Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34896	0.303
27DAP/17DAP	0.55432	0.036
39DAP/27DAP	0.57518	0.255
41DAP/39DAP	0.61975	0.062
42DAP/41DAP	1.03658	0.958
43DAP/42DAP	1.0021	0.937
47DAP/43DAP	0.8682	0.618
52DAP/47DAP	0.94234	0.812
57DAP/52DAP	0.93684	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59495	0.024
17DAP/reference	0.55772	0.009
27DAP/reference	0.60142	0.025
39DAP/reference	0.63073	0.017
41DAP/reference	0.45175	0.009
42DAP/reference	0.71137	0.003
43DAP/reference	0.62205	0.015
47DAP/reference	0.72192	0.018
52DAP/reference	0.78682	0.139
57DAP/reference	1.00808	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.60861	0.068
27DAP/17DAP	0.81052	0.418
39DAP/27DAP	0.63278	0.028
41DAP/39DAP	1.03838	1
42DAP/41DAP	0.8707	0.412
43DAP/42DAP	0.77629	0.046
47DAP/43DAP	0.91713	0.787
52DAP/47DAP	0.92953	0.839
57DAP/52DAP	1.08286	0.851
57DAP/7DAP	1.03494	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04748	0.793
17DAP/reference	0.69276	0.039
27DAP/reference	0.57659	0.01
39DAP/reference	0.75764	0.027
41DAP/reference	0.59178	0.012
42DAP/reference	0.57222	0.019
43DAP/reference	0.5295	0.014
47DAP/reference	0.5689	0.04
52DAP/reference	0.77448	0.066
57DAP/reference	0.5832	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.49461	0.006
17DAP/reference	0.53171	0.006
27DAP/reference	0.67101	0.023
39DAP/reference	0.58935	0.014
41DAP/reference	0.65781	0.007
42DAP/reference	0.55948	0.017
43DAP/reference	0.28254	0.002
47DAP/reference	0.49329	0.007
52DAP/reference	0.4596	0.004
57DAP/reference	0.41549	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68958	0.019
17DAP/reference	1.44503	0.169
27DAP/reference	0.85812	0.155
39DAP/reference	0.90213	0.147
41DAP/reference	0.74606	0.035
42DAP/reference	0.63933	0.049
43DAP/reference	0.6893	0.037
47DAP/reference	0.49236	0.005
52DAP/reference	0.51936	0.063
57DAP/reference	1.21945	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00871	1
26DAP/20DAP	0.83209	0.512
34DAP/26DAP	1.18133	0.819
51DAP/34DAP	0.58599	0.109
52DAP/51DAP	1.18377	0.626
53DAP/52DAP	0.69154	0.177
55DAP/53DAP	0.8328	0.544
57DAP/55DAP	0.6684	0.19
62DAP/57DAP	1.14657	0.723
68DAP/62DAP	1.42704	0.057
68DAP/14DAP	1.94151	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30328	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.87899	0.058
Mature Green Tomato/Ripe Tomato	2.81938	0.015
Immature Eggplant/Mature Eggplant	0.35619	0.057
Ripe Pepper/Ripe Tomato	11.9871
Mature Eggplant/Ripe Tomato	5.90565	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92012	0.841
1-1-2/M82	0.94551	0.804
12-2/M82	0.91566
12-4/M82	0.86448	0.274
1-3/M82	1.60266
2-1-1/M82	0.55943
2-1/M82	N/A	N/A
2-6/M82	1.80226
3-2/M82	N/A	N/A
4-1-1/M82	1.40937
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.59116	0.268
5-3/M82	0.81148	0.49
6-2/M82	N/A	N/A
6-3/M82	0.86423
7-1/M82	N/A	N/A
7-2/M82	1.33422	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22138	0.365
IL2-6/WTpooled	1.97801	0.419
IL7-5/WTpooled	0.77376	1
IL7-3/WTpooled	0.58817	0.298
IL12-4/WTpooled	1.16982	1
IL1-4/WTpooled	1.01732	1
WT/WTpooled	1.06486	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	0.91098	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97457	1
DC3000/delta hrp 6h	1.02181	0.95
DC3000/delta hrp 12h	1.06328	1
DC3000/delta hrp 24h	0.96708	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.48746	0.025
DC3000 delta B/DC3000 delta AB	0.35045	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00483	1
Exp 36h	0.97357	0.82
Exp 60h	0.81382	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9721	1
Var 0h	0.45241	0.933
Var 12h I row2-row1	0.73608	0.363
Var 12h NI row2-row1	0.99212	1
Var 36h I row2-row1	0.86585	0.575
Var 36h NI row2-row1	1.23628	0.276
Var 60h I row2-row1	1.33093	0.487
Var 60h NI row2-row1	1.11856	0.904
Time course 0hI-0hNI	0.996	1
Time course 12hI-12hNI	0.97398	0.808
Time course 36hI-36hNI	0.84065	0.028
Time course 60hI-60hNI	0.10035	0.005

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)	0.94379	0.662
transgenic ySAMdc/azygous control (breaker)	1.25924	1
transgenic ySAMdc/azygous control (red)	1.07951	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.55526	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.3462	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.00821	0.084
Manapal/WT (break)	3.60542	0.123
Manapal/WT (red)	1.06401	1