Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.12.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18071	0.63
27DAP/17DAP	0.92113	0.846
39DAP/27DAP	1.10234	0.853
41DAP/39DAP	0.75607	0.171
42DAP/41DAP	1.41863	0.619
43DAP/42DAP	1.12122	0.982
47DAP/43DAP	0.92333	0.724
52DAP/47DAP	0.86913	0.634
57DAP/52DAP	1.12309	0.787

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28659	0.038
17DAP/reference	1.27309	0.017
27DAP/reference	1.1428	0.179
39DAP/reference	1.24383	0.054
41DAP/reference	1.48586	0.014
42DAP/reference	1.20633	0.001
43DAP/reference	1.26466	0.269
47DAP/reference	1.08352	0.105
52DAP/reference	1.34268	0.033
57DAP/reference	0.90314	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92445	0.613
27DAP/17DAP	1.36549
39DAP/27DAP	1.29405
41DAP/39DAP	0.51535	0.645
42DAP/41DAP	2.2034	1
43DAP/42DAP	0.9967	1
47DAP/43DAP	0.99489	0.985
52DAP/47DAP	1.01221	0.902
57DAP/52DAP	0.62555
57DAP/7DAP	0.53041	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97596	0.55
17DAP/reference	0.88168	0.011
27DAP/reference	0.86388	0.018
39DAP/reference	0.89046	0.012
41DAP/reference	0.91197	0.146
42DAP/reference	0.89702	0.022
43DAP/reference	0.8183	0.011
47DAP/reference	0.87052	0.168
52DAP/reference	0.82826	0.024
57DAP/reference	0.83795	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45422	0.047
17DAP/reference	1.44362	0.161
27DAP/reference	1.35629	0.029
39DAP/reference	1.24267	0.047
41DAP/reference	1.22957	0.057
42DAP/reference	1.18087	0.19
43DAP/reference	1.54971	0.025
47DAP/reference	1.20887	0.01
52DAP/reference	1.5771	0.009
57DAP/reference	2.5951	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97395	0.526
17DAP/reference	1.21864	0.248
27DAP/reference	0.96287	0.516
39DAP/reference	0.99676	0.693
41DAP/reference	0.90316	0.035
42DAP/reference	0.93041	0.287
43DAP/reference	0.96676	0.568
47DAP/reference	1.09741	1
52DAP/reference	0.86544	0.2
57DAP/reference	0.58887	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23403	0.966
26DAP/20DAP	1.08139
34DAP/26DAP	1.50555
51DAP/34DAP	0.78456	0.259
52DAP/51DAP	0.55798	0.07
53DAP/52DAP	7.50669	0.307
55DAP/53DAP	0.82847
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.44395	0.098
68DAP/62DAP	0.63502	0.144
68DAP/14DAP	0.59259	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82001	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.39707	0.399
Immature Eggplant/Mature Eggplant	1.19212	0.321
Ripe Pepper/Ripe Tomato	0.06377
Mature Eggplant/Ripe Tomato	4.01721	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94781	0.944
1-1-2/M82	1.3054	1
12-2/M82	1.04718	1
12-4/M82	1.5634	1
1-3/M82	0.79807	0.441
2-1-1/M82	1.06048	1
2-1/M82	1.20827	1
2-6/M82	1.16719	0.505
3-2/M82	0.99041	1
4-1-1/M82	1.07456	1
4-1/M82	1.77415	1
4-3-2/M82	1.29364	1
4-3/M82	0.80624	0.578
5-3/M82	0.94012	1
6-2/M82	1.01587	1
6-3/M82	1.16438	1
7-1/M82	0.96667	1
7-2/M82	0.99348	1
9-3-2/M82	1.71449	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96037	1
IL2-6/WTpooled	0.90597
IL7-5/WTpooled	1.03472	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.81101	0.554
IL1-4/WTpooled	0.81445	0.457
WT/WTpooled	0.84444	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00333	1
DC3000/delta hrp 6h	0.77259
DC3000/delta hrp 12h	1.20302	1
DC3000/delta hrp 24h	1.0183	0.779

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	N/A	N/A
Exp 36h	0.66068	0.382
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	N/A	N/A
Var 0h	1.12555	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.73559	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8791	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.48735	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9645	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.01082	1