Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14842	0.911
27DAP/17DAP	1.60588	0.778
39DAP/27DAP	2.87246	0.365
41DAP/39DAP	0.96122	0.659
42DAP/41DAP	1.15511	0.745
43DAP/42DAP	0.94285	0.887
47DAP/43DAP	1.01759	0.92
52DAP/47DAP	0.96606	0.89
57DAP/52DAP	1.00394	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97025	0.589
17DAP/reference	0.69693	0.043
27DAP/reference	0.87572	0.395
39DAP/reference	0.61887	0.009
41DAP/reference	0.57835	0.016
42DAP/reference	0.62043	0.006
43DAP/reference	0.74268	0.148
47DAP/reference	0.73286	0.042
52DAP/reference	1.0461	0.546
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83819	0.388
27DAP/17DAP	2.03414	0.062
39DAP/27DAP	1.23634	0.685
41DAP/39DAP	1.11403	0.896
42DAP/41DAP	1.40954	0.809
43DAP/42DAP	1.29519	0.176
47DAP/43DAP	0.59673	0.055
52DAP/47DAP	1.54061	0.156
57DAP/52DAP	1.73533	0.601
57DAP/7DAP	2.30348	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3663	0.119
17DAP/reference	1.31256	0.07
27DAP/reference	1.14497	0.301
39DAP/reference	1.30125	0.198
41DAP/reference	1.09577	0.812
42DAP/reference	1.09807	1
43DAP/reference	1.24827	0.241
47DAP/reference	1.17349	0.582
52DAP/reference	0.96546	0.435
57DAP/reference	1.19324	0.053

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08996	0.885
17DAP/reference	0.85622	0.201
27DAP/reference	1.1628	0.516
39DAP/reference	1.16566	0.602
41DAP/reference	1.24677	0.318
42DAP/reference	1.03692	1
43DAP/reference	1.02998	0.761
47DAP/reference	0.83741	0.094
52DAP/reference	0.89449	0.156
57DAP/reference	0.83582	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21522	0.119
17DAP/reference	0.74437	0.092
27DAP/reference	1.3682	0.026
39DAP/reference	1.20403	0.069
41DAP/reference	1.02865	1
42DAP/reference	1.02952	0.743
43DAP/reference	1.00947	0.858
47DAP/reference	0.80876	0.031
52DAP/reference	1.26305	0.491
57DAP/reference	1.02419	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15101	0.966
26DAP/20DAP	0.96093	1
34DAP/26DAP	1.0477	1
51DAP/34DAP	0.70608
52DAP/51DAP	0.93067	1
53DAP/52DAP	1.07661	0.783
55DAP/53DAP	1.42236	0.653
57DAP/55DAP	1.13593	0.826
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.16317	0.597
68DAP/14DAP	1.45859	0.099

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.689	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	4.57195

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.2644
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02257	1
IL2-6/WTpooled	1.55451
IL7-5/WTpooled	0.57754	0.483
IL7-3/WTpooled	0.83047
IL12-4/WTpooled	1.50629
IL1-4/WTpooled	1.10641	0.426
WT/WTpooled	1.11048	0.911

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92148	1
DC3000/delta hrp 6h	0.15444
DC3000/delta hrp 12h	0.99156	1
DC3000/delta hrp 24h	0.90107	0.692

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	N/A	N/A

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	1.03383	1
Var 0h	0.98319	0.421
Var 12h I row2-row1	0.91169	0.39
Var 12h NI row2-row1	0.796	0.488
Var 36h I row2-row1	1.00529	1
Var 36h NI row2-row1	2.07488	1
Var 60h I row2-row1	1.85626
Var 60h NI row2-row1	1.10585	0.904
Time course 0hI-0hNI	0.97809	0.911
Time course 12hI-12hNI	0.98076	0.889
Time course 36hI-36hNI	0.87543	0.102
Time course 60hI-60hNI	0.55047	0.006

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)	0.98023	0.32
transgenic ySAMdc/azygous control (breaker)	1.08344	1
transgenic ySAMdc/azygous control (red)	1.19008	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8797	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88644	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96032	1
Manapal/WT (break)	0.92522	1
Manapal/WT (red)	1.14567	0.413