Author

Qiqi Xie

Indiana University School of MedicineORCID 0000-0003-4099-5287Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Cancer Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:bulk RNA-seq· 2 Research Focus:gene regulatory network inference· 2 Organism:human· 2 Assay:ATAC-seq· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell type annotation· 1 Assay:ChIP-seq· 1

Frequent Co-Authors

Jia SheniD· 2 shared Kenneth P. NephewiD· 2 shared Sugata Ghosh· 2 shared Yuanning DuiD· 2 shared Aaron A. Cohen-GadoliD· 1 shared Bihui CaoiD· 1 shared Charles SpruckiD· 1 shared Chunying Li· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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2 shared papersCancer Biology

Jia ShenORCID

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3 papers

Recent·Most cited

BioinformaticsbioRxivPreprintAug 1, 2026

Joint modeling of multi-timepoint spatial observations for time-resolved spatial-unit-specific gene regulatory network inference

Yibing Jiang, Yurui Li, Qiqi Xie…·Haohan Wang

This paper introduces SpaTemGRN, a method for inferring time-resolved spatial-unit-specific gene regulatory networks from spatiotemporal transcriptomics data, showing improved performance over existing methods.

DOI 10.64898/2026.07.28.738702

mousespatial transcriptomics

𝕏 PostBluesky

Cancer Biologynpj Precision OncologyPeer-reviewedMar 20, 2025

Multi-omic Analysis Identifies Glioblastoma Dependency on H3K9me3 Methyltransferase Activity

Qiqi Xie, Yuanning Du, Sugata Ghosh…·Jia Shen

This study identifies H3K9me3 methyltransferases as key drivers in glioblastoma, showing their association with prognosis, immune response, and drug response through multi-omics analysis.

11 citations

humanChIP-seq

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Cancer BiologyJCI InsightPeer-reviewedMar 9, 2025

SUV39H1 Preserves Cancer Stem Cell Chromatin State and Properties in Glioblastoma

Chunying Li, Qiqi Xie, Sugata Ghosh…·Jia Shen

This paper shows SUV39H1 is critical for maintaining glioblastoma stem cell properties and progression, and targeting it enhances chemotherapy effectiveness.

17 citationstop 2%

humanscRNA-seq

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