Author

Siddarth Selvaraj

Arima Genomics (United States)

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Genomics· 3 Bioinformatics· 2

Signature Assays, Organisms & Methods

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Research Focus:genome assembly· 4 Approach:experimental assay· 3 Organism:human· 3 Assay:whole-genome sequencing· 3 Assay:Hi-C· 2 Approach:statistical model· 2 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

Anthony D. SchmittiD· 4 shared Arang RhieiD· 4 shared Sergey KoreniD· 4 shared Adam M. PhillippyiD· 3 shared Françoise Thibaud‐NisseniD· 3 shared Jay GhuryeiD· 3 shared Jonathan M. D. WoodiD· 3 shared Alan TraceyiD· 2 shared

Activity by Year

2019-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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4 shared papersGenomics

Anthony D. SchmittORCID

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Author profile →

5 papers

Recent·Most cited

Automated assembly of high-quality diploid human reference genomes

Erich David Jarvis, Giulio Formenti, Arang Rhie, Andrea Guarracino, Chentao Yang, Jonathan M. D. Wood, Alan Tracey, Françoise Thibaud‐Nissen, Mitchell Robert Vollger, David Porubskỳ, Haoyu Cheng, Mobin Asri, Glennis A. Logsdon, Paolo Carnevali, Mark Chaisson, , Karen H. Miga

The paper evaluates sequencing and assembly methods to create high-quality diploid human genome assemblies, finding that long reads and haplotype sorting improve accuracy and completeness.

Nature · Oct 19, 2022Peer-reviewedGenomics

Towards complete and error-free genome assemblies of all vertebrate species

Arang Rhie, Shane McCarthy, Olivier D. Fedrigo, Joana Damas, Giulio Formenti, Sergey Koren, Marcela Uliano‐Silva, William Chow, Arkarachai Fungtammasan, Juwan Kim, Chul Lee, Byung June Ko, Mark Chaisson, Gregory L. Gedman, Lindsey J. Cantin, , Hiram Clawson

The paper summarizes methods and lessons from assembling 16 vertebrate genomes, highlights the importance of long-read sequencing, and introduces the Vertebrate Genomes Project to generate complete reference genomes for all vertebrate species.

Nature · Apr 28, 2021Peer-reviewedGenomics

Telomere-to-telomere assembly of a complete human X chromosome

Karen H. Miga, Sergey Koren, Arang Rhie, Mitchell Robert Vollger, Ariel Gershman, Andrey V. Bzikadze, Shelise Y. Brooks, Edmund Howe, David Porubskỳ, Glennis A. Logsdon, Valérie Schneider, Tamara Potapova, Jonathan M. D. Wood, William Chow, Joel C. Armstrong, , Adam M. Phillippy

The paper presents a gapless, telomere-to-telomere assembly of the human X chromosome using ultra-long-read nanopore sequencing and complementary technologies.

Nature · Jul 14, 2020Peer-reviewedBioinformatics

Integrating Hi-C links with assembly graphs for chromosome-scale assembly

Jay Ghurye, Arang Rhie, Brian P. Walenz, Anthony D. Schmitt, Siddarth Selvaraj, Mihai Pop, Adam M. Phillippy, Sergey Koren

The paper introduces SALSA2, a Hi-C scaffolder that improves accuracy by using assembly graphs to correct inversion errors in chromosome-scale genome assemblies.

PLoS Computational Biology · Aug 21, 2019Peer-reviewedBioinformatics

Integration of phased Hi-C and molecular phenotype data to study genetic and epigenetic effects on chromatin looping

William W. Young Greenwald, He Li, Paola Benaglio, David A. Jakubosky, Hiroko Matsui, Anthony D. Schmitt, Siddarth Selvaraj, Matteo D’Antonio, Agnieszka D’Antonio‐Chronowska, Erin N. Smith, Kelly A. Frazer

The paper investigates how genetic and epigenetic factors influence chromatin looping strength across cell types and haplotypes, finding that loop strength changes correlate with significant gene expression differences.

Nature Communications · Mar 5, 2019Peer-reviewedGenomics