S. Cawley

发表

An integrated semiconductor device enabling non-optical genome sequencing

Bernard P. Puc, J. Rothberg, W. Hinz, 2011, Nature.

Integrated detection and population-genetic analysis of SNPs and copy number variation

Joshua M. Korn, Teresa A. Webster, Marcia M. Nizzari, 2008, Nature Genetics.

SLAM: cross-species gene finding and alignment with a generalized pair hidden Markov model.

L. Pachter, S. Cawley, M. Alexandersson, 2003, Genome research.

Genome sequence of the Brown Norway rat yields insights into mammalian evolution

Lisa M. D'Souza, Colin N. Dewey, Martin S. Taylor, 2004, Nature.

Initial sequencing and comparative analysis of the mouse genome.

Colin N. Dewey, Simon C. Potter, James A. Cuff, 2002 .

Profiling the malaria genome: a gene survey of three species of malaria parasite with comparison to other apicomplexan species.

S. Cawley, J. Dame, J. Carlton, 2001, Molecular and biochemical parasitology.

Integrated genotype calling and association analysis of SNPs, common copy number polymorphisms and rare CNVs

Joshua M. Korn, Marcia M. Nizzari, S. Gabriel, 2008, Nature Genetics.

Phat--a gene finding program for Plasmodium falciparum.

S. Cawley, T. Speed, A. Wirth, 2001, Molecular and biochemical parasitology.

The genome sequence of Drosophila melanogaster.

Stephen M. Mount, M. Adams, E. Myers, 2000, Science.

Unbiased Mapping of Transcription Factor Binding Sites along Human Chromosomes 21 and 22 Points to Widespread Regulation of Noncoding RNAs

S. Cawley, K. Struhl, G. Helt, 2004, Cell.

Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays

S. P. Fodor, Teresa A. Webster, R. Mei, 2004, Nature Methods.

Large-Scale Transcriptional Activity in Chromosomes 21 and 22

S. P. Fodor, S. Cawley, R. Strausberg, 2002, Science.

Applications of generalized pair hidden Markov models to alignment and gene finding problems.

Simon Cawley, Lior Pachter, Marina Alexandersson, 2002 .

Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22.

S. Cawley, G. Helt, H. Tammana, 2004, Genome research.

Next generation genome-wide association tool: design and coverage of a high-throughput European-optimized SNP array.

Simon Cawley, Earl Hubbell, Pui-Yan Kwok, 2011, Genomics.

Biological Sequence Analysis

S. Cawley, 2012 .

Description of the data from the Collaborative Study on the Genetics of Alcoholism (COGA) and single-nucleotide polymorphism genotyping for Genetic Analysis Workshop 14

Simon Cawley, Guoying Liu, Laura J Bierut, 2005, BMC Genetics.

Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology

Paul M. Rindler, Ira W. Deveson, S. Cawley, 2021, Nature Biotechnology.

Applications of generalized pair hidden Markov models to alignment and gene finding problems

Simon Cawley, Lior Pachter, Marina Alexandersson, 2001, J. Comput. Biol..

DNA Sequencing with Transposons

Simon Cawley, Terence P. Speed, S. Cawley, 2000, J. Comput. Biol..

A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency

David P. Kreil, Paweł P. Łabaj, Jeff S. Jasper, 2021, Genome biology.

ANOSVA: a statistical method for detecting splice variation from expression data

Simon Cawley, Gang Lu, Melissa S. Cline, 2005, ISMB.

Multiple Testing Methods For ChIP - Chip High Density Oligonucleotide Array Data

Sandrine Dudoit, Mark J. van der Laan, Sündüz Keles, 2006, J. Comput. Biol..

Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions

Paul M. Rindler, David P. Kreil, Paweł P. Łabaj, 2021, Genome biology.

Dynamic model based algorithms for screening and genotyping over 100K SNPs on oligonucleotide microarrays

Jing Huang, Simon Cawley, Earl Hubbell, 2005, Bioinform..

SLAM web server for comparative gene finding and alignment

L. Pachter, S. Cawley, M. Alexandersson, 2003, Nucleic Acids Res..

HMM sampling and applications to gene finding and alternative splicing

Simon Cawley, Lior Pachter, L. Pachter, 2003, ECCB.

Machine learning in low-level microarray analysis

Marimuthu Palaniswami, Simon Cawley, Kotagiri Ramamohanarao, 2003, SKDD.

Accurate identification of novel human genes through simultaneous gene prediction in human, mouse, and rat.

Simon Cawley, Lior Pachter, Marina Alexandersson, 2004, Genome research.

Transcriptome of Human Chromosomes 21 and 22 Novel RNAs Identified From an In-Depth Analysis of the data

S. Cawley, G. Helt, H. Tammana, 2004 .

A genome-wide linkage analysis of alcoholism on microsatellite and single-nucleotide polymorphism data, using alcohol dependence phenotypes and electroencephalogram measures

S. Cawley, G. Kennedy, Guoying Liu, 2005, BMC Genetics.

A framework for evaluating edited cell libraries created by massively parallel genome engineering

Andrea L. Halweg-Edwards, D. Church, S. Cawley, 2021, bioRxiv.

Global mapping of functionally-important and regulatory regions on human chromosomes 21 and 22 reveal novel regulatory networks in the human genome

S. Cawley, K. Struhl, G. Helt, 2003 .

Differential Dropout among SNP Genotypes and Impacts on Association Tests

S. Cawley, K. Hao, 2007, Human Heredity.

An integrated semiconductor device enabling non-optical genome sequencing

Bernard P. Puc, J. Rothberg, W. Hinz, 2011, Nature.