Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.11.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31014	0.697
27DAP/17DAP	1.15311	0.825
39DAP/27DAP	1.10518	0.853
41DAP/39DAP	0.72343	0.153
42DAP/41DAP	0.90229	1
43DAP/42DAP	0.99933	0.937
47DAP/43DAP	1.38592	0.349
52DAP/47DAP	1.09091	0.827
57DAP/52DAP	1.19538	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88349	0.412
17DAP/reference	0.79622	0.129
27DAP/reference	0.87042	0.339
39DAP/reference	1.08796	0.243
41DAP/reference	1.22074	0.552
42DAP/reference	0.91874	0.225
43DAP/reference	1.02321	0.861
47DAP/reference	1.02631	0.636
52DAP/reference	1.01151	0.689
57DAP/reference	1.04326	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3838	0.379
27DAP/17DAP	1.05965	0.872
39DAP/27DAP	1.15061	0.57
41DAP/39DAP	0.93482	0.861
42DAP/41DAP	1.07219	0.927
43DAP/42DAP	0.67842	0.025
47DAP/43DAP	1.08148	0.593
52DAP/47DAP	1.22182
57DAP/52DAP	1.22803	0.211
57DAP/7DAP	1.39575	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91584	0.296
17DAP/reference	0.81844	0.013
27DAP/reference	0.85672	0.026
39DAP/reference	0.74007	0.025
41DAP/reference	0.67585	0.019
42DAP/reference	0.64563	0.011
43DAP/reference	0.82452	0.018
47DAP/reference	0.95344	0.671
52DAP/reference	0.79862	0.046
57DAP/reference	0.86485	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72891	0.548
17DAP/reference	0.75866	0.072
27DAP/reference	1.05092
39DAP/reference	0.88664	0.33
41DAP/reference	N/A	N/A
42DAP/reference	1.17087	1
43DAP/reference	1.21579	0.473
47DAP/reference	0.77285	0.107
52DAP/reference	0.3402	0.04
57DAP/reference	0.71725	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89773	0.071
17DAP/reference	0.92793	0.47
27DAP/reference	0.94607	0.195
39DAP/reference	0.90798	0.101
41DAP/reference	0.92615	0.031
42DAP/reference	0.84698	0.041
43DAP/reference	0.77559	0.106
47DAP/reference	2.81786
52DAP/reference	1.09014	0.714
57DAP/reference	0.62839

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19848	0.966
26DAP/20DAP	1.09054	0.663
34DAP/26DAP	1.05399	1
51DAP/34DAP	1.31439	0.054
52DAP/51DAP	0.79584	1
53DAP/52DAP	1.1973	0.097
55DAP/53DAP	0.85273	0.144
57DAP/55DAP	1.53155	0.461
62DAP/57DAP	1.84781	0.8
68DAP/62DAP	1.06955	0.962
68DAP/14DAP	1.12497	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79663	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13521	0.089
Mature Green Tomato/Ripe Tomato	0.99129	0.835
Immature Eggplant/Mature Eggplant	0.64438	0.134
Ripe Pepper/Ripe Tomato	5.22228	0.256
Mature Eggplant/Ripe Tomato	3.65437	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94536	0.907
1-1-2/M82	0.9527	1
12-2/M82	0.95582	0.955
12-4/M82	0.90509	1
1-3/M82	1.11621
2-1-1/M82	1.44201
2-1/M82	N/A	N/A
2-6/M82	0.92934
3-2/M82	1.07596	0.967
4-1-1/M82	0.98985	1
4-1/M82	1.06701	0.372
4-3-2/M82	0.94478	1
4-3/M82	1.02336	1
5-3/M82	1.35342	0.572
6-2/M82	1.01469
6-3/M82	0.9399	1
7-1/M82	1.00571	1
7-2/M82	1.01694	1
9-3-2/M82	1.12672	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82492	0.321
IL2-6/WTpooled	1.19432	0.419
IL7-5/WTpooled	0.91439	1
IL7-3/WTpooled	0.93749	1
IL12-4/WTpooled	1.01948	0.891
IL1-4/WTpooled	1.02557	1
WT/WTpooled	0.98301	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	1.27365	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1244	0.921
DC3000/delta hrp 6h	1.01927	0.95
DC3000/delta hrp 12h	1.07708	1
DC3000/delta hrp 24h	0.90134	0.166

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22892	0.043
DC3000 delta B/DC3000 delta AB	1.26103	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12021	0.223
Exp 36h	1.14703	0.693
Exp 60h	1.1679	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98809	1
Var 0h	0.5953	0.933
Var 12h I row2-row1	1.0558	0.506
Var 12h NI row2-row1	0.92397	0.82
Var 36h I row2-row1	1.11895	0.339
Var 36h NI row2-row1	1.03649	1
Var 60h I row2-row1	0.84784	0.582
Var 60h NI row2-row1	1.04038	0.904
Time course 0hI-0hNI	1.02725	0.799
Time course 12hI-12hNI	0.99769	1
Time course 36hI-36hNI	1.00201	0.718
Time course 60hI-60hNI	1.2122	0.019

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)	0.80628	1
Manapal/WT (break)	0.97875	1
Manapal/WT (red)	0.6692	0.184