Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97735	0.839
27DAP/17DAP	1.70383	0.521
39DAP/27DAP	0.93034	0.67
41DAP/39DAP	1.20574	0.728
42DAP/41DAP	1.6858	0.691
43DAP/42DAP	1.14291	0.937
47DAP/43DAP	0.66246	0.16
52DAP/47DAP	0.62048	0.28
57DAP/52DAP	1.60326	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76011	0.024
17DAP/reference	N/A	N/A
27DAP/reference	0.49463
39DAP/reference	N/A	N/A
41DAP/reference	0.92471
42DAP/reference	0.51498
43DAP/reference	0.67349
47DAP/reference	1.0842
52DAP/reference	0.61106
57DAP/reference	1.33054	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0496	1
27DAP/17DAP	1.06832	0.98
39DAP/27DAP	1.31995	0.553
41DAP/39DAP	0.93352	0.945
42DAP/41DAP	1.04807	1
43DAP/42DAP	0.89091	0.597
47DAP/43DAP	1.62234	0.485
52DAP/47DAP	0.98937	0.962
57DAP/52DAP	0.95406	0.721
57DAP/7DAP	0.03938

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.19163	0.043
17DAP/reference	0.24259	0.011
27DAP/reference	0.33384	0.01
39DAP/reference	0.23636	0.011
41DAP/reference	0.24605	0.009
42DAP/reference	0.23407	0.01
43DAP/reference	0.26211	0.008
47DAP/reference	0.2056	0.03
52DAP/reference	0.25795	0.009
57DAP/reference	0.55725	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73084	0.016
17DAP/reference	N/A	N/A
27DAP/reference	0.60839
39DAP/reference	N/A	N/A
41DAP/reference	0.9959
42DAP/reference	N/A	N/A
43DAP/reference	1.1452	0.641
47DAP/reference	1.05192
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.34993	0.041
17DAP/reference	0.29822	0.005
27DAP/reference	0.31102	0.021
39DAP/reference	0.38576	0.007
41DAP/reference	0.2361	0.019
42DAP/reference	0.19301	0.016
43DAP/reference	0.24228	0.014
47DAP/reference	N/A	N/A
52DAP/reference	0.30032	0.042
57DAP/reference	0.21855

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13971
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.35212	0.819
51DAP/34DAP	N/A	N/A
52DAP/51DAP	0.93262
53DAP/52DAP	0.72758
55DAP/53DAP	1.30956
57DAP/55DAP	N/A	N/A
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

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	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	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	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	0.88224	1
IL2-6/WTpooled	1.6972	0.415
IL7-5/WTpooled	0.93207	1
IL7-3/WTpooled	0.56965
IL12-4/WTpooled	1.48446	0.525
IL1-4/WTpooled	0.85931	0.834
WT/WTpooled	1.03731	0.874

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	N/A	N/A

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

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

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	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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	N/A	N/A

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)	0.95874	1
Manapal/WT (red)	N/A	N/A