Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07477	0.812
27DAP/17DAP	1.13895	0.88
39DAP/27DAP	0.92083	0.631
41DAP/39DAP	1.41943	0.268
42DAP/41DAP	0.95588	1
43DAP/42DAP	0.98996	0.937
47DAP/43DAP	0.89405	0.618
52DAP/47DAP	1.18772	0.946
57DAP/52DAP	1.01028	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01535	0.814
17DAP/reference	0.97633	0.567
27DAP/reference	0.98229	0.595
39DAP/reference	1.00697	0.734
41DAP/reference	0.94102	0.114
42DAP/reference	0.94951	0.033
43DAP/reference	0.99266	0.805
47DAP/reference	0.97259	0.148
52DAP/reference	1.00844	0.991
57DAP/reference	0.94809	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01794	0.881
27DAP/17DAP	1.10652	0.621
39DAP/27DAP	1.00073	1
41DAP/39DAP	0.96907	0.923
42DAP/41DAP	1.02787	0.727
43DAP/42DAP	0.95366	0.431
47DAP/43DAP	1.01923	0.941
52DAP/47DAP	1.03664	0.851
57DAP/52DAP	0.97299	0.742
57DAP/7DAP	1.15896	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97042	0.246
17DAP/reference	0.98075	0.167
27DAP/reference	0.9914	0.43
39DAP/reference	1.02415	0.634
41DAP/reference	0.96963	0.174
42DAP/reference	1.00741	0.889
43DAP/reference	1.01956	0.157
47DAP/reference	0.95389	0.222
52DAP/reference	1.01821	0.563
57DAP/reference	1.07831	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06899	0.325
17DAP/reference	1.0502	0.571
27DAP/reference	1.00579	1
39DAP/reference	0.97613	0.37
41DAP/reference	0.96483	0.422
42DAP/reference	0.94613	0.237
43DAP/reference	1.11641	0.392
47DAP/reference	0.96639	0.173
52DAP/reference	1.01905	0.596
57DAP/reference	1.00323	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96741	0.607
17DAP/reference	1.02574	0.738
27DAP/reference	0.97678	0.319
39DAP/reference	1.01143	0.773
41DAP/reference	0.97203	0.417
42DAP/reference	1.10027	0.294
43DAP/reference	1.04053	0.565
47DAP/reference	0.99003	0.61
52DAP/reference	0.9949	0.888
57DAP/reference	0.95703	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96776	1
26DAP/20DAP	0.97801	1
34DAP/26DAP	0.8982	0.575
51DAP/34DAP	1.00194	0.967
52DAP/51DAP	0.93699	1
53DAP/52DAP	1.04293	0.819
55DAP/53DAP	0.87876	0.181
57DAP/55DAP	0.9098	0.59
62DAP/57DAP	1.09769	0.257
68DAP/62DAP	0.96513	0.787
68DAP/14DAP	1.01357	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04321	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.17103	0.814
Immature Eggplant/Mature Eggplant	1.36364	0.056
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.23853

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98937	0.961
1-1-2/M82	1.05456	1
12-2/M82	1.18474	1
12-4/M82	1.08634	1
1-3/M82	0.91218	1
2-1-1/M82	1.04736	0.764
2-1/M82	N/A	N/A
2-6/M82	1.05002	1
3-2/M82	0.93111	1
4-1-1/M82	0.93531	1
4-1/M82	0.93997	1
4-3-2/M82	0.93965	1
4-3/M82	1.24604
5-3/M82	0.99696	1
6-2/M82	0.93984	1
6-3/M82	0.97884	1
7-1/M82	1.0624
7-2/M82	0.949	0.599
9-3-2/M82	0.93813	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.35005	0.243
IL2-6/WTpooled	1.30436	0.659
IL7-5/WTpooled	0.67507	1
IL7-3/WTpooled	0.36054	0.294
IL12-4/WTpooled	0.92889	1
IL1-4/WTpooled	0.77653	0.562
WT/WTpooled	1.06458	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	1.76193	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0416	0.894
DC3000/delta hrp 6h	0.8892	0.95
DC3000/delta hrp 12h	1.01629	1
DC3000/delta hrp 24h	1.26663	0.192

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.42426	0.047
DC3000 delta B/DC3000 delta AB	1.27124	0.124

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.59288	0.227
Exp 36h	1.76504	0.167
Exp 60h	1.66181	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05431	1
Var 0h	0.5746	0.594
Var 12h I row2-row1	1.39804	0.283
Var 12h NI row2-row1	1.01093	1
Var 36h I row2-row1	0.88885	0.805
Var 36h NI row2-row1	0.88627	0.61
Var 60h I row2-row1	1.3173	0.562
Var 60h NI row2-row1	1.06824	1
Time course 0hI-0hNI	1.07211	0.852
Time course 12hI-12hNI	1.10941	0.512
Time course 36hI-36hNI	1.14639	0.028
Time course 60hI-60hNI	2.09878	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	5.65661	0.165
transgenic ySAMdc/azygous control (red)	2.74318	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02526	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08687	0.277

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)	0.78726	1
Manapal/WT (red)	N/A	N/A