Lizio 2017, Transcription profiling in dog tissues.

TSS mapping done with CAGE of dog (Canis lupus familiaris) aortic smooth muscle cell, hepatocyte and mesenchymal stem cells.

• Raw data was downloaded from: FANTOM5
• Input file format: BAM
• Download date: 2-7-2018

From C. familiaris (Sep 2011 CanFam3.1/canFam3).

Transcription Profiling data:

	Filename	Description	Feature	GEO-ID
1	CanineAorticSmoothMuscleCells-Differentiated_cDonor2.CNhs11066.11471-119C4.canFam3.nobarcode.sga	Aortic Smooth Muscle cells|differentiated|donor2	CAGE	-
2	CanineAorticSmoothMuscleCells-Differentiated_cDonor3.CNhs11053.11472-119C5.canFam3.nobarcode.sga	Aortic Smooth Muscle cells|differentiated|donor3	CAGE	-
3	CanineAorticSmoothMuscleCells_cDonor1.CNhs11895.11297-117B1.canFam3.nobarcode.sga	Aortic Smooth Muscle cells|donor1	CAGE	-
4	CanineAorticSmoothMuscleCells_cDonor2.CNhs11300.11374-118A6.canFam3.nobarcode.sga	Aortic Smooth Muscle cells|donor2	CAGE	-
5	CanineAorticSmoothMuscleCells_cDonor3.CNhs11070.11446-118I6.canFam3.nobarcode.sga	Aortic Smooth Muscle cells|donor3	CAGE	-
6	CanineMesenchymalStemCells-BoneMarrowDerived_cDonor1.CNhs11291.11293-117A6.canFam3.nobarcode.sga	Mesenchymal stem cells|bone marrow derived|donor1	CAGE	-
7	CanineMesenchymalStemCells-BoneMarrowDerived_cDonor2.CNhs11304.11370-118A2.canFam3.nobarcode.sga	Mesenchymal stem cells|bone marrow derived|donor2	CAGE	-
8	CanineMesenchymalStemCells-BoneMarrowDerived_cDonor3.CNhs11310.11442-118I2.canFam3.nobarcode.sga	Mesenchymal stem cells|bone marrow derived|donor3	CAGE	-
9	CanineHepatocytes_cDonor1.CNhs10873.11244-116E2.canFam3.nobarcode.sga	hepatocytes|donor1	CAGE	-
10	CanineHepatocytes_cDonor2.CNhs11069.11325-117E2.canFam3.nobarcode.sga	hepatocytes|donor2	CAGE	-
11	CanineHepatocytes_cDonor3.CNhs11308.11407-118E3.canFam3.nobarcode.sga	hepatocytes|donor3	CAGE	-
12	UniversalRNA-DogNormalTissuesBiochain_cPool1.CNhs10590.10006-101B2.canFam3.nobarcode.sga	Universal RNA|Dog Normal Tissues Biochain|pool1	CAGE	-

BAM files were converted to BED using bamToBed v2.12.0 ( bedtools) and to SGA using bed2sga.pl (ChIP-Seq v. 1.5.3).

• Lizio M, Mukarram AK, Ohno M, Watanabe S, Itoh M, Hasegawa A, Lassmann T, Severin J, Harshbarger J, Abugessaisa I, Kasukawa T, Hon CC, Carninci P, Hayashizaki Y, Forrest ARR, Kawaji H
  Monitoring transcription initiation activities in rat and dog. Sci Data. 2017 Nov 28;4:170173. doi: 10.1038/sdata.2017.173. 29182598