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3
Academic Journal
Single-cell multi-omics profiling links dynamic DNA methylation to cell fate decisions during mouse early organogenesis.

Authors: Clark SJ; Epigenetics Programme, Babraham Institute, Cambridge, CB22 3AT, UK. sclark@altoslabs.com.; Altos Labs Cambridge Institute of Science, Granta Park, Cambridge, UK. sclark@altoslabs.com., Argelaguet R; Epigenetics Programme, Babraham Institute, Cambridge, CB22 3AT, UK. rargelaguet@altoslabs.com.; Altos Labs Cambridge Institute of Science, Granta Park, Cambridge, UK. rargelaguet@altoslabs.com., Lohoff T; Epigenetics Programme, Babraham Institute, Cambridge, CB22 3AT, UK.; Wellcome Trust - Medical Research Council Stem Cell Institute, University of Cambridge, Jeffrey Cheah Biomedical Centre, Puddicombe Way, Cambridge, CB2 0AW, UK., Krueger F; Altos Labs Cambridge Institute of Science, Granta Park, Cambridge, UK.; Bioinformatics Group, Babraham Institute, Cambridge, CB22 3AT, UK., Drage D; Epigenetics Programme, Babraham Institute, Cambridge, CB22 3AT, UK.; Altos Labs Cambridge Institute of Science, Granta Park, Cambridge, UK., Göttgens B; Wellcome Trust - Medical Research Council Stem Cell Institute, University of Cambridge, Jeffrey Cheah Biomedical Centre, Puddicombe Way, Cambridge, CB2 0AW, UK.; Department of Haematology, Cambridge Institute for Medical Research, University of Cambridge, Cambridge, UK., Marioni JC; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK.; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK., Nichols J; Wellcome Trust - Medical Research Council Stem Cell Institute, University of Cambridge, Jeffrey Cheah Biomedical Centre, Puddicombe Way, Cambridge, CB2 0AW, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Tennis Court Road, Cambridge, CB2 3EG, UK.; Current address: MRC Human Genetics Unit, University of Edinburgh, Crewe Road, Edinburgh, EH4 2XU, UK., Reik W; Epigenetics Programme, Babraham Institute, Cambridge, CB22 3AT, UK. wreik@altoslabs.com.; Altos Labs Cambridge Institute of Science, Granta Park, Cambridge, UK. wreik@altoslabs.com.; Wellcome Trust - Medical Research Council Stem Cell Institute, University of Cambridge, Jeffrey Cheah Biomedical Centre, Puddicombe Way, Cambridge, CB2 0AW, UK. wreik@altoslabs.com.; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK. wreik@altoslabs.com.; Centre for Trophoblast Research, University of Cambridge, Cambridge, UK. wreik@altoslabs.com.

Source: Genome biology [Genome Biol] 2022 Sep 26; Vol. 23 (1), pp. 202. Date of Electronic Publication: 2022 Sep 26.

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

Journal Info: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE

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4
Academic Journal
CellRegMap: a statistical framework for mapping context-specific regulatory variants using scRNA-seq.

Authors: Cuomo ASE; European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.; Wellcome Sanger Institute, Cambridge, UK., Heinen T; Division of Computational Genomics and Systems Genetics, German Cancer Research Centre (DKFZ), Heidelberg, Germany.; European Molecular Biology Laboratory (EMBL), Genome Biology, Heidelberg, Germany.; Faculty of Mathematics and Computer Science, Heidelberg University, Heidelberg, Germany., Vagiaki D; Division of Computational Genomics and Systems Genetics, German Cancer Research Centre (DKFZ), Heidelberg, Germany.; European Molecular Biology Laboratory (EMBL), Genome Biology, Heidelberg, Germany.; Faculty of Biosciences, Heidelberg University, Heidelberg, Germany., Horta D; European Bioinformatics Institute (EMBL-EBI), Cambridge, UK., Marioni JC; European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.; Wellcome Sanger Institute, Cambridge, UK.; Cancer Research UK, Cambridge Institute, Cambridge, UK., Stegle O; European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.; Wellcome Sanger Institute, Cambridge, UK.; Division of Computational Genomics and Systems Genetics, German Cancer Research Centre (DKFZ), Heidelberg, Germany.; European Molecular Biology Laboratory (EMBL), Genome Biology, Heidelberg, Germany.

Source: Molecular systems biology [Mol Syst Biol] 2022 Aug; Vol. 18 (8), pp. e10663.

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

Journal Info: Publisher: Wiley Blackwell Country of Publication: England NLM ID: 101235389 Publication Model: Print Cited Medium: Internet ISSN: 1744-4292 (Electronic) Linking ISSN: 17444292 NLM ISO Abbreviation: Mol Syst Biol Subsets: MEDLINE

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5
Academic Journal
Organoid modeling of human fetal lung alveolar development reveals mechanisms of cell fate patterning and neonatal respiratory disease.

Authors: Lim K; Wellcome Trust, CRUK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3DY, UK; Wellcome Trust, MRC Stem Cell Institute, Jeffrey Cheah Biomedical Centre Cambridge Biomedical Campus, Puddicombe Way, Cambridge CB2 0AW, UK., Donovan APA; Wellcome Trust, CRUK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3DY, UK., Tang W; Wellcome Trust, CRUK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3DY, UK; Wellcome Trust, MRC Stem Cell Institute, Jeffrey Cheah Biomedical Centre Cambridge Biomedical Campus, Puddicombe Way, Cambridge CB2 0AW, UK., Sun D; Wellcome Trust, CRUK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3DY, UK; Wellcome Trust, MRC Stem Cell Institute, Jeffrey Cheah Biomedical Centre Cambridge Biomedical Campus, Puddicombe Way, Cambridge CB2 0AW, UK., He P; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge CB10 1SD, UK., Pett JP; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Teichmann SA; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Marioni JC; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge CB10 1SD, UK., Meyer KB; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Brand AH; Wellcome Trust, CRUK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3DY, UK., Rawlins EL; Wellcome Trust, CRUK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 3DY, UK; Wellcome Trust, MRC Stem Cell Institute, Jeffrey Cheah Biomedical Centre Cambridge Biomedical Campus, Puddicombe Way, Cambridge CB2 0AW, UK. Electronic address: elr21@cam.ac.uk.

Source: Cell stem cell [Cell Stem Cell] 2023 Jan 05; Vol. 30 (1), pp. 20-37.e9. Date of Electronic Publication: 2022 Dec 08.

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

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101311472 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1875-9777 (Electronic) Linking ISSN: 18759777 NLM ISO Abbreviation: Cell Stem Cell Subsets: MEDLINE

MeSH Terms: Cell Differentiation*/physiology , Lung*/embryology , Organoids*, Humans ; Infant, Newborn ; Alveolar Epithelial Cells/metabolism ; Cell Lineage ; Respiratory Tract Diseases/embryology ; Respiratory Tract Diseases/metabolism

6
Academic Journal
A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates.

Authors: He P; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge, UK., Lim K; Wellcome Trust/CRUK Gurdon Institute, Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 1QN, UK., Sun D; Wellcome Trust/CRUK Gurdon Institute, Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 1QN, UK., Pett JP; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Jeng Q; Wellcome Trust/CRUK Gurdon Institute, Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 1QN, UK., Polanski K; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Dong Z; Wellcome Trust/CRUK Gurdon Institute, Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 1QN, UK., Bolt L; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Richardson L; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Mamanova L; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Dabrowska M; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Wilbrey-Clark A; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Madissoon E; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge, UK., Tuong ZK; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; Molecular Immunity Unit, University of Cambridge Department of Medicine, Cambridge, UK., Dann E; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Suo C; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; Department of Paediatrics, Cambridge University Hospitals, Hills Road, Cambridge CB2 0 QQ, UK., Goh I; Biosciences Institute, Newcastle University, Newcastle upon Tyne, NE2 4HH, UK., Yoshida M; Lungs for Living Research Centre, UCL Respiratory, University College London, London, UK., Nikolić MZ; Lungs for Living Research Centre, UCL Respiratory, University College London, London, UK., Janes SM; Lungs for Living Research Centre, UCL Respiratory, University College London, London, UK., He X; John van Geest Centre for Brain Repair, Department of Clinical Neurosciences and Wellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK., Barker RA; John van Geest Centre for Brain Repair, Department of Clinical Neurosciences and Wellcome-MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK., Teichmann SA; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; Department of Physics, Cavendish Laboratory, University of Cambridge, Cambridge CB3 0HE, UK., Marioni JC; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge, UK; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Meyer KB; Wellcome Sanger Institute, Hinxton, Cambridge CB10 1SA, UK., Rawlins EL; Wellcome Trust/CRUK Gurdon Institute, Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge CB2 1QN, UK. Electronic address: e.rawlins@gurdon.cam.ac.uk.

Source: Cell [Cell] 2022 Dec 08; Vol. 185 (25), pp. 4841-4860.e25.

Publication Type: Journal Article

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

MeSH Terms: Lung*/cytology , Fetus*/cytology, Humans ; Cell Differentiation ; Gene Expression Profiling ; Organogenesis ; Organoids ; Atlases as Topic

7
Academic Journal
A reference human induced pluripotent stem cell line for large-scale collaborative studies.

Authors: Pantazis CB; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Yang A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK; Wellcome Trust - Medical Research Council Institute of Metabolic Science, University of Cambridge, Cambridge CB2 0QQ, UK; Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0AW, UK., Lara E; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., McDonough JA; The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA., Blauwendraat C; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA., Peng L; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Data Tecnica International LLC, Washington, DC, USA; Integrated Research Facility, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Frederick, MD, USA., Oguro H; The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA; Department of Cell Biology, University of Connecticut Health Center, Farmington, CT, USA., Kanaujiya J; The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA; Department of Cell Biology, University of Connecticut Health Center, Farmington, CT, USA., Zou J; iPS Cell Core Facility, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD, USA., Sebesta D; KromaTiD Inc., Longmont, CO, USA., Pratt G; KromaTiD Inc., Longmont, CO, USA., Cross E; KromaTiD Inc., Longmont, CO, USA., Blockwick J; KromaTiD Inc., Longmont, CO, USA., Buxton P; KromaTiD Inc., Longmont, CO, USA., Kinner-Bibeau L; KromaTiD Inc., Longmont, CO, USA., Medura C; KromaTiD Inc., Longmont, CO, USA., Tompkins C; KromaTiD Inc., Longmont, CO, USA., Hughes S; KromaTiD Inc., Longmont, CO, USA., Santiana M; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Faghri F; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA; Data Tecnica International LLC, Washington, DC, USA., Nalls MA; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA; Data Tecnica International LLC, Washington, DC, USA., Vitale D; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA; Data Tecnica International LLC, Washington, DC, USA., Ballard S; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA; Data Tecnica International LLC, Washington, DC, USA., Qi YA; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Ramos DM; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Anderson KM; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Stadler J; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Narayan P; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Genetics and Biochemistry Branch, NIDDK, NINDS, National Institutes of Health, Bethesda, MD 20814, USA., Papademetriou J; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Reilly L; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Nelson MP; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA., Aggarwal S; Wellcome Trust - Medical Research Council Institute of Metabolic Science, University of Cambridge, Cambridge CB2 0QQ, UK; Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0AW, UK., Rosen LU; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK., Kirwan P; Wellcome Trust - Medical Research Council Institute of Metabolic Science, University of Cambridge, Cambridge CB2 0QQ, UK; Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0AW, UK., Pisupati V; Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0AW, UK; John van Geest Centre for Brain Repair, University of Cambridge, Cambridge CB2 0PY, UK., Coon SL; Molecular Genomics Core, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD, USA., Scholz SW; Neurodegenerative Diseases Research Unit, National Institute of Neurological Disorders and Stroke, Bethesda, MD, USA; Department of Neurology, Johns Hopkins University, Baltimore, MD 21287, USA., Priebe T; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands., Öttl M; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands., Dong J; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands., Meijer M; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands., Janssen LJM; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands., Lourenco VS; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands., van der Kant R; Department of Functional Genomics, Center for Neurogenomics and Cognitive Research, Amsterdam Neuroscience, VU University Amsterdam de Boelelaan 1087, 1081 HV Amsterdam, the Netherlands; Alzheimer Center Amsterdam, Department of Neurology, Amsterdam Neuroscience, Amsterdam UMC, Amsterdam, the Netherlands., Crusius D; Institute for Stroke and Dementia Research, University Hospital, LMU Munich, 81377 Munich, Germany., Paquet D; Institute for Stroke and Dementia Research, University Hospital, LMU Munich, 81377 Munich, Germany; Munich Cluster for Systems Neurology (SyNergy), 81377 Munich, Germany., Raulin AC; Department of Neuroscience, Mayo Clinic, Jacksonville, FL, USA., Bu G; Department of Neuroscience, Mayo Clinic, Jacksonville, FL, USA., Held A; Department of Neurology, Sean M. Healey & AMG Center for ALS, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA., Wainger BJ; Department of Neurology, Sean M. Healey & AMG Center for ALS, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA; Department of Anesthesiology, Critical Care and Pain Medicine, Massachusetts General Hospital, Boston, MA, USA; Harvard Stem Cell Institute, Cambridge, MA, USA; Broad Institute of Harvard University and MIT, Cambridge, MA, USA., Gabriele RMC; Department of Neurodegenerative Disease, UCL Queen Square Institute of Neurology, London WC1N 3BG, UK., Casey JM; Department of Neurodegenerative Disease, UCL Queen Square Institute of Neurology, London WC1N 3BG, UK., Wray S; Department of Neurodegenerative Disease, UCL Queen Square Institute of Neurology, London WC1N 3BG, UK., Abu-Bonsrah D; The Florey Institute of Neuroscience & Mental Health, The University of Melbourne, Parkville, VIC 3052, Australia; Department of Pediatrics, University of Melbourne, Parkville, VIC 3052, Australia., Parish CL; The Florey Institute of Neuroscience & Mental Health, The University of Melbourne, Parkville, VIC 3052, Australia., Beccari MS; Department of Cellular and Molecular Medicine and Ludwig Institute for Cancer Research, University of California at San Diego, La Jolla, CA, USA., Cleveland DW; Department of Cellular and Molecular Medicine and Ludwig Institute for Cancer Research, University of California at San Diego, La Jolla, CA, USA., Li E; Institute for Neurodegenerative Diseases and Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA; Chan Zuckerberg Biohub, San Francisco, CA, USA., Rose IVL; Institute for Neurodegenerative Diseases and Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA; Chan Zuckerberg Biohub, San Francisco, CA, USA., Kampmann M; Institute for Neurodegenerative Diseases and Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA; Chan Zuckerberg Biohub, San Francisco, CA, USA., Calatayud Aristoy C; VIB-KU Leuven Center for Brain & Disease Research, 3000 Leuven, Belgium; KU Leuven, Department of Neurosciences, Leuven Brain Institute, Mission Lucidity, Leuven, Belgium., Verstreken P; VIB-KU Leuven Center for Brain & Disease Research, 3000 Leuven, Belgium; KU Leuven, Department of Neurosciences, Leuven Brain Institute, Mission Lucidity, Leuven, Belgium., Heinrich L; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA., Chen MY; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA., Schüle B; Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA., Dou D; Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Holzbaur ELF; Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA., Zanellati MC; Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Basundra R; Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Deshmukh M; Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Cohen S; Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA., Khanna R; Department of Developmental Molecular and Chemical Biology, Tufts University School of Medicine, Boston, MA, USA., Raman M; Department of Developmental Molecular and Chemical Biology, Tufts University School of Medicine, Boston, MA, USA., Nevin ZS; Gladstone Institutes, San Francisco, CA, USA., Matia M; Gladstone Institutes, San Francisco, CA, USA., Van Lent J; Peripheral Neuropathy Research Group, Department of Biomedical Sciences, University of Antwerp, Antwerp 2610, Belgium., Timmerman V; Peripheral Neuropathy Research Group, Department of Biomedical Sciences, University of Antwerp, Antwerp 2610, Belgium., Conklin BR; Gladstone Institutes, San Francisco, CA, USA., Johnson Chase K; Department of Neuroscience, Mayo Clinic, Jacksonville, FL, USA., Zhang K; Department of Neuroscience, Mayo Clinic, Jacksonville, FL, USA., Funes S; Department of Neurology, UMass Chan Medical School, Worcester, MA, USA., Bosco DA; Department of Neurology, UMass Chan Medical School, Worcester, MA, USA., Erlebach L; Department of Cellular Neurology, Hertie Institute for Clinical Brain Research, University of Tübingen, Tübingen, Germany; German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany., Welzer M; Department of Cellular Neurology, Hertie Institute for Clinical Brain Research, University of Tübingen, Tübingen, Germany; German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany., Kronenberg-Versteeg D; Department of Cellular Neurology, Hertie Institute for Clinical Brain Research, University of Tübingen, Tübingen, Germany; German Center for Neurodegenerative Diseases (DZNE), Tübingen, Germany., Lyu G; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Arenas E; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden., Coccia E; Nash Family Department of Neuroscience; Departments of Neurology and Cell, Developmental and Regenerative Biology; Ronald M. Loeb Center for Alzheimer's Disease; Friedman Brain Institute; Black Family Stem Cell Institute at Mount Sinai, New York, NY, USA., Sarrafha L; Nash Family Department of Neuroscience; Departments of Neurology and Cell, Developmental and Regenerative Biology; Ronald M. Loeb Center for Alzheimer's Disease; Friedman Brain Institute; Black Family Stem Cell Institute at Mount Sinai, New York, NY, USA., Ahfeldt T; Nash Family Department of Neuroscience; Departments of Neurology and Cell, Developmental and Regenerative Biology; Ronald M. Loeb Center for Alzheimer's Disease; Friedman Brain Institute; Black Family Stem Cell Institute at Mount Sinai, New York, NY, USA., Marioni JC; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, UK., Skarnes WC; The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA. Electronic address: bill.skarnes@jax.org., Cookson MR; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, MD, USA. Electronic address: cookson@mail.nih.gov., Ward ME; Center for Alzheimer's and Related Dementias (CARD), National Institute on Aging and National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA. Electronic address: michael.ward4@nih.gov., Merkle FT; Wellcome Trust - Medical Research Council Institute of Metabolic Science, University of Cambridge, Cambridge CB2 0QQ, UK; Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0AW, UK. Electronic address: fm436@medschl.cam.ac.uk.

Source: Cell stem cell [Cell Stem Cell] 2022 Dec 01; Vol. 29 (12), pp. 1685-1702.e22.

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

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101311472 Publication Model: Print Cited Medium: Internet ISSN: 1875-9777 (Electronic) Linking ISSN: 18759777 NLM ISO Abbreviation: Cell Stem Cell Subsets: MEDLINE

MeSH Terms: Induced Pluripotent Stem Cells*, Humans ; Cell Differentiation ; Gene Editing ; Biological Assay

8
Academic Journal
SOX9 maintains human foetal lung tip progenitor state by enhancing WNT and RTK signalling.

Authors: Sun D; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK., Llora Batlle O; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK., van den Ameele J; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK., Thomas JC; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Biochemistry, University of Cambridge, Cambridge, UK., He P; Wellcome Sanger Institute, Cambridge, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Cambridge, UK., Lim K; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK., Tang W; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK., Xu C; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK., Meyer KB; Wellcome Sanger Institute, Cambridge, UK., Teichmann SA; Wellcome Sanger Institute, Cambridge, UK.; Department of Physics/Cavendish Laboratory, University of Cambridge, Cambridge, UK., Marioni JC; Wellcome Sanger Institute, Cambridge, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Jackson SP; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Biochemistry, University of Cambridge, Cambridge, UK., Brand AH; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK., Rawlins EL; Wellcome Trust/CRUK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK.

Source: The EMBO journal [EMBO J] 2022 Nov 02; Vol. 41 (21), pp. e111338. Date of Electronic Publication: 2022 Sep 19.

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

Journal Info: Publisher: Wiley Blackwell Country of Publication: England NLM ID: 8208664 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1460-2075 (Electronic) Linking ISSN: 02614189 NLM ISO Abbreviation: EMBO J Subsets: MEDLINE

MeSH Terms: Lung*/embryology , SOX9 Transcription Factor*/metabolism , Stem Cells*/metabolism, Humans ; Cell Differentiation/physiology ; Signal Transduction

9
Academic Journal
geneBasis: an iterative approach for unsupervised selection of targeted gene panels from scRNA-seq.

Authors: Missarova A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK.; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Jain J; New York Genome Center, New York, USA., Butler A; New York Genome Center, New York, USA.; Center for Genomics and Systems Biology, NYU, New York, USA., Ghazanfar S; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Stuart T; New York Genome Center, New York, USA.; Center for Genomics and Systems Biology, NYU, New York, USA., Brusko M; Department of Pathology, Immunology, and Laboratory Medicine, College of Medicine, University of Florida, Jacksonville, USA., Wasserfall C; Department of Pathology, Immunology, and Laboratory Medicine, College of Medicine, University of Florida, Jacksonville, USA., Nick H; Department of Neuroscience, College of Medicine, University of Florida, Jacksonville, USA., Brusko T; Department of Pathology, Immunology, and Laboratory Medicine, College of Medicine, University of Florida, Jacksonville, USA., Atkinson M; Department of Pathology, Immunology, and Laboratory Medicine, College of Medicine, University of Florida, Jacksonville, USA., Satija R; New York Genome Center, New York, USA. rsatija@nygenome.org.; Center for Genomics and Systems Biology, NYU, New York, USA. rsatija@nygenome.org., Marioni JC; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK. marioni@ebi.ac.uk.; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK. marioni@ebi.ac.uk.; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK. marioni@ebi.ac.uk.

Source: Genome biology [Genome Biol] 2021 Dec 06; Vol. 22 (1), pp. 333. Date of Electronic Publication: 2021 Dec 06.

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

Journal Info: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE

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Academic Journal
Coordinated changes in gene expression kinetics underlie both mouse and human erythroid maturation.

Authors: Barile M; Department of Haematology, University of Cambridge, Cambridge, CB2 0AW, UK.; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, CB2 0AW, UK., Imaz-Rosshandler I; Department of Haematology, University of Cambridge, Cambridge, CB2 0AW, UK.; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, CB2 0AW, UK., Inzani I; University of Cambridge Metabolic Research Laboratories and MRC Metabolic Diseases Unit, Cambridge, CB2 0QQ, UK., Ghazanfar S; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, CB2 0RE, UK., Nichols J; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, CB2 0AW, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, CB2 3DY, UK., Marioni JC; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, CB2 0RE, UK.; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, CB10 1SA, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Cambridge, CB10 1SD, UK., Guibentif C; Department of Haematology, University of Cambridge, Cambridge, CB2 0AW, UK. carolina.guibentif@gu.se.; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, CB2 0AW, UK. carolina.guibentif@gu.se.; Sahlgrenska Center for Cancer Research, Department of Microbiology and Immunology, University of Gothenburg, 413 90, Gothenburg, Sweden. carolina.guibentif@gu.se., Göttgens B; Department of Haematology, University of Cambridge, Cambridge, CB2 0AW, UK. bg200@cam.ac.uk.; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, CB2 0AW, UK. bg200@cam.ac.uk.

Source: Genome biology [Genome Biol] 2021 Jul 05; Vol. 22 (1), pp. 197. Date of Electronic Publication: 2021 Jul 05.

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

Journal Info: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE

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11
Academic Journal
Mesp1 controls the chromatin and enhancer landscapes essential for spatiotemporal patterning of early cardiovascular progenitors.

Authors: Lin X; Laboratory of Stem Cells and Cancer, Université Libre de Bruxelles, Brussels, Belgium., Swedlund B; Laboratory of Stem Cells and Cancer, Université Libre de Bruxelles, Brussels, Belgium., Ton MN; Department of Haematology, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge, UK.; Wellcome and Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK., Ghazanfar S; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Guibentif C; Department of Haematology, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge, UK.; Wellcome and Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.; Sahlgrenska Center for Cancer Research, Department of Microbiology and Immunology, University of Gothenburg, Gothenburg, Sweden., Paulissen C; Laboratory of Stem Cells and Cancer, Université Libre de Bruxelles, Brussels, Belgium., Baudelet E; Laboratory of Stem Cells and Cancer, Université Libre de Bruxelles, Brussels, Belgium., Plaindoux E; Aix Marseille Université, INSERM, MMG U1251, Marseille, France., Achouri Y; Université Catholique de Louvain, Institut de Duve, Brussels, Belgium., Calonne E; Laboratory of Cancer Epigenetics, Faculty of Medicine, ULB-Cancer Research Center (U-CRC), Université Libre de Bruxelles (ULB), Brussels, Belgium., Dubois C; Laboratory of Stem Cells and Cancer, Université Libre de Bruxelles, Brussels, Belgium., Mansfield W; Wellcome and Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK., Zaffran S; Aix Marseille Université, INSERM, MMG U1251, Marseille, France., Marioni JC; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Fuks F; Laboratory of Cancer Epigenetics, Faculty of Medicine, ULB-Cancer Research Center (U-CRC), Université Libre de Bruxelles (ULB), Brussels, Belgium., Göttgens B; Department of Haematology, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge, UK.; Wellcome and Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK., Lescroart F; Aix Marseille Université, INSERM, MMG U1251, Marseille, France. fabienne.lescroart@univ-amu.fr., Blanpain C; Laboratory of Stem Cells and Cancer, Université Libre de Bruxelles, Brussels, Belgium. cedric.blanpain@ulb.ac.be.; WELBIO, Université Libre de Bruxelles, Brussels, Belgium. cedric.blanpain@ulb.ac.be.

Source: Nature cell biology [Nat Cell Biol] 2022 Jul; Vol. 24 (7), pp. 1114-1128. Date of Electronic Publication: 2022 Jul 11.

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

Journal Info: Publisher: Macmillan Magazines Ltd Country of Publication: England NLM ID: 100890575 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1476-4679 (Electronic) Linking ISSN: 14657392 NLM ISO Abbreviation: Nat Cell Biol Subsets: MEDLINE

MeSH Terms: Basic Helix-Loop-Helix Transcription Factors*/metabolism , Chromatin*/genetics , Chromatin*/metabolism, Animals ; Cell Differentiation/genetics ; Enhancer Elements, Genetic/genetics ; Gene Expression Regulation, Developmental ; Heart ; Homeodomain Proteins/metabolism ; Mammals/metabolism ; Mesoderm ; Mice ; Transcription Factors/genetics ; Transcription Factors/metabolism

12
Academic Journal
Mapping Rora expression in resting and activated CD4+ T cells.

Authors: Haim-Vilmovsky L; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Henriksson J; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Walker JA; MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, United Kingdom., Miao Z; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Natan E; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Kar G; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Clare S; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Barlow JL; MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, United Kingdom., Charidemou E; Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom., Mamanova L; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Chen X; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Proserpio V; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Pramanik J; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Woodhouse S; Department of Haematology, Cambridge Institute for Medical Research, University of Cambridge, Cambridge, United Kingdom.; Wellcome Trust-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, United Kingdom., Protasio AV; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Efremova M; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Griffin JL; Department of Biochemistry, University of Cambridge, Cambridge, United Kingdom.; Department of Metabolism, Digestion and Reproduction, Biomolecular Medicine, Imperial College London, London, United Kingdom., Berriman M; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Dougan G; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom., Fisher J; Microsoft Research, Cambridge, United Kingdom., Marioni JC; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, United Kingdom., McKenzie ANJ; MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, United Kingdom., Teichmann SA; EMBL-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, United Kingdom.; Theory of Condensed Matter, Cavendish Laboratory, Cambridge, United Kingdom.

Source: PloS one [PLoS One] 2021 May 18; Vol. 16 (5), pp. e0251233. Date of Electronic Publication: 2021 May 18 (Print Publication: 2021).

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

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet ISSN: 1932-6203 (Electronic) Linking ISSN: 19326203 NLM ISO Abbreviation: PLoS One Subsets: MEDLINE

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13
Academic Journal
Time-resolved single-cell analysis of Brca1 associated mammary tumourigenesis reveals aberrant differentiation of luminal progenitors.

Authors: Bach K; University of Cambridge, Department of Pharmacology, Cambridge, UK.; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK.; Cancer Research UK, Cambridge Cancer Centre, Cambridge, UK., Pensa S; University of Cambridge, Department of Pharmacology, Cambridge, UK.; Cancer Research UK, Cambridge Cancer Centre, Cambridge, UK., Zarocsinceva M; Cancer Research UK, Cambridge Cancer Centre, Cambridge, UK.; Wellcome-MRC Cambridge Stem Cell Institute, Cambridge, UK., Kania K; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK., Stockis J; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK., Pinaud S; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK., Lazarus KA; University of Cambridge, Department of Pharmacology, Cambridge, UK.; Cancer Research UK, Cambridge Cancer Centre, Cambridge, UK., Shehata M; Medical Research Council Cancer Unit, University of Cambridge, Cambridge, UK., Simões BM; Manchester Breast Centre, Oglesby Cancer Research Building, University of Manchester, Manchester, UK., Greenhalgh AR; Manchester Breast Centre, Oglesby Cancer Research Building, University of Manchester, Manchester, UK., Howell SJ; Manchester Breast Centre, Oglesby Cancer Research Building, University of Manchester, Manchester, UK.; Department of Medical Oncology, Christie NHS Foundation Trust, Manchester, UK., Clarke RB; Manchester Breast Centre, Oglesby Cancer Research Building, University of Manchester, Manchester, UK., Caldas C; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK.; Cancer Research UK, Cambridge Cancer Centre, Cambridge, UK., Halim TYF; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK., Marioni JC; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK. John.Marioni@cruk.cam.ac.uk.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK. John.Marioni@cruk.cam.ac.uk.; European Bioinformatics Institute, European Molecular Biology Laboratory, Hinxton, UK. John.Marioni@cruk.cam.ac.uk., Khaled WT; University of Cambridge, Department of Pharmacology, Cambridge, UK. wtk22@cam.ac.uk.; Cancer Research UK, Cambridge Cancer Centre, Cambridge, UK. wtk22@cam.ac.uk.; Wellcome-MRC Cambridge Stem Cell Institute, Cambridge, UK. wtk22@cam.ac.uk.

Source: Nature communications [Nat Commun] 2021 Mar 09; Vol. 12 (1), pp. 1502. Date of Electronic Publication: 2021 Mar 09.

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

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

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14
Academic Journal
Mapping the developing human immune system across organs.

Authors: Suo C; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Department of Paediatrics, Cambridge University Hospitals, Cambridge, UK., Dann E; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Goh I; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Jardine L; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK.; Haematology Department, Freeman Hospital, Newcastle upon Tyne Hospitals NHS Foundation Trust, Newcastle upon Tyne, UK., Kleshchevnikov V; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Park JE; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Graduate School of Medical Science and Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Korea., Botting RA; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Stephenson E; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Engelbert J; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Tuong ZK; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Molecular Immunity Unit, University of Cambridge Department of Medicine, Cambridge, UK., Polanski K; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Yayon N; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; European Molecular Biology Laboratory European Bioinformatics Institute, Hinxton, Cambridge, UK., Xu C; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Suchanek O; Molecular Immunity Unit, University of Cambridge Department of Medicine, Cambridge, UK., Elmentaite R; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Domínguez Conde C; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., He P; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; European Molecular Biology Laboratory European Bioinformatics Institute, Hinxton, Cambridge, UK., Pritchard S; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Miah M; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Moldovan C; Department of Cellular Pathology, Newcastle upon Tyne Hospitals NHS Foundation Trust, Newcastle upon Tyne, UK., Steemers AS; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Mazin P; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Prete M; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Horsfall D; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK., Marioni JC; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; European Molecular Biology Laboratory European Bioinformatics Institute, Hinxton, Cambridge, UK.; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK., Clatworthy MR; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Molecular Immunity Unit, University of Cambridge Department of Medicine, Cambridge, UK., Haniffa M; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK.; Department of Dermatology and National Institute for Health Research (NIHR) Newcastle Biomedical Research Centre, Newcastle upon Tyne Hospitals NHS Foundation Trust, Newcastle upon Tyne, UK., Teichmann SA; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Theory of Condensed Matter, Cavendish Laboratory, Department of Physics, University of Cambridge, Cambridge, UK.

Source: Science (New York, N.Y.) [Science] 2022 Jun 03; Vol. 376 (6597), pp. eabo0510. Date of Electronic Publication: 2022 Jun 03.

Publication Type: Journal Article

Journal Info: Publisher: American Association for the Advancement of Science Country of Publication: United States NLM ID: 0404511 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1095-9203 (Electronic) Linking ISSN: 00368075 NLM ISO Abbreviation: Science Subsets: MEDLINE

MeSH Terms: Immune System*/embryology , Lymphocytes*/metabolism , Monocytes*/metabolism, Genomics ; Humans ; Organ Specificity ; RNA-Seq ; Single-Cell Analysis

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15
Academic Journal
Locus-specific expression of transposable elements in single cells with CELLO-seq.

Authors: Berrens RV; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK. rebecca.berrens@gmail.com.; Developmental Epigenetics, Department of Biochemistry, University of Oxford, Oxford, UK. rebecca.berrens@gmail.com., Yang A; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Laumer CE; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK., Lun ATL; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; Genentech, South San Francisco, CA, USA., Bieberich F; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; ETH Zürich, Basel, Switzerland., Law CT; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; Department of Pathology, Li Ka Shing Faculty of Medicine, University of Hong Kong, Pok Fu Lam, Hong Kong., Lan G; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; School of Biomedical Sciences,Stem Cell and Regenerative Consortium, Centre for PanorOmic Sciences, Li Ka Shing Faculty of Medicine, University of Hong Kong, Pok Fu Lam, Hong Kong., Imaz M; Wellcome Sanger Institute, Cambridge, UK.; Division of Cardiovascular Medicine, University of Cambridge, Cambridge, UK., Bowness JS; Developmental Epigenetics, Department of Biochemistry, University of Oxford, Oxford, UK., Brockdorff N; Developmental Epigenetics, Department of Biochemistry, University of Oxford, Oxford, UK., Gaffney DJ; Wellcome Sanger Institute, Cambridge, UK.; Genomics Plc, Oxford, UK., Marioni JC; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK. marioni@ebi.ac.uk.; European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK. marioni@ebi.ac.uk.; Wellcome Sanger Institute, Cambridge, UK. marioni@ebi.ac.uk.

Source: Nature biotechnology [Nat Biotechnol] 2022 Apr; Vol. 40 (4), pp. 546-554. Date of Electronic Publication: 2021 Nov 15.

Publication Type: Journal Article; 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: DNA Transposable Elements*/genetics , Induced Pluripotent Stem Cells*, Animals ; Humans ; Mice ; RNA

16
Academic Journal
Coagulation factor V is a T-cell inhibitor expressed by leukocytes in COVID-19.

Authors: Wang J; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK., Kotagiri P; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Lyons PA; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Al-Lamki RS; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge University Hospitals NHS Foundation Trust, Addenbrooke's Hospital, Cambridge CB2 0QQ, UK., Mescia F; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Bergamaschi L; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Turner L; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Morgan MD; Cancer Research UK -Cambridge Institute, Robinson Way, Cambridge CB2 0RE, UK.; Department of Haematology, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK., Calero-Nieto FJ; Department of Haematology, Wellcome and MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, Cambridgeshire CB2 0AW, UK., Bach K; Cancer Research UK -Cambridge Institute, Robinson Way, Cambridge CB2 0RE, UK.; Department of Pharmacology, University of Cambridge, Cambridge CB2 1PD, UK., Mende N; Department of Haematology, Wellcome and MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, Cambridgeshire CB2 0AW, UK., Wilson NK; Department of Haematology, Wellcome and MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, Cambridgeshire CB2 0AW, UK., Watts ER; Centre for Inflammation Research, Queen's Medical Research Institute, University of Edinburgh, Edinburgh EH16 4TJ, UK., Maxwell PH; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK., Chinnery PF; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; Department of Clinical Neurosciences, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; Medical Research Council Mitochondrial Biology Unit, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0XY, UK., Kingston N; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; Department of Haematology, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK., Papadia S; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; Department of Public Health and Primary Care, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK., Stirrups KE; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; Department of Haematology, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK., Walker N; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; Department of Haematology, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK., Gupta RK; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Menon DK; Department of Clinical Neurosciences, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK., Allinson K; Department of Histopathology, Cambridge University Hospitals NHS Foundation Trust, Cambridge CB2 0QQ, UK., Aitken SJ; Cancer Research UK -Cambridge Institute, Robinson Way, Cambridge CB2 0RE, UK.; Department of Histopathology, Cambridge University Hospitals NHS Foundation Trust, Cambridge CB2 0QQ, UK.; Medical Research Council Toxicology Unit, University of Cambridge, Gleeson Building, Tennis Court Road, Cambridge CB2 1QR, UK.; Department of Pathology, University of Cambridge, Tennis Court Road, Cambridge CB2 1QP, UK., Toshner M; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Royal Papworth Hospital NHS Foundation Trust, Papworth Road, Cambridge CB2 0AY, UK., Weekes MP; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK., Nathan JA; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Walmsley SR; Centre for Inflammation Research, Queen's Medical Research Institute, University of Edinburgh, Edinburgh EH16 4TJ, UK., Ouwehand WH; Department of Haematology, Wellcome and MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, Cambridgeshire CB2 0AW, UK.; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.; NHS Blood and Transplant, Cambridge Biomedical Campus, Cambridge CB2 0PT, UK., Kasanicki M; Cambridge University Hospitals NHS Foundation Trust, Addenbrooke's Hospital, Cambridge CB2 0QQ, UK., Göttgens B; Department of Haematology, Wellcome and MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge, Cambridgeshire CB2 0AW, UK., Marioni JC; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Cancer Research UK -Cambridge Institute, Robinson Way, Cambridge CB2 0RE, UK.; EMBL-EBI, Wellcome Genome Campus, Hinxton, CB10 1SD, UK., Smith KGC; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge Institute of Therapeutic Immunology and Infectious Disease, Jeffrey Cheah Biomedical Centre, University of Cambridge, Cambridge CB2 0AW, UK., Pober JS; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Department of Immunobiology, Yale University School of Medicine, New Haven, CT 06519, USA., Bradley JR; Department of Medicine, University of Cambridge, Addenbrookes Hospital, Box 157, Hills Rd, Cambridge CB2 0QQ, UK.; Cambridge University Hospitals NHS Foundation Trust, Addenbrooke's Hospital, Cambridge CB2 0QQ, UK.; NIHR BioResource, Cambridge University Hospitals NHS Foundation, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK.

Corporate Authors: Cambridge Institute of Therapeutic Immunology and Infectious Disease-National Institute of Health Research (CITIID-NIHR) Covid BioResource Collaboration

Source: IScience [iScience] 2022 Mar 18; Vol. 25 (3), pp. 103971. Date of Electronic Publication: 2022 Feb 22.

Publication Type: Journal Article

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101724038 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2589-0042 (Electronic) Linking ISSN: 25890042 NLM ISO Abbreviation: iScience Subsets: PubMed not MEDLINE

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17
Academic Journal
Differential abundance testing on single-cell data using k-nearest neighbor graphs.

Authors: Dann E; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Henderson NC; Centre for Inflammation Research, The Queen's Medical Research Institute, University of Edinburgh, Edinburgh, UK.; MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, UK., Teichmann SA; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.; Theory of Condensed Matter Group, The Cavendish Laboratory, University of Cambridge, Cambridge, UK., Morgan MD; European Molecular Biology Laboratory European Bioinformatics Institute, Hinxton, Cambridge, UK. michael.morgan@cruk.cam.ac.uk.; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK. michael.morgan@cruk.cam.ac.uk., Marioni JC; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK. marioni@ebi.ac.uk.; European Molecular Biology Laboratory European Bioinformatics Institute, Hinxton, Cambridge, UK. marioni@ebi.ac.uk.; Cancer Research UK Cambridge Institute, Li Ka Shing Centre, University of Cambridge, Cambridge, UK. marioni@ebi.ac.uk.

Source: Nature biotechnology [Nat Biotechnol] 2022 Feb; Vol. 40 (2), pp. 245-253. Date of Electronic Publication: 2021 Sep 30.

Publication Type: Journal Article; 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: Gene Expression Profiling* , Single-Cell Analysis*, Animals ; Cluster Analysis ; Mice ; Sequence Analysis, RNA ; Software

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18
Academic Journal
Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis.

Authors: Lohoff T; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK.; Epigenetics Programme, Babraham Institute, Cambridge, UK., Ghazanfar S; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Missarova A; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK., Koulena N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Pierson N; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Griffiths JA; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.; Genomics Plc, Cambridge, UK., Bardot ES; Developmental Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA., Eng CL; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA., Tyser RCV; Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK., Argelaguet R; Epigenetics Programme, Babraham Institute, Cambridge, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK., Guibentif C; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.; Department of Haematology, University of Cambridge, Cambridge, UK.; Sahlgrenska Center for Cancer Research, Department of Microbiology and Immunology, University of Gothenburg, Gothenburg, Sweden., Srinivas S; Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, UK., Briscoe J; The Francis Crick Institute, London, UK., Simons BD; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.; The Wellcome/Cancer Research UK Gurdon Institute, University of Cambridge, Cambridge, UK.; Department of Applied Mathematics and Theoretical Physics, Centre for Mathematical Sciences, University of Cambridge, Cambridge, UK., Hadjantonakis AK; Developmental Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA., Göttgens B; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.; Department of Haematology, University of Cambridge, Cambridge, UK., Reik W; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK. wolf.reik@babraham.ac.uk.; Epigenetics Programme, Babraham Institute, Cambridge, UK. wolf.reik@babraham.ac.uk.; Centre for Trophoblast Research, University of Cambridge, Cambridge, UK. wolf.reik@babraham.ac.uk.; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK. wolf.reik@babraham.ac.uk., Nichols J; Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK. jn270@cam.ac.uk.; Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK. jn270@cam.ac.uk., Cai L; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA. lcai@caltech.edu., Marioni JC; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK. marioni@ebi.ac.uk.; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK. marioni@ebi.ac.uk.; Wellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK. marioni@ebi.ac.uk.

Source: Nature biotechnology [Nat Biotechnol] 2022 Jan; Vol. 40 (1), pp. 74-85. Date of Electronic Publication: 2021 Sep 06.

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: Single-Cell Analysis*/methods , Transcriptome*/genetics, Animals ; In Situ Hybridization, Fluorescence/methods ; Mice ; Organogenesis/genetics ; RNA, Messenger/genetics

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19
Academic Journal
MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data.

Authors: Argelaguet R; European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire, CB10 1SD, UK. ricard@ebi.ac.uk., Arnol D; European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire, CB10 1SD, UK., Bredikhin D; European Molecular Biology Laboratory (EMBL), Heidelberg, Germany., Deloro Y; European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire, CB10 1SD, UK., Velten B; European Molecular Biology Laboratory (EMBL), Heidelberg, Germany.; Division of Computational Genomics and Systems Genetics, German Cancer Research Center (DKFZ), Heidelberg, Germany., Marioni JC; European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire, CB10 1SD, UK. marioni@ebi.ac.uk.; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, CB2 0RE, UK. marioni@ebi.ac.uk.; Wellcome Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK. marioni@ebi.ac.uk., Stegle O; European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire, CB10 1SD, UK. o.stegle@dkfz-heidelberg.de.; European Molecular Biology Laboratory (EMBL), Heidelberg, Germany. o.stegle@dkfz-heidelberg.de.; Division of Computational Genomics and Systems Genetics, German Cancer Research Center (DKFZ), Heidelberg, Germany. o.stegle@dkfz-heidelberg.de.

Source: Genome biology [Genome Biol] 2020 May 11; Vol. 21 (1), pp. 111. Date of Electronic Publication: 2020 May 11.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't; Validation Study

Journal Info: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE

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20
Academic Journal
A high-content RNAi screen reveals multiple roles for long noncoding RNAs in cell division.

Authors: Stojic L; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK. l.stojic@qmul.ac.uk.; Centre for Cancer Cell and Molecular Biology, Barts Cancer Institute, Queen Mary University of London, London, EC1M 6BQ, UK. l.stojic@qmul.ac.uk., Lun ATL; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.; Genentech, Inc., South San Francisco, CA, USA., Mascalchi P; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.; DRVision Technologies, Bordeaux, France., Ernst C; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.; School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), 1015, Lausanne, Switzerland., Redmond AM; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.; MRC Cancer Unit, Hutchison/MRC Research Centre, University of Cambridge, Cambridge, UK., Mangei J; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.; Molecular Genetics, Deutsches Krebsforschungszentrum, Im Neuenheimer Feld 280, 69120, Heidelberg, Germany., Barr AR; Institute of Cancer Research, 237 Fulham Road, London, SW3 6JB, UK.; MRC London Institute of Medical Sciences (LMS), Hammersmith Hospital Campus, Du Cane Road, London, W12 0NN, UK., Bousgouni V; Institute of Cancer Research, 237 Fulham Road, London, SW3 6JB, UK., Bakal C; Institute of Cancer Research, 237 Fulham Road, London, SW3 6JB, UK., Marioni JC; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK.; European Bioinformatics Institute, European Molecular Biology Laboratory (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.; Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, UK., Odom DT; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK. duncan.odom@cruk.cam.ac.uk.; Division of Regulatory Genomics and Cancer Evolution, Deutsches Krebsforschungszentrum, Im Neuenheimer Feld 280, 69120, Heidelberg, Germany. duncan.odom@cruk.cam.ac.uk., Gergely F; Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Robinson Way, Cambridge, CB2 0RE, UK. fanni.gergely@cruk.cam.ac.uk.

Source: Nature communications [Nat Commun] 2020 Apr 15; Vol. 11 (1), pp. 1851. Date of Electronic Publication: 2020 Apr 15.

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

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

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