Franziska Singer

SIB Swiss Institute of Bioinformatics — Switzerland

Biochemistry, Genetics and Molecular Biology · Life Sciences

15h-index714citations48works5.32yr avg
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Research Topics

Cancer Genomics and Diagnostics(17), Single-cell and spatial transcriptomics(13), Bioinformatics and Genomic Networks(6), Cell Image Analysis Techniques(6), Bladder and Urothelial Cancer Treatments(5)

Publications42 total

Ovarian cancer metastasis to the human omentum disrupts organ homeostasis and induces fundamental tissue reprogramming
Nature Communications·2025· 1 citedOpen Access
Publisher Correction: Feasibility of multiomics tumor profiling for guiding treatment of melanoma
Nature Medicine·2025Open Access
Characterizing Co-Circulating Respiratory Virus Genomic Diversity in Switzerland with Hybrid-Capture Sequencing and Phylogenetic Reconstructions: Insights into the 2023/24 Season
2025· 1 citedOpen Access
Feasibility of multiomics tumor profiling for guiding treatment of melanoma
Nature Medicine·2025· 7 citedOpen Access
Ovarian cancer metastasis to the human omentum disrupts organ homeostasis and induces fundamental tissue reprogramming
Repository for Publications and Research Data (ETH Zurich)·2025Open Access
Single-cell landscape of innate and acquired drug resistance in acute myeloid leukemia
Nature Communications·2024· 18 citedOpen Access
Moving Toward Metaproteogenomics: A Computational Perspective on Analyzing Microbial Samples via Proteogenomics
Methods in molecular biology·2024· 2 cited
How much should we sequence? An analysis of the Swiss SARS-CoV-2 surveillance effort
Microbiology Spectrum·2024· 7 citedOpen Access
SMAC mimetics overcome apoptotic resistance in ovarian cancer through MSLN-TNF alpha axis
2024Open Access
V-pipe 3.0: a sustainable pipeline for within-sample viral genetic diversity estimation
GigaScience·2024· 15 citedOpen Access
Detection of isoforms and genomic alterations by high-throughput full-length single-cell RNA sequencing in ovarian cancer
Nature Communications·2023· 39 citedOpen Access
V-pipe 3.0: a sustainable pipeline for within-sample viral genetic diversity estimation
2023· 3 citedOpen Access
CIViCutils: Matching and downstream processing of clinical annotations from CIViC
F1000Research·2023Open Access
#174 Integrated multi-omic and clinicopathological analysis of vulvar squamous cell carcinoma: identification of predictive biomarkers for personalized treatment
2023Open Access
How much should we sequence? An analysis of the Swiss SARS-CoV-2 surveillance effort
2023· 2 citedOpen Access
Dynamic thresholding and tissue dissociation optimization for CITE-seq identifies differential surface protein abundance in metastatic melanoma
Communications Biology·2023· 14 citedOpen Access
gExcite: a start-to-end framework for single-cell gene expression, hashing, and antibody analysis
Bioinformatics·2023· 2 citedOpen Access
Detection of isoforms and genomic alterations by high-throughput full-length single-cell RNA sequencing in ovarian cancer
2022· 8 citedOpen Access
scAmpi—A versatile pipeline for single-cell RNA-seq analysis from basics to clinics
PLoS Computational Biology·2022· 12 citedOpen Access
scROSHI: robust supervised hierarchical identification of single cells
NAR Genomics and Bioinformatics·2022· 11 citedOpen Access
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Frequent Co-authors

Niko Beerenwinkel(20), Daniel J. Stekhoven(19), Anne Bertolini(16), Christian Beisel(15), Francis Jacob(14), Michael Prummer(13), Ximena Bonilla(12), Stéphane Chevrier(12), Sandra Goetze(12), Jack Kuipers(12), Viola Heinzelmann‐Schwarz(12), Linda Grob(12), María L. Rosano-González(12), Anja Irmisch(11), Kjong-Van Lehmann(10), Cinzia Esposito(10), Julien Mena(10), Ruben Casanova(10), Gabriele Gut(10), André Fedier(10)