Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99549	0.671
27DAP/17DAP	1.25625	0.798
39DAP/27DAP	1.4371	0.429
41DAP/39DAP	0.82743	0.461
42DAP/41DAP	1.09697	0.978
43DAP/42DAP	0.89599	0.867
47DAP/43DAP	0.96247	0.794
52DAP/47DAP	1.14985	0.965
57DAP/52DAP	1.34036	0.725

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01553	0.994
17DAP/reference	1.04528	0.33
27DAP/reference	1.05257	0.132
39DAP/reference	1.01977	0.318
41DAP/reference	1.00534	1
42DAP/reference	0.94502	0.064
43DAP/reference	0.95993	0.316
47DAP/reference	1.01856	0.685
52DAP/reference	0.97245	0.438
57DAP/reference	0.97346	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.57589	0.135
27DAP/17DAP	1.03656	1
39DAP/27DAP	0.94507	0.66
41DAP/39DAP	1.20578	0.753
42DAP/41DAP	0.72941	0.084
43DAP/42DAP	1.02628	0.83
47DAP/43DAP	1.06396	0.93
52DAP/47DAP	1.5164	0.552
57DAP/52DAP	1.03704	0.907
57DAP/7DAP	1.63137	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2646	0.305
17DAP/reference	1.33834	0.084
27DAP/reference	0.98679	0.614
39DAP/reference	1.36803	0.107
41DAP/reference	1.23746	0.375
42DAP/reference	1.46024	0.046
43DAP/reference	1.43132	0.289
47DAP/reference	1.02888	1
52DAP/reference	1.17043	0.286
57DAP/reference	1.42415	0.087

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96159	0.503
17DAP/reference	0.97423	0.434
27DAP/reference	0.93907	0.229
39DAP/reference	0.92339	0.227
41DAP/reference	0.9008	0.089
42DAP/reference	1.07364	0.569
43DAP/reference	0.94758	0.414
47DAP/reference	0.9785	0.232
52DAP/reference	0.99475	0.666
57DAP/reference	0.99661	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1342	0.588
17DAP/reference	0.97914	0.696
27DAP/reference	1.34679	0.035
39DAP/reference	1.36012	0.011
41DAP/reference	1.10774	0.637
42DAP/reference	1.02698	1
43DAP/reference	1.05963	0.7
47DAP/reference	1.01188	0.966
52DAP/reference	1.1569	0.363
57DAP/reference	0.77095	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93513	1
26DAP/20DAP	0.7011	1
34DAP/26DAP	0.90385	0.879
51DAP/34DAP	1.28104	0.293
52DAP/51DAP	1.08202	0.848
53DAP/52DAP	0.89237	0.475
55DAP/53DAP	1.06907	0.964
57DAP/55DAP	1.13233	0.61
62DAP/57DAP	1.05212	0.902
68DAP/62DAP	0.97231	0.834
68DAP/14DAP	1.03074	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83933	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.46033
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.05226	0.606
Ripe Pepper/Ripe Tomato	0.91711
Mature Eggplant/Ripe Tomato	2.97381

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.28487
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	N/A	N/A
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	0.82036	0.243
IL2-6/WTpooled	1.1931	0.584
IL7-5/WTpooled	0.64939	1
IL7-3/WTpooled	1.31473	1
IL12-4/WTpooled	1.23026	0.785
IL1-4/WTpooled	0.92111	0.699
WT/WTpooled	0.97645	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	0.97993	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04208	0.921
DC3000/delta hrp 6h	1.20301	1
DC3000/delta hrp 12h	1.05065	1
DC3000/delta hrp 24h	1.5108	0.063

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	1.10404	1
Exp 36h	0.74819	0.82
Exp 60h	0.96896	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99299	1
Var 0h	0.88243	0.206
Var 12h I row2-row1	0.90674	0.467
Var 12h NI row2-row1	1.14937	0.281
Var 36h I row2-row1	1.08238	1
Var 36h NI row2-row1	1.51142
Var 60h I row2-row1	0.89559	0.832
Var 60h NI row2-row1	1.07568
Time course 0hI-0hNI	1.08194	0.63
Time course 12hI-12hNI	1.21344	0.747
Time course 36hI-36hNI	0.98759	0.693
Time course 60hI-60hNI	1.10562	0.495

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)	0.90902	0.428
transgenic ySAMdc/azygous control (breaker)	0.95305	1
transgenic ySAMdc/azygous control (red)	1.15571	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01183	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09952	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07235	0.307
Manapal/WT (break)	0.93414	1
Manapal/WT (red)	0.85093	0.315