Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83713	0.347
27DAP/17DAP	0.7451	0.248
39DAP/27DAP	0.90079	0.537
41DAP/39DAP	1.10015	0.483
42DAP/41DAP	1.05623	0.967
43DAP/42DAP	1.06056	1
47DAP/43DAP	1.04457	0.793
52DAP/47DAP	1.04131	0.922
57DAP/52DAP	0.85163	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.95871	0.007
17DAP/reference	1.27366	0.166
27DAP/reference	0.92463	0.349
39DAP/reference	1.06476	0.615
41DAP/reference	1.12945	0.393
42DAP/reference	1.54848	0.001
43DAP/reference	1.11215	0.758
47DAP/reference	1.4971	0.008
52DAP/reference	0.95333	0.405
57DAP/reference	1.02179	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93092	0.428
27DAP/17DAP	0.91879	0.782
39DAP/27DAP	0.94426	0.55
41DAP/39DAP	0.99926	1
42DAP/41DAP	0.92569	0.443
43DAP/42DAP	0.9731	0.751
47DAP/43DAP	1.01	0.969
52DAP/47DAP	1.07622	0.756
57DAP/52DAP	1.01815	1
57DAP/7DAP	1.21046	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98725	0.613
17DAP/reference	0.92635	0.124
27DAP/reference	1.09446	0.371
39DAP/reference	0.84695	0.146
41DAP/reference	0.95213	0.394
42DAP/reference	1.13792	0.174
43DAP/reference	0.95109	0.334
47DAP/reference	1.31709	0.21
52DAP/reference	0.84631	0.083
57DAP/reference	0.8006	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45835	0.146
17DAP/reference	1.81685	0.007
27DAP/reference	1.9321	0.017
39DAP/reference	1.65262	0.041
41DAP/reference	1.53565	0.007
42DAP/reference	1.5069	0.008
43DAP/reference	1.26997	0.144
47DAP/reference	1.68107	0.008
52DAP/reference	1.12291	0.259
57DAP/reference	1.31318	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0454	0.56
17DAP/reference	1.07487	0.988
27DAP/reference	1.02527	0.903
39DAP/reference	0.98708	0.643
41DAP/reference	0.97129	0.618
42DAP/reference	1.507	0.06
43DAP/reference	1.63414	0.105
47DAP/reference	1.31057	0.011
52DAP/reference	1.83482	0.212
57DAP/reference	1.47342	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13416	0.966
26DAP/20DAP	1.05531	1
34DAP/26DAP	1.33684	0.304
51DAP/34DAP	0.97014	0.824
52DAP/51DAP	1.177	0.335
53DAP/52DAP	0.99109	0.951
55DAP/53DAP	1.03153	0.989
57DAP/55DAP	0.96808	0.828
62DAP/57DAP	1.35567	0.393
68DAP/62DAP	0.77056	0.668
68DAP/14DAP	0.98984	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81547	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22824	0.075
Mature Green Tomato/Ripe Tomato	1.58813	0.058
Immature Eggplant/Mature Eggplant	0.98407	1
Ripe Pepper/Ripe Tomato	0.9918	1
Mature Eggplant/Ripe Tomato	1.10677	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91556
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.89305	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.91894	0.487
4-3/M82	1.42548
5-3/M82	1.07198	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.9017
9-3-2/M82	0.85116	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.72385	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.75086	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.77048	0.444
WT/WTpooled	N/A	N/A

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	0.88005	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04964	0.921
DC3000/delta hrp 6h	1.42684	1
DC3000/delta hrp 12h	1.11411	1
DC3000/delta hrp 24h	1.46668	0.182

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58813	0.053
DC3000 delta B/DC3000 delta AB	0.6374	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90008	1
Exp 36h	1.15345	1
Exp 60h	0.91774	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.985	1
Var 0h	1.03414	1
Var 12h I row2-row1	0.73885	0.418
Var 12h NI row2-row1	1.037	1
Var 36h I row2-row1	0.84684	0.374
Var 36h NI row2-row1	1.1204	1
Var 60h I row2-row1	1.29963	0.562
Var 60h NI row2-row1	1.06925	0.904
Time course 0hI-0hNI	1.02044	0.852
Time course 12hI-12hNI	0.99768	1
Time course 36hI-36hNI	0.76067	0.023
Time course 60hI-60hNI	0.18487	0.005

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)	0.97109	0.614
transgenic ySAMdc/azygous control (breaker)	1.58289	0.248
transgenic ySAMdc/azygous control (red)	1.34633	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.22432	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86168	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9616	1
Manapal/WT (break)	1.13232	1
Manapal/WT (red)	1.01752	1