Single-cell analysis: Advances and future perspectives

Emir Hodzic

doi:10.17305/bjbms.2016.1371

Authors

Emir Hodzic University of California at Davis,School of Veterinary Medicine

DOI:

https://doi.org/10.17305/bjbms.2016.1371

Keywords:

Single cell, analysis, DNA, RNA, genome

Abstract

The last several years have seen rapid development of technologies and methods that permit a detailed analysis of the genome and transcriptome of a single cell. Recent evidence from studies of single cells reveals that each cell type has a distinct lineage and function. The lineage and stage of development of each cell determine how they respond to each other and the environment. Experimental approaches that utilize single-cell analysis are effective means to understand how cell networks work in concert to coordinate a response at the population level; recent progress in single-cell analysis is offering a glimpse at the future.

Citations

Downloads

Download data is not yet available.

Author Biography

Emir Hodzic, University of California at Davis,School of Veterinary Medicine

Emir Hodzic is a director of Real-Time PCR Research and Diagnostic Core Facility, School of Veterinary Medicine, University of California, Davis and a faculty microbiologist and molecular biologist, at the Department of Medicine and Epidemiology, School of Veterinary Medicine.

References

. Anselmetti D. Single cell analysis: technologies and applications. Hanover, Germany: Wiley-VCH Verlag GmbH and Co. KGaA; 2009. p. 284.

. Tang F, Lao K, Surani MA. Development and applications of single-cell transcriptome analysis. Nat Methods. 2011;8(4 Suppl):S6-11. http://dx.doi.org/10.1038/nmeth.1557.

. Rubakhin SS, Romanova EV, Nemes P, Sweedler JV. Profiling metabolites and peptides in single cells. Nat Methods. 2011;8(4 Suppl):S20-9. http://dx.doi.org/10.1038/nmeth.1549.

. Heath JR, Ribas A, Mischel PS. Single-cell analysis tools for drug discovery and development. Nat Rev Drug Discov. 2016;15(3):204-16. http://dx.doi.org/10.1038/nrd.2015.16.

. Navin N, Hicks J. Future medical applications of single-cell sequencing in cancer. Genome Med. 2011;3(5):31. http://dx.doi.org/10.1186/gm247.

. Yilmaz S, Singh AK. Single cell genome sequencing. Curr Opin Biotechnol. 2012;23(3):437-43.

http://dx.doi.org/10.1016/j.copbio.2011.11.018.

. Saliba AE, Westermann AJ, Gorski SA, Vogel J. Single-cell RNA-seq: advances and future challenges. Nucleic Acids Res. 2014;42(14):8845-60. http://dx.doi.org/10.1093/nar/gku555.

. Yoshimoto N, Kida A, Jie X, Kurokawa M, Iijima M, Niimi T, et al. An automated system for high-throughput single cell-based breeding. Sci Rep. 2013;3:1191.

http://dx.doi.org/10.1038/srep01191.

. Lovatt D, Ruble BK, Lee J, Dueck H, Kim TK, Fisher S, et al. Transcriptome in vivo analysis (TIVA) of spatially defined single cells in live tissue. Nat Methods. 2014;11(2):190-6. http://dx.doi.org/10.1038/nmeth.2804.

. Bendall SC, Simonds EF, Qiu P, Amir el-AD, Krutzik PO, Finck R, et al. Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuum. Science. 2011;332(6030):687-96.

http://dx.doi.org/10.1126/science.1198704.

. Macaulay IC, Voet T. Single cell genomics: advances and future perspectives. PLoS Genet. 2014;10(1):1004126. http://dx.doi.org/10.1371/journal.pgen.1004126.

. Navin N, Kendall J, Troge J, Andrews P, Rodgers L, McIndoo J, et al. Tumour evolution inferred by single-cell sequencing. Nature. 2011;472(7341):90-4.

http://dx.doi.org/10.1038/nature09807.

. Shapiro E, Biezuner T, Linnarsson S. Single-cell sequencing-based technologies will revolutionize whole-organism science. Nat Rev Genet. 2013;14(9):618-30.

http://dx.doi.org/10.1038/nrg3542.

. Shalek AK, Satija R, Adiconis X, Gertner RS, Gaublomme JT, Raychowdhury R, et al. Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells. Nature. 2013;498(7453):236-40. http://dx.doi.org/10.1038/nature12172.

. Georgiou G, Ippolito GC, Beausang J, Busse CE, Wardemann H, Quake SR. The promise and challenge of high-throughput sequencing of the antibody repertoire. Nat Biotechnol. 2014;32(2):158-68. http://dx.doi.org/10.1038/nbt.2782.

. Ståhlberg A, Thomsen C, Ruff D, Åman P. Quantitative PCR analysis of DNA, RNAs, and proteins in the same single cell. Clin Chem. 2012;58(12):1682-91.

http://dx.doi.org/10.1373/clinchem.2012.191445.

. Albayrak C, Jordi CA, Zechner C, Lin J, Bichsel CA, Khammash M, et al. Digital quantification of proteins and mRNA in single mammalian cells. Mol Cell. 2016;61(6):914-24. http://dx.doi.org/10.1016/j.molcel.2016.02.030.