Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.13.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83983	0.303
27DAP/17DAP	0.90029	0.791
39DAP/27DAP	1.27958	0.603
41DAP/39DAP	1.10738	0.822
42DAP/41DAP	0.92038	1
43DAP/42DAP	1.00451	0.932
47DAP/43DAP	1.03873	0.999
52DAP/47DAP	0.92887	0.757
57DAP/52DAP	1.20525	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87093	0.128
17DAP/reference	1.13654	0.045
27DAP/reference	0.97842	0.61
39DAP/reference	1.1044	0.403
41DAP/reference	1.01091	1
42DAP/reference	0.89326	0.027
43DAP/reference	1.02646	1
47DAP/reference	0.93248	0.098
52DAP/reference	0.88383	0.047
57DAP/reference	0.91541	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01653	1
27DAP/17DAP	0.87525	0.821
39DAP/27DAP	1.37418	0.174
41DAP/39DAP	1.32365	0.748
42DAP/41DAP	0.90771	0.495
43DAP/42DAP	0.85647	0.447
47DAP/43DAP	0.746	0.229
52DAP/47DAP	1.43625	0.264
57DAP/52DAP	1.07945	0.598
57DAP/7DAP	0.35166

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.0472	0.027
17DAP/reference	2.0993	0.006
27DAP/reference	1.70899	0.008
39DAP/reference	2.02878	0.005
41DAP/reference	1.77861	0.009
42DAP/reference	1.8863	0.008
43DAP/reference	1.93727	0.007
47DAP/reference	1.52671	0.224
52DAP/reference	1.94757	0.007
57DAP/reference	1.77713	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12564	0.516
17DAP/reference	1.00089	0.805
27DAP/reference	0.89058	0.195
39DAP/reference	0.8836	0.195
41DAP/reference	0.94918	0.256
42DAP/reference	0.8807	0.169
43DAP/reference	1.08119	1
47DAP/reference	0.94288	0.277
52DAP/reference	0.91172	0.203
57DAP/reference	0.97264	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.78695	0.034
17DAP/reference	1.19819	0.474
27DAP/reference	1.95664	0.015
39DAP/reference	1.79421	0.01
41DAP/reference	1.37121	0.048
42DAP/reference	1.44985	0.094
43DAP/reference	1.26268	0.599
47DAP/reference	1.00449	0.754
52DAP/reference	1.58672	0.098
57DAP/reference	1.1659	0.744

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06174	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.36054	1
51DAP/34DAP	1.53379	0.581
52DAP/51DAP	1.09878	0.783
53DAP/52DAP	0.71383
55DAP/53DAP	0.73572	0.282
57DAP/55DAP	1.02885	0.997
62DAP/57DAP	1.11171	0.902
68DAP/62DAP	0.9526	0.769
68DAP/14DAP	1.29926

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68746	0.122

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	0.9334	0.961
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	N/A	N/A
2-1-1/M82	1.25844
2-1/M82	N/A	N/A
2-6/M82	0.80064
3-2/M82	0.93694
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	1.24537
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.72624	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10956	1
IL12-4/WTpooled	1.07171	0.839
IL1-4/WTpooled	1.03653	1
WT/WTpooled	0.96825	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	0.99449	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03182	1
DC3000/delta hrp 24h	0.97038	0.794

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	1.02188	1
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	N/A	N/A
Var 0h	1.0799	0.936
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	1.37398
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)	1.83539	0.294
transgenic ySAMdc/azygous control (breaker)	0.88236	0.49
transgenic ySAMdc/azygous control (red)	1.22815	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98997	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.43528	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.361	0.063
Manapal/WT (break)	0.85358	1
Manapal/WT (red)	0.82023	0.503