Skip to main content
SpringerLink
Log in

Array-Comparative Genomic Hybridization Characterization of Human Pluripotent Stem Cells

  • Protocol
  • First Online:
Human Embryonic Stem Cells Handbook

Part of the book series: Methods in Molecular Biology ((MIMB,volume 873))

Abstract

During culture adaptation, human embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs) tend to acquire chromosomal aberrations. Generally, stem cell lines are screened for large-scale chromosomal changes using low resolution karyotype analysis. Recent studies characterizing human stem cells using array-comparative genomic hybridization (aCGH) suggests most abnormalities acquired during culture are under the resolution of karyotype analysis and therefore are routinely missed. Here, we describe a custom-designed stem cell focused microarray utilizing 44K probes, with increased resolution in relevant stem cell-associated and cancer-related genes.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution
Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 59.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 79.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 109.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Draper JS, Smith K, Gokhale P, Moore HD, Maltby E, Johnson J, Meisner L, Zwaka TP, Thomson JA, Andrews PW (2004) Recurrent gain of chromosomes 17q and 12 in cultured human embryonic stem cells. Nat Biotechnol 22:53–54

    Article  PubMed  CAS  Google Scholar 

  2. Maitra A, Arking DE, Shivapurkar N, Ikeda M, Stastny V, Kassauei K, Sui G, Cutler DJ, Liu Y, Brimble SN, Noaksson K, Hyllner J, Schulz TC, Zeng X, Freed WJ, Crook J, Abraham S, Colman A, Sartipy P, Matsui S, Carpenter M, Gazdar AF, Rao M, Chakravarti A (2005) Genomic alterations in cultured human embryonic stem cells. Nat Genet 37:1099–1103

    Article  PubMed  CAS  Google Scholar 

  3. Prokhorovich MA, Lagar’kova MA, Shilov AG, Karamysheva TV, Kiselyov SL, Rubtsov NB (2007) Cultures of hESM human embryonic stem cells: chromosomal aberrations and karyotype stability. Bull Exp Biol Med 144: 126–129

    Article  PubMed  CAS  Google Scholar 

  4. Spits C, Mateizel I, Geens M, Mertzanidou A, Staessen C, Vandeskelde Y, Van der Elst J, Liebaers I, Sermon K (2008) Recurrent chromosomal abnormalities in human embryonic stem cells. Nat Biotechnol 26:1361–1363

    Article  PubMed  CAS  Google Scholar 

  5. Shaffer LG, Lupski JR (2000) Molecular mechanisms for constitutional chromosomal rearrangements in humans. Annu Rev Genet 34:297–329

    Article  PubMed  CAS  Google Scholar 

  6. Shinawi M, Cheung SW (2008) The array CGH and its clinical applications. Drug Discov Today 13:760–770

    Article  PubMed  CAS  Google Scholar 

  7. Elliott AM, Elliott KA, Kammesheidt A (2010) High resolution array-CGH characterization of human stem cells using a stem cell focused microarray. Mol Biotechnol 46:234–242

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Ambry Genetics, Aliso Viejo, CA, USA

    Aaron M. Elliott, Kristi A. Hohenstein Elliott & Anja Kammesheidt

Authors
  1. Aaron M. Elliott
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Kristi A. Hohenstein Elliott
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Anja Kammesheidt
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Aaron M. Elliott .

Editor information

Editors and Affiliations

  1. Sprott Centre for Stem Cell Research, Regenerative Medicine Program, Ottawa Hospital Research Institute, Smyth Road 501, Ottawa, K1Y 8L6, Canada

    Kursad Turksen

Rights and permissions

Reprints and permissions

Copyright information

© 2012 Springer Science+Business Media, LLC

About this protocol

Cite this protocol

Elliott, A.M., Elliott, K.A.H., Kammesheidt, A. (2012). Array-Comparative Genomic Hybridization Characterization of Human Pluripotent Stem Cells. In: Turksen, K. (eds) Human Embryonic Stem Cells Handbook. Methods in Molecular Biology, vol 873. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-61779-794-1_17

Download citation

  • DOI: https://doi.org/10.1007/978-1-61779-794-1_17

  • Published:

  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-61779-793-4

  • Online ISBN: 978-1-61779-794-1

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics

Search

Navigation