Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69744	0.049
27DAP/17DAP	0.82391	0.536
39DAP/27DAP	1.55559	0.105
41DAP/39DAP	0.53059	0.042
42DAP/41DAP	0.78574	1
43DAP/42DAP	0.98074	0.925
47DAP/43DAP	0.43489	0.049
52DAP/47DAP	1.39376	0.371
57DAP/52DAP	1.28643	0.794

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41175	0.052
17DAP/reference	1.07822	1
27DAP/reference	0.7039	0.012
39DAP/reference	0.75595	0.021
41DAP/reference	0.73424	0.01
42DAP/reference	1.18314	0.005
43DAP/reference	0.88535	0.049
47DAP/reference	0.90918	0.023
52DAP/reference	0.69171	0.016
57DAP/reference	0.71435	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93453	0.402
27DAP/17DAP	1.10705	0.423
39DAP/27DAP	0.80481	0.075
41DAP/39DAP	1.4418	1
42DAP/41DAP	1.01533	0.87
43DAP/42DAP	0.83181	0.048
47DAP/43DAP	0.95667	0.734
52DAP/47DAP	0.56911	0.041
57DAP/52DAP	0.87267	0.461
57DAP/7DAP	0.41728	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.70086	0.024
17DAP/reference	2.20337	0.006
27DAP/reference	1.64201	0.008
39DAP/reference	1.2606	0.014
41DAP/reference	1.69741	0.012
42DAP/reference	1.51278	0.013
43DAP/reference	1.39255	0.012
47DAP/reference	1.30348	0.084
52DAP/reference	1.25013	0.149
57DAP/reference	1.13089	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3825	0.196
17DAP/reference	1.22171	0.278
27DAP/reference	1.49376	0.028
39DAP/reference	0.89706	0.33
41DAP/reference	1.27033	0.016
42DAP/reference	1.58026	0.013
43DAP/reference	0.87992	0.236
47DAP/reference	1.11607	0.24
52DAP/reference	0.66932	0.008
57DAP/reference	0.69467	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.23552	0.018
17DAP/reference	1.61134	0.243
27DAP/reference	1.69517	0.026
39DAP/reference	1.68036	0.009
41DAP/reference	1.19169	0.069
42DAP/reference	1.37992	0.031
43DAP/reference	1.35566	0.021
47DAP/reference	0.55905	0.004
52DAP/reference	1.06348	0.694
57DAP/reference	1.04063	0.765

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05257	0.966
26DAP/20DAP	4.19401	0.097
34DAP/26DAP	0.62424	0.272
51DAP/34DAP	0.9188	0.436
52DAP/51DAP	0.82957	0.079
53DAP/52DAP	0.88394	0.581
55DAP/53DAP	1.04972	0.813
57DAP/55DAP	1.17982	0.818
62DAP/57DAP	1.51303	0.723
68DAP/62DAP	0.82754	0.055
68DAP/14DAP	0.86115	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.54398	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01801	1
Mature Green Tomato/Ripe Tomato	2.68239	0.024
Immature Eggplant/Mature Eggplant	0.99059	1
Ripe Pepper/Ripe Tomato	1.0557	1
Mature Eggplant/Ripe Tomato	1.48556	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04539	1
1-1-2/M82	1.24748	1
12-2/M82	0.84569	0.955
12-4/M82	1.06732	1
1-3/M82	1.74732	0.255
2-1-1/M82	0.99809	1
2-1/M82	1.16593	1
2-6/M82	1.15558	0.452
3-2/M82	0.97057	1
4-1-1/M82	1.14815	1
4-1/M82	1.63482	1
4-3-2/M82	1.61347	0.508
4-3/M82	1.63457	0.268
5-3/M82	1.15784	1
6-2/M82	1.3359	1
6-3/M82	0.9675	1
7-1/M82	1.03505	1
7-2/M82	1.39732	0.299
9-3-2/M82	1.65756

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07895	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.15438	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.73895
IL1-4/WTpooled	0.91229	0.457
WT/WTpooled	N/A	N/A

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	1.39833	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05812	0.921
DC3000/delta hrp 6h	0.95776	0.95
DC3000/delta hrp 12h	1.34315	1
DC3000/delta hrp 24h	1.00424	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.57347	0.046
DC3000 delta B/DC3000 delta AB	1.55911	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.32202	1
Exp 36h	1.15738	1
Exp 60h	1.54089	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01522	1
Var 0h	0.75954	1
Var 12h I row2-row1	0.96108	0.856
Var 12h NI row2-row1	1.18519	0.34
Var 36h I row2-row1	1.16514	1
Var 36h NI row2-row1	0.84648	0.549
Var 60h I row2-row1	0.79067	0.285
Var 60h NI row2-row1	0.79713	0.818
Time course 0hI-0hNI	1.08438	0.63
Time course 12hI-12hNI	1.03351	0.82
Time course 36hI-36hNI	1.52435	0.005
Time course 60hI-60hNI	2.59259	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)	1.1245	0.511
transgenic ySAMdc/azygous control (breaker)	1.09773	1
transgenic ySAMdc/azygous control (red)	1.41662	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28363	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67595	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07566	0.307
Manapal/WT (break)	0.94654	1
Manapal/WT (red)	0.74407	0.181