Author

Haizi Zheng

Cincinnati Children's Hospital Medical CenterORCID 0000-0001-6165-0179Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Genomics· 2 Genetic & Genomic Medicine· 1

Signature Assays, Organisms & Methods

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Assay:whole-genome sequencing· 5 Organism:human· 3 Approach:statistical model· 3 Research Focus:variant calling· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Assay:ChIP-seq· 1 Research Focus:database / resource· 1

Frequent Co-Authors

Yaping LiuiD· 5 shared Hailu FuiD· 4 shared Li WangiD· 2 shared Ravi BandaruiD· 2 shared Atish Dipankar ChoudhuryiD· 1 shared Benjamin H. HinrichsiD· 1 shared Bin Zhang· 1 shared Christopher Lo· 1 shared

Activity by Year

2020-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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5 shared papersBioinformatics

Yaping LiuORCID

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

Genetic & Genomic MedicinemedRxivPreprintMar 30, 2026

Genome-Wide Variations of End Motif in Cell-Free DNA Fragments Distinguish Immunotherapy Responders from Non-Responders in Head and Neck Cancer: A Multi-Institute Prospective Study

Ravi Bandaru, Hailu Fu, Haizi Zheng…·Yaping Liu

This study identifies a novel cfDNA fragmentomic metric, rMDS, that distinguishes immunotherapy responders from non-responders in HNSCC with high accuracy.

DOI 10.64898/2026.03.24.26348354

humanwhole-genome sequencing

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BioinformaticsNature CommunicationsPeer-reviewedMar 30, 2024

FinaleMe: Predicting DNA methylation by the fragmentation patterns of plasma cell-free DNA

Yaping Liu, Sarah C. Reed, Christopher Lo…·M Kellis

FinaleMe predicts DNA methylation and tissues-of-origin from plasma whole-genome sequencing by using a non-homogeneous Hidden Markov Model.

29 citationstop 3%

humanwhole-genome sequencing

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GenomicsbioRxivPreprintMar 29, 2022

NOMe-HiC: joint profiling of genetic variants, DNA methylation, chromatin accessibility, and 3D genome in the same DNA molecule

Hailu Fu, Haizi Zheng, Xiaoting Chen…·Yaping Liu

NOMe-HiC jointly profiles genetic variants, DNA methylation, chromatin accessibility, and 3D genome structure from the same DNA molecule, showing high concordance with mono-omic assays and revealing coordinated chromatin accessibility in spatially proximal regions.

DOI 10.1101/2022.03.29.486102

whole-genome sequencingDNA methylation

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BioinformaticsBioinformaticsPeer-reviewedNov 17, 2020

FinaleDB: a browser and database of cell-free DNA fragmentation patterns

Haizi Zheng, Michelle S Zhu, Yaping Liu

FinaleDB provides a database and browser for cfDNA fragmentation patterns, enabling integration with other omics data to study gene regulation and disease.

53 citations

whole-genome sequencingbenchmark study

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GenomicsbioRxivPreprintJul 16, 2020

CRAG: De novo characterization of cell-free DNA fragmentation hotspots in plasma whole-genome sequencing

Xionghui Zhou, Haizi Zheng, Hailu Fu…·Yaping Liu

The paper develops a method to identify cell-free DNA fragmentation hotspots in plasma whole-genome sequencing and shows their utility in detecting early-stage cancers with high specificity and sensitivity.

3 citations

humanwhole-genome sequencing

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