Itsik Pe'er

Orcid: 0000-0002-6128-7231

Affiliations:
  • Columbia University, New York City, USA


According to our database1, Itsik Pe'er authored at least 49 papers between 1995 and 2023.

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Bibliography

2023
Fast hyperboloid decision tree algorithms.
CoRR, 2023

2022
Special Issue: RECOMB 2022, Part 2.
J. Comput. Biol., 2022

Special Issue: RECOMB 2022, Part 1.
J. Comput. Biol., 2022

Unclonable Polymers and Their Cryptographic Applications.
IACR Cryptol. ePrint Arch., 2022

ICLR 2022 Challenge for Computational Geometry and Topology: Design and Results.
CoRR, 2022


2021
SICaRiO: short indel call filtering with boosting.
Briefings Bioinform., 2021

variational combinatorial sequential monte carlo methods for bayesian phylogenetic inference.
Proceedings of the Thirty-Seventh Conference on Uncertainty in Artificial Intelligence, 2021

A Recovery Algorithm and Pooling Designs for One-Stage Noisy Group Testing Under the Probabilistic Framework.
Proceedings of the Algorithms for Computational Biology - 8th International Conference, 2021

2020
Compositional Lotka-Volterra describes microbial dynamics in the simplex.
PLoS Comput. Biol., 2020

arcasHLA: high-resolution HLA typing from RNAseq.
Bioinform., 2020

Efficient and Accurate Inference of Microbial Trajectories from Longitudinal Count Data.
Proceedings of the Research in Computational Molecular Biology, 2020

Variational Objectives for Markovian Dynamics with Backward Simulation.
Proceedings of the ECAI 2020 - 24th European Conference on Artificial Intelligence, 29 August-8 September 2020, Santiago de Compostela, Spain, August 29 - September 8, 2020, 2020

2019
Autoencoding Topographic Factors.
J. Comput. Biol., 2019

Accurate Protein Structure Prediction by Embeddings and Deep Learning Representations.
CoRR, 2019

Particle Smoothing Variational Objectives.
CoRR, 2019

Smoothing Nonlinear Variational Objectives with Sequential Monte Carlo.
Proceedings of the Deep Generative Models for Highly Structured Data, 2019

2018
High Quality Prediction of Protein Q8 Secondary Structure by Diverse Neural Network Architectures.
CoRR, 2018

Inference of Population Structure from Ancient DNA.
Proceedings of the Research in Computational Molecular Biology, 2018

2017
Parkinson's Disease Digital Biomarker Discovery with Optimized Transitions and Inferred Markov Emissions.
CoRR, 2017

2016
Rapidly Registering Identity-by-Descent Across Ancestral Recombination Graphs.
J. Comput. Biol., 2016

2013
Inference of historical migration rates via haplotype sharing.
Bioinform., 2013

MetaSeq: Privacy Preserving Meta-Analysis of Sequencing-Based Association Studies.
Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

2011
HLA Type Inference via Haplotypes Identical by Descent.
J. Comput. Biol., 2011

A Hidden Markov Model for Copy Number Variant prediction from whole genome resequencing data.
BMC Bioinform., 2011

Coverage tradeoffs and power estimation in the design of whole-genome sequencing experiments for detecting association.
Bioinform., 2011

Workshop: Coverage tradeoffs and power estimation in the design of whole-genome sequencing experiments for detecting association.
Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

Poster: A Hidden Markov Model for Copy Number Variant prediction from Whole genome resequencing data.
Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

A parametric Bayesian method to test the association of rare variants.
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011

CONDEX: Copy number detection in exome sequences.
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011

2010
Power to detect selective allelic amplification in genome-wide scans of tumor data.
Bioinform., 2010

2009
Overlapping Pools for High Throughput Targeted Resequencing.
Proceedings of the Research in Computational Molecular Biology, 2009

2008
Computational Problems in Perfect Phylogeny Haplotyping: Typing without Calling the Allele.
IEEE ACM Trans. Comput. Biol. Bioinform., 2008

MutaGeneSys: estimating individual disease susceptibility based on genome-wide SNP array data.
Bioinform., 2008

2004
Incomplete Directed Perfect Phylogeny.
SIAM J. Comput., 2004

Computational Problems in Perfect Phylogeny Haplotyping: Xor-Genotypes and Tag SNPs.
Proceedings of the Combinatorial Pattern Matching, 15th Annual Symposium, 2004

2003
Resolution of haplotypes and haplotype frequencies from SNP genotypes of pooled samples.
Proceedings of the Sventh Annual International Conference on Computational Biology, 2003

2002
A Structural EM Algorithm for Phylogenetic Inference.
J. Comput. Biol., 2002

On the Complexity of Positional Sequencing by Hybridization.
J. Comput. Biol., 2002

A branch-and-bound algorithm for the inference of ancestral amino-acid sequences when the replacement rate varies among sites: Application to the evolution of five gene families.
Bioinform., 2002

On the Generality of Phylogenies from Incomplete Directed Characters.
Proceedings of the Algorithm Theory, 2002

2001
On the Complexity of Positional Sequencing by Hybridization
Electron. Colloquium Comput. Complex., 2001

2000
An Algorithm Combining Discrete and Continuous Methods for Optical Mapping.
J. Comput. Biol., 2000

Spectrum Alignment: Efficient Resequencing by Hybridization.
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, 2000

Incomplete Directed Perfect Phylogeny.
Proceedings of the Combinatorial Pattern Matching, 11th Annual Symposium, 2000

1998
The median problems for breakpoints are NP-complete
Electron. Colloquium Comput. Complex., 1998

1997
Satisfiability Problems on Intervals and Unit Intervals.
Theor. Comput. Sci., 1997

Realizing Interval Graphs with Size and Distance Constraints.
SIAM J. Discret. Math., 1997

1995
Interval Graphs with Side (and Size) Constraints.
Proceedings of the Algorithms, 1995


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