Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.18.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75706	0.178
27DAP/17DAP	1.23638	0.833
39DAP/27DAP	1.06538	0.927
41DAP/39DAP	1.00486	0.845
42DAP/41DAP	1.21532	0.899
43DAP/42DAP	0.97925	0.925
47DAP/43DAP	0.95217	0.799
52DAP/47DAP	1.56779	0.385
57DAP/52DAP	0.89125	0.878

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7969	0.047
17DAP/reference	0.77158	0.019
27DAP/reference	0.94506	0.484
39DAP/reference	1.02674	0.957
41DAP/reference	0.85384	0.085
42DAP/reference	0.85809	0.013
43DAP/reference	0.83488	0.037
47DAP/reference	0.88148	0.083
52DAP/reference	0.9704	0.489
57DAP/reference	1.04642	0.662

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09724	0.438
27DAP/17DAP	1.1894	0.719
39DAP/27DAP	0.80123	0.231
41DAP/39DAP	1.09284	0.801
42DAP/41DAP	0.85831	0.599
43DAP/42DAP	0.90438	0.576
47DAP/43DAP	0.46112	0.543
52DAP/47DAP	1.09472	0.907
57DAP/52DAP	1.15684	0.823
57DAP/7DAP	2.03418	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52031	0.09
17DAP/reference	1.56742	0.009
27DAP/reference	1.42004	0.008
39DAP/reference	1.32755	0.012
41DAP/reference	1.51081	0.033
42DAP/reference	1.61363	0.006
43DAP/reference	1.52913	0.009
47DAP/reference	1.07836	0.837
52DAP/reference	1.53232	0.009
57DAP/reference	1.75693	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07979	0.679
17DAP/reference	0.86918	0.189
27DAP/reference	0.90725	0.22
39DAP/reference	1.11704	0.824
41DAP/reference	1.015	0.615
42DAP/reference	1.20039	0.649
43DAP/reference	0.85417	0.147
47DAP/reference	0.82844	0.014
52DAP/reference	0.86758	0.156
57DAP/reference	0.96365	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20143	0.196
17DAP/reference	1.10369	0.631
27DAP/reference	1.4589	0.023
39DAP/reference	1.37052	0.024
41DAP/reference	1.25903	0.15
42DAP/reference	1.29097	0.313
43DAP/reference	1.53139	0.157
47DAP/reference	0.89922	0.215
52DAP/reference	1.24631	0.463
57DAP/reference	1.12108	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.44403	0.966
26DAP/20DAP	1.16227
34DAP/26DAP	1.09511	1
51DAP/34DAP	1.68475	0.429
52DAP/51DAP	1.15718	0.873
53DAP/52DAP	1.24063	0.113
55DAP/53DAP	1.37377	0.555
57DAP/55DAP	0.76883	0.415
62DAP/57DAP	0.98573	0.994
68DAP/62DAP	1.4933	0.635
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90089	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.27164	0.045
Immature Eggplant/Mature Eggplant	25.34	0.043
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	51.5981

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	0.83946
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	0.72664
5-3/M82	2.38327
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	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	1.24908	0.894
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.85389	1
DC3000/delta hrp 24h	1.04042	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0634
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	1.55409	1
Exp 60h	1.65627	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	1.1374	1
Var 0h	0.89694	0.457
Var 12h I row2-row1	0.48757
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.67968	1
Var 36h NI row2-row1	0.96279	1
Var 60h I row2-row1	0.77401	0.832
Var 60h NI row2-row1	2.12994
Time course 0hI-0hNI	1.11502	1
Time course 12hI-12hNI	1.1332	1
Time course 36hI-36hNI	1.02016	1
Time course 60hI-60hNI	27.4132	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)	1.15072	0.931
transgenic ySAMdc/azygous control (breaker)	1.29845	1
transgenic ySAMdc/azygous control (red)	1.18065	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01953	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23394	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92384	1
Manapal/WT (break)	1.39277	0.123
Manapal/WT (red)	0.6274	0.607