Author

Patrick Roelli

10X Genomics (Sweden)ORCID 0000-0002-5259-1434Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:database / resource· 2 Organism:human· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Approach:experimental assay· 1 Organism:mouse· 1 Organism:multiple species· 1

Frequent Co-Authors

Amina EchchikiiD· 1 shared Angélique Escoriza· 1 shared Anne NiknejadiD· 1 shared Ariel D. SwettiD· 1 shared Aurélie ComteiD· 1 shared Balazs LaurenczyiD· 1 shared Dan Avi LandauiD· 1 shared Emilie Person· 1 shared

Activity by Year

2020-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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1 shared paperBioinformatics

Amina EchchikiORCID

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3 papers

Recent·Most cited

Accelerating scRNA-seq analysis: automated cell type annotation using representation learning and vector search

Stephen R. Williams, Fedor Grab, Govinda M. Kamath, Yerdos A. Ordabayev, Jeff Mellen, Patrick Roelli, Kristian Cibulskis, Erik M Lehnert, Fen Xie, Miguel Covarrubias, Nur-Taz Rahman, Timothy L. Tickle, Emre Erhan, Nicolas Malfroy-Camine, Kevin Lydon, , Nigel F. Delaney

This paper introduces a service for automated cell type annotation in scRNA-seq data using reverse search against a curated database, providing both fine-grained and coarse annotations without relying on predefined markers.

bioRxiv · Oct 6, 2025 · PreprintBioinformatics

Integrated protein and transcriptome high-throughput spatial profiling

Nir Ben‐Chetrit, Xiang Niu, Ariel D. Swett, Jesus Sotelo, Maria S. Jiao, Patrick Roelli, Marlon Stoeckius, Dan Avi Landau

This paper introduces SPOTS, a method for integrating spatial transcriptome and proteome data, and shows it reveals biological processes in spleen and breast cancer samples.

bioRxiv · Mar 15, 2022 · PreprintGenomics

The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals

Frederic Bastian, Julien Roux, Anne Niknejad, Aurélie Comte, Sara S Fonseca Costa, Tarcisio Mendes de Farias, Sébastien Moretti, Gilles Parmentier, Valentine Rech de Laval, Marta Rosikiewicz, Julien Wollbrett, Amina Echchiki, Angélique Escoriza, Walid H. Gharib, Mar Gonzàlez-Porta, , Marc Robinson‐Rechavi

Bgee provides an integrated expression atlas and comparative transcriptomics resource for multiple animal species using curated healthy wild-type expression data.

Nucleic Acids Research · Sep 15, 2020Peer-reviewedBioinformatics