Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16909	0.893
27DAP/17DAP	1.05102	0.92
39DAP/27DAP	1.84006	0.109
41DAP/39DAP	1.2293	1
42DAP/41DAP	0.65486	0.397
43DAP/42DAP	0.81359	0.705
47DAP/43DAP	1.76747	0.326
52DAP/47DAP	1.19456	0.671
57DAP/52DAP	0.96941	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00564	0.844
17DAP/reference	0.98013	0.664
27DAP/reference	0.86954	0.015
39DAP/reference	1.12346	0.326
41DAP/reference	0.97235	0.667
42DAP/reference	0.89003	0.163
43DAP/reference	0.99804	0.882
47DAP/reference	0.97025	0.418
52DAP/reference	1.01802	1
57DAP/reference	1.14174	0.073

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91873	0.613
27DAP/17DAP	1.10338	0.968
39DAP/27DAP	1.31386	0.253
41DAP/39DAP	0.70124	0.038
42DAP/41DAP	1.06711	0.924
43DAP/42DAP	1.23716
47DAP/43DAP	1.07196	0.772
52DAP/47DAP	0.8353	0.426
57DAP/52DAP	0.94384	0.685
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91674	0.326
17DAP/reference	1.05093	0.477
27DAP/reference	1.08333	0.551
39DAP/reference	1.22086	0.282
41DAP/reference	1.36619	0.08
42DAP/reference	1.29121	0.03
43DAP/reference	1.17498	0.167
47DAP/reference	1.25283	0.045
52DAP/reference	1.04368	1
57DAP/reference	0.8754	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03635	0.884
17DAP/reference	0.97135	0.561
27DAP/reference	0.95993	0.452
39DAP/reference	0.99016	0.554
41DAP/reference	0.94327	0.357
42DAP/reference	1.14872	0.342
43DAP/reference	1.14149	1
47DAP/reference	1.06985	0.498
52DAP/reference	0.96609
57DAP/reference	0.99866	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03648	0.984
17DAP/reference	0.86565	0.234
27DAP/reference	1.17167	0.033
39DAP/reference	1.01508	0.987
41DAP/reference	0.9781	0.56
42DAP/reference	1.07247	0.45
43DAP/reference	1.16945	0.827
47DAP/reference	0.98379	0.558
52DAP/reference	2.50905	0.062
57DAP/reference	1.22624	0.2

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88959	0.997
26DAP/20DAP	1.05927	1
34DAP/26DAP	1.61878	0.304
51DAP/34DAP	1.54241	0.854
52DAP/51DAP	1.04134	0.836
53DAP/52DAP	1.32965	0.221
55DAP/53DAP	1.07472	0.938
57DAP/55DAP	1.00558	0.867
62DAP/57DAP	0.82493	0.466
68DAP/62DAP	0.9611	0.787
68DAP/14DAP	1.09768	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03487	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.09502	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.21917	0.293
Mature Eggplant/Ripe Tomato	0.09858	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.3342	0.574
1-1-2/M82	1.17532	1
12-2/M82	1.00012	1
12-4/M82	0.96519	1
1-3/M82	0.79196
2-1-1/M82	1.09575	1
2-1/M82	N/A	N/A
2-6/M82	1.03528	1
3-2/M82	1.06281	1
4-1-1/M82	1.09402	1
4-1/M82	1.31955
4-3-2/M82	1.16412	1
4-3/M82	1.32229	1
5-3/M82	1.02667	1
6-2/M82	0.93533
6-3/M82	0.93707	1
7-1/M82	0.99153
7-2/M82	0.89719
9-3-2/M82	1.2165

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.29756
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.953	1
IL12-4/WTpooled	1.14744	0.595
IL1-4/WTpooled	1.008
WT/WTpooled	0.96871	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	1.64285	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16387	0.774
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.256	1
DC3000/delta hrp 24h	1.25337	0.212

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	0.44161

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	2.16668	1
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	1.1824	1
Var 0h	1.18757	0.782
Var 12h I row2-row1	1.00359	0.272
Var 12h NI row2-row1	0.88196	0.82
Var 36h I row2-row1	1.08787	1
Var 36h NI row2-row1	1.00363	1
Var 60h I row2-row1	1.00202	1
Var 60h NI row2-row1	0.90448	0.458
Time course 0hI-0hNI	1.00844	1
Time course 12hI-12hNI	1.67296	0.024
Time course 36hI-36hNI	3.20889	0.316
Time course 60hI-60hNI	8.27911	0.008

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)	1.17999	0.654
transgenic ySAMdc/azygous control (breaker)	0.93198	0.173
transgenic ySAMdc/azygous control (red)	1.23088	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96862	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98995	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72961	0.172
Manapal/WT (break)	1.05864	1
Manapal/WT (red)	0.99566	1