Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09244	0.947
27DAP/17DAP	0.88555	0.72
39DAP/27DAP	0.9226	0.564
41DAP/39DAP	1.32448	0.37
42DAP/41DAP	1.27029	0.843
43DAP/42DAP	1.04421	1
47DAP/43DAP	1.11322	0.809
52DAP/47DAP	1.0004	0.964
57DAP/52DAP	0.92021	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92933	0.205
17DAP/reference	0.98198	0.737
27DAP/reference	1.05375	0.759
39DAP/reference	0.96168	0.611
41DAP/reference	0.90283	0.341
42DAP/reference	0.96576	0.287
43DAP/reference	1.05292	0.899
47DAP/reference	0.98953	0.568
52DAP/reference	0.84857	0.189
57DAP/reference	0.98782	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16606	0.422
27DAP/17DAP	1.17706	0.393
39DAP/27DAP	1.12697	0.359
41DAP/39DAP	0.96894	0.968
42DAP/41DAP	1.0187	0.924
43DAP/42DAP	1.07594	0.478
47DAP/43DAP	1.00012	0.99
52DAP/47DAP	1.00391	0.93
57DAP/52DAP	0.90522	0.379
57DAP/7DAP	3.3954

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95751	0.361
17DAP/reference	0.94639	0.253
27DAP/reference	1.20813	0.197
39DAP/reference	1.07181	1
41DAP/reference	1.14106	0.177
42DAP/reference	0.92662	0.304
43DAP/reference	1.31253	0.14
47DAP/reference	1.13172	0.582
52DAP/reference	1.04102	0.886
57DAP/reference	0.99642	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01722	1
17DAP/reference	1.07892	0.396
27DAP/reference	0.99337	0.663
39DAP/reference	0.87318	0.105
41DAP/reference	0.79557	0.033
42DAP/reference	0.89575	0.15
43DAP/reference	0.94806	0.459
47DAP/reference	0.96231	0.328
52DAP/reference	0.9365	0.351
57DAP/reference	0.86355	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05217	0.56
17DAP/reference	1.05529	0.712
27DAP/reference	1.12907	0.312
39DAP/reference	1.15583	0.12
41DAP/reference	1.02162	1
42DAP/reference	0.9329	0.287
43DAP/reference	0.9649	0.468
47DAP/reference	0.91374	0.306
52DAP/reference	1.23309	0.233
57DAP/reference	0.93019	0.273

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17133	0.966
26DAP/20DAP	1.10656	0.806
34DAP/26DAP	1.04707	1
51DAP/34DAP	1.01213	0.967
52DAP/51DAP	1.07778	0.792
53DAP/52DAP	1.3382	0.1
55DAP/53DAP	0.85255	0.35
57DAP/55DAP	1.09869	0.865
62DAP/57DAP	1.03761	0.833
68DAP/62DAP	0.9737	0.81
68DAP/14DAP	1.22281	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03403	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.59616	0.113
Mature Green Tomato/Ripe Tomato	12.0047	0.363
Immature Eggplant/Mature Eggplant	0.88092	0.651
Ripe Pepper/Ripe Tomato	0.68747	1
Mature Eggplant/Ripe Tomato	1.14427	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.99726	1
12-2/M82	N/A	N/A
12-4/M82	1.21733	1
1-3/M82	N/A	N/A
2-1-1/M82	0.86932
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
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	1.2179	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.10951
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.99571	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90204	0.298
IL12-4/WTpooled	1.11153	0.839
IL1-4/WTpooled	1.00457
WT/WTpooled	1.00402	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	0.90338	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02377	0.921
DC3000/delta hrp 6h	0.91106	0.95
DC3000/delta hrp 12h	0.95922	1
DC3000/delta hrp 24h	0.90529	0.338

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25312	1
DC3000 delta B/DC3000 delta AB	1.0035

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99276	1
Exp 36h	0.98638	0.943
Exp 60h	1.11783	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02334	1
Var 0h	1.03286	1
Var 12h I row2-row1	1.24321	0.348
Var 12h NI row2-row1	0.9275	0.546
Var 36h I row2-row1	0.93348	1
Var 36h NI row2-row1	0.80758	0.522
Var 60h I row2-row1	0.8841	0.285
Var 60h NI row2-row1	1.09062	0.904
Time course 0hI-0hNI	0.99158	0.973
Time course 12hI-12hNI	1.02863	0.747
Time course 36hI-36hNI	0.98625	0.601
Time course 60hI-60hNI	0.8618	0.047

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)	1.02176	0.482
transgenic ySAMdc/azygous control (breaker)	0.85905	0.173
transgenic ySAMdc/azygous control (red)	0.95445	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04946	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15229	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05136	0.307
Manapal/WT (break)	1.10795	1
Manapal/WT (red)	1.11798	1