Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74572	0.107
27DAP/17DAP	0.80624	0.448
39DAP/27DAP	1.66303	0.063
41DAP/39DAP	0.71636	0.148
42DAP/41DAP	0.88107	1
43DAP/42DAP	1.05653	1
47DAP/43DAP	0.48925	0.049
52DAP/47DAP	1.19621	0.895
57DAP/52DAP	1.35228	0.794

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00023	0.844
17DAP/reference	1.04089	0.201
27DAP/reference	1.00609	0.981
39DAP/reference	1.15395	0.393
41DAP/reference	1.03306	0.624
42DAP/reference	0.96537	0.157
43DAP/reference	0.99529	0.882
47DAP/reference	0.94576	0.065
52DAP/reference	0.94279	0.283
57DAP/reference	0.90612	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92748	0.442
27DAP/17DAP	1.02342	0.954
39DAP/27DAP	0.79579	0.099
41DAP/39DAP	1.39482	0.876
42DAP/41DAP	0.96682	0.737
43DAP/42DAP	0.85463	0.035
47DAP/43DAP	0.87747	0.439
52DAP/47DAP	0.58995	0.041
57DAP/52DAP	1.00821	0.833
57DAP/7DAP	0.32476	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.31969	0.027
17DAP/reference	1.56814	0.015
27DAP/reference	1.24313	0.06
39DAP/reference	N/A	N/A
41DAP/reference	1.25243	0.325
42DAP/reference	1.2196	0.233
43DAP/reference	1.26243	0.093
47DAP/reference	1.0261	0.98
52DAP/reference	1.10562	0.092
57DAP/reference	1.07154	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06512	0.22
17DAP/reference	1.12534	0.098
27DAP/reference	1.03819	0.66
39DAP/reference	0.89563	0.064
41DAP/reference	0.95915	0.299
42DAP/reference	0.97647	0.355
43DAP/reference	0.89171	0.144
47DAP/reference	0.96466	0.149
52DAP/reference	0.92935	0.28
57DAP/reference	0.96483	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54234	0.034
17DAP/reference	1.04702	0.966
27DAP/reference	1.27938	0.03
39DAP/reference	1.24491	0.218
41DAP/reference	1.07181	0.425
42DAP/reference	0.99759	1
43DAP/reference	1.02249	0.923
47DAP/reference	0.88735	0.045
52DAP/reference	0.94211	0.433
57DAP/reference	0.76796	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03434	0.966
26DAP/20DAP	3.494	0.097
34DAP/26DAP	0.84607	0.575
51DAP/34DAP	1.00627	0.967
52DAP/51DAP	0.88967	1
53DAP/52DAP	0.88264	0.386
55DAP/53DAP	0.8866	0.604
57DAP/55DAP	1.25806	0.818
62DAP/57DAP	0.96927	0.994
68DAP/62DAP	0.95482	0.747
68DAP/14DAP	0.96703	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.45523	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88373	0.426
Mature Green Tomato/Ripe Tomato	2.10522	0.021
Immature Eggplant/Mature Eggplant	0.7275	0.062
Ripe Pepper/Ripe Tomato	1.13783	1
Mature Eggplant/Ripe Tomato	1.99367	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99503	0.961
1-1-2/M82	1.10102	0.972
12-2/M82	1.03436	1
12-4/M82	1.25394	1
1-3/M82	1.0501	0.479
2-1-1/M82	1.01046	1
2-1/M82	1.01865	1
2-6/M82	1.13811	0.594
3-2/M82	1.02438
4-1-1/M82	1.05025	1
4-1/M82	1.94169	0.853
4-3-2/M82	1.6067	0.508
4-3/M82	1.15358	1
5-3/M82	1.16265	1
6-2/M82	1.10203	0.253
6-3/M82	1.00345	1
7-1/M82	1.04362	0.87
7-2/M82	1.09496	0.385
9-3-2/M82	1.8944	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.40368
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99682	1
IL12-4/WTpooled	1.08849	0.891
IL1-4/WTpooled	1.29238
WT/WTpooled	0.93779	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	1.4823	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98942	1
DC3000/delta hrp 6h	1.15777	1
DC3000/delta hrp 12h	0.91662	1
DC3000/delta hrp 24h	0.96347	0.782

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30848	0.043
DC3000 delta B/DC3000 delta AB	1.52664	0.085

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17351	1
Exp 36h	1.03444	1
Exp 60h	1.20863	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02779	1
Var 0h	0.98875	1
Var 12h I row2-row1	1.08146	0.736
Var 12h NI row2-row1	1.0856	0.266
Var 36h I row2-row1	1.05478	1
Var 36h NI row2-row1	0.85199	0.549
Var 60h I row2-row1	0.86186	0.287
Var 60h NI row2-row1	0.87796	0.431
Time course 0hI-0hNI	1.09282	0.63
Time course 12hI-12hNI	1.05711	0.709
Time course 36hI-36hNI	1.53206	0.007
Time course 60hI-60hNI	1.96016	0.047

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)	1.13172	0.408
transgenic ySAMdc/azygous control (breaker)	1.16171	1
transgenic ySAMdc/azygous control (red)	1.18192	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00876	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90183	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19933	0.096
Manapal/WT (break)	0.87083	1
Manapal/WT (red)	0.91849	0.424