Heejung Shim

Grattan Street
Parkville, VIC 3010, Australia

Last Updated: 09/26/2026

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Found 16 publications

Denoising image-based spatial transcriptomics data with DenoIST.

Denoising image-based spatial transcriptomics data with DenoIST.

Journal: bioRxiv : the preprint server for biology

Published: November 26, 2025

simPIC:flexible simulation of paired-insertion counts for single-cell ATAC sequencing data.

simPIC:flexible simulation of paired-insertion counts for single-cell ATAC sequencing data.

Journal: bioRxiv : the preprint server for biology

Published: October 03, 2025

A hierarchical, count-based model highlights challenges in scATAC-seq data analysis and points to opportunities to extract finer-resolution information.

A hierarchical, count-based model highlights challenges in scATAC-seq data analysis and points to opportunities to extract finer-resolution information.

Journal: Genome biology

Published: February 06, 2025

Going beyond cell clustering and feature aggregation: Is there single cell level information in single-cell ATAC-seq data?

Going beyond cell clustering and feature aggregation: Is there single cell level information in single-cell ATAC-seq data?

Journal: bioRxiv : the preprint server for biology

Published: December 23, 2024

A paradoxical population structure of var DBLα types in Africa.

A paradoxical population structure of var DBLα types in Africa.

Journal: PLoS pathogens

Published: February 05, 2024

Spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis.

Spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis.

Journal: Nature genetics

Published: January 22, 2024

Image-based spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis.

Image-based spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis.

Journal: bioRxiv : the preprint server for biology

Published: January 03, 2024

A paradoxical population structure of var DBLα types in Africa.

A paradoxical population structure of var DBLα types in Africa.

Journal: bioRxiv : the preprint server for biology

Published: November 21, 2023

sccomp: Robust differential composition and variability analysis for single-cell data.

sccomp: Robust differential composition and variability analysis for single-cell data.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Published: August 07, 2023

Identification of cell barcodes from long-read single-cell RNA-seq with BLAZE.

Identification of cell barcodes from long-read single-cell RNA-seq with BLAZE.

Journal: Genome biology

Published: August 09, 2022

Trade-off between conservation of biological variation and batch effect removal in deep generative modeling for single-cell transcriptomics.

Trade-off between conservation of biological variation and batch effect removal in deep generative modeling for single-cell transcriptomics.

Journal: BMC bioinformatics

Published: July 16, 2022

sgcocaller and comapr: personalised haplotype assembly and comparative crossover map analysis using single-gamete sequencing data.

sgcocaller and comapr: personalised haplotype assembly and comparative crossover map analysis using single-gamete sequencing data.

Journal: Nucleic acids research

Published: April 22, 2022

Showing 1-12 of 16

Last Updated: 09/26/2026