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BarkBase :
BarkBase : Epigenomic Annotation of Canine Genomes
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- Megquier, Kate (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Genereux, Diane P. (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Hekman, Jessica (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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visa fler...
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- Swofford, Ross (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Turner-Maier, Jason (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Johnson, Jeremy (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Alonso, Jacob (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Li, Xue (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA;Univ Massachusetts, Bioinformat & Integrat Biol, Med Sch, Worcester, MA 01655 USA
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- Morrill, Kathleen (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA;Univ Massachusetts, Bioinformat & Integrat Biol, Med Sch, Worcester, MA 01655 USA
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- Anguish, Lynne J. (författare)
- Cornell Univ, Coll Vet Med, Baker Inst Anim Hlth, Ithaca, NY 14853 USA
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- Koltookian, Michele (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Logan, Brittney (författare)
- Univ Massachusetts, Bioinformat & Integrat Biol, Med Sch, Worcester, MA 01655 USA
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- Sharp, Claire R. (författare)
- Murdoch Univ, Coll Vet Med, Sch Vet & Life Sci, Murdoch, WA 6150, Australia
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- Ferrer, Lluis (författare)
- Univ Autonoma Barcelona, Dept Med & Cirurgia Anim, Vet Sch, E-08193 Barcelona, Spain
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- Lindblad-Toh, Kerstin (författare)
- Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA
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- Meyers-Wallen, Vicki N. (författare)
- Cornell Univ, Coll Vet Med, Baker Inst Anim Hlth, Ithaca, NY 14850 USA;Cornell Univ, Coll Vet Med, Dept Biomed Sci, Ithaca, NY 14850 USA
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- Hoffman, Andrew (författare)
- Univ Penn, Sch Vet Med, Philadelphia, PA 19104 USA;Tufts Univ, Cummings Sch Vet Med, Grafton, MA 01536 USA
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- Karlsson, Elinor K. (författare)
- Broad Inst MIT & Harvard, Vertebrate Genom, Cambridge, MA 02142 USA;Univ Massachusetts, Bioinformat & Integrat Biol, Med Sch, Worcester, MA 01655 USA;Univ Massachusetts, Med Sch, Program Mol Med, Worcester, MA 01655 USA
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(creator_code:org_t)
- 2019-06-07
- 2019
- Engelska.
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Ingår i: Genes. - : MDPI. - 2073-4425. ; 10:6
- Relaterad länk:
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https://doi.org/10.3...
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https://uu.diva-port... (primary) (Raw object)
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https://www.mdpi.com...
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https://urn.kb.se/re...
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https://doi.org/10.3...
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Abstract
Ämnesord
Stäng
- Dogs are an unparalleled natural model for investigating the genetics of health and disease, particularly for complex diseases like cancer. Comprehensive genomic annotation of regulatory elements active in healthy canine tissues is crucial both for identifying candidate causal variants and for designing functional studies needed to translate genetic associations into disease insight. Currently, canine geneticists rely primarily on annotations of the human or mouse genome that have been remapped to dog, an approach that misses dog-specific features. Here, we describe BarkBase, a canine epigenomic resource available at barkbase.org. BarkBase hosts data for 27 adult tissue types, with biological replicates, and for one sample of up to five tissues sampled at each of four carefully staged embryonic time points. RNA sequencing is complemented with whole genome sequencing and with assay for transposase-accessible chromatin using sequencing (ATAC-seq), which identifies open chromatin regions. By including replicates, we can more confidently discern tissue-specific transcripts and assess differential gene expression between tissues and timepoints. By offering data in easy-to-use file formats, through a visual browser modeled on similar genomic resources for human, BarkBase introduces a powerful new resource to support comparative studies in dogs and humans.
Ämnesord
- NATURVETENSKAP -- Biologi -- Genetik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Genetics (hsv//eng)
Nyckelord
- dog
- expression
- genome
- annotation
- ATAC-seq
- RNA-seq
- epigenomic
- canine
- comparative
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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Megquier, Kate
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Genereux, Diane ...
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Hekman, Jessica
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Swofford, Ross
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Turner-Maier, Ja ...
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Johnson, Jeremy
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visa fler...
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Alonso, Jacob
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Li, Xue
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Morrill, Kathlee ...
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Anguish, Lynne J ...
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Koltookian, Mich ...
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Logan, Brittney
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Sharp, Claire R.
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Ferrer, Lluis
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Lindblad-Toh, Ke ...
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Meyers-Wallen, V ...
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Hoffman, Andrew
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Karlsson, Elinor ...
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Uppsala universitet