Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87252	0.357
27DAP/17DAP	0.97887	0.994
39DAP/27DAP	0.98698	0.782
41DAP/39DAP	1.02253	0.886
42DAP/41DAP	1.15126	0.926
43DAP/42DAP	1.08778	1
47DAP/43DAP	0.87705	0.599
52DAP/47DAP	0.99979	0.964
57DAP/52DAP	1.48516	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09786	0.366
17DAP/reference	1.03547	0.546
27DAP/reference	1.13799	0.089
39DAP/reference	1.27708	0.023
41DAP/reference	1.09613	0.111
42DAP/reference	1.06372	0.137
43DAP/reference	1.16	0.038
47DAP/reference	1.16385	0.085
52DAP/reference	1.08444	0.498
57DAP/reference	1.25982	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.971	0.679
27DAP/17DAP	1.01921	0.942
39DAP/27DAP	1.15978	0.471
41DAP/39DAP	0.87383	0.434
42DAP/41DAP	0.97793	0.781
43DAP/42DAP	0.98551	0.902
47DAP/43DAP	0.85487	0.225
52DAP/47DAP	1.06122	0.8
57DAP/52DAP	0.98425	0.841
57DAP/7DAP	0.98296	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80962	0.086
17DAP/reference	1.06173	0.754
27DAP/reference	1.3868	0.008
39DAP/reference	1.02415	0.511
41DAP/reference	1.23318	0.024
42DAP/reference	1.25103	0.014
43DAP/reference	1.03649	1
47DAP/reference	1.00133	1
52DAP/reference	1.03989	1
57DAP/reference	1.05617	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06276	0.97
17DAP/reference	1.08304	0.941
27DAP/reference	1.07415	0.745
39DAP/reference	1.38425	0.032
41DAP/reference	1.22414	0.573
42DAP/reference	1.20118	0.057
43DAP/reference	1.80485	0.022
47DAP/reference	1.38252	0.008
52DAP/reference	1.37035	0.017
57DAP/reference	0.93323	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91962	0.23
17DAP/reference	1.08193	0.72
27DAP/reference	1.17823	0.237
39DAP/reference	1.18235	0.062
41DAP/reference	1.16472	0.115
42DAP/reference	1.19218	0.111
43DAP/reference	1.04251	0.923
47DAP/reference	1.1172	0.265
52DAP/reference	1.07264	0.801
57DAP/reference	1.50201	0.061

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10428	0.966
26DAP/20DAP	0.80249	0.512
34DAP/26DAP	0.6951	0.575
51DAP/34DAP	1.21631	0.281
52DAP/51DAP	0.99736	1
53DAP/52DAP	1.15842	0.858
55DAP/53DAP	0.99659	0.852
57DAP/55DAP	1.43231	0.249
62DAP/57DAP	0.72512	0.28
68DAP/62DAP	1.0894	0.931
68DAP/14DAP	1.28294	0.2

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00003	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.42657	0.08
Mature Green Tomato/Ripe Tomato	2.30941	0.034
Immature Eggplant/Mature Eggplant	1.06188	0.379
Ripe Pepper/Ripe Tomato	3.6759	0.256
Mature Eggplant/Ripe Tomato	2.6498	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84237
1-1-2/M82	1.03534	1
12-2/M82	1.14817
12-4/M82	0.75624	0.298
1-3/M82	0.89635	0.441
2-1-1/M82	0.82203
2-1/M82	0.90192	1
2-6/M82	1.07949	0.594
3-2/M82	1.29509	0.463
4-1-1/M82	0.97361	1
4-1/M82	N/A	N/A
4-3-2/M82	0.869
4-3/M82	0.90201	0.72
5-3/M82	1.03359	0.415
6-2/M82	1.01935
6-3/M82	1.12926	1
7-1/M82	1.45364
7-2/M82	0.92283	0.881
9-3-2/M82	0.90402

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.94438	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06152	1
IL12-4/WTpooled	1.00424	1
IL1-4/WTpooled	0.92927
WT/WTpooled	0.92284	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	0.89212	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13293	0.921
DC3000/delta hrp 6h	0.80603	0.95
DC3000/delta hrp 12h	0.97744	1
DC3000/delta hrp 24h	1.09571	0.633

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	0.92584	1
Exp 36h	0.77129	0.406
Exp 60h	0.98293	0.994

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	1.19115
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)	0.96501	0.485
transgenic ySAMdc/azygous control (breaker)	1.93813	0.165
transgenic ySAMdc/azygous control (red)	1.06372	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14929	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6641	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84571	0.172
Manapal/WT (break)	0.7898	1
Manapal/WT (red)	0.86136	0.199