Author

Lisa Sikkema

Helmholtz MunichORCID 0000-0001-9686-6295Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Assay:scRNA-seq· 3 Approach:statistical model· 3 Research Focus:benchmarking· 2 Research Focus:cell type annotation· 2 Research Focus:clustering· 2 Research Focus:differential expression· 2 Organism:human· 2 Research Focus:cell-cell communication· 1

Frequent Co-Authors

Fabian Joachim TheisiD· 2 shared Adam L. HaberiD· 1 shared Ahmad N. NabhaniD· 1 shared Ahmed Essam MahfouziD· 1 shared Alex Sountoulidis· 1 shared Alexi McAdams· 1 shared Allon Zaneta Andrusivova· 1 shared Alok JaiswaliD· 1 shared

Activity by Year

2020-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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2 shared papersBioinformatics

Fabian Joachim TheisORCID

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3 papers

Recent·Most cited

BioinformaticsbioRxivPreprintMay 23, 2025

Automated evaluation of single-cell reference atlas mappings enables the identification of disease-associated cell states

Lisa Sikkema, Mariam Lkandushi, Daniele Scarcella…·Fabian Joachim Theis

This paper introduces MapQC, a method to evaluate the quality of mapping query datasets to reference atlases, showing it improves the detection of disease-specific cell states.

2 citations

humanscRNA-seq

BioinformaticsNAR Genomics and BioinformaticsPeer-reviewedJul 5, 2023

Single-cell reference mapping to construct and extend cell type hierarchies

Lieke Michielsen, Mohammad Lotfollahi, Daniel C. Strobl…·Ahmed Essam Mahfouz

The paper introduces treeArches, a framework for building and extending cell-type hierarchies by mapping new datasets to reference atlases and harmonizing annotations across studies.

42 citationstop 5%

scRNA-seqstatistical model

BioinformaticsbioRxivPreprintApr 19, 2020

✦ In-depth digest

Integrated analyses of single-cell atlases reveal age, gender, and smoking status associations with cell type-specific expression of mediators of SARS-CoV-2 viral entry and highlights inflammatory programs in putative target cells

Christoph Muus, Malte D. Luecken, Gökçen Eraslan…·Wenjun Yan

Across 1,176,683 airway and lung cells from 22 datasets, ACE2 rises with age, in males and in smokers' multiciliated cells, and is lowest in young children.

236 citations

humanmouse