Author

Daniil S. Wiebe

ORCID 0000-0002-0175-1127Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Cancer Biology· 2

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Research Focus:cell type annotation· 2 Organism:human· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1

Frequent Co-Authors

A. SarachakoviD· 2 shared Alexander BagaeviD· 2 shared Krystle J. NomieiD· 2 shared Abir Kumar PandaiD· 1 shared Aleksandr Zaitsev· 1 shared Alex Rossi· 1 shared Alexander Kuznetsov· 1 shared Alexandra LivanovaiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersCancer Biology

A. SarachakovORCID

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2 papers

Recent·Most cited

AI-based separation of malignant cell- and microenvironment-specific gene expression from bulk RNA sequencing enhances biomarker interpretation

Anastasia Zolotar, Daniil S. Wiebe, Arman Petrosyants, Boris Shpak, Natalia Khotkina, Valentina Beliaeva, Ekaterina Ivleva, Linda Balabanian, Maksim Chelushkin, Daniiar Dyikanov, Maria Savchenko, Sheila T. Yong, Danil Litvinov, Anastasia Zotova, Alexander Kuznetsov, , Alexander Bagaev

Helenus separates malignant and microenvironment gene expression from bulk RNA-seq to improve biomarker interpretation in cancer.

bioRxiv · Apr 30, 2026 · PreprintCancer Biology

A simple circuit to sustain intact tumor microenvironments for complex drug interrogations

Amber Leila Sarvestani, Samantha M. Ruff, Kirsten Remmert, Martha E. Teke, Emily A. Verbus, Areeba Saif, Marcial Garmendia‐Cedillos, Alex Rossi, Ashley Rainey, Krystle J. Nomie, Surajit Sinha, Michael M. Wach, Carrie Ryan, Stephanie N. Gregory, Priyanka Desai, , Jonathan Matthew Hernandez

The paper develops a perfusion circuit system to preserve tumor microenvironments in 3D patient-derived tumor models for up to 48 hours, enabling complex drug interrogations.

bioRxiv · Oct 26, 2025 · PreprintCancer Biology