Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3305	0.452
27DAP/17DAP	1.15787	0.845
39DAP/27DAP	2.07268	0.04
41DAP/39DAP	1.04944	0.914
42DAP/41DAP	1.46896	0.336
43DAP/42DAP	1.40362	0.378
47DAP/43DAP	2.81612	0.156
52DAP/47DAP	0.76046	0.407
57DAP/52DAP	1.58522	0.944

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.41138	0.024
17DAP/reference	0.70562	0.074
27DAP/reference	0.81682	0.014
39DAP/reference	1.0495	0.8
41DAP/reference	0.75768	0.085
42DAP/reference	1.05734	0.869
43DAP/reference	1.78751	0.04
47DAP/reference	2.76579	0.001
52DAP/reference	2.81435	0.009
57DAP/reference	1.62186	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12608	0.515
27DAP/17DAP	0.91224	0.648
39DAP/27DAP	1.22263	0.453
41DAP/39DAP	0.76982	0.03
42DAP/41DAP	1.46945	0.002
43DAP/42DAP	1.48473	0.019
47DAP/43DAP	1.4217	0.029
52DAP/47DAP	0.93556	0.763
57DAP/52DAP	0.9688	0.732
57DAP/7DAP	2.13597	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62004	0.048
17DAP/reference	0.66529	0.011
27DAP/reference	0.70416	0.01
39DAP/reference	0.81444	0.043
41DAP/reference	0.77916	0.027
42DAP/reference	0.78521	0.01
43DAP/reference	0.83429	0.019
47DAP/reference	0.98566	0.671
52DAP/reference	0.74332	0.027
57DAP/reference	0.71294	0.047

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.45642	0.008
17DAP/reference	0.44966	0.003
27DAP/reference	0.71962	0.017
39DAP/reference	0.79326	0.015
41DAP/reference	0.61812	0.01
42DAP/reference	0.84725	0.018
43DAP/reference	0.79347	0.019
47DAP/reference	0.88445	0.173
52DAP/reference	0.64747	0.004
57DAP/reference	0.69252	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63111	0.026
17DAP/reference	0.66837	0.078
27DAP/reference	0.74003	0.031
39DAP/reference	0.80097	0.018
41DAP/reference	0.79295	0.019
42DAP/reference	1.2789	0.02
43DAP/reference	1.96466	0.014
47DAP/reference	2.95314	0.005
52DAP/reference	2.94383	0.036
57DAP/reference	3.63478	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95166	1
26DAP/20DAP	0.80579	0.317
34DAP/26DAP	1.04787	1
51DAP/34DAP	1.54107	0.303
52DAP/51DAP	0.64621	0.151
53DAP/52DAP	3.33967	0.019
55DAP/53DAP	1.12879	0.487
57DAP/55DAP	0.78877	0.097
62DAP/57DAP	0.50789	0.002
68DAP/62DAP	1.17878	0.729
68DAP/14DAP	2.82618	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.86001	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.30122	0.068
Mature Green Tomato/Ripe Tomato	0.20792	0.017
Immature Eggplant/Mature Eggplant	0.91648	0.159
Ripe Pepper/Ripe Tomato	0.44197	0.224
Mature Eggplant/Ripe Tomato	0.10807	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16695	0.742
1-1-2/M82	1.28523	1
12-2/M82	0.93569	0.955
12-4/M82	1.40221	1
1-3/M82	1.80021	0.248
2-1-1/M82	0.92805	0.784
2-1/M82	0.90368	1
2-6/M82	1.02706	1
3-2/M82	1.15033	0.84
4-1-1/M82	1.17308	1
4-1/M82	0.99242
4-3-2/M82	1.44396	0.241
4-3/M82	0.9551	0.72
5-3/M82	1.02263	1
6-2/M82	0.39137	0.481
6-3/M82	0.91526	0.857
7-1/M82	0.98491	0.509
7-2/M82	1.36793	0.385
9-3-2/M82	1.44802	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89245	0.247
IL2-6/WTpooled	0.88294
IL7-5/WTpooled	1.16483	0.792
IL7-3/WTpooled	1.29868	1
IL12-4/WTpooled	0.93138	1
IL1-4/WTpooled	1.21069	0.426
WT/WTpooled	1.08958	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	1.06086	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11842	0.846
DC3000/delta hrp 6h	1.10628
DC3000/delta hrp 12h	1.18642	1
DC3000/delta hrp 24h	1.16546	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1961	0.556
DC3000 delta B/DC3000 delta AB	0.79135	0.058

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	0.99763	1
Var 0h	0.82307	0.933
Var 12h I row2-row1	0.87761	0.565
Var 12h NI row2-row1	1.03732	1
Var 36h I row2-row1	1.16408	0.742
Var 36h NI row2-row1	0.93439	0.791
Var 60h I row2-row1	0.82091	0.952
Var 60h NI row2-row1	1.10562	1
Time course 0hI-0hNI	1.03162	0.852
Time course 12hI-12hNI	0.94726	0.632
Time course 36hI-36hNI	0.94707	0.36
Time course 60hI-60hNI	0.61848	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)	0.9936	0.862
transgenic ySAMdc/azygous control (breaker)	0.79068	0.173
transgenic ySAMdc/azygous control (red)	1.18602	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99273	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85535	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.04746	1
Manapal/WT (red)	0.84442	0.242