Publications by authors named "David A Orlando"

27Publications

Quantitative ChIP-Seq normalization reveals global modulation of the epigenome.

Cell Rep 2014 Nov 30;9(3):1163-70. Epub 2014 Oct 30.

Syros Pharmaceuticals, 480 Arsenal Street, Watertown, MA 02472, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.10.018DOI Listing
November 2014

Multiple structural maintenance of chromosome complexes at transcriptional regulatory elements.

Stem Cell Reports 2013 24;1(5):371-8. Epub 2013 Oct 24.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1016/j.stemcr.2013.09.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3841252PMC
October 2015

Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program.

Proc Natl Acad Sci U S A 2013 Mar 6;110(10):E968-77. Epub 2013 Feb 6.

Department of Computer Science, Duke University, Durham, NC 27708, USA.

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http://dx.doi.org/10.1073/pnas.1120991110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3593847PMC
March 2013

CpG island structure and trithorax/polycomb chromatin domains in human cells.

Genomics 2012 Nov 20;100(5):320-6. Epub 2012 Jul 20.

Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1016/j.ygeno.2012.07.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3483364PMC
November 2012

Mediator and cohesin connect gene expression and chromatin architecture.

Nature 2010 Sep 18;467(7314):430-5. Epub 2010 Aug 18.

Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature09380DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2953795PMC
September 2010

Detecting separate time scales in genetic expression data.

BMC Genomics 2010 Jun 16;11:381. Epub 2010 Jun 16.

Department of Biology and IGSP Center for Systems Biology, Duke University, Durham, NC, USA.

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http://dx.doi.org/10.1186/1471-2164-11-381DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3017766PMC
June 2010

Reconstructing spatiotemporal gene expression data from partial observations.

Bioinformatics 2009 Oct 16;25(19):2581-7. Epub 2009 Jul 16.

Department of Mathematics, University of California, Berkeley, CA 94704, USA.

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http://dx.doi.org/10.1093/bioinformatics/btp437DOI Listing
October 2009

Molecular dissection of the checkpoint kinase Hsl1p.

Mol Biol Cell 2009 Apr 11;20(7):1926-36. Epub 2009 Feb 11.

Department of Pharmacology and Cancer Biology, Duke University Medical Center, Durham, NC 27710, USA.

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http://dx.doi.org/10.1091/mbc.e08-08-0848DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2663927PMC
April 2009

A branching process model for flow cytometry and budding index measurements in cell synchrony experiments.

Ann Appl Stat 2009 ;3(4):1521-1541

Program in Computational Biology & Bioinformatics, 102 North Building, Box 90090, Duke University, Durham, North Carolina 27708, USA,

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http://dx.doi.org/10.1214/09-AOAS264DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3156593PMC
January 2009

Transcription networks and cyclin/CDKs: the yin and yang of cell cycle oscillators.

Cell Cycle 2008 Sep 26;7(17):2626-9. Epub 2008 Sep 26.

Department of Biology, Duke University, Durham, North Carolina 27708, USA.

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http://dx.doi.org/10.4161/cc.7.17.6515DOI Listing
September 2008

Protonophore- and pH-insensitive glucose and sucrose accumulation detected by FRET nanosensors in Arabidopsis root tips.

Plant J 2008 Dec 18;56(6):948-62. Epub 2008 Sep 18.

Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1111/j.1365-313X.2008.03652.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2752219PMC
December 2008

A probabilistic model for cell cycle distributions in synchrony experiments.

Cell Cycle 2007 Feb 12;6(4):478-88. Epub 2007 Feb 12.

Department of Biology, Duke University, Durham, North Carolina, USA.

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http://dx.doi.org/10.4161/cc.6.4.3859DOI Listing
February 2007