Publications

Covers

NRG cover
Zernicka-Goetz M, Morris SA, Bruce AW. Nat Rev Genet. 2009
CellNet cell cover

Morris et al., Cahan et al., Cell. 2014

Open Bio cover

Morris et al., Open Biol. 2013

Open Bio cover

Seiler and Waye et al., Cell Mol Gastroenterol Hepatol. 2019

Papers

BioRxiv Paper

Samantha A. Morris.
Cell identity reprogrammed.
Nature. 2019 Nov;575(7781):44-45. doi: 10.1038/d41586-019-02834-8.

BioRxiv Paper

Kristen M. Seiler*, Sarah E. Waye*, Wenjun Kong, Kenji Kamimoto, Adam Bajinting, William H. Goo, Emily J. Onufer, Cathleen Courtney, Jun Guo, Brad W. Warner1**, Samantha A. Morris**. *co-first; **co-corresponding.
Single-Cell Analysis Reveals Regional Reprogramming during Adaptation to Massive Small Bowel Resection in Mice
Cellular and Molecular Gastroenterology and Hepatology. 2019;8(3):407-426. doi: 10.1016/j.jcmgh.2019.06.001.

BioRxiv Paper

Samantha A. Morris.
The evolving concept of cell identity in the single cell era.
Development. 2019 Jun 27;146(12).

BioRxiv Paper

Chuner Guo, Wenjun Kong, Kenji Kamimoto, Guillermo. C. Rivera-Gonzalez, Xue Yang, Yuhei Kirita, Samantha A. Morris
CellTag Indexing: genetic barcode-based sample multiplexing for single-cell genomics.
Genome Biology. 2019 May;9;20(1):90. doi: 10.1186/s13059-019-1699-y.

BioRxiv Paper

Samantha A. Morris.
Pinpointing a spatial address for RNA profiles in tissues.
Nature. 2019 May;569(7755):197-199. doi: 10.1038/d41586-019-01405-1.

BioRxiv Paper

Kristen M. Seiler*, Sarah E. Waye*, Wenjun Kong, Kenji Kamimoto, Adam Bajinting, William H. Goo, Emily J. Onufer, Cathleen Courtney, Jun Guo, Brad W. Warner1**, Samantha A. Morris**. *co-first; **co-corresponding.
Single-Cell Analysis Reveals Regional Reprogramming during Adaptation to Massive Small Bowel Resection in Mice
BioRxiv. 2019 Apr; https://www.biorxiv.org/content/10.1101/615054v1.

BioRxiv Paper

Arnav Moudgil, Michael N. Wilkinson, Xuhua Chen, June He, Alex J. Cammack, Michael J.
Vasek, Tomas Lagunas, Jr., Zongtai Qi, Samantha A. Morris, Joseph D. Dougherty, Robi D. Mitra.
Self-reporting transposons enable simultaneous readout of gene expression and transcription factor binding in single cells.
BioRxiv. 2019 Feb 20; https://www.biorxiv.org/content/10.1101/538553v2

BioRxiv Paper

Brent A. Biddy, Wenjun Kong, Kenji Kamimoto, Chuner Guo, Sarah E. Waye, Tao Sun & Samantha A. Morris.
Single-cell mapping of lineage and identity in direct reprogramming.
Nature. 2018 Dec 13; 564(7735):219-224. doi: 10.1038/s41586-018-0744-4.

Research Highlight: Tagged reprogramming.

Blog post: Single-cell mapping of lineage and identity in direct reprogramming.

BioRxiv Paper

Wenjun Kong & Samantha A. Morris.
Evaluation of Wu et al.: Comprehending Global and Local Structure of Single-Cell Datasets.
Cell Systems. 2018 Dec 26;7(6):565-566. doi: 10.1016/j.cels.2018.12.003.

BioRxiv Paper

Guillermo C. Rivera-Gonzalez & Samantha A. Morris.
Tracing the Origins of Axolotl Limb Regeneration.
Developmental Cell. 2018 Dec 17; 47(6):675-677. doi: 10.1016/j.devcel.2018.11.042.

BioRxiv Paper
Haojia Wu, Kohei Uchimura, Erinn Donnelly, Yuhei Kirita, Samantha A Morris, Benjamin D Humphreys.
Comparative Analysis and Refinement of Human PSC-Derived Kidney Organoid Differentiation with Single-Cell Transcriptomics.
Cell Stem Cell. 2018 Nov 15; doi: https://doi.org/10.1016/j.stem.2018.10.010
BioRxiv Paper
Chuner Guo, Brent A Biddy, Kenji Kamimoto, Wenjun Kong, Samantha A Morris
CellTag Indexing: a genetic barcode-based multiplexing tool for single-cell technologies
BioRxiv. 2018 May 31; doi: https://doi.org/10.1101/127860
BioRxiv Paper
Kenji Kamimoto and Samantha A Morris.
Breaking New Ground in the Landscape of Single-Cell Analysis.
Cell Systems2018 Jan 24;6(1):5-7. doi: 10.1016/j.cels.2017.12.015.
BioRxiv Paper
Haojia Wu, Kohei Uchimura, Erinn Donnelly, Yuhei Kirita, Samantha A Morris, Benjamin D Humphreys
Comparative analysis of kidney organoid and adult human kidney single cell and single nucleus transcriptomes.
BioRxiv2017 Dec 11; doi: https://doi.org/10.1101/232561
COGDE Paper
Guo C and Morris SA.
Engineering cell identity: establishing new gene regulatory and chromatin landscapes.
Curr Opin Genet Dev. 2017 Jun 28;46:50-57. doi: 10.1016/j.gde.2017.06.011.
BioRxiv Paper
Biddy BA, Waye SE, Sun T, Morris SA.
Single-cell analysis of clonal dynamics in direct lineage reprogramming: a combinatorial indexing method for lineage tracing.
BioRxiv2017 Apr; doi: https://doi.org/10.1101/127860
Open Bio Paper
Morris SA.
Human embryos cultured in vitro to 14 days.
Open Biology2017 Jan;7(1). pii: 170003. doi: 10.1098/rsob.170003

 

Development Paper
Morris SA.
Direct lineage reprogramming via pioneer factors; a detour through developmental gene regulatory networks.
Development2016 143: 2696-2705; doi: 10.1242/dev.138263.

 

Tibtec Paper
Morris SA.
Single-Cell RNA-Seq Steps Up to the Growth Plate.
Trends Biotechnol. 2016; 34(7):525-7.

 

JEM Paper
Diaz MF, Li N, Lee HJ, Adamo L, Evans SM, Willey HE, Arora N, Torisawa YS, Vickers DA, Morris SA, Naveiras O, Murthy SK, Ingber DE, Daley GQ, García-Cardeña G, Wenzel PL.
Biomechanical forces promote blood development through prostaglandin E2 and the cAMP-PKA signaling axis.
J Exp Med. 2015 May 4;212(5):665-80.

 

CellNet commentary
Cahan P, Morris SA, Collins JJ, Daley GQ.
Defining cellular identity through network biology.
Cell Cycle. 2014 Nov 14;13(21):3313-14
CellNet Cell functional paper
Morris SA*, Cahan PC*, Li H*, Zhao A, San Roman AK, Shivdasani RA, Collins JJ, Daley GQ.
Dissecting Engineered Cell Types and Enhancing Cell Fate Conversion via CellNet.
Cell. 2014 Aug 14;158(4):889-902. * Equal contribution. Featured on cover
Cell commentary: CellNet–where your cells are standing
Nature commentary: Network biology: A compass for stem-cell differentiation
Nature Biotechnology commentary: A blueprint of cell identity
CellNet Cell analytical paper
Cahan PC*, Li H*, Morris SA*, Lummertz da Rocha E, Daley GQ, Collins JJ.
CellNet: Network Biology Applied to Stem Cell Engineering.
Cell. 2014 Aug 14;158(4):903-15. * Equal contribution. Featured on cover
Cell commentary: CellNet–where your cells are standing
Nature commentary: Network biology: A compass for stem-cell differentiation
Nature Biotechnology commentary: A blueprint of cell identity
Fgf signalling in the pre-implantation embryo
Morris SA, Graham SJ, Jedrusik A, Zernicka-Goetz M.
The differential response to Fgf signalling in cells internalized at different times influences lineage segregation in preimplantation mouse embryos.
Open Biol. 2013  Nov20;3(11):130104

Featured on cover

Review of cell fate engineering
Morris SA, Daley GQ.
A blueprint for engineering cell fate: current technologies to reprogram cell identity.
Cell Res. 2013 Jan;23(1):33-48. Review

Winner of The 2013 Sanofi-Cell Research Outstanding Review Article Award

Plos Genetics
Jones MR, Blahna MT, Kozlowski E, Matsuura KY, Ferrari JD, Morris SA, Powers JT, Daley GQ, Quinton LJ, Mizgerd JP.
Zcchc11 uridylates mature miRNAs to enhance neonatal IGF-1 expression, growth, and survival.
PLoS Genet. 2012;8(11)
Fgf and Wnt signalling in pre-implantation mouse embryo
Morris SA, Gu Y, and Zernicka-Goetz M.
Developmental plasticity is bound by pluripotency and the Fgf and Wnt signaling pathways.
Cell Reports. 2012. Oct 25;2(4):756-65

Featured among Cell Reports’ Best of 2012

In vitro implantation of the developing embryo
Morris SA*, Grewal S*, Barrios F*, Patankar SN, Strauss B, Buttery L, Alexander M, Shakesheff K and Zernicka Goetz M.
Dynamics of anterior-posterior axis formation in the developing mouse embryo.
Nature Commun. 2012 Feb 14;3:673. * Equal contribution
RBM Online
Morris SA.
Reply: Cell fate in the early mouse embryo: Sorting out the influence of developmental history on lineage choice.
Reprod Biomed Online. 2011 Jun;22(6):521-4
Patterning the embryo commentary
Morris SA.
Cell fate in the early mouse embryo: Sorting out the influence of developmental history on lineage choice.
Reprod Biomed Online. 2011 Jun;22(6):521-4
Origin of the first lineages of the mouse embryo
Morris SA, Teo RT, Li H, Robson P, Glover DM, Zernicka-Goetz M.
Origin and formation of the first two distinct cell types of the inner cell mass in the mouse embryo.
Proc Natl Acad Sci USA. 2010 Apr 6;107(14):6364-9
Review of early developmental patterning
Zernicka-Goetz M, Morris SA, Bruce AW.
Making a firm decision: multifaceted regulation of cell fate in the early mouse embryo.
Nat Rev Genet. 2009 Jul;10(7):467-77. Review

Featured on cover

Patterning the early embryo
Meilhac SM, Adams RJ*, Morris SA*, Danckaert A, Le Garrec JF, Zernicka-Goetz M.
Active cell movements coupled to positional induction are involved in lineage segregation in the mouse blastocyst.
Dev Biol. 2009 Jul 15;331(2):210-21. * Equal contribution
Signalling in early development
Morris SA, Almeida AD, Tanaka H, Ohta K, Ohnuma S.
Tsukushi modulates Xnr2, FGF and BMP signaling: regulation of Xenopus germ layer formation.
PLoS One. 2007 Oct 10;2(10):e1004
Signalling and structure
Harrington AE, Morris SA, Ruotolo BT, Robinson CV, Ohnuma S, Hyvonen M.
Structural basis for the inhibition of activin signalling by follistatin.
EMBO J. 2006 Mar 8;25(5):1035-45.
Fgf signalling in development
Anderson AA, Kendal CE, Garcia-Maya M, Kenny AV, Morris SA, Wu T, Reynolds R, Hohenester E, Saffell JL.
A peptide from the first fibronectin domain of NCAM acts as an inverse agonist and stimulates FGF receptor activation, neurite outgrowth and survival.
J Neurochem. 2005 Oct;95(2):570-83
Fate specification in the early mouse embryo book chapter

Book chapter

Morris SA and Zernicka-Goetz M.
Formation of distinct cell types in the mouse blastocyst. Mouse Development: From Oocyte to Stem. Springer. Jacek Z. Kubiak (Ed.).
Results Probl Cell Differ. 2012;55:203-17
Cell signaling in early development thesis

Thesis

Morris SA.
Extracellular Regulation of TGF-Beta Superfamily Signalling in Early Xenopus Laevis Development.
PhD Thesis, University of Cambridge, UK. Awarded 2007.

View publications on Pubmed

View publications on ResearchGate

View publications on Google Scholar