Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13838	0.947
27DAP/17DAP	0.90591	0.784
39DAP/27DAP	1.30558	0.572
41DAP/39DAP	0.91045	0.715
42DAP/41DAP	0.9049	1
43DAP/42DAP	1.11602	1
47DAP/43DAP	0.75125	0.295
52DAP/47DAP	1.09794	0.854
57DAP/52DAP	1.0637	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71642	0.059
17DAP/reference	0.81962	0.01
27DAP/reference	0.99478	0.779
39DAP/reference	0.86281	0.032
41DAP/reference	0.67725	0.009
42DAP/reference	0.8985	0.046
43DAP/reference	0.97367	0.675
47DAP/reference	1.06088	0.794
52DAP/reference	1.10431	0.878
57DAP/reference	1.28795	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.98747	0.445
27DAP/17DAP	N/A	N/A
39DAP/27DAP	1.51343
41DAP/39DAP	1.07354	0.968
42DAP/41DAP	1.95471	0.539
43DAP/42DAP	N/A	N/A
47DAP/43DAP	1.05794	0.906
52DAP/47DAP	N/A	N/A
57DAP/52DAP	0.76507
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44602	0.065
17DAP/reference	1.53812	0.008
27DAP/reference	1.29049	0.107
39DAP/reference	1.47905	0.007
41DAP/reference	1.52685	0.029
42DAP/reference	1.40207	0.059
43DAP/reference	1.27024	0.015
47DAP/reference	1.30853	0.173
52DAP/reference	1.41769	0.013
57DAP/reference	1.41049	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7374	0.022
17DAP/reference	0.6629	0.006
27DAP/reference	0.84447	0.139
39DAP/reference	0.88111	0.055
41DAP/reference	0.88444	0.124
42DAP/reference	0.85333	0.055
43DAP/reference	0.7284	0.043
47DAP/reference	0.88549	0.087
52DAP/reference	0.81648	0.013
57DAP/reference	0.72791	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.14969	0.146
17DAP/reference	0.94532	0.528
27DAP/reference	1.15779	0.237
39DAP/reference	1.17533	0.422
41DAP/reference	1.12267	0.296
42DAP/reference	1.02345	1
43DAP/reference	1.03583	1
47DAP/reference	0.86457	0.103
52DAP/reference	1.15994	0.705
57DAP/reference	1.28901	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18554	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.019	1
52DAP/51DAP	1.06152
53DAP/52DAP	0.92991	0.797
55DAP/53DAP	1.93392	0.434
57DAP/55DAP	1.23554	0.969
62DAP/57DAP	1.85707	0.002
68DAP/62DAP	3.11644	0.013
68DAP/14DAP	3.28447	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.34194	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89873	0.517
Mature Green Tomato/Ripe Tomato	1.00774	0.898
Immature Eggplant/Mature Eggplant	1.93383	0.239
Ripe Pepper/Ripe Tomato	0.98083	1
Mature Eggplant/Ripe Tomato	0.66774

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01435	1
1-1-2/M82	1.053
12-2/M82	0.86147	0.678
12-4/M82	1.06677	1
1-3/M82	0.89922
2-1-1/M82	0.92002
2-1/M82	1.35536	1
2-6/M82	0.99621
3-2/M82	1.06866	0.84
4-1-1/M82	0.5829
4-1/M82	N/A	N/A
4-3-2/M82	1.01554
4-3/M82	1.03917	1
5-3/M82	1.16606	0.455
6-2/M82	0.95633	1
6-3/M82	0.96993	1
7-1/M82	1.05125	0.598
7-2/M82	0.8979
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22653	0.277
IL2-6/WTpooled	0.72497	0.348
IL7-5/WTpooled	1.09991	0.75
IL7-3/WTpooled	1.62941	1
IL12-4/WTpooled	1.1099	0.737
IL1-4/WTpooled	0.96786	1
WT/WTpooled	0.92357	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00581	0.921
DC3000/delta hrp 6h	0.66081	0.808
DC3000/delta hrp 12h	1.08912	1
DC3000/delta hrp 24h	0.95871	0.75

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	1.07179	1
Exp 36h	1.14514	1
Exp 60h	1.27267	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.87619
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.00498	1
transgenic ySAMdc/azygous control (breaker)	1.1692	0.248
transgenic ySAMdc/azygous control (red)	0.92663	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11671	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88338	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01878	1
Manapal/WT (break)	0.97173	1
Manapal/WT (red)	0.69594	0.181