Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92956	0.568
27DAP/17DAP	1.0796	1
39DAP/27DAP	0.90313	0.573
41DAP/39DAP	1.00052	0.876
42DAP/41DAP	1.37939	0.404
43DAP/42DAP	0.96527	0.909
47DAP/43DAP	0.73738	0.263
52DAP/47DAP	0.97571	0.898
57DAP/52DAP	1.24288	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09827	0.024
17DAP/reference	1.04986	0.185
27DAP/reference	0.98236	0.623
39DAP/reference	1.00037	1
41DAP/reference	0.89494	0.114
42DAP/reference	0.93336	0.134
43DAP/reference	0.9549	0.5
47DAP/reference	0.92518	0.046
52DAP/reference	0.95	0.33
57DAP/reference	0.91031	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07609	0.422
27DAP/17DAP	0.88341	0.418
39DAP/27DAP	1.08668	0.565
41DAP/39DAP	1.11855	0.774
42DAP/41DAP	0.94476	0.625
43DAP/42DAP	0.92983	0.522
47DAP/43DAP	1.08193	0.779
52DAP/47DAP	0.82435	0.194
57DAP/52DAP	1.23452	0.813
57DAP/7DAP	1.36619	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09826	0.555
17DAP/reference	1.22062	0.059
27DAP/reference	1.18993	0.013
39DAP/reference	1.359	0.009
41DAP/reference	1.19471	0.083
42DAP/reference	1.25254	0.1
43DAP/reference	1.22399	0.07
47DAP/reference	1.17889	0.279
52DAP/reference	1.20229	0.13
57DAP/reference	1.29041	0.04

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08824	0.36
17DAP/reference	1.16456	0.448
27DAP/reference	1.20465	0.345
39DAP/reference	1.03102	1
41DAP/reference	0.91608	0.087
42DAP/reference	0.91508	0.032
43DAP/reference	1.05328	0.569
47DAP/reference	0.96274	0.4
52DAP/reference	0.94371	0.239
57DAP/reference	0.9526	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05362	0.691
17DAP/reference	1.0697	0.842
27DAP/reference	1.08198	0.721
39DAP/reference	1.24324	0.019
41DAP/reference	1.06953	0.306
42DAP/reference	1.0494	0.658
43DAP/reference	1.04874	0.935
47DAP/reference	0.84285	0.114
52DAP/reference	0.95597	0.562
57DAP/reference	0.77473	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95708	1
26DAP/20DAP	0.95531
34DAP/26DAP	1.23187	0.819
51DAP/34DAP	0.99578	0.927
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.35188	0.343
55DAP/53DAP	0.7997	0.336
57DAP/55DAP	0.96454	0.88
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.17436	1
68DAP/14DAP	1.01225	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.58915	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92547	0.591
Mature Green Tomato/Ripe Tomato	1.06506	0.948
Immature Eggplant/Mature Eggplant	0.80449	0.159
Ripe Pepper/Ripe Tomato	1.96512	0.258
Mature Eggplant/Ripe Tomato	1.0344	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9926	1
1-1-2/M82	1.18164	0.972
12-2/M82	1.17873
12-4/M82	0.79741	0.282
1-3/M82	1.47192	0.479
2-1-1/M82	1.0517	1
2-1/M82	0.68398	0.519
2-6/M82	1.05813	0.405
3-2/M82	N/A	N/A
4-1-1/M82	0.87153	0.926
4-1/M82	0.92613
4-3-2/M82	1.14041	0.508
4-3/M82	0.946	1
5-3/M82	1.01365	1
6-2/M82	0.9724	1
6-3/M82	1.29493	1
7-1/M82	1.15673
7-2/M82	0.87304	1
9-3-2/M82	0.93107

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.61696	0.243
IL2-6/WTpooled	1.01251	1
IL7-5/WTpooled	0.96378	1
IL7-3/WTpooled	1.01903	1
IL12-4/WTpooled	1.01815	1
IL1-4/WTpooled	0.78756	0.834
WT/WTpooled	0.97642	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	0.93326	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10602	0.921
DC3000/delta hrp 6h	1.01425	1
DC3000/delta hrp 12h	1.03635	1
DC3000/delta hrp 24h	1.03976	0.743

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	0.9846	1
Exp 36h	0.98569	1
Exp 60h	0.86578	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01628	1
Var 0h	1.20622	0.259
Var 12h I row2-row1	0.86586	0.327
Var 12h NI row2-row1	1.18627
Var 36h I row2-row1	1.08319	0.908
Var 36h NI row2-row1	3.02691	1
Var 60h I row2-row1	1.03428	1
Var 60h NI row2-row1	0.63809	0.63
Time course 0hI-0hNI	0.89751	0.56
Time course 12hI-12hNI	0.9369	0.424
Time course 36hI-36hNI	1.28666	0.007
Time course 60hI-60hNI	1.65231	0.015

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)	0.86062	0.254
transgenic ySAMdc/azygous control (breaker)	0.95253	0.49
transgenic ySAMdc/azygous control (red)	1.14141	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01442	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84297	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15272	0.307
Manapal/WT (break)	1.04609	1
Manapal/WT (red)	0.89768	0.315