Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07381	0.878
27DAP/17DAP	1.04802	0.885
39DAP/27DAP	0.98068	0.749
41DAP/39DAP	1.23	0.31
42DAP/41DAP	1.6185	0.022
43DAP/42DAP	1.1967	0.991
47DAP/43DAP	2.11749	0.156
52DAP/47DAP	0.96244	0.816
57DAP/52DAP	1.31141	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98142	0.616
17DAP/reference	1.01967	0.74
27DAP/reference	0.90238	0.417
39DAP/reference	0.89625
41DAP/reference	1.04553	0.624
42DAP/reference	0.9148	0.035
43DAP/reference	0.98607	0.805
47DAP/reference	0.91253	0.098
52DAP/reference	0.83145	0.018
57DAP/reference	0.74261	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99749	0.847
27DAP/17DAP	0.9902	0.943
39DAP/27DAP	1.06109	0.57
41DAP/39DAP	0.89838	0.586
42DAP/41DAP	1.20847	0.124
43DAP/42DAP	1.13649	0.192
47DAP/43DAP	1.0586	0.678
52DAP/47DAP	1.07271	0.734
57DAP/52DAP	0.94283	0.587
57DAP/7DAP	1.59153	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91963	0.168
17DAP/reference	0.87259	0.011
27DAP/reference	0.81162	0.011
39DAP/reference	0.90345	0.043
41DAP/reference	0.9032	0.086
42DAP/reference	0.93124	0.048
43DAP/reference	0.83552	0.011
47DAP/reference	1.03377	0.901
52DAP/reference	0.77336	0.012
57DAP/reference	0.88507	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02665	0.704
17DAP/reference	1.06197	0.285
27DAP/reference	0.89123	0.203
39DAP/reference	0.85938	0.108
41DAP/reference	0.87504	0.03
42DAP/reference	0.89584	0.135
43DAP/reference	1.05942	0.582
47DAP/reference	1.0022	0.749
52DAP/reference	0.96468	0.407
57DAP/reference	1.03855	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8901	0.158
17DAP/reference	0.95879	0.528
27DAP/reference	0.80885	0.029
39DAP/reference	0.79843	0.012
41DAP/reference	0.84131	0.031
42DAP/reference	0.76986	0.015
43DAP/reference	0.82609	0.061
47DAP/reference	1.05643	0.655
52DAP/reference	0.79597	0.167
57DAP/reference	0.70241	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11581	0.966
26DAP/20DAP	0.84076	0.512
34DAP/26DAP	0.91907	0.783
51DAP/34DAP	0.8794	0.333
52DAP/51DAP	1.02286	0.939
53DAP/52DAP	1.07085	0.723
55DAP/53DAP	1.03279	0.976
57DAP/55DAP	0.96912	0.854
62DAP/57DAP	1.23501	0.569
68DAP/62DAP	0.98993	0.863
68DAP/14DAP	0.71737	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49979	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09663
Mature Green Tomato/Ripe Tomato	0.50433	0.06
Immature Eggplant/Mature Eggplant	1.05589	0.311
Ripe Pepper/Ripe Tomato	1.05296	1
Mature Eggplant/Ripe Tomato	0.63921	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91155	0.907
1-1-2/M82	1.11617	1
12-2/M82	0.95522	0.955
12-4/M82	1.26211	1
1-3/M82	0.98236	1
2-1-1/M82	0.96441	1
2-1/M82	0.86118
2-6/M82	1.13506	0.594
3-2/M82	1.02013	0.967
4-1-1/M82	1.05116	1
4-1/M82	1.57969	0.853
4-3-2/M82	1.1585	1
4-3/M82	1.0101	1
5-3/M82	1.0344	1
6-2/M82	0.87562	1
6-3/M82	0.8904	0.715
7-1/M82	0.84236	0.803
7-2/M82	0.909	0.796
9-3-2/M82	1.67412

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8469	0.321
IL2-6/WTpooled	1.1202	0.659
IL7-5/WTpooled	0.85516	1
IL7-3/WTpooled	0.81871	0.31
IL12-4/WTpooled	0.92216	1
IL1-4/WTpooled	0.96742	1
WT/WTpooled	1.01537	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	1.18117	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93846	1
DC3000/delta hrp 6h	1.17259	1
DC3000/delta hrp 12h	1.3236	1
DC3000/delta hrp 24h	1.41669	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.34118	0.355
DC3000 delta B/DC3000 delta AB	0.99693	1

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	0.95655	1
Var 0h	0.49651	1
Var 12h I row2-row1	1.03597	0.736
Var 12h NI row2-row1	1.00285	1
Var 36h I row2-row1	0.871	0.575
Var 36h NI row2-row1	0.99005	0.852
Var 60h I row2-row1	8.51734	1
Var 60h NI row2-row1	2.52327	0.904
Time course 0hI-0hNI	1.14035	0.764
Time course 12hI-12hNI	1.08436	0.65
Time course 36hI-36hNI	0.94846	0.337
Time course 60hI-60hNI	1.14012	0.069

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)	0.88324	0.324
transgenic ySAMdc/azygous control (breaker)	1.09772	0.248
transgenic ySAMdc/azygous control (red)	0.88703	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03715	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83911	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8191	1
Manapal/WT (break)	0.98932	1
Manapal/WT (red)	1.13659	0.164