Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.7.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89214	0.486
27DAP/17DAP	0.79589	0.49
39DAP/27DAP	1.43	0.782
41DAP/39DAP	0.60788	0.056
42DAP/41DAP	1.06868	1
43DAP/42DAP	0.98859	0.925
47DAP/43DAP	0.94959	0.804
52DAP/47DAP	0.94636	0.761
57DAP/52DAP	1.2097	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31137	0.012
17DAP/reference	0.96247	0.567
27DAP/reference	0.95317	0.525
39DAP/reference	0.91548	0.437
41DAP/reference	0.88917	0.201
42DAP/reference	0.81849	0.075
43DAP/reference	1.04857	0.812
47DAP/reference	0.78849	0.025
52DAP/reference	0.7135	0.071
57DAP/reference	0.87998	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92726	0.56
27DAP/17DAP	1.30624	0.353
39DAP/27DAP	1.04265	1
41DAP/39DAP	1.31797	0.885
42DAP/41DAP	1.63769	0.155
43DAP/42DAP	1.03271	0.83
47DAP/43DAP	1.04833	0.906
52DAP/47DAP	1.0519	0.9
57DAP/52DAP	0.94974	0.622
57DAP/7DAP	2.14685

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99065	0.613
17DAP/reference	1.05904	0.822
27DAP/reference	1.04502	0.974
39DAP/reference	0.93556	0.264
41DAP/reference	0.65425	0.015
42DAP/reference	0.99209	0.582
43DAP/reference	0.89608	0.22
47DAP/reference	0.88562	0.383
52DAP/reference	0.87799	0.04
57DAP/reference	0.83448	0.077

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24957	0.131
17DAP/reference	1.38232	0.035
27DAP/reference	1.14674	0.133
39DAP/reference	1.22603	0.514
41DAP/reference	1.23748	0.05
42DAP/reference	1.14365	0.214
43DAP/reference	1.06602	0.919
47DAP/reference	0.90174	0.087
52DAP/reference	1.04215	1
57DAP/reference	0.96914	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03049	0.691
17DAP/reference	1.06332	0.675
27DAP/reference	0.9658	0.416
39DAP/reference	1.08293	0.512
41DAP/reference	0.81376	0.148
42DAP/reference	0.82184	0.023
43DAP/reference	1.09849	0.625
47DAP/reference	0.79209	0.022
52DAP/reference	1.05964	1
57DAP/reference	0.83247	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.70658	0.566
26DAP/20DAP	1.43335	0.338
34DAP/26DAP	0.89602	0.753
51DAP/34DAP	2.68333	0.026
52DAP/51DAP	0.86395	1
53DAP/52DAP	1.54668	0.034
55DAP/53DAP	0.60799	0.027
57DAP/55DAP	1.0198	0.899
62DAP/57DAP	1.22925	1
68DAP/62DAP	1.22856	0.808
68DAP/14DAP	0.98114	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.72612	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.06389	0.783
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.06072	1
Ripe Pepper/Ripe Tomato	0.52466	0.293
Mature Eggplant/Ripe Tomato	0.92822	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1247	1
1-1-2/M82	1.12581	1
12-2/M82	1.1212	1
12-4/M82	0.90617	0.619
1-3/M82	1.80727	0.277
2-1-1/M82	0.92586
2-1/M82	0.92421	0.74
2-6/M82	0.60161	0.501
3-2/M82	1.46545
4-1-1/M82	0.6209	0.962
4-1/M82	0.83678
4-3-2/M82	0.87969
4-3/M82	1.14368	1
5-3/M82	1.07857	0.572
6-2/M82	0.8948	1
6-3/M82	1.00398	1
7-1/M82	0.84577	0.476
7-2/M82	0.83237	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14383	0.277
IL2-6/WTpooled	0.90001	1
IL7-5/WTpooled	1.12431	0.75
IL7-3/WTpooled	1.09036	1
IL12-4/WTpooled	1.0165	0.891
IL1-4/WTpooled	0.94011	0.699
WT/WTpooled	0.98728	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	1.23687	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03907	0.921
DC3000/delta hrp 6h	0.8706	0.95
DC3000/delta hrp 12h	1.0475	1
DC3000/delta hrp 24h	1.05184	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32472	0.043
DC3000 delta B/DC3000 delta AB	1.28652	0.142

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	1.02134	1
Var 0h	0.87381	0.933
Var 12h I row2-row1	1.01985	1
Var 12h NI row2-row1	1.03617	1
Var 36h I row2-row1	1.08313	1
Var 36h NI row2-row1	1.04495	1
Var 60h I row2-row1	0.6556	0.285
Var 60h NI row2-row1	1.00664	1
Time course 0hI-0hNI	1.01969	0.852
Time course 12hI-12hNI	1.15837	0.227
Time course 36hI-36hNI	1.33916	0.013
Time course 60hI-60hNI	5.58148	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)	1.00419	0.921
transgenic ySAMdc/azygous control (breaker)	1.44386	0.248
transgenic ySAMdc/azygous control (red)	1.16422	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03266	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09071	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99231	1
Manapal/WT (break)	1.02249	1
Manapal/WT (red)	1.08201	1