Michael Morgan

Research output

Research output per year 2010 2018 2021 2022 2023

• 19 Article
• 1 Other contribution
• 1 Preprint

Research output per year

Research output per year

Search results

• 2023

  Milo2.0 unlocks population genetic analyses of cell state abundance using a count-based mixed model

  Alice, K., Marioni, J. C. & Morgan, M. D. (Corresponding Author), 11 Nov 2023, bioRxiv.

  Research output: Working paper › Preprint

  Open Access

  • Population Genetics 100%
  • Immunity 100%
  • Statistical Genetics 50%
  • Quantitative Trait Locus 25%
  • RNA Sequence 25%

• Origin and segregation of the human germline

  Castillo-Venzor, A. (Corresponding Author), Penfold, C. A., Morgan, M. D., Tang, W. W., Kobayashi, T., Wong, F. C., Bergmann, S., Slatery, E., Boroviak, T. E., Marioni, J. C. & Surani, M. A. (Corresponding Author), 1 Aug 2023, In: Life Science Alliance. 6, 8, e202201706 .

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • TFAP2A 100%
  • Amnion 100%
  • Amnion Cell 49%
  • Amniotic Cells 29%
  • Genetic Loss-of-function 29%
  16 Citations (Scopus)

  10 Downloads (Pure)
• 2022

  Sequential enhancer state remodelling defines human germline competence and specification

  Tang, W. W. C. (Corresponding Author), Castillo-Venzor, A., Gruhn, W. H., Kobayashi, T., Penfold, C. A., Morgan, M. D., Sun, D., Irie, N. & Surani, M. A. (Corresponding Author), 11 Apr 2022, In: Nature Cell Biology. 24, 4, p. 448-460 13 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Human Germline 100%
  • Primordial Germ Cells 75%
  • SOX17 50%
  • HPGCLC 50%
  • Germ Cell Fate 25%
  37 Citations (Scopus)

  10 Downloads (Pure)

• Coagulation factor V is a T-cell inhibitor expressed by leukocytes in COVID-19

  Cambridge Institute of Therapeutic Immunology and Infectious Disease-National Institute of Health Research (CITIID-NIHR) Covid BioResource Collaboration, 18 Mar 2022, In: iScience. 25, 3, p. 103971

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Leukocyte 100%
  • COVID-19 100%
  • T Cell 100%
  • T Cell Inhibitors 100%
  • Coagulation Factor V 100%
  8 Citations (Scopus)

  19 Downloads (Pure)

• PBMC isolation

  Morgan, M., 8 Mar 2022, protocols.io.

  Research output: Other contribution

  Open Access

  File

  • PBMC Isolation 100%
  • Lithium Heparin 100%
  • Heparin 100%
  9 Downloads (Pure)

• The impact of hypoxia on B cells in COVID-19

  Kotagiri, P., Mescia, F., Hanson, A. L., Turner, L., Bergamaschi, L., Peñalver, A., Richoz, N., Moore, S. D., Ortmann, B. M., Dunmore, B. J., Morgan, M. D., Tuong, Z. K., Göttgens, B., Toshner, M., Hess, C., Maxwell, P. H., Clatworthy, M. R., Nathan, J. A., Bradley, J. R. & Lyons, P. A. & 3 others, Burrows, N. (Corresponding Author), Smith, K. G. C. (Corresponding Author) & Cambridge Institute of Therapeutic Immunology and Infectious Disease-National Institute of Health Research (CITIID-NIHR) Covid BioResource Collaboration, 1 Mar 2022, In: EBioMedicine. 77, 103878.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Silent Hypoxia 100%
  • COVID-19 Pneumonia 100%
  • Transitional B Cells 100%
  • Whole Blood RNA 100%
  • B Lymphocyte Subpopulation 72%
  19 Citations (Scopus)

  11 Downloads (Pure)

• Differential abundance testing on single-cell data using k-nearest neighbor graphs

  Dann, E., Henderson, N. C., Teichmann, S. A., Morgan, M. D. & Marioni, J. C., Feb 2022, In: Nature Biotechnology. 40, 2, p. 245-253 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Differential Abundance Testing 100%
  • K Nearest Neighbor 100%
  • Cirrhotic Liver 20%
  • Open Source R 20%
  • False Discovery Rate Control 20%
  269 Citations (Scopus)
• 2021

  Cells of the human intestinal tract mapped across space and time

  Elmentaite, R., Kumasaka, N., Roberts, K., Fleming, A., Dann, E., King, H. W., Kleshchevnikov, V., Dabrowska, M., Pritchard, S., Bolt, L., Vieira, S. F., Mamanova, L., Huang, N., Perrone, F., Goh Kai'En, I., Lisgo, S. N., Katan, M., Leonard, S., Oliver, T. R. W. & Hook, C. E. & 23 others, Nayak, K., Campos, L. S., Domínguez Conde, C., Stephenson, E., Engelbert, J., Botting, R. A., Polanski, K., van Dongen, S., Patel, M., Morgan, M. D., Marioni, J. C., Bayraktar, O. A., Meyer, K. B., He, X., Barker, R. A., Uhlig, H. H., Mahbubani, K. T., Saeb-Parsy, K., Zilbauer, M., Clatworthy, M. R., Haniffa, M., James, K. R. & Teichmann, S. A., 8 Sept 2021, In: Nature. 597, 7875, p. 250-255 6 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Intestine Innervation 100%
  • Tuft Cells 33%
  • Cellular Program 33%
  • Cellular Landscape 33%
  • BEST4 33%
  318 Citations (Scopus)

  13 Downloads (Pure)

• Longitudinal analysis reveals that delayed bystander CD8+ T cell activation and early immune pathology distinguish severe COVID-19 from mild disease

  Bergamaschi, L., Mescia, F., Turner, L., Hanson, A. L., Kotagiri, P., Dunmore, B. J., Ruffieux, H., Sa, A. D., Huhn, O., Morgan, M. D., Gerber, P. P., Wills, M. R., Baker, S., Calero-Nieto, F. J., Doffinger, R., Dougan, G., Elmer, A., Goodfellow, I. G., Gupta, R. K. & Hosmillo, M. & 18 others, Hunter, K., Kingston, N., Lehner, P. J., Matheson, N. J., Nicholson, J. K., Petrunkina, A. M., Richardson, S., Saunders, C., Thaventhiran, J. E. D., Toonen, E. J. M., Weekes, M. P., Göttgens, B., Toshner, M., Hess, C., Bradley, J. R., Lyons, P. A. (Corresponding Author), Smith, K. G. C. (Corresponding Author) & Cambridge Institute of Therapeutic Immunology and Infectious Disease-National Institute of Health Research (CITIID-NIHR) Covid BioResource Collaboration, 8 Jun 2021, In: Immunity. 54, 6, p. 1257-1275.e8 28 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Immune Recovery 100%
  • Bystander Response 100%
  • Immune Reconstitution 100%
  234 Citations (Scopus)

  11 Downloads (Pure)

• Single-cell multi-omics analysis of the immune response in COVID-19

  Stephenson, E., Reynolds, G., Botting, R. A., Calero-Nieto, F. J., Morgan, M. D., Tuong, Z. K., Bach, K., Sungnak, W., Worlock, K. B., Yoshida, M., Kumasaka, N., Kania, K., Engelbert, J., Olabi, B., Spegarova, J. S., Mende, N., Jardine, L., Gardner, L. C. S., Goh, I. & Horsfall, D. & 47 others, McGrath, J., Webb, S., Mather, M. W., Lindeboom, R. G. H., Dann, E., Huang, N., Polanski, K., Prigmore, E., Gothe, F., Scott, J., Payne, R. P., Baker, K. F., Hanrath, A. T., Loeff, I. C. D. S. V. D., Barr, A. S., Sanchez-Gonzalez, A., Bergamaschi, L., Mescia, F., Barnes, J. L., Kilich, E., Wilton, A. D., Saigal, A., Saleh, A., Janes, S. M., Smith, C. M., Gopee, N., Wilson, C., Coupland, P., Coxhead, J. M., Kiselev, V. Y., Dongen, S. V., Bacardit, J., King, H. W., Rostron, A. J., Simpson, A. J., Hambleton, S., Laurenti, E., Lyons, P. A., Meyer, K. B., Nikolić, M. Z., Duncan, C. J. A., Smith, K. G. C., Teichmann, S. A., Clatworthy, M. R., Marioni, J. C., Göttgens, B. & Haniffa, M., 20 Apr 2021, In: Nature Medicine. 27, p. 904-916 13 p.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Single-cell multi-omics 100%
  • Effector Memory T Cells 33%
  • B Lymphocyte Antigen 20%
  • Megakaryocytopoiesis 20%
  • IgA2 16%
  417 Citations (Scopus)

  7 Downloads (Pure)
• 2020

  Ageing compromises mouse thymus function and remodels epithelial cell differentiation

  Baran-Gale, J., Morgan, M. D., Maio, S., Dhalla, F., Calvo-Asensio, I., Deadman, M. E., Handel, A. E., Maynard, A., Chen, S., Green, F., Sit, R. V., Neff, N. F., Darmanis, S., Tan, W., May, A. P., Marioni, J. C., Ponting, C. P. (Corresponding Author) & Holländer, G. A. (Corresponding Author), Aug 2020, In: eLife. 9, 27 p., e56221.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Mouse Thymus 100%
  • Thymus Function 100%
  • Primary Lymphoid Organs 25%
  • T Cell Selection 25%
  • T-cell Receptor Repertoire 25%
  115 Citations (Scopus)

  7 Downloads (Pure)

• Quantitative genetic analysis deciphers the impact of cis and trans regulation on cell-to-cell variability in protein expression levels

  Morgan, M. D. (Corresponding Author), Patin, E., Jagla, B., Hasan, M., Quintana-Murci, L. & Marioni, J. C. (Corresponding Author), Mar 2020, In: PLoS Genetics. 16, 3, 19 p., e1008686.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Expression Variability 100%
  • Single-Cell Protein 74%
  • Vari 49%
  • Promoter Architecture 49%
  • Gene Expression Variability 49%
  7 Citations (Scopus)

  5 Downloads (Pure)
• 2019

  Challenges in measuring and understanding biological noise

  Eling, N. (Corresponding Author), Morgan, M. D. (Corresponding Author) & Marioni, J. C. (Corresponding Author), Sept 2019, In: Nature Reviews Genetics. 20, 9, p. 536-548 14 p.

  Research output: Contribution to journal › Article › peer-review

  • Impact Source 100%
  • Tamsulosin 100%
  • Omics Strategies 50%
  • Single-cell Technologies 50%
  154 Citations (Scopus)

• Maturing human CD127+ CCR7+ PDL1+ dendritic cells express AIRE in the absence of tissue restricted antigens

  Fergusson, J. R. (Corresponding Author), Morgan, M. D., Bruchard, M., Huitema, L., Heesters, B. A., van Unen, V., van Hamburg, J. P., van der Wel, N. N., Picavet, D., Koning, F., Tas, S. W., Anderson, M. S., Marioni, J. C., Holländer, G. A. & Spits, H., 14 Jan 2019, In: Frontiers in Immunology. 10, JAN, 17 p., 2902.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Autoimmune Regulator 100%
  • Tissue-specific Antigens 100%
  • CyTOF 9%
  • APECED 9%
  • Nonautoimmune 9%
  37 Citations (Scopus)
• 2018

  Genome-wide study of hair colour in UK Biobank explains most of the SNP heritability

  Morgan, M. D., Pairo-Castineira, E., Rawlik, K., Canela-Xandri, O., Rees, J., Sims, D., Tenesa, A. & Jackson, I. J. (Corresponding Author), 10 Dec 2018, In: Nature Communications. 9, 5271.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Hair Color 100%
  • Red Hair 75%
  • Blond Hair 50%
  • MC1R Variants 50%
  • Natural Hair 25%
  94 Citations (Scopus)

  6 Downloads (Pure)

• CpG island composition differences are a source of gene expression noise indicative of promoter responsiveness

  Morgan, M. D. (Corresponding Author) & Marioni, J. C. (Corresponding Author), Jun 2018, In: Genome Biology. 19, 13 p., 18 .

  Research output: Contribution to journal › Article › peer-review

  Open Access

  File

  • Promoter Region 100%
  • CpG Island 100%
  • Gene Expression 100%
  • Gene Expression Noise 100%
  • Response Element 28%
  19 Citations (Scopus)

  7 Downloads (Pure)

• Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

  Haghverdi, L., Lun, A. T. L., Morgan, M. D. & Marioni, J. C. (Corresponding Author), May 2018, In: Nature Biotechnology. 36, p. 421-427 12 p.

  Research output: Contribution to journal › Article › peer-review

  • Mutual Nearest Neighbor 100%
  • Batch Effects 100%
  • Single-cell RNA Sequencing Data 100%
  • RNA Sequence 100%
  • Phase Composition 100%
  1305 Citations (Scopus)
• 2016

  High-fat diet disrupts metabolism in two generations of rats in a parent-of-origin specific manner

  Chambers, T. J. G., Morgan, M. D., Heger, A. H., Sharpe, R. M. & Drake, A. J., 23 Aug 2016, In: Scientific Reports. 6, 31857.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Metabolic Pathway 100%
  • Progeny 100%
  • Transcriptome 40%
  • Breed 40%
  • Testicular Germ Cells 28%
  41 Citations (Scopus)
• 2014

  MTHFR functional genetic variation and methotrexate treatment response in rheumatoid arthritis: a meta-analysis

  Morgan, M. D., Al-Shaarawy, N., Martin, S., Robinson, J. I., Twigg, S., Consortium, Y., Magdy, A. A., Omar, A. S., Ghattas, M. H., Emery, P., Barrett, J. H. & Morgan, A. W. (Corresponding Author), 2014, In: Pharmacogenomics. 15, 4

  Research output: Contribution to journal › Article › peer-review

  • Inflammatory Arthritis 100%
  • Methotrexate 100%
  • Genetic Variation 100%
  • Genetic Divergence 100%
  • Single Nucleotide Polymorphism 60%
  17 Citations (Scopus)
• 2013

  Allele-Dose Association of the C5orf30 rs26232 Variant With Joint Damage in Rheumatoid Arthritis

  Teare, M. D., Knevel, R., Morgan, M. D., Kleszcz, A., Emery, P., Moore, D. J., Conaghan, P., Huizinga, T. W. J., Morgan, A. W., van der Helm-van Mil, A. H. M. & Wilson, A. G., 1 Jul 2013, In: Arthritis and Rheumatism. 65, 10, p. 2555-2561

  Research output: Contribution to journal › Article › peer-review

  • Rheumatoid Arthritis 100%
  • Joint Damage 100%
  • Inflammatory Arthritis 100%
  • Allele 100%
  • Radiologic 66%
  20 Citations (Scopus)
• 2010

  Evaluation of the rheumatoid arthritis susceptibility loci HLA-DRB1, PTPN22, OLIG3/TNFAIP3, STAT4 and TRAF1/C5 in an inception cohort

  UKRAG Consortium & YEAR Consortium, 30 Mar 2010, In: Arthritis Research & Therapy. 12, R57.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • Inflammatory Arthritis 100%
  • STAT4 100%
  • HLA DRB1 Antigen 100%
  • Olig3 100%
  • PTPN22 100%
  38 Citations (Scopus)