Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.16.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89508	0.522
27DAP/17DAP	1.0674	0.926
39DAP/27DAP	1.21853	0.548
41DAP/39DAP	1.07643	0.735
42DAP/41DAP	1.11969	1
43DAP/42DAP	1.03973	1
47DAP/43DAP	0.84256	0.496
52DAP/47DAP	0.9397	0.685
57DAP/52DAP	1.05404	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87449	0.068
17DAP/reference	1.12288	0.083
27DAP/reference	0.93611	0.428
39DAP/reference	0.90685	0.475
41DAP/reference	1.02476	0.91
42DAP/reference	0.85934	0.001
43DAP/reference	0.94151	0.222
47DAP/reference	0.88194	0.009
52DAP/reference	1.04341	0.73
57DAP/reference	0.91167	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87918	0.376
27DAP/17DAP	0.95118	0.854
39DAP/27DAP	1.08353	0.565
41DAP/39DAP	1.43014	0.407
42DAP/41DAP	1.07805	0.836
43DAP/42DAP	1.20826	0.072
47DAP/43DAP	1.09488	0.765
52DAP/47DAP	1.05374	0.831
57DAP/52DAP	1.06738	0.891
57DAP/7DAP	1.05077	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0099	1
17DAP/reference	0.97448	0.338
27DAP/reference	1.04622	1
39DAP/reference	1.12592	0.282
41DAP/reference	1.24955	0.121
42DAP/reference	1.17729	0.233
43DAP/reference	1.03948	1
47DAP/reference	1.08981	0.468
52DAP/reference	0.94966	0.363
57DAP/reference	1.05406	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08228	0.495
17DAP/reference	0.76523	0.099
27DAP/reference	0.82917	0.084
39DAP/reference	0.76668	0.034
41DAP/reference	0.85125	0.081
42DAP/reference	0.88517	0.135
43DAP/reference	0.87509	0.162
47DAP/reference	0.88757	0.094
52DAP/reference	0.88624	0.013
57DAP/reference	0.84016	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05441	0.74
17DAP/reference	1.06145	0.627
27DAP/reference	1.10905	0.26
39DAP/reference	1.05578	0.245
41DAP/reference	1.12819	0.357
42DAP/reference	0.99216	0.816
43DAP/reference	0.84257	0.12
47DAP/reference	0.96216	0.434
52DAP/reference	0.89769	0.424
57DAP/reference	0.85653	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05659	1
26DAP/20DAP	0.85553	0.512
34DAP/26DAP	1.13648	0.819
51DAP/34DAP	0.71601	0.147
52DAP/51DAP	1.19708	0.304
53DAP/52DAP	1.07538	0.845
55DAP/53DAP	1.06359	0.927
57DAP/55DAP	0.91245	0.577
62DAP/57DAP	1.03538	1
68DAP/62DAP	1.22951	0.872
68DAP/14DAP	0.80448	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75668	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.33569	0.523
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.03757	1
12-2/M82	N/A	N/A
12-4/M82	0.9717	1
1-3/M82	0.70151
2-1-1/M82	1.17414
2-1/M82	N/A	N/A
2-6/M82	1.16463	0.452
3-2/M82	0.8345
4-1-1/M82	N/A	N/A
4-1/M82	0.48968
4-3-2/M82	1.59313
4-3/M82	0.95537
5-3/M82	0.94301	1
6-2/M82	N/A	N/A
6-3/M82	1.00194
7-1/M82	N/A	N/A
7-2/M82	0.92656	0.57
9-3-2/M82	2.04452

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90553	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.83483	0.418
IL12-4/WTpooled	0.99846	1
IL1-4/WTpooled	1.0381	1
WT/WTpooled	0.98191	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03663
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08194	1
DC3000/delta hrp 24h	1.23787	0.062

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.57351	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06115	1
Var 0h	0.92882	1
Var 12h I row2-row1	1.39005	0.473
Var 12h NI row2-row1	1.31072	1
Var 36h I row2-row1	1.96412	1
Var 36h NI row2-row1	0.91353
Var 60h I row2-row1	1.3288	0.448
Var 60h NI row2-row1	0.89069	0.38
Time course 0hI-0hNI	0.92925	0.833
Time course 12hI-12hNI	0.9207	0.782
Time course 36hI-36hNI	1.12259	0.58
Time course 60hI-60hNI	0.83687	0.161

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)	1.10899	0.654
transgenic ySAMdc/azygous control (breaker)	1.05272	1
transgenic ySAMdc/azygous control (red)	0.97885	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96911	0.214

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91992	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0973	0.14
Manapal/WT (break)	0.82226	1
Manapal/WT (red)	0.74301	0.181