Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05617	0.827
27DAP/17DAP	1.13382	0.871
39DAP/27DAP	0.86824	0.458
41DAP/39DAP	1.50128	0.225
42DAP/41DAP	0.95736	1
43DAP/42DAP	0.97038	0.906
47DAP/43DAP	1.02421	0.965
52DAP/47DAP	1.02074	0.989
57DAP/52DAP	0.95276	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97308	0.476
17DAP/reference	1.00745	0.696
27DAP/reference	0.9459	0.092
39DAP/reference	1.04578	0.256
41DAP/reference	0.99327	0.814
42DAP/reference	0.93392	0.002
43DAP/reference	1.04505	0.126
47DAP/reference	1.01067	1
52DAP/reference	1.03525	0.524
57DAP/reference	1.04998	0.332

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02088	0.797
27DAP/17DAP	1.00949	0.969
39DAP/27DAP	1.00379	0.862
41DAP/39DAP	1.02654	0.79
42DAP/41DAP	0.9596	0.583
43DAP/42DAP	0.99639	1
47DAP/43DAP	0.98473	0.896
52DAP/47DAP	0.97032	0.814
57DAP/52DAP	1.00976	1
57DAP/7DAP	1.0153	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87824	0.078
17DAP/reference	0.99963	1
27DAP/reference	0.99949	0.8
39DAP/reference	0.94135	0.02
41DAP/reference	0.9578	0.184
42DAP/reference	0.96505	0.05
43DAP/reference	0.94817	0.145
47DAP/reference	0.92834	0.168
52DAP/reference	0.97023	0.435
57DAP/reference	1.01656	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9538	0.204
17DAP/reference	0.96705	0.26
27DAP/reference	0.94428	0.188
39DAP/reference	0.90461	0.016
41DAP/reference	0.88003	0.041
42DAP/reference	1.02179	0.951
43DAP/reference	0.95244	0.285
47DAP/reference	1.01982	0.498
52DAP/reference	0.99379	0.619
57DAP/reference	1.01142	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98127	0.362
17DAP/reference	0.99913	0.9
27DAP/reference	0.99933	1
39DAP/reference	0.99777	0.819
41DAP/reference	0.99705	0.754
42DAP/reference	1.00941	0.893
43DAP/reference	0.98657	0.66
47DAP/reference	0.98724	0.574
52DAP/reference	1.00932	0.965
57DAP/reference	0.95264	0.109

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07451	0.966
26DAP/20DAP	0.98787	1
34DAP/26DAP	1.07409	0.819
51DAP/34DAP	1.08236	0.303
52DAP/51DAP	0.95787	1
53DAP/52DAP	0.99339	0.97
55DAP/53DAP	0.96607	0.515
57DAP/55DAP	1.08829	0.764
62DAP/57DAP	1.03428	0.935
68DAP/62DAP	1.10901	0.657
68DAP/14DAP	1.01702	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01394	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.59631	0.146
Mature Green Tomato/Ripe Tomato	0.77022	0.017
Immature Eggplant/Mature Eggplant	1.1059	0.239
Ripe Pepper/Ripe Tomato	1.4251	1
Mature Eggplant/Ripe Tomato	0.79128	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00112	1
1-1-2/M82	1.03937	1
12-2/M82	0.90331	0.528
12-4/M82	0.97755	0.33
1-3/M82	0.90318	0.501
2-1-1/M82	1.11458	0.689
2-1/M82	0.8285	0.325
2-6/M82	0.93379	1
3-2/M82	1.00966	1
4-1-1/M82	0.99926	1
4-1/M82	0.91443
4-3-2/M82	0.93715	1
4-3/M82	0.97663	1
5-3/M82	1.02469	1
6-2/M82	0.97573	0.481
6-3/M82	0.93658	1
7-1/M82	1.00002	1
7-2/M82	1.05062	1
9-3-2/M82	0.90175	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93035	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99636
IL12-4/WTpooled	0.85188	1
IL1-4/WTpooled	1.12983	0.395
WT/WTpooled	0.83044	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	0.8892	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01446	0.921
DC3000/delta hrp 6h	1.04789	1
DC3000/delta hrp 12h	0.96114	1
DC3000/delta hrp 24h	1.0294	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18374	0.042
DC3000 delta B/DC3000 delta AB	1.15047	0.345

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08023	1
Exp 36h	1.07192	1
Exp 60h	1.11544	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02241	1
Var 0h	0.39731	0.196
Var 12h I row2-row1	1.03236	0.795
Var 12h NI row2-row1	1.00121	1
Var 36h I row2-row1	0.87334	0.805
Var 36h NI row2-row1	1.21467	1
Var 60h I row2-row1	1.1791	0.562
Var 60h NI row2-row1	1.12464	0.904
Time course 0hI-0hNI	1.05556	0.852
Time course 12hI-12hNI	1.02938	0.827
Time course 36hI-36hNI	1.02636	0.58
Time course 60hI-60hNI	1.14496	0.115

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)	1.01964	0.863
transgenic ySAMdc/azygous control (breaker)	1.26619	0.248
transgenic ySAMdc/azygous control (red)	1.29888	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96233	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03667	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.11953	0.083
Manapal/WT (break)	1.16669	0.183
Manapal/WT (red)	1.4688	0.137