Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02496	0.904
27DAP/17DAP	1.3442	0.849
39DAP/27DAP	1.19085	0.572
41DAP/39DAP	1.11469	0.516
42DAP/41DAP	1.00376	1
43DAP/42DAP	0.93636	0.841
47DAP/43DAP	0.93488	0.754
52DAP/47DAP	1.24353	0.667
57DAP/52DAP	1.24094	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9485	0.172
17DAP/reference	1.01054	0.653
27DAP/reference	0.92424	0.101
39DAP/reference	1.09953	0.352
41DAP/reference	0.98295	0.667
42DAP/reference	1.02412	0.609
43DAP/reference	1.00028	1
47DAP/reference	1.01494	0.708
52DAP/reference	0.99834	0.73
57DAP/reference	1.00714	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97235	0.679
27DAP/17DAP	0.99486	0.943
39DAP/27DAP	1.00728	0.824
41DAP/39DAP	1.07755	0.531
42DAP/41DAP	0.9525	0.499
43DAP/42DAP	0.97061	0.321
47DAP/43DAP	1.02616	0.798
52DAP/47DAP	0.98587	0.907
57DAP/52DAP	1.02306	0.891
57DAP/7DAP	1.055	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91335	0.088
17DAP/reference	1.001	1
27DAP/reference	0.97118	0.283
39DAP/reference	1.02451	0.371
41DAP/reference	1.02041	0.655
42DAP/reference	1.0008	1
43DAP/reference	0.99829	0.727
47DAP/reference	0.93366	0.293
52DAP/reference	0.97409	0.332
57DAP/reference	1.05252	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97591	0.548
17DAP/reference	0.95323	0.253
27DAP/reference	0.93594	0.195
39DAP/reference	0.90654	0.041
41DAP/reference	0.89213	0.103
42DAP/reference	1.02203	1
43DAP/reference	0.96641	0.438
47DAP/reference	0.99583	0.695
52DAP/reference	0.93986	0.143
57DAP/reference	0.9746	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96323	0.311
17DAP/reference	0.94938	0.234
27DAP/reference	0.99656	0.805
39DAP/reference	0.94667	0.111
41DAP/reference	0.94848	0.371
42DAP/reference	0.8806	0.22
43DAP/reference	0.94931	0.226
47DAP/reference	0.92766	0.145
52DAP/reference	0.9455	0.424
57DAP/reference	0.83951	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06518	0.786
26DAP/20DAP	0.97213	1
34DAP/26DAP	1.00778	1
51DAP/34DAP	1.03578	0.785
52DAP/51DAP	1.01507	0.86
53DAP/52DAP	0.98147	0.882
55DAP/53DAP	0.95598	0.648
57DAP/55DAP	0.90439	0.583
62DAP/57DAP	0.93193	0.28
68DAP/62DAP	1.10653	0.345
68DAP/14DAP	1.09866	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06657	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12394	0.666
Mature Green Tomato/Ripe Tomato	0.7748	0.096
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.71825	0.293
Mature Eggplant/Ripe Tomato	0.40809	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97632	0.961
1-1-2/M82	0.90284	1
12-2/M82	0.9487	0.955
12-4/M82	0.94689	1
1-3/M82	0.93901	0.378
2-1-1/M82	0.87001	0.465
2-1/M82	1.41617	1
2-6/M82	1.00256	1
3-2/M82	0.98662
4-1-1/M82	1.08084	1
4-1/M82	0.92264
4-3-2/M82	0.88554	0.487
4-3/M82	0.91341	0.72
5-3/M82	1.04954	1
6-2/M82	1.04881	1
6-3/M82	1.02354	1
7-1/M82	1.00895	1
7-2/M82	0.96576	0.881
9-3-2/M82	0.91959	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01494	1
IL2-6/WTpooled	0.82863	0.473
IL7-5/WTpooled	0.91041	1
IL7-3/WTpooled	1.2313	0.362
IL12-4/WTpooled	1.01513	0.891
IL1-4/WTpooled	1.13711	1
WT/WTpooled	0.98206	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	0.9781	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97865	1
DC3000/delta hrp 6h	0.93374	0.95
DC3000/delta hrp 12h	1.06531	1
DC3000/delta hrp 24h	1.05071	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.21521	0.043
DC3000 delta B/DC3000 delta AB	1.25046	0.163

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14198	1
Exp 36h	1.07955	1
Exp 60h	1.08762	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98136	1
Var 0h	0.92202	1
Var 12h I row2-row1	1.14965	0.187
Var 12h NI row2-row1	1.02099	1
Var 36h I row2-row1	0.93367	1
Var 36h NI row2-row1	0.97695	0.791
Var 60h I row2-row1	1.03018	1
Var 60h NI row2-row1	0.98271	1
Time course 0hI-0hNI	1.05502	0.852
Time course 12hI-12hNI	1.02896	0.818
Time course 36hI-36hNI	1.03055	0.881
Time course 60hI-60hNI	1.63674	0.008

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)	0.78156	0.314
transgenic ySAMdc/azygous control (breaker)	1.09248	1
transgenic ySAMdc/azygous control (red)	1.01256	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9648	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50921	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70684	0.172
Manapal/WT (break)	0.64295	0.333
Manapal/WT (red)	0.60375	0.181