Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29783	0.602
27DAP/17DAP	0.7522	0.529
39DAP/27DAP	0.82852	0.631
41DAP/39DAP	1.14782	0.833
42DAP/41DAP	0.65854	0.262
43DAP/42DAP	0.892	0.705
47DAP/43DAP	0.9341	0.744
52DAP/47DAP	1.50282	0.784
57DAP/52DAP	0.82413	0.39

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05844	0.71
17DAP/reference	0.77149	0.046
27DAP/reference	0.92544	0.444
39DAP/reference	1.02973	0.841
41DAP/reference	0.72521	0.114
42DAP/reference	1.0432	0.324
43DAP/reference	1.25481	0.008
47DAP/reference	1.07508	0.558
52DAP/reference	1.23428	0.217
57DAP/reference	1.62694	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66956	0.075
27DAP/17DAP	0.95768	0.782
39DAP/27DAP	1.11864	0.799
41DAP/39DAP	0.76886	0.228
42DAP/41DAP	1.09372	0.927
43DAP/42DAP	2.31114	0.013
47DAP/43DAP	1.02495	0.934
52DAP/47DAP	0.62233	0.058
57DAP/52DAP	1.05874	0.997
57DAP/7DAP	1.07922	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14129	0.344
17DAP/reference	1.15078	0.361
27DAP/reference	1.23429	0.049
39DAP/reference	1.29553	0.46
41DAP/reference	1.30086	0.038
42DAP/reference	1.18461	0.059
43DAP/reference	1.20364	0.053
47DAP/reference	1.20282	0.106
52DAP/reference	1.15894	0.071
57DAP/reference	1.35867	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07695	0.695
17DAP/reference	0.7584	0.025
27DAP/reference	1.20288	0.093
39DAP/reference	1.27582	0.071
41DAP/reference	1.54858	0.005
42DAP/reference	1.35215	0.014
43DAP/reference	0.90574	0.243
47DAP/reference	1.14523	0.218
52DAP/reference	0.91541	0.051
57DAP/reference	0.5867	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81689	0.127
17DAP/reference	0.96659	0.601
27DAP/reference	1.09781	0.531
39DAP/reference	1.09435	0.39
41DAP/reference	1.28773	0.054
42DAP/reference	1.33282	0.138
43DAP/reference	1.80231	0.077
47DAP/reference	0.90776	0.286
52DAP/reference	1.06922	0.609
57DAP/reference	2.54398	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20356	0.966
26DAP/20DAP	1.00748	1
34DAP/26DAP	1.01761	0.998
51DAP/34DAP	1.60936	0.054
52DAP/51DAP	1.15077	0.42
53DAP/52DAP	1.66343	0.384
55DAP/53DAP	1.15577	0.468
57DAP/55DAP	0.96237	0.754
62DAP/57DAP	1.484	0.217
68DAP/62DAP	2.12232	0.052
68DAP/14DAP	2.22399	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04132	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.54042	0.062
Ripe Pepper/Ripe Tomato	0.22963
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	1.28306
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.57855
IL2-6/WTpooled	0.91174	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98902	1
IL12-4/WTpooled	0.90607	0.71
IL1-4/WTpooled	1.25692
WT/WTpooled	0.85551	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	0.87246	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18268	1
DC3000/delta hrp 6h	0.81171	0.95
DC3000/delta hrp 12h	1.07771	1
DC3000/delta hrp 24h	1.49206	0.71

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	0.94021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86974	1
Exp 36h	0.92932	0.879
Exp 60h	0.92154	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0906	1
Var 0h	1.14891
Var 12h I row2-row1	0.97893	0.948
Var 12h NI row2-row1	1.12837	0.161
Var 36h I row2-row1	1.08222	0.298
Var 36h NI row2-row1	0.9633	0.852
Var 60h I row2-row1	1.08311	1
Var 60h NI row2-row1	0.71055	0.904
Time course 0hI-0hNI	0.89045	0.522
Time course 12hI-12hNI	1.05964	0.698
Time course 36hI-36hNI	1.47705	0.07
Time course 60hI-60hNI	1.24086	0.115

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)	0.88625	0.314
transgenic ySAMdc/azygous control (breaker)	0.58234	0.134
transgenic ySAMdc/azygous control (red)	1.19464	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8774	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.928	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.35679	0.084
Manapal/WT (break)	1.63247	0.381
Manapal/WT (red)	2.63119	0.413