Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.12.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16416	0.878
27DAP/17DAP	1.05642	0.892
39DAP/27DAP	0.6331	0.255
41DAP/39DAP	0.93648	0.756
42DAP/41DAP	1.03775	1
43DAP/42DAP	0.93346	0.887
47DAP/43DAP	1.38649	0.201
52DAP/47DAP	0.80907	0.548
57DAP/52DAP	1.02276	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77804	0.128
17DAP/reference	0.9234	0.419
27DAP/reference	0.75522	0.022
39DAP/reference	0.82428	0.24
41DAP/reference	0.83424	0.341
42DAP/reference	0.88896	0.139
43DAP/reference	1.41806	0.202
47DAP/reference	1.19453	0.34
52DAP/reference	0.88678	0.341
57DAP/reference	0.95547	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94207	0.578
27DAP/17DAP	1.45623
39DAP/27DAP	1.19116	0.603
41DAP/39DAP	4.92848	0.727
42DAP/41DAP	0.89482	0.439
43DAP/42DAP	0.93544	0.558
47DAP/43DAP	1.03268	0.928
52DAP/47DAP	1.27458	0.504
57DAP/52DAP	1.38504	0.622
57DAP/7DAP	1.53734	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62621	0.05
17DAP/reference	0.73474	0.031
27DAP/reference	0.77928	0.013
39DAP/reference	0.48993	0.013
41DAP/reference	0.62041	0.02
42DAP/reference	0.63592	0.017
43DAP/reference	0.66565	0.017
47DAP/reference	0.74465	0.128
52DAP/reference	0.68406	0.026
57DAP/reference	0.92494	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88605	0.412
17DAP/reference	0.99435	0.786
27DAP/reference	0.81848	0.1
39DAP/reference	0.96971	0.509
41DAP/reference	0.97146	0.631
42DAP/reference	1.1674	0.843
43DAP/reference	0.93769	0.494
47DAP/reference	0.91644	0.379
52DAP/reference	0.83826	0.04
57DAP/reference	1.31681	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76173	0.061
17DAP/reference	0.94787	0.601
27DAP/reference	0.87755	0.206
39DAP/reference	0.97098	0.643
41DAP/reference	0.74922	0.033
42DAP/reference	0.94192	0.552
43DAP/reference	0.67934	0.016
47DAP/reference	1.54451	0.901
52DAP/reference	0.64815	0.063
57DAP/reference	0.783	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99318	1
26DAP/20DAP	0.68544	0.512
34DAP/26DAP	1.14896	0.542
51DAP/34DAP	0.9796	0.799
52DAP/51DAP	1.07985	1
53DAP/52DAP	0.70661	0.049
55DAP/53DAP	1.24177	0.382
57DAP/55DAP	1.11185	1
62DAP/57DAP	1.08978	1
68DAP/62DAP	0.4045
68DAP/14DAP	0.98667	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.62975	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.22182	0.536
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	0.6915
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.04444	0.695
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.66619
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96092	1
6-2/M82	N/A	N/A
6-3/M82	1.11932	1
7-1/M82	N/A	N/A
7-2/M82	0.70183	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.22812	0.277
IL2-6/WTpooled	0.77612	0.473
IL7-5/WTpooled	0.60085	0.427
IL7-3/WTpooled	1.23118	1
IL12-4/WTpooled	0.98757	1
IL1-4/WTpooled	1.09128	1
WT/WTpooled	0.98176	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	0.66711	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00727	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.08669	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33269	0.043
DC3000 delta B/DC3000 delta AB	1.35376	0.137

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99431
Var 0h	1.19089	0.421
Var 12h I row2-row1	0.96671	0.948
Var 12h NI row2-row1	1.02085	1
Var 36h I row2-row1	0.68165	1
Var 36h NI row2-row1	1.09247	0.188
Var 60h I row2-row1	1.05196	1
Var 60h NI row2-row1	1.12878	1
Time course 0hI-0hNI	1.04197	1
Time course 12hI-12hNI	0.97793	0.864
Time course 36hI-36hNI	0.88675	0.089
Time course 60hI-60hNI	0.54426	0.006

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.27846	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05598	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A