Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26171	0.755
27DAP/17DAP	1.17574	0.849
39DAP/27DAP	0.89977	0.631
41DAP/39DAP	1.84891	0.349
42DAP/41DAP	0.88348	1
43DAP/42DAP	0.84716	0.658
47DAP/43DAP	0.98956	0.724
52DAP/47DAP	1.12097	0.809
57DAP/52DAP	0.82051	0.748

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97547	0.465
17DAP/reference	1.01044	0.717
27DAP/reference	1.01075	0.934
39DAP/reference	1.16852	0.218
41DAP/reference	1.16431	0.058
42DAP/reference	0.91548	0.046
43DAP/reference	0.96846	0.594
47DAP/reference	0.99086	0.568
52DAP/reference	0.82046	0.048
57DAP/reference	0.94654	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89873	0.388
27DAP/17DAP	0.98218	0.887
39DAP/27DAP	1.23527	0.359
41DAP/39DAP	1.18271	0.763
42DAP/41DAP	0.89285	0.343
43DAP/42DAP	0.9873	0.875
47DAP/43DAP	1.02515	1
52DAP/47DAP	1.07963	0.779
57DAP/52DAP	1.03568	0.997
57DAP/7DAP	1.34826	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72313	0.063
17DAP/reference	0.66928	0.013
27DAP/reference	0.84649	0.03
39DAP/reference	0.68237	0.011
41DAP/reference	0.70611	0.02
42DAP/reference	0.81444	0.02
43DAP/reference	0.5744	0.011
47DAP/reference	0.66567	0.057
52DAP/reference	0.62454	0.012
57DAP/reference	0.61699	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29003	0.071
17DAP/reference	1.11497	0.06
27DAP/reference	1.0977	0.48
39DAP/reference	1.01602	1
41DAP/reference	0.96599	0.422
42DAP/reference	1.12073	0.259
43DAP/reference	1.66447	0.014
47DAP/reference	1.14136	0.076
52DAP/reference	1.16489	0.114
57DAP/reference	1.29335	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.792	0.049
17DAP/reference	0.97136	0.624
27DAP/reference	0.73868	0.06
39DAP/reference	0.77096	0.058
41DAP/reference	0.84952	0.086
42DAP/reference	0.85762	0.059
43DAP/reference	0.78403	0.024
47DAP/reference	1.05006	0.61
52DAP/reference	0.89894	0.376
57DAP/reference	0.84268	0.147

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93975	1
26DAP/20DAP	0.91994	1
34DAP/26DAP	1.41663	0.542
51DAP/34DAP	0.97688	0.791
52DAP/51DAP	0.88212	1
53DAP/52DAP	1.00423	0.97
55DAP/53DAP	1.06679	0.948
57DAP/55DAP	0.95776	0.694
62DAP/57DAP	1.07828	0.833
68DAP/62DAP	0.83424	0.543
68DAP/14DAP	0.81193	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09538	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.82186	0.287
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.64688	0.224
Mature Eggplant/Ripe Tomato	0.82986

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98495	0.961
1-1-2/M82	0.92144	1
12-2/M82	1.35414	0.519
12-4/M82	0.92411	1
1-3/M82	0.88653	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.11932
2-6/M82	1.05986	1
3-2/M82	0.9927	1
4-1-1/M82	1.03788	1
4-1/M82	0.86106	1
4-3-2/M82	0.86996	1
4-3/M82	1.05491	1
5-3/M82	0.94583	1
6-2/M82	0.69844	0.481
6-3/M82	1.01536	1
7-1/M82	1.00003	1
7-2/M82	0.92422	0.796
9-3-2/M82	1.00701	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.10237	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.25927	1
IL12-4/WTpooled	1.37189	0.516
IL1-4/WTpooled	1.00323
WT/WTpooled	0.96912	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	1.47103	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05676	0.921
DC3000/delta hrp 6h	0.5228
DC3000/delta hrp 12h	1.08118	1
DC3000/delta hrp 24h	0.98479	0.957

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	1.06183	1
Exp 36h	2.51438	0.693
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	0.98454	1
Var 0h	0.04103	1
Var 12h I row2-row1	1.14669	0.216
Var 12h NI row2-row1	0.7528	0.488
Var 36h I row2-row1	0.66113	1
Var 36h NI row2-row1	1.01428	1
Var 60h I row2-row1	1.15038	0.448
Var 60h NI row2-row1	1.35535	0.904
Time course 0hI-0hNI	1.02523	0.852
Time course 12hI-12hNI	1.0119	0.861
Time course 36hI-36hNI	0.94537	0.411
Time course 60hI-60hNI	1.17728	0.022

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)	1.12712	0.384
transgenic ySAMdc/azygous control (breaker)	0.66001	0.173
transgenic ySAMdc/azygous control (red)	1.03716	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99422	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79633	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91104	1
Manapal/WT (break)	1.09306	1
Manapal/WT (red)	1.7487	0.142