Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97374	0.788
27DAP/17DAP	0.76199	0.561
39DAP/27DAP	0.88679	0.608
41DAP/39DAP	1.00822	0.954
42DAP/41DAP	1.03697	0.983
43DAP/42DAP	1.73348	0.293
47DAP/43DAP	0.33959	0.049
52DAP/47DAP	0.932	0.765
57DAP/52DAP	1.11772	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83416	0.121
17DAP/reference	0.87438	0.169
27DAP/reference	1.26952	0.375
39DAP/reference	0.90729	0.575
41DAP/reference	0.86953	0.341
42DAP/reference	1.51067	0.191
43DAP/reference	1.072	1
47DAP/reference	0.71348	0.207
52DAP/reference	1.11581	0.668
57DAP/reference	0.58418

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15889	0.536
27DAP/17DAP	1.89018	0.045
39DAP/27DAP	1.17942	0.677
41DAP/39DAP	0.83828	0.412
42DAP/41DAP	1.08641	1
43DAP/42DAP	1.50258	0.023
47DAP/43DAP	1.10132	0.906
52DAP/47DAP	2.08666	0.052
57DAP/52DAP	1.91678	0.076
57DAP/7DAP	42.4764	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70567	0.027
17DAP/reference	1.32921	0.221
27DAP/reference	1.14515	0.035
39DAP/reference	1.17166	0.222
41DAP/reference	1.55527	0.054
42DAP/reference	1.61961	0.012
43DAP/reference	1.61356	0.015
47DAP/reference	1.40475	0.36
52DAP/reference	1.14609	0.159
57DAP/reference	1.53381	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99219	0.756
17DAP/reference	0.8677	0.245
27DAP/reference	1.27867	0.166
39DAP/reference	1.21823	0.128
41DAP/reference	1.16969	0.344
42DAP/reference	1.21177	0.136
43DAP/reference	0.75554	0.024
47DAP/reference	1.02758	1
52DAP/reference	1.05618	1
57DAP/reference	0.79914	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15923	0.303
17DAP/reference	1.04659	0.784
27DAP/reference	1.4007	0.025
39DAP/reference	1.04208	0.711
41DAP/reference	0.86287	0.086
42DAP/reference	1.94206	0.019
43DAP/reference	1.2984	0.025
47DAP/reference	1.05162	0.901
52DAP/reference	1.2497	0.284
57DAP/reference	1.64775	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.54034	0.328
26DAP/20DAP	1.49206	0.177
34DAP/26DAP	1.47891	1
51DAP/34DAP	2.09491	0.095
52DAP/51DAP	1.50905	0.142
53DAP/52DAP	0.75895	0.207
55DAP/53DAP	0.65754	0.445
57DAP/55DAP	1.3678	0.214
62DAP/57DAP	1.51413	0.723
68DAP/62DAP	1.48349	0.093
68DAP/14DAP	1.6019	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77072	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67009	0.251
Mature Green Tomato/Ripe Tomato	1.61065	0.523
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	5.01694	0.256
Mature Eggplant/Ripe Tomato	3.21324

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.54734
12-2/M82	N/A	N/A
12-4/M82	0.73613
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.22864	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.04008
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10502	0.277
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	1.63355	1
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	0.94883	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08233	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.99463	0.897

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.85449	0.691
DC3000 delta B/DC3000 delta AB	1.17977	0.363

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89898	1
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	1.04621	1
Var 0h	0.62187	0.933
Var 12h I row2-row1	1.14872	0.506
Var 12h NI row2-row1	1.00882	1
Var 36h I row2-row1	0.88409	0.283
Var 36h NI row2-row1	0.83552	0.61
Var 60h I row2-row1	0.97369	1
Var 60h NI row2-row1	0.71086	0.756
Time course 0hI-0hNI	1.09764	0.799
Time course 12hI-12hNI	0.97679	0.814
Time course 36hI-36hNI	1.17466	0.248
Time course 60hI-60hNI	0.58723	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)	1.39103	0.397
transgenic ySAMdc/azygous control (breaker)	1.82428	1
transgenic ySAMdc/azygous control (red)	1.01559	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00724	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.46275	1
Manapal/WT (red)	1.65585	0.15