Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.8.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.50066	0.015
27DAP/17DAP	0.85806	0.661
39DAP/27DAP	1.22653	0.655
41DAP/39DAP	0.74046	0.113
42DAP/41DAP	1.24112	0.536
43DAP/42DAP	0.88173	0.743
47DAP/43DAP	0.7072	0.203
52DAP/47DAP	1.13573	0.941
57DAP/52DAP	1.14716	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33844	0.081
17DAP/reference	0.98833	0.777
27DAP/reference	1.0523	0.696
39DAP/reference	0.97378	0.554
41DAP/reference	0.89323	0.114
42DAP/reference	0.93099	0.139
43DAP/reference	1.01578	0.928
47DAP/reference	0.89252	0.018
52DAP/reference	0.96289	0.438
57DAP/reference	1.12655	0.229

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92093	0.595
27DAP/17DAP	1.08376	0.969
39DAP/27DAP	0.94417	0.754
41DAP/39DAP	0.91476	0.713
42DAP/41DAP	1.46667	0.028
43DAP/42DAP	1.10159	0.627
47DAP/43DAP	0.98678	0.933
52DAP/47DAP	0.99054	0.902
57DAP/52DAP	0.83671	0.225
57DAP/7DAP	0.81889	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40956	0.082
17DAP/reference	1.16733	0.477
27DAP/reference	1.11915	0.551
39DAP/reference	1.16953	0.157
41DAP/reference	1.21023	0.121
42DAP/reference	1.20838	0.233
43DAP/reference	1.14782	0.537
47DAP/reference	1.08563	0.504
52DAP/reference	1.09102	0.459
57DAP/reference	1.18311	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13177	0.258
17DAP/reference	0.95454	0.422
27DAP/reference	1.06926	0.618
39DAP/reference	0.93376	0.227
41DAP/reference	1.07134	0.672
42DAP/reference	0.87164	0.013
43DAP/reference	0.87736	0.128
47DAP/reference	1.02571	0.994
52DAP/reference	0.92891	0.22
57DAP/reference	0.88171	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08502	0.659
17DAP/reference	1.13914	0.306
27DAP/reference	1.18212	0.392
39DAP/reference	1.23491	0.027
41DAP/reference	1.10993	0.486
42DAP/reference	1.02418	0.961
43DAP/reference	0.98965	0.66
47DAP/reference	0.99408	0.626
52DAP/reference	1.06208	0.714
57DAP/reference	1.08709	0.909

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08169	0.966
26DAP/20DAP	4.93438	0.172
34DAP/26DAP	1.44129	0.819
51DAP/34DAP	0.93196	0.835
52DAP/51DAP	0.9516	1
53DAP/52DAP	0.82705	0.276
55DAP/53DAP	1.24362	0.589
57DAP/55DAP	1.4025	0.188
62DAP/57DAP	1.11135	0.8
68DAP/62DAP	1.01314	0.939
68DAP/14DAP	1.08651	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86372	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67968	0.194
Mature Green Tomato/Ripe Tomato	1.28753	0.023
Immature Eggplant/Mature Eggplant	1.95879	0.05
Ripe Pepper/Ripe Tomato	2.0564	1
Mature Eggplant/Ripe Tomato	1.0972	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99122	1
1-1-2/M82	1.126	1
12-2/M82	0.94845	0.955
12-4/M82	0.81848	0.619
1-3/M82	1.00462
2-1-1/M82	0.72695	0.465
2-1/M82	0.52616	0.318
2-6/M82	0.8121	1
3-2/M82	1.15156	0.388
4-1-1/M82	0.89397	1
4-1/M82	0.73898
4-3-2/M82	0.4934
4-3/M82	0.47485	0.281
5-3/M82	1.0663	1
6-2/M82	0.92127
6-3/M82	1.01984	1
7-1/M82	1.0739
7-2/M82	1.11171	0.385
9-3-2/M82	0.95949

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.65654	0.581
IL1-4/WTpooled	1.0846
WT/WTpooled	1.01569

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	1.01794	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96751	1
DC3000/delta hrp 6h	1.04165	0.95
DC3000/delta hrp 12h	0.97633	1
DC3000/delta hrp 24h	1.36989	0.069

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	1.07961	1
Exp 36h	1.62953	0.693
Exp 60h	1.19602	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98646	1
Var 0h	0.96576	1
Var 12h I row2-row1	1.18241	0.544
Var 12h NI row2-row1	1.05003	1
Var 36h I row2-row1	0.95436	1
Var 36h NI row2-row1	1.56642	1
Var 60h I row2-row1	0.59397	0.439
Var 60h NI row2-row1	1.2198	0.904
Time course 0hI-0hNI	0.92128	0.461
Time course 12hI-12hNI	0.90339	0.164
Time course 36hI-36hNI	0.74216	0.023
Time course 60hI-60hNI	0.3202	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)	1.17801	0.218
transgenic ySAMdc/azygous control (breaker)	1.43239	0.178
transgenic ySAMdc/azygous control (red)	0.97021	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94198	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82682	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89158	1
Manapal/WT (break)	0.99886	1
Manapal/WT (red)	1.39276	0.164