Author

Liu Xi

Baylor College of Medicine

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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Bioinformatics· 2 Bioengineering· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Research Focus:variant calling· 3 Approach:experimental assay· 2 Approach:statistical model· 2 Assay:whole-exome sequencing· 2 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1

Frequent Co-Authors

David A. WheeleriD· 2 shared Adam P. Butler· 1 shared Akihiro FujimotoiD· 1 shared Álvaro Martínez BarrioiD· 1 shared Andrew D. CherniackiD· 1 shared Andrew J Mungall· 1 shared Andrew Menzies· 1 shared Andrey KorshunoviD· 1 shared

Activity by Year

2015-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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2 shared papersBioinformatics

David A. WheelerORCID

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Author profile →

4 papers

Recent·Most cited

Cells as Single-Molecule Protein Proximity Networks

Filip Karlsson, Michele Simonetti, Christina Galonska, Max Karlsson, Hanna van Ooijen, Divya Thiagarajan, Tomasz Kallas, Maud Schweitzer, Ludvig Larsson, Vincent van Hoef, Pouria Tajvar, Johan Dahlberg, Florian De Temmerman, Louise Leijonancker, Vanessa Trombin, , Simon Fredriksson

The paper introduces PNA, a DNA-based method to map protein organization and interactions in single cells, revealing abundance, clustering, and colocalization relationships.

bioRxiv · Jun 19, 2025 · PreprintBioengineering

Comprehensive characterization of genomic, transcriptomic and epigenomic artifacts introduced in formalin-fixed, paraffin-embedded tissues.

Erik J. Zmuda, Kyle R Covington, Cyriac Kandoth, Charlotte K.Y. Ng, Daniel J Weisenberger, Reanne Bowlby, Andy Chu, Richard Corbett, Denise Brooks, Andrew D. Cherniack, Bradley Murray, Shiyun Ling, Wei Zhao, Eve Shinbrot, Raymond S Lim, , Katherine A Hoadley

This study characterizes genomic, transcriptomic, and epigenomic artifacts in FFPE tissues and provides best practices to mitigate their impact on molecular analysis.

Cancer Genetics · Jun 6, 2017Peer-reviewedBioinformatics

Accounting for tumor heterogeneity using a sample-specific error model improves sensitivity and specificity in mutation calling for sequencing data

Yu Fan, Liu Xi, Daniel S. T. Hughes, Jianjun Zhang, Jianhua Zhang, P. Andrew Futreal, David A. Wheeler, Wenyi Wang

bioRxiv · May 25, 2016Bioinformatics

A comprehensive multicenter comparison of whole genome sequencing pipelines using a uniform tumor-normal sample pair

Ivo Buchhalter, Barbara Hutter, Tyler S. Alioto, Timothy A. Beck, Paul C. Boutros, Benedikt Brors, Adam P. Butler, Sasithorn Chotewutmontri, Robert E. Denroche, Sophia Derdak, Nicolle Diessl, Lars Feuerbach, Akihiro Fujimoto, Susanne Gröbner, Marta Gut, , on behalf of the ICGC Verification and Validation Working Group

This study compares whole genome sequencing pipelines across five centers using a uniform tumor-normal sample pair, identifying factors affecting output consistency.

bioRxiv · Jun 12, 2015 · PreprintGenomics