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4
scPipe: an extended preprocessing pipeline for comprehensive single-cell ATAC-Seq data integration in R/Bioconductor. 미리보기

학술저널

issue
NAR genomics and bioinformatics [NAR Genom Bioinform] 2023 Nov 30; Vol. 5 (4), pp. lqad105. Date of Electronic Publication: 2023 Nov 30 (Print Publication: 2023).
Author
Amarasinghe SL; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.; The Australian Regenerative Medicine Institute, Monash University, Clayton, Victoria, 3800, Australia.
Yang P; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.
Voogd O; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.
Yang H; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.
Du MRM; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.
Su S; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.
Brown DV; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.; Department of Medical Biology, The University of Melbourne, Parkville, Victoria, 3010, Australia.
Jabbari JS; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.; Department of Medical Biology, The University of Melbourne, Parkville, Victoria, 3010, Australia.
Bowden R; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.; Department of Medical Biology, The University of Melbourne, Parkville, Victoria, 3010, Australia.
Ritchie ME; The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, 3052, Australia.; Department of Medical Biology, The University of Melbourne, Parkville, Victoria, 3010, Australia.
DB Label
Database : MEDLINE
원문보기
Open Access (OUP)  Open Access (PubMed Central)  등재 - SCOPUS 
5
Systematic assessment of long-read RNA-seq methods for transcript identification and quantification. 미리보기

issue
BioRxiv : the preprint server for biology [bioRxiv] 2023 Jul 27. Date of Electronic Publication: 2023 Jul 27.
Author
Pardo-Palacios FJ; Institute for Integrative Systems Biology, Spanish National Research Council (CSIC), Paterna, Spain.; These authors contributed equally to this work.
Wang D; Department of Biomedical Informatics, The Ohio State University, Columbus, USA.; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, USA.; These authors contributed equally to this work.
Reese F; Developmental and Cell Biology, University of California, Irvine, Irvine, USA.; Center for Complex Biological Systems, University of California, Irvine, Irvine, USA.; These authors contributed equally to this work.
Diekhans M; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, USA.; These authors contributed equally to this work.
Carbonell-Sala S; Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Catalonia, Spain.; These authors contributed equally to this work.
Williams B; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, USA.; These authors contributed equally to this work.
Loveland JE; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.; These authors contributed equally to this work.
De María M; Department of Physiological Sciences, College of Veterinary Medicine, University of Florida, Gainesville, USA.; Center for Environmental and Human Toxicology, University of Florida, Gainesville, USA.; These authors contributed equally to this work.
Adams MS; Molecular Cell and Developmental Biology, University of California, Santa Cruz, Santa Cruz, USA.; These authors contributed equally to this work.
Balderrama-Gutierrez G; Developmental and Cell Biology, University of California, Irvine, Irvine, USA.; Center for Complex Biological Systems, University of California, Irvine, Irvine, USA.; These authors contributed equally to this work.
Behera AK; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.; These authors contributed equally to this work.
Gonzalez JM; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.; These authors contributed equally to this work.
Hunt T; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.; These authors contributed equally to this work.
Lagarde J; Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Catalonia, Spain.; Flomics Biotech, Dr Aiguader 88, Barcelona 08003, Spain.; These authors contributed equally to this work.
Liang CE; Molecular Cell and Developmental Biology, University of California, Santa Cruz, Santa Cruz, USA.; These authors contributed equally to this work.
Li H; Department of Biomedical Informatics, The Ohio State University, Columbus, USA.; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, USA.; These authors contributed equally to this work.
Jerryd Meade M; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, USA.; These authors contributed equally to this work.
Moraga Amador DA; Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, USA.; These authors contributed equally to this work.
Prjibelski AD; Department of Computer Science, University of Helsinki, Helsinki, Finland.; Center for Bioinformatics and Algorithmic Biotechnology, Institute of Translational Biomedicine, St. Petersburg State University, St. Petersburg, Russia.; These authors contributed equally to this work.
Birol I; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, Canada.
Bostan H; Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences, Durham, USA.
Brooks AM; Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences, Durham, USA.
Hasan Çelik M; Developmental and Cell Biology, University of California, Irvine, Irvine, USA.; Center for Complex Biological Systems, University of California, Irvine, Irvine, USA.
Chen Y; Genome Institute of Singapore (GIS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
Du MRM; Walter and Eliza Hall Institute of Medical Research, Parkville, Australia.
Felton C; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
Göke J; Genome Institute of Singapore (GIS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.; Department of Statistics and Data Science, National University of Singapore, Singapore, Singapore.
Hafezqorani S; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, Canada.
Herwig R; Department Computational Molecular Biology, Max-Planck-Institute for Molecular Genetics, Berlin, Germany.
Kawaji H; Research Center for Genome & Medical Sciences, Tokyo Metropolitan Institute of Medical Science, Tokyo, Japan.
Lee J; Genome Institute of Singapore (GIS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
Liang Li J; Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences, Durham, USA.
Lienhard M; Department Computational Molecular Biology, Max-Planck-Institute for Molecular Genetics, Berlin, Germany.
Mikheenko A; Department of Neuromuscular Diseases, UCL Queen Square Institute of Neurology, London, UK.
Mulligan D; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
Ming Nip K; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, Canada.
Pertea M; Department of Biomedical Engineering, Johns Hopkins University, Baltimore, USA.; Center for Computational Biology, Johns Hopkins University, Baltimore, USA.
Ritchie ME; Walter and Eliza Hall Institute of Medical Research, Parkville, Australia.; Department of Medical Biology, The University of Melbourne, Parkville, Australia.
Sim AD; Genome Institute of Singapore (GIS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
Tang AD; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
Kei Wan Y; Genome Institute of Singapore (GIS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.; Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore.
Wang C; Walter and Eliza Hall Institute of Medical Research, Parkville, Australia.
Wong BY; Department of Biomedical Engineering, Johns Hopkins University, Baltimore, USA.; Center for Computational Biology, Johns Hopkins University, Baltimore, USA.
Yang C; Canada's Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, Canada.
Barnes I; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
Berry A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
Capella S; Barcelona Supercomputing Cente, Barcelona, Spain.
Dhillon N; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
Fernandez-Gonzalez JM; Barcelona Supercomputing Cente, Barcelona, Spain.
Ferrández-Peral L; Institute for Integrative Systems Biology, Spanish National Research Council (CSIC), Paterna, Spain.
Garcia-Reyero N; Environmental Laboratory, US Army Engineer Research & Development Center, Vicksburg, USA.
Goetz S; Biobam Bioinformatics SL, Valencia, Spain.
Hernández-Ferrer C; Barcelona Supercomputing Cente, Barcelona, Spain.
Kondratova L; Genetics Institute, University of Florida, Gainesville, USA.
Liu T; Cardiff University, Cardiff, UK.
Martinez-Martin A; Institute for Integrative Systems Biology, Spanish National Research Council (CSIC), Paterna, Spain.
Menor C; Biobam Bioinformatics SL, Valencia, Spain.
Mestre-Tomás J; Institute for Integrative Systems Biology, Spanish National Research Council (CSIC), Paterna, Spain.
Mudge JM; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
Panayotova NG; Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, USA.
Paniagua A; Institute for Integrative Systems Biology, Spanish National Research Council (CSIC), Paterna, Spain.
Repchevsky D; Barcelona Supercomputing Cente, Barcelona, Spain.
Rouchka E; Department of Biochemistry & Molecular Genetics, University of Louisville, Louisville, USA.
Saint-John B; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
Sapena E; European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK, UK.
Sheynkman L; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, USA.
Laird Smith M; Department of Biochemistry & Molecular Genetics, University of Louisville, Louisville, USA.
Suner MM; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
Takahashi H; Center for Integrative Medical Sciences, Laboratory for Transcriptome Technology, RIKEN, Yokohama, Japan.
Youngworth IA; Department of Genetics, Stanford University, Palo Alto, USA.
Carninci P; Center for Integrative Medical Sciences, Laboratory for Transcriptome Technology, RIKEN, Yokohama, Japan.; Human Technopole, Milano, Italy.
Denslow ND; Department of Physiological Sciences, College of Veterinary Medicine, University of Florida, Gainesville, USA.; Center for Environmental and Human Toxicology, Department of Physiological Sciences,, University of Florida, Gainesville, USA.
Guigó R; Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Dr. Aiguader 88, Barcelona 08003, Catalonia, Spain.; Universitat Pompeu Fabra (UPF), Barcelona, Catalonia, Spain.
Hunter ME; U.S. Geological Survey, Wetland and Aquatic Research Center, Gainesville, USA.
Tilgner HU; Brain and Mind Research Institute and Center for Neurogenetics, Weill Cornell Medicine, New York City, USA.
Wold BJ; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, USA.
Vollmers C; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
Frankish A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
Fai Au K; Department of Biomedical Informatics, The Ohio State University, Columbus, USA.; Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, USA.
Sheynkman GM; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, USA.; Center for Public Health Genomics.; UVA Cancer Center, University of Virginia, Charlottesville, USA.
Mortazavi A; Developmental and Cell Biology, University of California, Irvine, Irvine, USA.; Center for Complex Biological Systems, University of California, Irvine, Irvine, USA.
Conesa A; Institute for Integrative Systems Biology, Spanish National Research Council (CSIC), Paterna, Spain.; Microbiology and Cell Science Department, Institute for Food and Agricultural Sciences, University of Florida, Gainesville, USA.
Brooks AN; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, USA.; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, USA.
DB Label
Database : MEDLINE
6
Corrigendum to 'A transcriptomic dataset evaluating the effect of radiotherapy injury on cells of skin and soft tissue' Data in Brief 41 (2022) 107828. 미리보기

issue
Data in brief [Data Brief] 2022 Jun 06; Vol. 43, pp. 108358. Date of Electronic Publication: 2022 Jun 06 (Print Publication: 2022).
Author
Shuka L; O'Brien Institute Department, St Vincent's Institute for Medical Research, Fitzroy, Victoria 3065, Australia.; Department of Plastic Surgery, The Alfred Hospital, Prahran, Victoria 3004, Australia.; Department of Plastic Surgery, St. Vincent's Hospital, Fitzroy, Victoria 3065, Australia.
Lee SA; Epigenetics and Development Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Du MRM; Epigenetics and Development Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Karnezis T; O'Brien Institute Department, St Vincent's Institute for Medical Research, Fitzroy, Victoria 3065, Australia.
Ritchie ME; Epigenetics and Development Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Shayan R; O'Brien Institute Department, St Vincent's Institute for Medical Research, Fitzroy, Victoria 3065, Australia.; Department of Plastic Surgery, The Alfred Hospital, Prahran, Victoria 3004, Australia.; Department of Plastic Surgery, St. Vincent's Hospital, Fitzroy, Victoria 3065, Australia.; Department of Medicine, St. Vincent's Hospital, University of Melbourne, Fitzroy 3065, Australia.
DB Label
Database : MEDLINE
원문보기
Open Access (PubMed Central)  Full Text (ScienceDirect O/A)  등재 - SCOPUS  조회 - Impact Factor (JCR) 
7
A transcriptomic dataset evaluating the effect of radiotherapy injury on cells of skin and soft tissue. 미리보기

학술저널

issue
Data in brief [Data Brief] 2022 Jan 14; Vol. 41, pp. 107828. Date of Electronic Publication: 2022 Jan 14 (Print Publication: 2022).
Author
Shukla L; O'Brien Institute Department, St Vincent's Institute for Medical Research, Fitzroy, Victoria 3065, Australia.; Department of Plastic Surgery, The Alfred Hospital, Prahran, Victoria 3004, Australia.; Department of Plastic Surgery, St. Vincent's Hospital, Fitzroy, Victoria 3065, Australia.
Lee SA; Epigenetics and Development Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Du MRM; Epigenetics and Development Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Karnezis T; O'Brien Institute Department, St Vincent's Institute for Medical Research, Fitzroy, Victoria 3065, Australia.
Ritchie ME; Epigenetics and Development Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.
Shayan R; O'Brien Institute Department, St Vincent's Institute for Medical Research, Fitzroy, Victoria 3065, Australia.; Department of Plastic Surgery, The Alfred Hospital, Prahran, Victoria 3004, Australia.; Department of Plastic Surgery, St. Vincent's Hospital, Fitzroy, Victoria 3065, Australia.; Department of Medicine, St. Vincent's Hospital, University of Melbourne, Fitzroy 3065, Australia.
DB Label
Database : MEDLINE
원문보기
Open Access (PubMed Central)  Full Text (ScienceDirect O/A)  등재 - SCOPUS  조회 - Impact Factor (JCR) 
1 
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