Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9109	0.543
27DAP/17DAP	0.86594	0.674
39DAP/27DAP	0.86705	0.544
41DAP/39DAP	1.42694	0.233
42DAP/41DAP	1.18002	0.877
43DAP/42DAP	0.86341	0.775
47DAP/43DAP	0.74717	0.295
52DAP/47DAP	1.61071	0.292
57DAP/52DAP	0.80072	0.613

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06175	0.384
17DAP/reference	1.01388	0.696
27DAP/reference	1.00538	1
39DAP/reference	0.87725	0.018
41DAP/reference	0.90777	0.085
42DAP/reference	0.83959	0.004
43DAP/reference	0.90468	0.042
47DAP/reference	0.77078	0.001
52DAP/reference	0.77533	0.013
57DAP/reference	0.82639	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97301	0.697
27DAP/17DAP	0.99888	0.943
39DAP/27DAP	1.03517	0.793
41DAP/39DAP	1.14154	0.883
42DAP/41DAP	0.95059	0.61
43DAP/42DAP	0.75451	0.031
47DAP/43DAP	1.04093	0.906
52DAP/47DAP	1.00761	0.93
57DAP/52DAP	1.18205	0.662
57DAP/7DAP	1.32955	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88064	0.361
17DAP/reference	0.81295	0.064
27DAP/reference	0.77924	0.011
39DAP/reference	0.76734	0.011
41DAP/reference	0.70838	0.012
42DAP/reference	0.66971	0.012
43DAP/reference	0.63943	0.011
47DAP/reference	0.70325	0.04
52DAP/reference	0.6486	0.017
57DAP/reference	0.7236	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08133	0.43
17DAP/reference	0.98191	0.594
27DAP/reference	0.87525	0.111
39DAP/reference	0.67508	0.008
41DAP/reference	0.74881	0.023
42DAP/reference	0.79003	0.019
43DAP/reference	0.89471	0.257
47DAP/reference	0.81981	0.05
52DAP/reference	0.70625	0.003
57DAP/reference	0.83114	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9347	0.362
17DAP/reference	1.07161	0.956
27DAP/reference	0.70971	0.023
39DAP/reference	0.72731	0.008
41DAP/reference	0.83371	0.035
42DAP/reference	0.86258	0.059
43DAP/reference	0.71689	0.021
47DAP/reference	0.65931	0.004
52DAP/reference	0.65633	0.065
57DAP/reference	0.78342	0.035

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02459	1
26DAP/20DAP	0.76779
34DAP/26DAP	0.96276	0.961
51DAP/34DAP	0.95132	0.722
52DAP/51DAP	1.18205	0.323
53DAP/52DAP	1.06727	0.858
55DAP/53DAP	1.18893	0.614
57DAP/55DAP	1.11512	0.947
62DAP/57DAP	2.03909	0.303
68DAP/62DAP	0.79421	0.263
68DAP/14DAP	0.41473	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69972	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.12964	0.058
Mature Green Tomato/Ripe Tomato	0.89951	0.446
Immature Eggplant/Mature Eggplant	0.41898	0.062
Ripe Pepper/Ripe Tomato	15.8649	1
Mature Eggplant/Ripe Tomato	3.66466	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94986	0.944
1-1-2/M82	0.82105	1
12-2/M82	1.20213	1
12-4/M82	1.03984	1
1-3/M82	0.93046	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.08367
2-6/M82	1.09925	0.695
3-2/M82	0.93238	1
4-1-1/M82	1.01506	1
4-1/M82	0.89851	1
4-3-2/M82	0.86208	1
4-3/M82	0.73789	0.72
5-3/M82	0.97181	1
6-2/M82	0.83209	0.497
6-3/M82	1.19093
7-1/M82	0.95618	0.803
7-2/M82	1.04762	0.299
9-3-2/M82	0.67798	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90088	0.243
IL2-6/WTpooled	0.81835	0.473
IL7-5/WTpooled	0.69459	1
IL7-3/WTpooled	0.86491	0.418
IL12-4/WTpooled	0.85286	0.71
IL1-4/WTpooled	0.85681	0.562
WT/WTpooled	0.99959	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	0.95611	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99318	1
DC3000/delta hrp 6h	1.0077	0.95
DC3000/delta hrp 12h	0.95484	1
DC3000/delta hrp 24h	1.04455	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.56899
DC3000 delta B/DC3000 delta AB	0.68829	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05479	1
Exp 36h	0.72941	0.471
Exp 60h	0.62353	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99265	1
Var 0h	0.52375	1
Var 12h I row2-row1	1.08324	0.406
Var 12h NI row2-row1	1.06486	1
Var 36h I row2-row1	0.884	0.438
Var 36h NI row2-row1	1.01402	1
Var 60h I row2-row1	1.44351	0.562
Var 60h NI row2-row1	1.16195	0.904
Time course 0hI-0hNI	1.02327	0.852
Time course 12hI-12hNI	1.01194	0.833
Time course 36hI-36hNI	1.01536	1
Time course 60hI-60hNI	0.8967	0.319

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)	0.86465	0.348
transgenic ySAMdc/azygous control (breaker)	1.72722	0.178
transgenic ySAMdc/azygous control (red)	1.04902	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9608	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.38224	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.66581	0.09
Manapal/WT (break)	2.29423	0.14
Manapal/WT (red)	1.19285	1