Authors: Bhat P, Chow A, Emert B, Ettlin O, Quinodoz SA, Takei Y, Huang W, Blanco MR, Guttman M

Source: BioRxiv : the preprint server for biology [bioRxiv] 2023 Jan 04. Date of Electronic Publication: 2023 Jan 04.

Publication Type: Preprint

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

Authors: Goronzy IN; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA; Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA. Electronic address: quinodoz@princeton.edu., Jachowicz JW; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Ollikainen N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Bhat P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA. Electronic address: mguttman@caltech.edu.

Source: Cell reports [Cell Rep] 2022 Nov 29; Vol. 41 (9), pp. 111730.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101573691 Publication Model: Print Cited Medium: Internet ISSN: 2211-1247 (Electronic) NLM ISO Abbreviation: Cell Rep Subsets: MEDLINE

MeSH Terms: RNA*/genetics , Cell Nucleus*/genetics, Animals ; Cell Nucleolus ; RNA Precursors ; Genomics ; Mammals

Authors: Cable J; PhD Science Writer, New York, New York., Heard E; European Molecular Biology Laboratory (EMBL), Heidelberg, Heidelberg, Germany.; Collège de France, Paris, France., Hirose T; Graduate School of Frontier Biosciences, Osaka University, Suita, Japan.; Institute for Genetic Medicine, Hokkaido University, Sapporo, Japan., Prasanth KV; Department of Cell and Developmental Biology, Cancer Center at Illinois, University of Illinois at Urbana-Champaign, Urbana, Illinois., Chen LL; State Key Laboratory of Molecular Biology, Shanghai Key Laboratory of Molecular Andrology, CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, University of the Chinese Academy of Sciences, Shanghai, China.; School of Life Science and Technology, ShanghaiTech University, Shanghai, China.; School of Life Sciences, Hangzhou Institute for Advanced Study, University of the Chinese Academy of Sciences, Hangzhou, China., Henninger JE; Whitehead Institute for Biomedical Research, Cambridge, Massachusetts., Quinodoz SA; Department of Chemical and Biological Engineering, Princeton University, Princeton, New Jersey., Spector DL; Cold Spring Harbor Laboratory, Cold Spring Harbor and Genetics Program, Stony Brook University, Stony Brook, New York., Diermeier SD; Department of Biochemistry, University of Otago, Dunedin, New Zealand., Porman AM; Biochemistry and Molecular Genetics Department, University of Colorado, Anschutz Medical Campus, Aurora, Colorado., Kumar D; Department of Cancer Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas., Feinberg MW; Cardiovascular Division, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts., Shen X; Tsinghua-Peking Joint Center for Life Sciences, School of Medicine and School of Life Sciences, Tsinghua University, Beijing, China., Unfried JP; Center for Applied Medical Research (CIMA), Department of Gene Therapy and Regulation of Gene Expression, Universidad de Navarra (UNAV), Pamplona, Spain., Johnson R; Department of Medical Oncology, Inselspital, Bern University Hospital; and Department for BioMedical Research University of Bern, Bern, Switzerland.; School of Biology and Environmental Science and Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Dublin, Ireland., Chen CK; Center for Personal Dynamic Regulomes, Stanford University, Stanford, California.; Department of Genetics, Stanford University School of Medicine, Stanford, California., Wilusz JE; Department of Biochemistry and Biophysics, University of Pennsylvania Perelman School of Medicine, Philadelphia, Pennsylvania., Lempradl A; Department of Metabolism and Nutritional Programming, Van Andel Research Institute, Grand Rapids, Michigan., McGeary SE; Whitehead Institute for Biomedical Research, Cambridge, Massachusetts.; Howard Hughes Medical Institute and Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts., Wahba L; Department of Genetics, Stanford University School of Medicine, Stanford, California.; Department of Pathology, Stanford University School of Medicine, Stanford, California., Pyle AM; Department of Genetics, Yale School of Medicine, New Haven, Connecticut.; Connecticut and Howard Hughes Medical Institute, Chevy Chase, Maryland., Hargrove AE; Department of Chemistry, Duke University, Durham, North Carolina., Simon MD; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut., Marcia M; European Molecular Biology Laboratory (EMBL) Grenoble, Grenoble, France., Przanowska RK; Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, Virginia., Chang HY; Center for Personal Dynamic Regulomes, Stanford University, Stanford, California.; Howard Hughes Medical Institute, Stanford University, Stanford, California., Jaffrey SR; Department of Pharmacology, Weill Medical College of Cornell University, New York, New York., Contreras LM; McKetta Department of Chemical Engineering, University of Texas at Austin, Austin, Texas., Chen Q; Division of Biomedical Sciences, School of Medicine, University of California, Riverside, Riverside, California., Shi J; Division of Biomedical Sciences, School of Medicine, University of California, Riverside, Riverside, California., Mendell JT; Department of Molecular Biology, Harold C. Simmons Comprehensive Cancer Center, Hamon Center for Regenerative Science and Medicine; and Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, Texas., He L; Division of Cellular and Developmental Biology, Molecular and Cell Biology Department, University of California at Berkeley, Berkeley, California., Song E; Guangdong Provincial Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation, Medical Research Center and Breast Tumor Center, Sun Yat-sen Memorial Hospital, Sun Yat-sen University; Bioland Laboratory; Program of Molecular Medicine, Zhongshan School of Medicine, Sun Yat-sen University; and Fountain-Valley Institute for Life Sciences, Guangzhou Institute of Biomedicine and Health, Chinese Academy of Sciences Guangzhou, Guangzhou, China., Rinn JL; Department of Biochemistry, BioFrontiers Institute, and Howard Hughes Medical Institute, University of Colorado Boulder, Boulder, Colorado., Lalwani MK; Queens Medical Research Institute, BHF Centre for Cardiovascular Sciences, University of Edinburgh, Scotland, United Kingdom., Kalem MC; Department of Microbiology and Immunology, Witebsky Center for Microbial Pathogenesis and Immunology, Jacobs School of Medicine and Biomedical Sciences, University at Buffalo, SUNY, Buffalo, New York., Chuong EB; Department of Molecular, Cellular, and Developmental Biology and BioFrontiers Institute, University of Colorado Boulder, Boulder, Colorado., Maquat LE; Department of Biochemistry and Biophysics, School of Medicine and Dentistry and Center for RNA Biology, University of Rochester, Rochester, New York., Liu X; Laboratory of Systems Cancer Biology, The Rockefeller University, New York, New York.

Source: Annals of the New York Academy of Sciences [Ann N Y Acad Sci] 2021 Dec; Vol. 1506 (1), pp. 118-141. Date of Electronic Publication: 2021 Nov 17.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.; Review

Journal Info: Publisher: New York Academy of Sciences Country of Publication: United States NLM ID: 7506858 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1749-6632 (Electronic) Linking ISSN: 00778923 NLM ISO Abbreviation: Ann N Y Acad Sci Subsets: MEDLINE

Authors: Boninsegna L; Institute of Quantitative and Computational Biosciences (QCBio), University of California, Los Angeles, Los Angeles, CA, USA.; Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA, USA., Yildirim A; Institute of Quantitative and Computational Biosciences (QCBio), University of California, Los Angeles, Los Angeles, CA, USA.; Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA, USA., Polles G; Institute of Quantitative and Computational Biosciences (QCBio), University of California, Los Angeles, Los Angeles, CA, USA.; Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA, USA.; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, CA, USA., Zhan Y; Institute of Quantitative and Computational Biosciences (QCBio), University of California, Los Angeles, Los Angeles, CA, USA.; Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA, USA.; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, CA, USA., Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Finn EH; National Cancer Institute, National Institutes of Health, Bethesda, MD, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Zhou XJ; Institute of Quantitative and Computational Biosciences (QCBio), University of California, Los Angeles, Los Angeles, CA, USA.; Department of Pathology, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA., Alber F; Institute of Quantitative and Computational Biosciences (QCBio), University of California, Los Angeles, Los Angeles, CA, USA. falber@g.ucla.edu.; Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, Los Angeles, CA, USA. falber@g.ucla.edu.; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, CA, USA. falber@g.ucla.edu.

Source: Nature methods [Nat Methods] 2022 Aug; Vol. 19 (8), pp. 938-949. Date of Electronic Publication: 2022 Jul 11.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, Non-P.H.S.

Journal Info: Publisher: Nature Pub. Group Country of Publication: United States NLM ID: 101215604 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1548-7105 (Electronic) Linking ISSN: 15487091 NLM ISO Abbreviation: Nat Methods Subsets: MEDLINE

MeSH Terms: Chromatin*/genetics , Chromosomes*/genetics, Cell Nucleus ; Genome

Authors: Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, California 91125, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, California 91125, USA.

Source: Cold Spring Harbor perspectives in biology [Cold Spring Harb Perspect Biol] 2022 May 27; Vol. 14 (5). Date of Electronic Publication: 2022 May 27.

Publication Type: Journal Article; Review

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 101513680 Publication Model: Electronic Cited Medium: Internet ISSN: 1943-0264 (Electronic) Linking ISSN: 19430264 NLM ISO Abbreviation: Cold Spring Harb Perspect Biol Subsets: MEDLINE

MeSH Terms: RNA, Long Noncoding*/genetics, Cell Nucleus/metabolism ; DNA/metabolism ; RNA, Untranslated/genetics

Authors: Arrastia MV; Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, USA., Jachowicz JW; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Ollikainen N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Curtis MS; Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, USA., Lai C; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Selck DA; Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, USA., Ismagilov RF; Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, USA. rustem.admin@caltech.edu.; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA. rustem.admin@caltech.edu., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA. mguttman@caltech.edu.

Source: Nature biotechnology [Nat Biotechnol] 2022 Jan; Vol. 40 (1), pp. 64-73. Date of Electronic Publication: 2021 Aug 23.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Nature America Publishing Country of Publication: United States NLM ID: 9604648 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1546-1696 (Electronic) Linking ISSN: 10870156 NLM ISO Abbreviation: Nat Biotechnol Subsets: MEDLINE

MeSH Terms: Cell Nucleus*/genetics , Genome*/genetics, Animals ; Chromatin ; DNA/genetics ; Mice ; Mouse Embryonic Stem Cells

Authors: Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.; Department of Chemical and Biological Engineering, Princeton University, Princeton, NJ, USA., Bhat P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA., Chovanec P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Jachowicz JW; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Ollikainen N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Detmar E; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Soehalim E; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA. mguttman@caltech.edu.

Source: Nature protocols [Nat Protoc] 2022 Jan; Vol. 17 (1), pp. 36-75. Date of Electronic Publication: 2022 Jan 10.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.; Review

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101284307 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1750-2799 (Electronic) Linking ISSN: 17502799 NLM ISO Abbreviation: Nat Protoc Subsets: MEDLINE

MeSH Terms: Cell Nucleus*/genetics , Cell Nucleus*/physiology , DNA*/genetics , DNA*/metabolism , Software*, DNA Barcoding, Taxonomic/*methods , Genomics/*methods, Animals ; Cell Line ; Female ; Genetic Techniques ; High-Throughput Nucleotide Sequencing ; Humans ; Mice

Authors: Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Jachowicz JW; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Bhat P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA., Ollikainen N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Banerjee AK; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA., Goronzy IN; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA., Blanco MR; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Chovanec P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Chow A; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Markaki Y; Department of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA., Thai J; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Plath K; Department of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA. Electronic address: mguttman@caltech.edu.

Source: Cell [Cell] 2021 Nov 11; Vol. 184 (23), pp. 5775-5790.e30. Date of Electronic Publication: 2021 Nov 04.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 0413066 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4172 (Electronic) Linking ISSN: 00928674 NLM ISO Abbreviation: Cell Subsets: MEDLINE

MeSH Terms: Cell Nucleus/*metabolism , RNA/*metabolism, Animals ; Cell Nucleus/drug effects ; Chromobox Protein Homolog 5/metabolism ; Chromosomes/metabolism ; DNA/metabolism ; DNA, Satellite/metabolism ; DNA-Binding Proteins/metabolism ; Dactinomycin/pharmacology ; Female ; Genome ; HEK293 Cells ; Heterochromatin/metabolism ; Humans ; Mice ; Models, Biological ; Multigene Family ; RNA Polymerase II/metabolism ; RNA Processing, Post-Transcriptional/drug effects ; RNA Processing, Post-Transcriptional/genetics ; RNA Splicing/genetics ; RNA, Long Noncoding/genetics ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; RNA, Ribosomal/genetics ; RNA-Binding Proteins/metabolism ; Transcription, Genetic/drug effects

Authors: Banerjee AK; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA., Blanco MR; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Bruce EA; Departments of Medicine, Division of Immunobiology and Microbiology, and Molecular Genetics, Larner College of Medicine, University of Vermont, Burlington, VT 05405, USA., Honson DD; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Chen LM; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Chow A; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Bhat P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA., Ollikainen N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Loney C; MRC-University of Glasgow Centre for Virus Research (CVR), Glasgow G61 1QH, UK., Thai J; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Miller ZD; Department of Surgery and University of Vermont Cancer Center, University of Vermont College of Medicine, 89 Beaumont Avenue, Burlington, VT 05405, USA., Lin AE; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Schmidt MM; Departments of Medicine, Division of Immunobiology and Microbiology, and Molecular Genetics, Larner College of Medicine, University of Vermont, Burlington, VT 05405, USA., Stewart DG; MRC-University of Glasgow Centre for Virus Research (CVR), Glasgow G61 1QH, UK., Goldfarb D; MRC-University of Glasgow Centre for Virus Research (CVR), Glasgow G61 1QH, UK., De Lorenzo G; MRC-University of Glasgow Centre for Virus Research (CVR), Glasgow G61 1QH, UK., Rihn SJ; MRC-University of Glasgow Centre for Virus Research (CVR), Glasgow G61 1QH, UK., Voorhees RM; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Botten JW; Departments of Medicine, Division of Immunobiology and Microbiology, and Molecular Genetics, Larner College of Medicine, University of Vermont, Burlington, VT 05405, USA., Majumdar D; Department of Surgery and University of Vermont Cancer Center, University of Vermont College of Medicine, 89 Beaumont Avenue, Burlington, VT 05405, USA. Electronic address: dev.Majumdar@med.uvm.edu., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA. Electronic address: mguttman@caltech.edu.

Source: Cell [Cell] 2020 Nov 25; Vol. 183 (5), pp. 1325-1339.e21. Date of Electronic Publication: 2020 Oct 08.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 0413066 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4172 (Electronic) Linking ISSN: 00928674 NLM ISO Abbreviation: Cell Subsets: MEDLINE

MeSH Terms: Host-Pathogen Interactions* , Protein Biosynthesis* , RNA Splicing*, COVID-19/*metabolism , SARS-CoV-2/*metabolism , Viral Nonstructural Proteins/*metabolism, A549 Cells ; Animals ; COVID-19/virology ; Chlorocebus aethiops ; HEK293 Cells ; Humans ; Interferons/metabolism ; Protein Transport ; RNA, Messenger/metabolism ; RNA, Ribosomal, 18S/metabolism ; RNA, Small Cytoplasmic/chemistry ; RNA, Small Cytoplasmic/metabolism ; Signal Recognition Particle/chemistry ; Signal Recognition Particle/metabolism ; Vero Cells ; Viral Nonstructural Proteins/chemistry

Authors: Vangala P; Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA., Murphy R; Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA., Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Gellatly K; Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA., McDonel P; Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Garber M; Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA; Department of Dermatology, Department of Medicine, University of Massachusetts Medical School, Worcester, MA 01605, USA; Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA, USA. Electronic address: manuel.garber@umassmed.edu.

Source: Molecular cell [Mol Cell] 2020 Oct 15; Vol. 80 (2), pp. 359-373.e8. Date of Electronic Publication: 2020 Sep 28.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 9802571 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4164 (Electronic) Linking ISSN: 10972765 NLM ISO Abbreviation: Mol Cell Subsets: MEDLINE

MeSH Terms: Enhancer Elements, Genetic* , Promoter Regions, Genetic*, Bacteria/*isolation & purification, Animals ; Dendritic Cells/metabolism ; Female ; Gene Expression Regulation ; Linear Models ; Mice, Inbred C57BL ; Models, Biological ; Stochastic Processes ; Transcription Factors/metabolism

Authors: Quinodoz SA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Ollikainen N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Tabak B; Program in Bioinformatics and Integrative Biology and Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01655, USA., Palla A; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Schmidt JM; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Detmar E; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Lai MM; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Shishkin AA; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Bhat P; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA; David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA., Takei Y; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Trinh V; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Aznauryan E; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Russell P; Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO 80045, USA., Cheng C; Department of Biology, Boston University, Boston, MA 02215, USA., Jovanovic M; Department of Biological Sciences, Columbia University, New York, NY 10027, USA., Chow A; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., Cai L; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA., McDonel P; Program in Bioinformatics and Integrative Biology and Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01655, USA., Garber M; Program in Bioinformatics and Integrative Biology and Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01655, USA., Guttman M; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA. Electronic address: mguttman@caltech.edu.

Source: Cell [Cell] 2018 Jul 26; Vol. 174 (3), pp. 744-757.e24. Date of Electronic Publication: 2018 Jun 07.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 0413066 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4172 (Electronic) Linking ISSN: 00928674 NLM ISO Abbreviation: Cell Subsets: MEDLINE

MeSH Terms: Cell Nucleus/*ultrastructure , Chromosome Mapping/*methods , Chromosomes/*physiology, Cell Nucleolus ; Cell Nucleus/physiology ; Chromosomes/genetics ; DNA/physiology ; Eukaryota ; Genome/genetics ; Genome/physiology ; Humans ; Structure-Activity Relationship