Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.23959	0.014
27DAP/17DAP	0.45793	0.047
39DAP/27DAP	0.93093	0.62
41DAP/39DAP	1.64464	0.037
42DAP/41DAP	1.15665	0.954
43DAP/42DAP	0.92981	0.91
47DAP/43DAP	0.95659	0.779
52DAP/47DAP	3.08533	0.376
57DAP/52DAP	0.81881	0.824

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89669	0.128
17DAP/reference	0.78279	0.01
27DAP/reference	0.92429	0.295
39DAP/reference	0.82781	0.1
41DAP/reference	0.80269	0.021
42DAP/reference	0.91319	0.069
43DAP/reference	0.96818	0.611
47DAP/reference	1.07654	1
52DAP/reference	1.1958	0.242
57DAP/reference	1.14886	0.18

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.41633	0.033
27DAP/17DAP	0.81875	0.508
39DAP/27DAP	0.91308	0.482
41DAP/39DAP	1.16772	0.883
42DAP/41DAP	0.89313	0.453
43DAP/42DAP	1.0919	0.788
47DAP/43DAP	1.18183	0.678
52DAP/47DAP	1.21945	0.397
57DAP/52DAP	1.20776	1
57DAP/7DAP	0.45907	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10584	0.444
17DAP/reference	1.11039	0.221
27DAP/reference	0.85415	0.082
39DAP/reference	1.02343	1
41DAP/reference	0.99691	0.646
42DAP/reference	1.09473	1
43DAP/reference	1.00818	0.694
47DAP/reference	0.88786	0.293
52DAP/reference	0.96169	0.398
57DAP/reference	0.97966	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98519	0.756
17DAP/reference	0.70693	0.008
27DAP/reference	0.85741	0.155
39DAP/reference	0.94758	0.33
41DAP/reference	0.87691	0.078
42DAP/reference	0.83585	0.089
43DAP/reference	0.74389	0.008
47DAP/reference	0.7705	0.009
52DAP/reference	0.91961	0.187
57DAP/reference	0.6755	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43224	0.046
17DAP/reference	0.92653	0.444
27DAP/reference	1.0184	0.883
39DAP/reference	0.90408	0.222
41DAP/reference	0.94772	0.459
42DAP/reference	0.90266	0.22
43DAP/reference	0.96578	0.545
47DAP/reference	0.81823	0.012
52DAP/reference	0.83528	0.088
57DAP/reference	1.07796	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07338	1
26DAP/20DAP	1.73547	0.534
34DAP/26DAP	1.17262	1
51DAP/34DAP	0.9169	0.624
52DAP/51DAP	1.33386	0.225
53DAP/52DAP	0.66512	0.131
55DAP/53DAP	1.00394	0.876
57DAP/55DAP	0.7664	0.3
62DAP/57DAP	1.25123	0.767
68DAP/62DAP	1.33524	0.864
68DAP/14DAP	1.59197	0.108

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56544	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.1344	0.059
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	31.5415	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.28427
1-1-2/M82	1.18251
12-2/M82	1.45739
12-4/M82	N/A	N/A
1-3/M82	0.46521
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.21072
3-2/M82	0.79764
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	1.15562	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	1.77264	0.493
IL2-6/WTpooled	0.88162	1
IL7-5/WTpooled	1.28284
IL7-3/WTpooled	1.01082	1
IL12-4/WTpooled	0.89898	1
IL1-4/WTpooled	0.92913	0.834
WT/WTpooled	0.97303	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	0.92667	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22032	0.715
DC3000/delta hrp 6h	1.06197	1
DC3000/delta hrp 12h	0.87747	1
DC3000/delta hrp 24h	0.60123	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58401	0.074
DC3000 delta B/DC3000 delta AB	0.5188	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.60541	0.328
Exp 36h	0.60897	0.449
Exp 60h	0.5651	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99695	1
Var 0h	0.67447	0.167
Var 12h I row2-row1	0.57724	0.338
Var 12h NI row2-row1	0.90797	0.82
Var 36h I row2-row1	0.87624	0.805
Var 36h NI row2-row1	1.54184	1
Var 60h I row2-row1	1.01731
Var 60h NI row2-row1	1.31421	0.904
Time course 0hI-0hNI	0.89269	0.266
Time course 12hI-12hNI	0.81309	0.058
Time course 36hI-36hNI	0.78869	0.148
Time course 60hI-60hNI	0.11404	0.005

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)	1.03786	0.748
transgenic ySAMdc/azygous control (breaker)	1.06465	1
transgenic ySAMdc/azygous control (red)	1.16454	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.79099	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.64489	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96402	1
Manapal/WT (break)	1.23382	0.381
Manapal/WT (red)	0.79995	0.607