Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11124	0.961
27DAP/17DAP	0.89383	0.745
39DAP/27DAP	0.83386	0.529
41DAP/39DAP	1.15643	0.772
42DAP/41DAP	0.80485	0.774
43DAP/42DAP	1.04964	0.937
47DAP/43DAP	0.92749	0.699
52DAP/47DAP	0.91901	0.724
57DAP/52DAP	0.91804	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77669	0.077
17DAP/reference	0.83553	0.26
27DAP/reference	0.96104	0.552
39DAP/reference	0.91115	0.475
41DAP/reference	1.07161	0.667
42DAP/reference	1.27868	0.035
43DAP/reference	0.88746	0.155
47DAP/reference	1.00715	0.764
52DAP/reference	0.81773	0.086
57DAP/reference	0.84299	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47855	0.252
27DAP/17DAP	0.93785	0.854
39DAP/27DAP	0.67605
41DAP/39DAP	1.09427	0.921
42DAP/41DAP	1.48643	0.365
43DAP/42DAP	1.04016	1
47DAP/43DAP	0.74339	0.347
52DAP/47DAP	0.78063	0.591
57DAP/52DAP	1.2694	0.417
57DAP/7DAP	1.32998	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83329	0.108
17DAP/reference	0.69751	0.012
27DAP/reference	0.80241	0.012
39DAP/reference	0.85631	0.056
41DAP/reference	0.80754	0.03
42DAP/reference	0.70747	0.013
43DAP/reference	0.72517	0.016
47DAP/reference	1.08852	1
52DAP/reference	0.83453	0.028
57DAP/reference	0.71017	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78169	0.06
17DAP/reference	0.76445	0.019
27DAP/reference	0.9297	0.467
39DAP/reference	0.81191	0.168
41DAP/reference	0.99251	0.451
42DAP/reference	1.25653	0.794
43DAP/reference	0.87615	0.43
47DAP/reference	0.61637	0.09
52DAP/reference	0.83041	0.009
57DAP/reference	0.83081	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82211	0.04
17DAP/reference	0.82953	0.186
27DAP/reference	0.84045	0.047
39DAP/reference	0.74119	0.019
41DAP/reference	0.85058	0.058
42DAP/reference	0.86885	0.134
43DAP/reference	0.94983	0.523
47DAP/reference	0.77152	0.033
52DAP/reference	0.62525	0.053
57DAP/reference	1.16445	0.625

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11687	0.966
26DAP/20DAP	0.96365	1
34DAP/26DAP	1.17655	1
51DAP/34DAP	0.78793	0.64
52DAP/51DAP	0.98346
53DAP/52DAP	1.21825	0.552
55DAP/53DAP	0.73723	0.604
57DAP/55DAP	1.02203	0.955
62DAP/57DAP	0.84008	0.681
68DAP/62DAP	1.21179	0.885
68DAP/14DAP	1.38002	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75455	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.96375	0.058
Mature Green Tomato/Ripe Tomato	0.9803	0.715
Immature Eggplant/Mature Eggplant	1.28729
Ripe Pepper/Ripe Tomato	0.43988
Mature Eggplant/Ripe Tomato	2.11132

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.1326	0.977
12-2/M82	N/A	N/A
12-4/M82	0.74851	0.273
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	1.1878
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.09627
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75059
IL2-6/WTpooled	1.16907	0.427
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79247	0.31
IL12-4/WTpooled	0.88391	0.71
IL1-4/WTpooled	0.91721	0.699
WT/WTpooled	0.99726	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	1.00869	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0885	0.921
DC3000/delta hrp 6h	0.99831	0.95
DC3000/delta hrp 12h	1.31037	1
DC3000/delta hrp 24h	1.1498	0.535

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	0.81896	1
Exp 36h	1.24698	1
Exp 60h	1.10158	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9833
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12505	0.692
Var 12h NI row2-row1	1.00742	1
Var 36h I row2-row1	1.2484	0.908
Var 36h NI row2-row1	1.20636	0.253
Var 60h I row2-row1	1.18435	1
Var 60h NI row2-row1	0.87672	0.977
Time course 0hI-0hNI	1.02636	1
Time course 12hI-12hNI	0.90377	0.144
Time course 36hI-36hNI	0.9056	0.06
Time course 60hI-60hNI	0.81965	0.011

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)	1.00836	0.921
transgenic ySAMdc/azygous control (breaker)	0.66211	0.15
transgenic ySAMdc/azygous control (red)	0.71837	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99669	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75382	1
Manapal/WT (break)	1.5298	0.183
Manapal/WT (red)	0.99541	1