A versatile genome-scale PCR-based pipeline for high-definition DNA FISH

Magda Bienko; Nicola Crosetto; Leonid Teytelman; Sandy Klemm; Shalev Itzkovitz; Alexander Van Oudenaarden

doi:10.1038/nmeth.2306

A versatile genome-scale PCR-based pipeline for high-definition DNA FISH

Magda Bienko, Nicola Crosetto, Leonid Teytelman, Sandy Klemm, Shalev Itzkovitz, Alexander Van Oudenaarden

Research output: Contribution to journal › Article › peer-review

Abstract

We developed a cost-effective genome-scale PCR-based method for high-definition DNA FISH (HD-FISH). We visualized gene loci with diffraction-limited resolution, chromosomes as spot clusters and single genes together with transcripts by combining HD-FISH with single-molecule RNA FISH. We provide a database of over 4.3 million primer pairs targeting the human and mouse genomes that is readily usable for rapid and flexible generation of probes.

Original language	English
Pages (from-to)	122-124
Number of pages	3
Journal	Nature Methods
Volume	10
Issue number	2
DOIs	https://doi.org/10.1038/nmeth.2306
State	Published - Feb 2013
Externally published	Yes

All Science Journal Classification (ASJC) codes

Molecular Biology
Biochemistry
Biotechnology
Cell Biology

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10.1038/nmeth.2306

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title = "A versatile genome-scale PCR-based pipeline for high-definition DNA FISH",

abstract = "We developed a cost-effective genome-scale PCR-based method for high-definition DNA FISH (HD-FISH). We visualized gene loci with diffraction-limited resolution, chromosomes as spot clusters and single genes together with transcripts by combining HD-FISH with single-molecule RNA FISH. We provide a database of over 4.3 million primer pairs targeting the human and mouse genomes that is readily usable for rapid and flexible generation of probes.",

author = "Magda Bienko and Nicola Crosetto and Leonid Teytelman and Sandy Klemm and Shalev Itzkovitz and {Van Oudenaarden}, Alexander",

note = "US National Institutes of Health (NIH)/National Cancer Institute Physical Sciences Oncology Center at Massachusetts Institute of Technology [U54CA143874]; NIH [1DP10D003936]; Nederlandse Organisatie voor Wetenschappelijk Onderzoek Vici award; Human Frontiers Science Program We thank P. Junker and S. Semrau for helpful discussions. We are grateful to R.A. Weinberg (Massachusetts Institute of Technology) for providing hTERT-HME1 cells. This work was supported by the US National Institutes of Health (NIH)/National Cancer Institute Physical Sciences Oncology Center at Massachusetts Institute of Technology (U54CA143874), an NIH Pioneer award (1DP10D003936) and a Nederlandse Organisatie voor Wetenschappelijk Onderzoek Vici award to A.v.O. M.B. and S.I. are sponsored by the Human Frontiers Science Program.",

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doi = "10.1038/nmeth.2306",

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AU - Bienko, Magda

AU - Crosetto, Nicola

AU - Teytelman, Leonid

AU - Klemm, Sandy

AU - Itzkovitz, Shalev

AU - Van Oudenaarden, Alexander

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A versatile genome-scale PCR-based pipeline for high-definition DNA FISH

Abstract

All Science Journal Classification (ASJC) codes

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