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Items: 35

1.

Machine Learning of Stem Cell Identities From Single-Cell Expression Data via Regulatory Network Archetypes.

Stumpf PS, MacArthur BD.

Front Genet. 2019 Jan 22;10:2. doi: 10.3389/fgene.2019.00002. eCollection 2019.

2.

Thrombopoietin Metabolically Primes Hematopoietic Stem Cells to Megakaryocyte-Lineage Differentiation.

Nakamura-Ishizu A, Matsumura T, Stumpf PS, Umemoto T, Takizawa H, Takihara Y, O'Neil A, Majeed ABBA, MacArthur BD, Suda T.

Cell Rep. 2018 Nov 13;25(7):1772-1785.e6. doi: 10.1016/j.celrep.2018.10.059.

3.

The telomere binding protein Pot1 maintains haematopoietic stem cell activity with age.

Hosokawa K, MacArthur BD, Ikushima YM, Toyama H, Masuhiro Y, Hanazawa S, Suda T, Arai F.

Nat Commun. 2017 Oct 6;8(1):804. doi: 10.1038/s41467-017-00935-4.

4.

Stem Cell Differentiation as a Non-Markov Stochastic Process.

Stumpf PS, Smith RCG, Lenz M, Schuppert A, Müller FJ, Babtie A, Chan TE, Stumpf MPH, Please CP, Howison SD, Arai F, MacArthur BD.

Cell Syst. 2017 Sep 27;5(3):268-282.e7. doi: 10.1016/j.cels.2017.08.009.

5.

Functional analysis of Protection of Telomeres 1a (Pot1a) in regulation of hematopoietic stem cell aging.

Hosokawa K, Macarthur BD, Ikushima Y, Toyama H, Masuhiro Y, Hanazawa S, Suda T, Arai F.

Rinsho Ketsueki. 2017;58(8):942-949. doi: 10.11406/rinketsu.58.942. Japanese.

PMID:
28883279
6.

Nanog Fluctuations in Embryonic Stem Cells Highlight the Problem of Measurement in Cell Biology.

Smith RCG, Stumpf PS, Ridden SJ, Sim A, Filippi S, Harrington HA, MacArthur BD.

Biophys J. 2017 Jun 20;112(12):2641-2652. doi: 10.1016/j.bpj.2017.05.005.

7.

Classification of Paediatric Inflammatory Bowel Disease using Machine Learning.

Mossotto E, Ashton JJ, Coelho T, Beattie RM, MacArthur BD, Ennis S.

Sci Rep. 2017 May 25;7(1):2427. doi: 10.1038/s41598-017-02606-2.

8.

Noise-processing by signaling networks.

Kontogeorgaki S, Sánchez-García RJ, Ewing RM, Zygalakis KC, MacArthur BD.

Sci Rep. 2017 Apr 3;7(1):532. doi: 10.1038/s41598-017-00659-x.

9.

Prediction of postoperative liver regeneration from clinical information using a data-led mathematical model.

Yamamoto KN, Ishii M, Inoue Y, Hirokawa F, MacArthur BD, Nakamura A, Haeno H, Uchiyama K.

Sci Rep. 2016 Oct 3;6:34214. doi: 10.1038/srep34214.

10.

Single-cell pluripotency regulatory networks.

Stumpf PS, Ewing R, MacArthur BD.

Proteomics. 2016 Sep;16(17):2303-12. doi: 10.1002/pmic.201500528. Epub 2016 Aug 12.

PMID:
27357612
11.

Extracellular Matrix Deposition in Engineered Micromass Cartilage Pellet Cultures: Measurements and Modelling.

Lewis MC, MacArthur BD, Tare RS, Oreffo RO, Please CP.

PLoS One. 2016 Feb 18;11(2):e0147302. doi: 10.1371/journal.pone.0147302. eCollection 2016.

12.

Entropy, Ergodicity, and Stem Cell Multipotency.

Ridden SJ, Chang HH, Zygalakis KC, MacArthur BD.

Phys Rev Lett. 2015 Nov 13;115(20):208103. doi: 10.1103/PhysRevLett.115.208103. Epub 2015 Nov 9.

PMID:
26613476
13.

Single-Cell Analyses of ESCs Reveal Alternative Pluripotent Cell States and Molecular Mechanisms that Control Self-Renewal.

Papatsenko D, Darr H, Kulakovskiy IV, Waghray A, Makeev VJ, MacArthur BD, Lemischka IR.

Stem Cell Reports. 2015 Aug 11;5(2):207-20. doi: 10.1016/j.stemcr.2015.07.004.

14.

Quantifying the cumulative effect of low-penetrance genetic variants on breast cancer risk.

Smyth C, Špakulová I, Cotton-Barratt O, Rafiq S, Tapper W, Upstill-Goddard R, Hopper JL, Makalic E, Schmidt DF, Kapuscinski M, Fliege J, Collins A, Brodzki J, Eccles DM, MacArthur BD.

Mol Genet Genomic Med. 2015 May;3(3):182-8. doi: 10.1002/mgg3.129. Epub 2015 Jan 14.

15.

Visualization and clustering of high-dimensional transcriptome data using GATE.

Stumpf PS, MacArthur BD.

Methods Mol Biol. 2014;1150:131-9. doi: 10.1007/978-1-4939-0512-6_7.

PMID:
24743994
16.

Collective dynamics of stem cell populations.

MacArthur BD.

Proc Natl Acad Sci U S A. 2014 Mar 11;111(10):3653-4. doi: 10.1073/pnas.1401030111. Epub 2014 Mar 3. No abstract available.

17.

Statistical mechanics of pluripotency.

MacArthur BD, Lemischka IR.

Cell. 2013 Aug 1;154(3):484-9. doi: 10.1016/j.cell.2013.07.024.

18.

Power-laws and the use of pluripotent stem cell lines.

Schuldt BM, Guhr A, Lenz M, Kobold S, MacArthur BD, Schuppert A, Löser P, Müller FJ.

PLoS One. 2013;8(1):e52068. doi: 10.1371/journal.pone.0052068. Epub 2013 Jan 2.

19.

Nanog-dependent feedback loops regulate murine embryonic stem cell heterogeneity.

MacArthur BD, Sevilla A, Lenz M, Müller FJ, Schuldt BM, Schuppert AA, Ridden SJ, Stumpf PS, Fidalgo M, Ma'ayan A, Wang J, Lemischka IR.

Nat Cell Biol. 2012 Nov;14(11):1139-47. doi: 10.1038/ncb2603. Epub 2012 Oct 28.

20.

Mesenchymal and haematopoietic stem cells form a unique bone marrow niche.

Méndez-Ferrer S, Michurina TV, Ferraro F, Mazloom AR, Macarthur BD, Lira SA, Scadden DT, Ma'ayan A, Enikolopov GN, Frenette PS.

Nature. 2010 Aug 12;466(7308):829-34. doi: 10.1038/nature09262.

21.

Microdynamics and criticality of adaptive regulatory networks.

MacArthur BD, Sánchez-García RJ, Ma'ayan A.

Phys Rev Lett. 2010 Apr 23;104(16):168701. Epub 2010 Apr 19.

22.

Systems-level dynamic analyses of fate change in murine embryonic stem cells.

Lu R, Markowetz F, Unwin RD, Leek JT, Airoldi EM, MacArthur BD, Lachmann A, Rozov R, Ma'ayan A, Boyer LA, Troyanskaya OG, Whetton AD, Lemischka IR.

Nature. 2009 Nov 19;462(7271):358-62. doi: 10.1038/nature08575.

23.

GATE: software for the analysis and visualization of high-dimensional time series expression data.

MacArthur BD, Lachmann A, Lemischka IR, Ma'ayan A.

Bioinformatics. 2010 Jan 1;26(1):143-4. doi: 10.1093/bioinformatics/btp628. Epub 2009 Nov 5.

24.

Spectral characteristics of network redundancy.

MacArthur BD, Sánchez-García RJ.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Aug;80(2 Pt 2):026117. Epub 2009 Aug 19.

PMID:
19792210
25.

Systems biology of stem cell fate and cellular reprogramming.

Macarthur BD, Ma'ayan A, Lemischka IR.

Nat Rev Mol Cell Biol. 2009 Oct;10(10):672-81. doi: 10.1038/nrm2766. Epub 2009 Sep 9. Review.

26.

Toward stem cell systems biology: from molecules to networks and landscapes.

MacArthur BD, Ma'ayan A, Lemischka IR.

Cold Spring Harb Symp Quant Biol. 2008;73:211-5. doi: 10.1101/sqb.2008.73.061. Epub 2009 Mar 27. Review.

27.

Network quotients: structural skeletons of complex systems.

Xiao Y, MacArthur BD, Wang H, Xiong M, Wang W.

Phys Rev E Stat Nonlin Soft Matter Phys. 2008 Oct;78(4 Pt 2):046102. Epub 2008 Oct 3.

PMID:
18999488
28.

Identification of candidate regulators of multipotency in human skeletal progenitor cells.

MacArthur BD, Tare RS, Murawski K, Oreffo RO.

Biochem Biophys Res Commun. 2008 Dec 5;377(1):68-72. doi: 10.1016/j.bbrc.2008.09.084. Epub 2008 Sep 26.

PMID:
18823939
29.

Stochasticity and the molecular mechanisms of induced pluripotency.

MacArthur BD, Please CP, Oreffo RO.

PLoS One. 2008 Aug 28;3(8):e3086. doi: 10.1371/journal.pone.0003086.

30.

A non-invasive method for in situ quantification of subpopulation behaviour in mixed cell culture.

MacArthur BD, Tare RS, Please CP, Prescott P, Oreffo RO.

J R Soc Interface. 2006 Feb 22;3(6):63-9.

31.

A mathematical model of dynamic glioma-host interactions: receptor-mediated invasion and local proteolysis.

MacArthur BD, Please CP, Pettet GJ.

Math Med Biol. 2005 Sep;22(3):247-64. Epub 2005 Jul 25.

PMID:
16043631
32.

Heterogeneous proliferation within engineered cartilaginous tissue: the role of oxygen tension.

Lewis MC, Macarthur BD, Malda J, Pettet G, Please CP.

Biotechnol Bioeng. 2005 Sep 5;91(5):607-15.

PMID:
16025534
33.

Bridging the gap.

MacArthur BD, Oreffo RO.

Nature. 2005 Jan 6;433(7021):19. No abstract available.

PMID:
15635390
34.

Residual stress generation and necrosis formation in multi-cell tumour spheroids.

MacArthur BD, Please CP.

J Math Biol. 2004 Dec;49(6):537-52. Epub 2004 Mar 3.

PMID:
15565445
35.

Mathematical modelling of skeletal repair.

MacArthur BD, Please CP, Taylor M, Oreffo RO.

Biochem Biophys Res Commun. 2004 Jan 23;313(4):825-33. Review.

PMID:
14706616

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