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thin-sections Haplonies

What is it? : Polymerase-colony (pronounced "Pahl'ahnee" at Hahvahd, and "Pole own' ee" at the Deli).

How to get it?
Software : Image analysis for haplotyping, exon-typing and sequencing.
Hardware : Slide amplifiers, Auto-Grunt, Scanners.
Wetware : Protocols.
Vaporware : Public discussion forum & wish-list.

More details?

1. Mitra, R. and Church, G.M. (1999) In situ localized amplification and contact replication of many individual DNA molecules. Nucleic Acids Res. 27(24):e34; pp.1-6.

2. Mitra, RD, Butty, V, Shendure, J, Williams, BR, Housman, DE, and Church, GM (2003) Digital Genotyping and Haplotyping with Polymerase Colonies. Proc Natl Acad Sci USA. May 13;100(10):5926-31.

3. Merritt J, DiTonno JR, Mitra RD, Church GM, and Edwards JS. (2003) Parallel competition analysis of Saccharomyces cerevisiae strains differing by a single base using polymerase colonies. . Nucleic Acids Res. Aug 1;31(15):e84.

4. Mitra,RD, Shendure,J, Olejnik,J, Olejnik,EK, and Church,GM (2003) Fluorescent in situ Sequencing on Polymerase Colonies. Analyt. Biochem. 320:55-65.

5. Zhu,J, Shendure,J, Mitra, RD, and Church, GM (2003) Single Molecule Profiling of Alternative Pre-mRNA Splicing. Science. 2003 Aug 8;301(5634):836-8.

6. Buhler, J., Souvenir, R., Zhang, W, and Mitra, R. (2003) Design of a high-throughput assay for alternative splicing using polymerase colonies. Submitted to PSB 2004.

7. Aach, J and Church, GM (2003) Mathematical models of diffusion-constrained polymerase chain reactions: basis of high-throughput nucleic acid assays and simple self-organizing systems. (submitted to J. Theoret. Biol.)

8. Constans, A (2003) Beyond Sanger: Toward the $1000 genome. The Scientist 17: 36.

9. Butz J, Wickstrom E, and Edwards J. Characterization of mutations and loss of heterozygosity of p53 and K-ras2 in pancreatic cancer cell lines by immobilized polymerase chain reaction. BMC Biotechnol. 2003 Jul 23;3(1):11.

10. Dressman D, Yan H, Traverso G, Kinzler KW, and Vogelstein B. (2003) Transforming single DNA molecules into fluorescent magnetic particles for detection and enumeration of genetic variations. Proc Natl Acad Sci U S A. 2003 Jul 22;100(15):8817-22.

Last update 22-Sep-2003 by GMC from Arep.