Author

Fatime Qosaj

Broad Institute

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· 1 Cancer Biology· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 2 Approach:experimental assay· 2 Organism:human· 2 Organism:mouse· 2 Research Focus:spatial domain detection· 2 Assay:spatial transcriptomics· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

Carlos CaldasiD· 3 shared Dario BressaniD· 3 shared Ian Gordon CannelliD· 3 shared Kirsty SawickaiD· 3 shared Alejandra BrunaiD· 2 shared Andrew J. L. RothiD· 2 shared Andrew McPhersoniD· 2 shared Anubhav SinhaiD· 2 shared

Activity by Year

2021-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersCancer Biology

Carlos CaldasORCID

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Author profile →

3 papers

Recent·Most cited

A three-dimensional imaging pipeline for the detection of vasculogenic mimicry in mouse tumor models

Lauren Deighton, Sarah M. Pearsall, Fatime Qosaj, Mike Mitchell, Griselda Awanis, Dario Bressan, Caroline Dive, Kathryn Simpson, Gregory J. Hannon, Carlos Caldas, Kirsty Sawicka, Ian Gordon Cannell

This paper introduces a 3D imaging pipeline to detect functionally perfused vasculogenic mimicry in mouse tumor models, providing evidence of its presence and functionality.

bioRxiv · Oct 9, 2026 · PreprintCancer Biology

Serval: A modular framework for decoding imaging based spatial transcriptomics data

Jenkin Tsui, Naila Adam, Woongcheol Choi, Luna Y Liu, C. Cárcamo Flores, Shadi Ansari, Esther Kong, Yukta Thapliyal, Hakwoo Lee, Shahid Haider, Issac Von Riedemann, Ciara H. O’Flanagan, Mohammad Al Sa’d, Bruno Albuquerque, Hamid Raza Ali, , Nicholas A. Walton

Serval is a modular framework for decoding spatial transcriptomics data that introduces Cosine, a method improving transcript recovery and correlation with expression references.

Bioinformatics · Sep 27, 2026Peer-reviewedBioinformatics

Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems

Shahar Alon, Daniel Goodwin, Anubhav Sinha, Asmamaw T. Wassie, Fei Chen, Evan R Daugharthy, Yosuke Bando, Atsushi Kajita, Andrew G. Xue, Karl Marrett, Robert Prior, Yi Cui, Andrew C. Payne, Chun‐Chen Yao, Ho‐Jun Suk, , Kirsty Sawicka

ExSeq enables multiplexed RNA mapping at nanoscale resolution by expanding biological specimens for in situ sequencing.

Science · Jan 28, 2021Peer-reviewedGenomics