Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.156	0.534
27DAP/17DAP	1.22726	0.822
39DAP/27DAP	0.95956	0.682
41DAP/39DAP	1.54894	0.459
42DAP/41DAP	0.89111	1
43DAP/42DAP	1.03058	0.937
47DAP/43DAP	0.7533	0.321
52DAP/47DAP	1.56219	0.683
57DAP/52DAP	0.81767	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95115	0.269
17DAP/reference	0.94483	0.24
27DAP/reference	1.02912	0.52
39DAP/reference	1.06334	0.474
41DAP/reference	1.00139	1
42DAP/reference	0.94641	0.151
43DAP/reference	0.98827	0.763
47DAP/reference	0.96674	0.279
52DAP/reference	1.03742	0.695
57DAP/reference	1.12995	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93687	0.454
27DAP/17DAP	1.01505	1
39DAP/27DAP	1.10454	0.611
41DAP/39DAP	1.10367	0.774
42DAP/41DAP	0.99344	0.797
43DAP/42DAP	0.92456	0.172
47DAP/43DAP	0.99948	0.961
52DAP/47DAP	1.00988	1
57DAP/52DAP	0.89424	0.457
57DAP/7DAP	1.15016	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92345	0.203
17DAP/reference	1.04126	0.361
27DAP/reference	1.20764	0.088
39DAP/reference	0.88697	0.073
41DAP/reference	1.0779	0.241
42DAP/reference	0.99563	0.713
43DAP/reference	0.94228	0.321
47DAP/reference	0.92075	0.222
52DAP/reference	0.83389	0.016
57DAP/reference	0.7747	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03598	0.477
17DAP/reference	1.08148	0.044
27DAP/reference	1.0564	0.81
39DAP/reference	0.94276	0.289
41DAP/reference	0.93696	0.237
42DAP/reference	1.13636	0.621
43DAP/reference	1.30264	0.086
47DAP/reference	1.23873	0.018
52DAP/reference	1.04426	0.124
57DAP/reference	1.06085	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90103	0.169
17DAP/reference	0.97304	0.615
27DAP/reference	0.92961	0.337
39DAP/reference	0.97345	0.504
41DAP/reference	1.00294	0.826
42DAP/reference	1.04104	0.648
43DAP/reference	0.80624	0.049
47DAP/reference	0.99804	0.708
52DAP/reference	1.07337	0.566
57DAP/reference	0.84861	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05129	0.966
26DAP/20DAP	1.00001	1
34DAP/26DAP	1.03609	1
51DAP/34DAP	1.01561	0.96
52DAP/51DAP	1.05741	0.689
53DAP/52DAP	1.1614	0.428
55DAP/53DAP	1.09341	0.869
57DAP/55DAP	1.03345	1
62DAP/57DAP	0.95983	0.994
68DAP/62DAP	1.20548	0.653
68DAP/14DAP	1.44528	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.923	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.13163	0.774
Immature Eggplant/Mature Eggplant	0.67065	0.448
Ripe Pepper/Ripe Tomato	0.55078	0.224
Mature Eggplant/Ripe Tomato	1.20439	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02169	1
1-1-2/M82	0.94726	1
12-2/M82	1.28067
12-4/M82	0.85648	1
1-3/M82	0.91095	1
2-1-1/M82	N/A	N/A
2-1/M82	1.24367
2-6/M82	1.00015	1
3-2/M82	0.83215	0.752
4-1-1/M82	0.93122	1
4-1/M82	0.9063	1
4-3-2/M82	0.83967
4-3/M82	0.84195
5-3/M82	0.92991	1
6-2/M82	N/A	N/A
6-3/M82	1.00614	1
7-1/M82	0.83993
7-2/M82	0.94986	0.881
9-3-2/M82	0.7066	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01939	1
IL2-6/WTpooled	0.94158	1
IL7-5/WTpooled	1.12269	1
IL7-3/WTpooled	1.02607	1
IL12-4/WTpooled	1.13494	0.839
IL1-4/WTpooled	1.05069	1
WT/WTpooled	0.93607	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	1.09154	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06103	0.921
DC3000/delta hrp 6h	0.89225	0.95
DC3000/delta hrp 12h	1.11191	1
DC3000/delta hrp 24h	1.06225	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87153	0.765
DC3000 delta B/DC3000 delta AB	0.78541	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.31364	1
Exp 36h	0.732	0.504
Exp 60h	1.00592	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00009	1
Var 0h	1.07864	1
Var 12h I row2-row1	1.03369	1
Var 12h NI row2-row1	0.80946	0.349
Var 36h I row2-row1	0.69604	1
Var 36h NI row2-row1	0.90276	0.706
Var 60h I row2-row1	1.16486	0.562
Var 60h NI row2-row1	1.04862	1
Time course 0hI-0hNI	1.02326	0.833
Time course 12hI-12hNI	0.99609	1
Time course 36hI-36hNI	0.92721	0.26
Time course 60hI-60hNI	1.12801	0.096

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)	0.99435	0.862
transgenic ySAMdc/azygous control (breaker)	0.92084	0.142
transgenic ySAMdc/azygous control (red)	1.16075	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0079	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20127	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57006	0.172
Manapal/WT (break)	0.78887	1
Manapal/WT (red)	1.04498	1