Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28281	0.365
27DAP/17DAP	0.90656	0.791
39DAP/27DAP	0.94509	0.641
41DAP/39DAP	0.88557	0.539
42DAP/41DAP	1.14534	0.926
43DAP/42DAP	0.99364	0.937
47DAP/43DAP	1.38185	0.459
52DAP/47DAP	0.94647	0.814
57DAP/52DAP	1.28397	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27783	0.093
17DAP/reference	0.89863	0.169
27DAP/reference	0.96982	0.581
39DAP/reference	0.88531	0.093
41DAP/reference	0.93779	0.341
42DAP/reference	1.39016	0.001
43DAP/reference	0.9747	0.708
47DAP/reference	1.18	0.03
52DAP/reference	1.14692	0.195
57DAP/reference	1.16416	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88305	0.388
27DAP/17DAP	0.93726	0.821
39DAP/27DAP	0.84193	0.338
41DAP/39DAP	0.90711	0.729
42DAP/41DAP	1.30835	0.234
43DAP/42DAP	1.19666	0.297
47DAP/43DAP	0.9904	0.928
52DAP/47DAP	1.38643	0.296
57DAP/52DAP	1.08193	0.906
57DAP/7DAP	0.92267	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98917	0.613
17DAP/reference	0.91013	0.016
27DAP/reference	0.8875	0.017
39DAP/reference	0.95952	0.198
41DAP/reference	0.97915	0.512
42DAP/reference	0.89829	0.058
43DAP/reference	0.87937	0.047
47DAP/reference	1.25868	0.37
52DAP/reference	0.88688	0.014
57DAP/reference	0.94527	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23518	0.106
17DAP/reference	1.13667	0.357
27DAP/reference	1.57673	0.062
39DAP/reference	1.45199	0.05
41DAP/reference	1.63505	0.014
42DAP/reference	1.23067	0.309
43DAP/reference	1.15241	0.728
47DAP/reference	1.04494	0.867
52DAP/reference	0.96728	0.433
57DAP/reference	1.1219	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92411	0.29
17DAP/reference	1.0302	0.966
27DAP/reference	0.82041	0.033
39DAP/reference	0.93495	0.328
41DAP/reference	0.97041	0.56
42DAP/reference	0.86385	0.134
43DAP/reference	1.11465	0.625
47DAP/reference	0.95772	0.409
52DAP/reference	1.00266	0.69
57DAP/reference	1.37674	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12585	0.966
26DAP/20DAP	1.37719	0.683
34DAP/26DAP	1.6073	0.304
51DAP/34DAP	1.32758	0.483
52DAP/51DAP	1.59341	0.063
53DAP/52DAP	0.92008	0.703
55DAP/53DAP	1.1519	0.79
57DAP/55DAP	0.83551	0.333
62DAP/57DAP	0.60675	0.004
68DAP/62DAP	0.93483	0.787
68DAP/14DAP	0.625	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02284	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.40591	0.078
Mature Green Tomato/Ripe Tomato	1.1344	0.752
Immature Eggplant/Mature Eggplant	1.33006	0.05
Ripe Pepper/Ripe Tomato	1.5686	1
Mature Eggplant/Ripe Tomato	5.34381	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00348	1
1-1-2/M82	0.92909	1
12-2/M82	0.81318	0.639
12-4/M82	1.8343	1
1-3/M82	0.95252	0.378
2-1-1/M82	0.56509	0.784
2-1/M82	0.94657
2-6/M82	1.10708	0.695
3-2/M82	0.93926	0.414
4-1-1/M82	1.09758
4-1/M82	1.02488
4-3-2/M82	0.98015	1
4-3/M82	1.00351
5-3/M82	1.02993	1
6-2/M82	1.09041	1
6-3/M82	0.99846	1
7-1/M82	1.11598	0.992
7-2/M82	1.08689	0.291
9-3-2/M82	0.91134	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06908	1
IL2-6/WTpooled	0.72308	1
IL7-5/WTpooled	0.92563	1
IL7-3/WTpooled	0.49774
IL12-4/WTpooled	0.55782	0.478
IL1-4/WTpooled	1.41454	1
WT/WTpooled	1.04992	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	0.88386	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.92462	0.95
DC3000/delta hrp 12h	1.51643	1
DC3000/delta hrp 24h	1.00215	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.55488	0.044
DC3000 delta B/DC3000 delta AB	0.64973	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95262	1
Exp 36h	0.74392	0.237
Exp 60h	1.34867	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9551	1
Var 0h	1.02482	1
Var 12h I row2-row1	0.79814	0.418
Var 12h NI row2-row1	1.04306	1
Var 36h I row2-row1	0.96475	1
Var 36h NI row2-row1	1.13399	1
Var 60h I row2-row1	1.01448	0.562
Var 60h NI row2-row1	1.01863	1
Time course 0hI-0hNI	0.96311	0.821
Time course 12hI-12hNI	0.94748	0.535
Time course 36hI-36hNI	0.85773	0.106
Time course 60hI-60hNI	0.17551	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)	1.19228	0.261
transgenic ySAMdc/azygous control (breaker)	0.80811	0.173
transgenic ySAMdc/azygous control (red)	0.78761	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.29516	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.41666	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03368	1
Manapal/WT (break)	0.83887	1
Manapal/WT (red)	1.08493	1