Harvard Catalyst Profiles

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Allon Moshe Klein, PH.D.


The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
  1. R01HD096755 (MEGASON, SEAN G) Aug 20, 2018 - Apr 30, 2023
    Mapping the signaling landscape of vertebrate development at single cell resolution
    Role: Co-Principal Investigator
  2. R01CA218579 (KLEIN, ALLON MOSHE) Jul 18, 2018 - Jun 30, 2023
    Single Cell Genome-Wide Myeloid Response Profiling in Immunotherapy
    Role: Principal Investigator
  3. R01HL141402 (SOCOLOVSKY, MERAV) Apr 15, 2018 - Mar 31, 2022
    Novel Growth Factor Regulators of Early Erythropoieisis
    Role: Co-Principal Investigator
  4. R33CA212697 (KLEIN, ALLON MOSHE) Feb 16, 2017 - Jan 31, 2020
    Droplet microfluidic technology for single cell cancer genomics
    Role: Principal Investigator

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Pellin D, Loperfido M, Baricordi C, Wolock SL, Montepeloso A, Weinberg OK, Biffi A, Klein AM, Biasco L. A comprehensive single cell transcriptional landscape of human hematopoietic progenitors. Nat Commun. 2019 06 03; 10(1):2395. PMID: 31160568.
  2. Zilionis R, Engblom C, Pfirschke C, Savova V, Zemmour D, Saatcioglu HD, Krishnan I, Maroni G, Meyerovitz CV, Kerwin CM, Choi S, Richards WG, De Rienzo A, Tenen DG, Bueno R, Levantini E, Pittet MJ, Klein AM. Single-Cell Transcriptomics of Human and Mouse Lung Cancers Reveals Conserved Myeloid Populations across Individuals and Species. Immunity. 2019 May 21; 50(5):1317-1334.e10. PMID: 30979687.
  3. Wolock SL, Lopez R, Klein AM. Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data. Cell Syst. 2019 Apr 24; 8(4):281-291.e9. PMID: 30954476.
  4. Jones KB, Furukawa S, Marangoni P, Ma H, Pinkard H, D'Urso R, Zilionis R, Klein AM, Klein OD. Quantitative Clonal Analysis and Single-Cell Transcriptomics Reveal Division Kinetics, Hierarchy, and Fate of Oral Epithelial Progenitor Cells. Cell Stem Cell. 2019 Jan 03; 24(1):183-192.e8. PMID: 30472156.
    Citations:    Fields:    
  5. Murai K, Skrupskelyte G, Piedrafita G, Hall M, Kostiou V, Ong SH, Nagy T, Cagan A, Goulding D, Klein AM, Hall BA, Jones PH. Epidermal Tissue Adapts to Restrain Progenitors Carrying Clonal p53 Mutations. Cell Stem Cell. 2018 Nov 01; 23(5):687-699.e8. PMID: 30269904.
    Citations:    Fields:    
  6. Mesa KR, Kawaguchi K, Cockburn K, Gonzalez D, Boucher J, Xin T, Klein AM, Greco V. Homeostatic Epidermal Stem Cell Self-Renewal Is Driven by Local Differentiation. Cell Stem Cell. 2018 Nov 01; 23(5):677-686.e4. PMID: 30269903.
    Citations:    Fields:    
  7. DiSpirito JR, Zemmour D, Ramanan D, Cho J, Zilionis R, Klein AM, Benoist C, Mathis D. Molecular diversification of regulatory T cells in nonlymphoid tissues. Sci Immunol. 2018 09 14; 3(27). PMID: 30217811.
    Citations:    Fields:    
  8. Plasschaert LW, Žilionis R, Choo-Wing R, Savova V, Knehr J, Roma G, Klein AM, Jaffe AB. A single-cell atlas of the airway epithelium reveals the CFTR-rich pulmonary ionocyte. Nature. 2018 08; 560(7718):377-381. PMID: 30069046.
    Citations:    Fields:    
  9. Klein AM. Technique to measure the expression dynamics of each gene in a single cell. Nature. 2018 08; 560(7719):434-435. PMID: 30127477.
  10. Hrvatin S, Hochbaum DR, Nagy MA, Cicconet M, Robertson K, Cheadle L, Zilionis R, Ratner A, Borges-Monroy R, Klein AM, Sabatini BL, Greenberg ME. Publisher Correction: Single-cell analysis of experience-dependent transcriptomic states in the mouse visual cortex. Nat Neurosci. 2018 Jul; 21(7):1017. PMID: 29752482.
    Citations:    Fields:    
  11. Zemmour D, Zilionis R, Kiner E, Klein AM, Mathis D, Benoist C. Publisher Correction: Single-cell gene expression reveals a landscape of regulatory T cell phenotypes shaped by the TCR. Nat Immunol. 2018 06; 19(6):645. PMID: 29725080.
    Citations:    Fields:    
  12. Wagner DE, Weinreb C, Collins ZM, Briggs JA, Megason SG, Klein AM. Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo. Science. 2018 06 01; 360(6392):981-987. PMID: 29700229.
    Citations: 8     Fields:    Translation:Animals
  13. Briggs JA, Weinreb C, Wagner DE, Megason S, Peshkin L, Kirschner MW, Klein AM. The dynamics of gene expression in vertebrate embryogenesis at single-cell resolution. Science. 2018 06 01; 360(6392). PMID: 29700227.
    Citations: 7     Fields:    Translation:AnimalsCells
  14. Weinreb C, Wolock S, Klein AM. SPRING: a kinetic interface for visualizing high dimensional single-cell expression data. Bioinformatics. 2018 04 01; 34(7):1246-1248. PMID: 29228172.
    Citations: 9     Fields:    Translation:HumansCells
  15. Raj B, Wagner DE, McKenna A, Pandey S, Klein AM, Shendure J, Gagnon JA, Schier AF. Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain. Nat Biotechnol. 2018 06; 36(5):442-450. PMID: 29608178.
    Citations: 11     Fields:    Translation:HumansAnimalsCells
  16. Tusi BK, Wolock SL, Weinreb C, Hwang Y, Hidalgo D, Zilionis R, Waisman A, Huh JR, Klein AM, Socolovsky M. Population snapshots predict early haematopoietic and erythroid hierarchies. Nature. 2018 03 01; 555(7694):54-60. PMID: 29466336.
    Citations: 6     Fields:    Translation:AnimalsCells
  17. Weinreb C, Wolock S, Tusi BK, Socolovsky M, Klein AM. Fundamental limits on dynamic inference from single-cell snapshots. Proc Natl Acad Sci U S A. 2018 03 06; 115(10):E2467-E2476. PMID: 29463712.
    Citations: 2     Fields:    Translation:AnimalsCells
  18. Zemmour D, Zilionis R, Kiner E, Klein AM, Mathis D, Benoist C. Single-cell gene expression reveals a landscape of regulatory T cell phenotypes shaped by the TCR. Nat Immunol. 2018 03; 19(3):291-301. PMID: 29434354.
    Citations: 7     Fields:    
  19. Rodriguez-Fraticelli AE, Wolock SL, Weinreb CS, Panero R, Patel SH, Jankovic M, Sun J, Calogero RA, Klein AM, Camargo FD. Clonal analysis of lineage fate in native haematopoiesis. Nature. 2018 01 11; 553(7687):212-216. PMID: 29323290.
    Citations: 7     Fields:    Translation:AnimalsCells
  20. Hrvatin S, Hochbaum DR, Nagy MA, Cicconet M, Robertson K, Cheadle L, Zilionis R, Ratner A, Borges-Monroy R, Klein AM, Sabatini BL, Greenberg ME. Single-cell analysis of experience-dependent transcriptomic states in the mouse visual cortex. Nat Neurosci. 2018 01; 21(1):120-129. PMID: 29230054.
    Citations: 9     Fields:    
  21. Presler M, Van Itallie E, Klein AM, Kunz R, Coughlin ML, Peshkin L, Gygi SP, Wühr M, Kirschner MW. Proteomics of phosphorylation and protein dynamics during fertilization and meiotic exit in the Xenopus egg. Proc Natl Acad Sci U S A. 2017 12 12; 114(50):E10838-E10847. PMID: 29183978.
    Citations: 1     Fields:    Translation:AnimalsCells
  22. Klein AM, Macosko E. InDrops and Drop-seq technologies for single-cell sequencing. Lab Chip. 2017 07 25; 17(15):2540-2541. PMID: 28721415.
    Citations: 2     Fields:    Translation:HumansAnimals
  23. Wagner DE, Klein AM. Genetic screening enters the single-cell era. Nat Methods. 2017 02 28; 14(3):237-238. PMID: 28245215.
    Citations: 2     Fields:    
  24. Zilionis R, Nainys J, Veres A, Savova V, Zemmour D, Klein AM, Mazutis L. Single-cell barcoding and sequencing using droplet microfluidics. Nat Protoc. 2017 Jan; 12(1):44-73. PMID: 27929523.
    Citations: 31     Fields:    
  25. Baron M, Veres A, Wolock SL, Faust AL, Gaujoux R, Vetere A, Ryu JH, Wagner BK, Shen-Orr SS, Klein AM, Melton DA, Yanai I. A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure. Cell Syst. 2016 10 26; 3(4):346-360.e4. PMID: 27667365.
    Citations: 32     Fields:    Translation:HumansAnimalsCells
  26. Rompolas P, Mesa KR, Kawaguchi K, Park S, Gonzalez D, Brown S, Boucher J, Klein AM, Greco V. Spatiotemporal coordination of stem cell commitment during epidermal homeostasis. Science. 2016 Jun 17; 352(6292):1471-4. PMID: 27229141.
    Citations: 25     Fields:    Translation:AnimalsCells
  27. Peshkin L, Wühr M, Pearl E, Haas W, Freeman RM, Gerhart JC, Klein AM, Horb M, Gygi SP, Kirschner MW. On the Relationship of Protein and mRNA Dynamics in Vertebrate Embryonic Development. Dev Cell. 2015 Nov 09; 35(3):383-94. PMID: 26555057.
    Citations: 33     Fields:    Translation:AnimalsCells
  28. Klein AM, Mazutis L, Akartuna I, Tallapragada N, Veres A, Li V, Peshkin L, Weitz DA, Kirschner MW. Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells. Cell. 2015 May 21; 161(5):1187-1201. PMID: 26000487.
    Citations: 287     Fields:    Translation:AnimalsCells
  29. Lim X, Tan SH, Koh WL, Chau RM, Yan KS, Kuo CJ, van Amerongen R, Klein AM, Nusse R. Interfollicular epidermal stem cells self-renew via autocrine Wnt signaling. Science. 2013 Dec 06; 342(6163):1226-30. PMID: 24311688.
    Citations: 97     Fields:    Translation:HumansAnimalsCells
  30. Hernández AR, Klein AM, Kirschner MW. Kinetic responses of ß-catenin specify the sites of Wnt control. Science. 2012 Dec 07; 338(6112):1337-40. PMID: 23138978.
    Citations: 41     Fields:    Translation:HumansCells
  31. Doupé DP, Alcolea MP, Roshan A, Zhang G, Klein AM, Simons BD, Jones PH. A single progenitor population switches behavior to maintain and repair esophageal epithelium. Science. 2012 Aug 31; 337(6098):1091-3. PMID: 22821983.
    Citations: 81     Fields:    Translation:AnimalsCells
  32. Klein AM, Lande-Diner L. The critical discussion group: fostering personal and scientific growth. Mol Cell. 2011 Oct 21; 44(2):167-9. PMID: 22017864.
    Citations:    Fields:    Translation:Humans
  33. Magenheim J, Klein AM, Stanger BZ, Ashery-Padan R, Sosa-Pineda B, Gu G, Dor Y. Ngn3(+) endocrine progenitor cells control the fate and morphogenesis of pancreatic ductal epithelium. Dev Biol. 2011 Nov 01; 359(1):26-36. PMID: 21888903.
    Citations: 28     Fields:    Translation:AnimalsCells
  34. Klein AM, Simons BD. Universal patterns of stem cell fate in cycling adult tissues. Development. 2011 Aug; 138(15):3103-11. PMID: 21750026.
    Citations: 79     Fields:    Translation:AnimalsCells
  35. Waks Z, Klein AM, Silver PA. Cell-to-cell variability of alternative RNA splicing. Mol Syst Biol. 2011 Jul 05; 7:506. PMID: 21734645.
    Citations: 36     Fields:    Translation:HumansCells
  36. Klein AM, Nikolaidou-Neokosmidou V, Doupé DP, Jones PH, Simons BD. Patterning as a signature of human epidermal stem cell regulation. J R Soc Interface. 2011 Dec 07; 8(65):1815-24. PMID: 21632613.
    Citations: 4     Fields:    Translation:HumansCells
  37. Snippert HJ, van der Flier LG, Sato T, van Es JH, van den Born M, Kroon-Veenboer C, Barker N, Klein AM, van Rheenen J, Simons BD, Clevers H. Intestinal crypt homeostasis results from neutral competition between symmetrically dividing Lgr5 stem cells. Cell. 2010 Oct 01; 143(1):134-44. PMID: 20887898.
    Citations: 513     Fields:    Translation:AnimalsCells
  38. Salpeter SJ, Klein AM, Huangfu D, Grimsby J, Dor Y. Glucose and aging control the quiescence period that follows pancreatic beta cell replication. Development. 2010 Oct; 137(19):3205-13. PMID: 20823063.
    Citations: 32     Fields:    Translation:AnimalsCells
  39. Lopez-Garcia C, Klein AM, Simons BD, Winton DJ. Intestinal stem cell replacement follows a pattern of neutral drift. Science. 2010 Nov 05; 330(6005):822-5. PMID: 20929733.
    Citations: 190     Fields:    Translation:AnimalsCells
  40. Klein AM, Nakagawa T, Ichikawa R, Yoshida S, Simons BD. Mouse germ line stem cells undergo rapid and stochastic turnover. Cell Stem Cell. 2010 Aug 06; 7(2):214-24. PMID: 20682447.
    Citations: 80     Fields:    Translation:AnimalsCells
  41. Doupé DP, Klein AM, Simons BD, Jones PH. The ordered architecture of murine ear epidermis is maintained by progenitor cells with random fate. Dev Cell. 2010 Feb 16; 18(2):317-23. PMID: 20159601.
    Citations: 88     Fields:    Translation:AnimalsCells
  42. Klein AM, Brash DE, Jones PH, Simons BD. Stochastic fate of p53-mutant epidermal progenitor cells is tilted toward proliferation by UV B during preneoplasia. Proc Natl Acad Sci U S A. 2010 Jan 05; 107(1):270-5. PMID: 20018764.
    Citations: 22     Fields:    Translation:HumansAnimalsCells
  43. Klein AM, Doupé DP, Jones PH, Simons BD. Mechanism of murine epidermal maintenance: cell division and the voter model. Phys Rev E Stat Nonlin Soft Matter Phys. 2008 Mar; 77(3 Pt 1):031907. PMID: 18517422.
    Citations: 7     Fields:    Translation:Animals
  44. Klein AM, Doupé DP, Jones PH, Simons BD. Kinetics of cell division in epidermal maintenance. Phys Rev E Stat Nonlin Soft Matter Phys. 2007 Aug; 76(2 Pt 1):021910. PMID: 17930068.
    Citations: 13     Fields:    Translation:HumansAnimals
  45. Clayton E, Doupé DP, Klein AM, Winton DJ, Simons BD, Jones PH. A single type of progenitor cell maintains normal epidermis. Nature. 2007 Mar 08; 446(7132):185-9. PMID: 17330052.
    Citations: 277     Fields:    Translation:AnimalsCells
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Funded by the NIH/NCATS Clinical and Translational Science Award (CTSA) program, grant number UL1TR001102, and through institutional support from Harvard University, Harvard Medical School, Harvard T.H. Chan School of Public Health, Beth Israel Deaconess Medical Center, Boston Children's Hospital, Brigham and Women's Hospital, Massachusetts General Hospital and the Dana Farber Cancer Institute.