Interactive analysis and assessment of single-cell copy-number variations

Nature Methods

Volumn 12, Issue 11, 2015, Pages 1058-1060

  Garvin, Tyler ^a   Aboukhalil, Robert ^a   Kendall, Jude ^a   Baslan, Timour ^a,b,c   Atwal, Gurinder S ^a   Hicks, James ^a   Wigler, Michael ^a   Schatz, Michael C ^a  

^a Howard Hughes Medical Institute Cold Spring Harbor Laboratory Cold Spring Harbor   (United States)

^b STONY BROOK UNIVERSITY   (United States)

^c MEMORIAL SLOAN KETTERING CANCER CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE;

COMPUTER PROGRAM; COPY NUMBER VARIATION; GENE AMPLIFICATION; GENE MAPPING; PHYLOGENETIC TREE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REVIEW; SINGLE CELL ANALYSIS; ALGORITHM; ANIMAL; AUTOMATION; BIOLOGY; CLUSTER ANALYSIS; DROSOPHILA; FEMALE; GENE DOSAGE; GENETICS; GENOME; HUMAN; HUMAN GENOME; INTERNET; LUNG NEOPLASMS; MALE; MOUSE; PAN TROGLODYTES; PHYLOGENY; RAT; REPRODUCIBILITY; SEX CHROMOSOME; SMALL CELL LUNG CARCINOMA; SOFTWARE;

ALGORITHMS; ANIMALS; AUTOMATION; CLUSTER ANALYSIS; COMPUTATIONAL BIOLOGY; DNA COPY NUMBER VARIATIONS; DROSOPHILA; FEMALE; GENE DOSAGE; GENOME; GENOME, HUMAN; HUMANS; INTERNET; LUNG NEOPLASMS; MALE; MICE; OLIGONUCLEOTIDES; PAN TROGLODYTES; PHYLOGENY; POLYMERASE CHAIN REACTION; RATS; REPRODUCIBILITY OF RESULTS; SEX CHROMOSOMES; SMALL CELL LUNG CARCINOMA; SOFTWARE;

EID: 84946488247     PISSN: 15487091     EISSN: 15487105     Source Type: Journal    
DOI: 10.1038/nmeth.3578     Document Type: Review

References (29)

1. Shapiro, E., Biezuner, T. & Linnarsson, S. Nat. Rev. Genet. 14, 618-630 (2013).
2. Wigler, M. Genome Med 4, 79 (2012).
3. McConnell, M.J. et al. Science 342, 632-637 (2013).
4. Blainey, P.C. FEMS Microbiol. Rev. 37, 407-427 (2013).
5. Wang, J., Fan, H.C., Behr, B. & Quake, S.R. Cell 150, 402-412 (2012).
6. Gundry, M., Li, W., Maqbool, S.B. & Vijg, J. Nucleic Acids Res. 40, 2032-2040 (2012).
7. Navin, N. et al. Nature 472, 90-94 (2011).
8. Ni, X. et al. Proc. Natl. Acad. Sci. USA 110, 21083-21088 (2013).
9. Lu, S. et al. Science 338, 1627-1630 (2012).
10. Navin, N. et al. Genome Res. 20, 68-80 (2010).
11. Henrichsen, C.N., Chaignat, E. & Reymond, A. Hum. Mol. Genet. 18, R1-R8 (2009).
12. Alkan, C., Coe, B.P. & Eichler, E.E. Nat. Rev. Genet. 12, 363-376 (2011).
13. Baslan, T. et al. Nat. Protoc. 7, 1024-1041 (2012).
14. Smits, S.A. & Ouverney, C.C. PLoS One 5, e12267 (2010).
15. Zong, C., Lu, S., Chapman, A.R. & Xie, X.S. Science 338, 1622-1626 (2012).
16. Hou, Y. et al. Cell 155, 1492-1506 (2013).
17. Ross, M.G. et al. Genome Biol. 14, R51 (2013).
18. Navin, N.E. Genome Biol. 15, 452 (2014).
19. Cai, X. et al. Cell Rep. 8, 1280-1289 (2014).
20. Chen, M. et al. PLoS One 9, e114520 (2014).
21. de Bourcy, C.F. et al. PLoS One 9, e105585 (2014).
22. Evrony, G.D. et al. Cell 151, 483-496 (2012).
23. Kirkness, E.F. et al. Genome Res. 23, 826-832 (2013).
24. Langmead, B. et al. Genome Biol. 10, R25 (2009).
25. Baslan, T. et al. Genome Res. 25, 714-724 (2015).
26. Cleveland, W.S. Am. Stat. 35, 54 (1981).
27. Olshen, A.B. et al. Biostatistics 5, 557-572 (2004).
28. Daley, T. & Smith, A.D. Bioinformatics 30, 3159-3165 (2014).
29. Abyzov, A. et al. Genome Res. 21, 974-984 (2011).