Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85047	0.303
27DAP/17DAP	1.08443	1
39DAP/27DAP	0.83764	0.512
41DAP/39DAP	1.03991	0.976
42DAP/41DAP	0.66988	0.262
43DAP/42DAP	1.12953	0.932
47DAP/43DAP	1.01601	0.934
52DAP/47DAP	1.00421	0.875
57DAP/52DAP	1.32967	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88036	0.2
17DAP/reference	0.92118	0.043
27DAP/reference	0.97651	0.797
39DAP/reference	1.11166	0.504
41DAP/reference	1.01182	0.963
42DAP/reference	0.92194	0.04
43DAP/reference	1.0338	0.838
47DAP/reference	1.48186	0.005
52DAP/reference	1.52988	0.092
57DAP/reference	1.12398	0.332

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7684
27DAP/17DAP	1.36657	0.393
39DAP/27DAP	0.98566	0.887
41DAP/39DAP	1.34416	0.469
42DAP/41DAP	1.41114	0.635
43DAP/42DAP	0.90333	0.383
47DAP/43DAP	1.22541	0.889
52DAP/47DAP	1.08459	0.856
57DAP/52DAP	1.07854	0.856
57DAP/7DAP	0.91414

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92616	0.27
17DAP/reference	0.98674	0.518
27DAP/reference	0.81073	0.01
39DAP/reference	0.64789	0.023
41DAP/reference	0.74428	0.082
42DAP/reference	0.79656	0.048
43DAP/reference	0.85792	0.11
47DAP/reference	0.89615	0.383
52DAP/reference	0.95214	0.363
57DAP/reference	1.30733	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89897	0.1
17DAP/reference	0.97202	0.536
27DAP/reference	1.0381	0.715
39DAP/reference	0.9372	0.306
41DAP/reference	1.0378	0.878
42DAP/reference	0.88309	0.02
43DAP/reference	1.24517	0.509
47DAP/reference	1.06218	0.775
52DAP/reference	1.01326	1
57DAP/reference	0.89152	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9183	0.362
17DAP/reference	0.96716	0.579
27DAP/reference	0.90679	0.257
39DAP/reference	0.96699	0.504
41DAP/reference	0.83446	0.132
42DAP/reference	0.56728	0.172
43DAP/reference	1.11718	0.923
47DAP/reference	1.61628	0.005
52DAP/reference	1.31764	0.436
57DAP/reference	1.36966	0.124

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87222	1
26DAP/20DAP	1.11637	0.727
34DAP/26DAP	1.70315	0.819
51DAP/34DAP	2.04934	0.365
52DAP/51DAP	1.09382	0.873
53DAP/52DAP	1.5664	0.154
55DAP/53DAP	1.25076	0.948
57DAP/55DAP	0.81955	0.59
62DAP/57DAP	0.91558	0.871
68DAP/62DAP	1.39023	0.113
68DAP/14DAP	1.56757	0.05

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89826	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.60181
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.16989	0.224
Mature Eggplant/Ripe Tomato	0.68997	1

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	1.01181	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	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	1.06479	0.277
IL2-6/WTpooled	1.02629	0.788
IL7-5/WTpooled	1.0216	1
IL7-3/WTpooled	1.09688
IL12-4/WTpooled	1.09857	0.516
IL1-4/WTpooled	1.02246	1
WT/WTpooled	1.00136	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	1.12547

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98529	1
DC3000/delta hrp 6h	0.52814
DC3000/delta hrp 12h	1.02503	1
DC3000/delta hrp 24h	1.15181	0.37

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	1.03014

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	0.92511	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.95439	0.948
Var 12h NI row2-row1	0.89563	0.713
Var 36h I row2-row1	1.0466	1
Var 36h NI row2-row1	0.97917	0.852
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.84421	0.932
Time course 0hI-0hNI	1.05846	1
Time course 12hI-12hNI	0.66027	0.179
Time course 36hI-36hNI	0.80985	0.175
Time course 60hI-60hNI	0.87229	0.161

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)	1.06104	0.408
transgenic ySAMdc/azygous control (breaker)	1.07631	1
transgenic ySAMdc/azygous control (red)	1.03972	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0162	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.33261	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.082	1
Manapal/WT (break)	1.03102	1
Manapal/WT (red)	1.08414	0.863