Author

Daniel Ziemek

Pfizer (Germany)

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· 3 Genetic & Genomic Medicine· 1 Genetics· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Organism:human· 3 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Approach:Bayesian inference· 1 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

Adam S. ButterworthiD· 2 shared Angela WoodiD· 2 shared Dirk S. PauliD· 2 shared Eric B. FaumaniD· 2 shared Eric L. HarshfieldiD· 2 shared Aaron M. Smith· 1 shared Albert KoulmaniD· 1 shared Anis Memon· 1 shared

Activity by Year

2018-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersGenetic & Genomic Medicine

Adam S. ButterworthORCID

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Author profile →

5 papers

Recent·Most cited

The influence of HLA genetic variation on plasma protein expression

Chirag Krishna, Joshua Chiou, Saori Sakaue, Joyce B. Kang, Stephen M. Christensen, Isac Lee, Melis A. Aksit, Hye In Kim, David von Schack, Soumya Raychaudhuri, Daniel Ziemek, Xinli Hu

This study identifies 504 plasma proteins influenced by HLA genetic variation in 45,330 Europeans, revealing their roles in immune function and disease.

Nature Communications · Jul 31, 2024Peer-reviewedGenetics

Genome-wide analysis of blood lipid metabolites in over 5,000 South Asians reveals biological insights at cardiometabolic disease loci

Eric L. Harshfield, Eric B. Fauman, David Stacey, Dirk S. Paul, Daniel Ziemek, Rachel M. Y. Ong, John Danesh, Adam S. Butterworth, Asif Rasheed, Taniya Sattar, Zameer-ul-Asar, Imran Saleem, Zoubia Hina, Unzila Ishtiaq, Nadeem Qamar, , Albert Koulman

The paper identifies genetic associations between blood lipid metabolites and cardiometabolic disease loci in South Asian populations using lipidomics data from two studies.

BMC Medicine · Sep 9, 2021Peer-reviewedGenetic & Genomic Medicine

Deep Learning of Representations for Transcriptomics-based Phenotype Prediction

Aaron M. Smith, Jonathan R. Walsh, John Long, Craig B. Davis, Peter V. Henstock, Martin R. Hodge, Mateusz Maciejewski, Xinmeng Jasmine Mu, Stephen Ra, Shanrong Zhao, Daniel Ziemek, Charles K. Fisher

The paper evaluates representation learning techniques for transcriptomics-based phenotype prediction using public data and finds that l2-regularized regression on centered log-ratio transformed abundances performs best.

bioRxiv · Mar 15, 2019 · PreprintBioinformatics

SUBSTRA: Supervised Bayesian Patient Stratification

Sahand Khakabimamaghani, Yogeshwar Kelkar, Bruno M. Grande, Ryan D. Morin, Martin Ester, Daniel Ziemek

SUBSTRA is a Bayesian method for patient stratification that balances predictive performance and interpretability by using regularized biclustering and iterative feature weighting.

Bioinformatics · Feb 15, 2019Peer-reviewedBioinformatics

ProGeM: A framework for the prioritisation of candidate causal genes at molecular quantitative trait loci

David Stacey, Eric B. Fauman, Daniel Ziemek, Benjamin B. Sun, Eric L. Harshfield, Angela Wood, Adam S. Butterworth, Karsten Suhre, Dirk S. Paul

ProGeM prioritizes candidate causal genes at molecular QTLs by integrating biological and genome annotations, achieving high accuracy in identifying true positives.

Nucleic Acids Research · Sep 11, 2018Peer-reviewedBioinformatics