397	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97598	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.7077	1
Mature Eggplant/Ripe Tomato	0.13693

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.36893	0.551
1-1-2/M82	1.27475
12-2/M82	N/A	N/A
12-4/M82	1.1377	1
1-3/M82	0.66281	0.441
2-1-1/M82	1.19055
2-1/M82	N/A	N/A
2-6/M82	1.00827	1
3-2/M82	0.99677
4-1-1/M82	0.96947	1
4-1/M82	1.41102
4-3-2/M82	N/A	N/A
4-3/M82	1.14769	1
5-3/M82	0.92147	1
6-2/M82	0.44835
6-3/M82	1.08563
7-1/M82	N/A	N/A
7-2/M82	1.05576
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90449	0.243
IL2-6/WTpooled	0.55457	0.383
IL7-5/WTpooled	0.83918	1
IL7-3/WTpooled	0.72594	0.293
IL12-4/WTpooled	0.77833	0.71
IL1-4/WTpooled	0.88812	0.457
WT/WTpooled	1.05284	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	0.76636	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00422	1
DC3000/delta hrp 6h	0.89133	0.95
DC3000/delta hrp 12h	1.00383	1
DC3000/delta hrp 24h	0.96023	0.75

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	1.20995

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88797	1
Exp 36h	0.55977	0.699
Exp 60h	1.06407	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94493	1
Var 0h	0.90611	1
Var 12h I row2-row1	1.21043	0.296
Var 12h NI row2-row1	1.08122	0.281
Var 36h I row2-row1	0.96235	0.805
Var 36h NI row2-row1	1.01572	1
Var 60h I row2-row1	1.17981	0.562
Var 60h NI row2-row1	0.99916	1
Time course 0hI-0hNI	0.958	0.801
Time course 12hI-12hNI	1.04392	0.747
Time course 36hI-36hNI	0.98339	0.601
Time course 60hI-60hNI	0.87199	0.319

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)	1.03191	0.612
transgenic ySAMdc/azygous control (breaker)	1.16722	0.248
transgenic ySAMdc/azygous control (red)	1.0062	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01051	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9118	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87489	1
Manapal/WT (break)	0.97255	1
Manapal/WT (red)	0.88329	0.424