Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05191	0.904
27DAP/17DAP	0.92357	0.877
39DAP/27DAP	1.10053	0.81
41DAP/39DAP	1.00445	0.985
42DAP/41DAP	1.2436	0.863
43DAP/42DAP	0.91654	0.833
47DAP/43DAP	0.78685	0.382
52DAP/47DAP	1.05228	0.969
57DAP/52DAP	1.09632	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04076	0.844
17DAP/reference	0.80534	0.053
27DAP/reference	1.10747	0.339
39DAP/reference	0.88839	0.221
41DAP/reference	0.9839	0.814
42DAP/reference	1.18649	0.2
43DAP/reference	0.96363	0.576
47DAP/reference	1.30951	0.004
52DAP/reference	1.61609	0.018
57DAP/reference	1.35307	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01651	0.91
27DAP/17DAP	0.84905	0.684
39DAP/27DAP	0.9486	0.812
41DAP/39DAP	1.2839	0.59
42DAP/41DAP	0.91711	0.484
43DAP/42DAP	1.2486	0.699
47DAP/43DAP	1.23881	0.708
52DAP/47DAP	1.29552	0.524
57DAP/52DAP	1.11877	0.451
57DAP/7DAP	1.98832	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81894	0.138
17DAP/reference	0.89389	0.22
27DAP/reference	0.94963	0.348
39DAP/reference	0.82718	0.083
41DAP/reference	0.88674	0.153
42DAP/reference	0.80424	0.011
43DAP/reference	1.00913	0.694
47DAP/reference	1.10728	0.761
52DAP/reference	1.03402	1
57DAP/reference	0.86394	0.039

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68781	0.064
17DAP/reference	0.74486	0.063
27DAP/reference	0.92083	0.366
39DAP/reference	1.14897	0.956
41DAP/reference	1.06987	1
42DAP/reference	1.19754	0.099
43DAP/reference	0.95382	0.438
47DAP/reference	0.90353	0.154
52DAP/reference	1.0754	0.988
57DAP/reference	0.73352	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95997	0.362
17DAP/reference	1.17639	0.261
27DAP/reference	0.94959	0.302
39DAP/reference	0.94437	0.299
41DAP/reference	0.93099	0.293
42DAP/reference	1.12373	1
43DAP/reference	1.46848	0.296
47DAP/reference	1.22078	0.48
52DAP/reference	1.17752	0.837
57DAP/reference	1.53211	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04708	1
26DAP/20DAP	0.9449	1
34DAP/26DAP	1.03144	1
51DAP/34DAP	0.99369	0.927
52DAP/51DAP	1.00485	0.965
53DAP/52DAP	0.91028	0.803
55DAP/53DAP	0.9418	0.698
57DAP/55DAP	1.11902	0.881
62DAP/57DAP	1.20633	0.868
68DAP/62DAP	2.13902	0.31
68DAP/14DAP	1.3426	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.63687	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.87446	0.446
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.50224

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	0.7861	0.298
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	0.8974
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	1.03946	0.531
IL7-5/WTpooled	0.27912
IL7-3/WTpooled	0.91888	1
IL12-4/WTpooled	0.99409	1
IL1-4/WTpooled	1.01657	1
WT/WTpooled	1.12308	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	0.94279	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96155	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.19785	1
DC3000/delta hrp 24h	0.9552	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24155
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	0.96958	1
Var 0h	0.95925	1
Var 12h I row2-row1	0.89728	0.627
Var 12h NI row2-row1	1.05175	1
Var 36h I row2-row1	0.91436	0.805
Var 36h NI row2-row1	0.54825	0.584
Var 60h I row2-row1	0.9093	0.832
Var 60h NI row2-row1	0.84771	0.904
Time course 0hI-0hNI	0.98189	0.947
Time course 12hI-12hNI	0.96665	0.742
Time course 36hI-36hNI	1.04241	1
Time course 60hI-60hNI	1.32298	0.216

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.04145	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.55133	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.84709	1
Manapal/WT (red)	0.96395	0.863