Adam C. Siepel

Orcid: 0000-0002-3557-7219

Affiliations:
  • Cold Spring Harbor Laboratory, NY, USA
  • Cornell University, Ithaca, NY, USA (former)


According to our database1, Adam C. Siepel authored at least 24 papers between 1997 and 2021.

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Bibliography

2021
Deconvolution of expression for nascent RNA-sequencing data (DENR) highlights pre-RNA isoform diversity in human cells.
Bioinform., 2021

2019
PhastWeb: a web interface for evolutionary conservation scoring of multiple sequence alignments using phastCons and phyloP.
Bioinform., 2019

2014
Enabling large-scale next-generation sequence assembly with Blacklight.
Concurr. Comput. Pract. Exp., 2014

2011
PHAST and RPHAST: phylogenetic analysis with space/time models.
Briefings Bioinform., 2011

2010
Reconstructing Histories of Complex Gene Clusters on a Phylogeny.
J. Comput. Biol., 2010

2009
Evolutionary History Reconstruction for Mammalian Complex Gene Clusters.
J. Comput. Biol., 2009

Bayesian History Reconstruction of Complex Human Gene Clusters on a Phylogeny
CoRR, 2009

2008
Reconstructing the Evolutionary History of Complex Human Gene Clusters.
Proceedings of the Research in Computational Molecular Biology, 2008

2007
The UCSC genome browser database: update 2007.
Nucleic Acids Res., 2007

2006
Identification and Classification of Conserved RNA Secondary Structures in the Human Genome.
PLoS Comput. Biol., 2006

The UCSC Genome Browser Database: update 2006.
Nucleic Acids Res., 2006

New Methods for Detecting Lineage-Specific Selection.
Proceedings of the Research in Computational Molecular Biology, 2006

2004
Combining Phylogenetic and Hidden Markov Models in Biosequence Analysis.
J. Comput. Biol., 2004

Computational identification of evolutionarily conserved exons.
Proceedings of the Eighth Annual International Conference on Computational Molecular Biology, 2004

Efficient approximations for learning phylogenetic HMM models from data.
Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004

2003
An Algorithm to Enumerate Sorting Reversals for Signed Permutations.
J. Comput. Biol., 2003

2002
Inversion Medians Outperform Breakpoint Medians in Phylogeny Reconstruction from Gene-Order Data.
Proceedings of the Algorithms in Bioinformatics, Second International Workshop, 2002

An algorithm to enumerate all sorting reversals.
Proceedings of the Sixth Annual International Conference on Computational Biology, 2002

2001
An integration platform for heterogeneous bioinformatics software components.
IBM Syst. J., 2001

ISYS: a decentralized, component-based approach to the integration of heterogeneous bioinformatics resources.
Bioinform., 2001

Finding an Optimal Inversion Median: Experimental Results.
Proceedings of the Algorithms in Bioinformatics, First International Workshop, 2001

1999
The Genome Sequence DataBase: towards an integrated functional genomics resource.
Nucleic Acids Res., 1999

1998
The Genome Sequence DataBase (GSDB): improving data quality and data access.
Nucleic Acids Res., 1998

1997
The Genome Sequence DataBase version 1.0 (GSDB): from low pass sequences to complete genomes.
Nucleic Acids Res., 1997


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