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Articles by Ludwig Geistlinger
BugSigDB captures patterns of differential abundance across a broad range of host-associated microbial signatures - Nature Biotechnology
Abstract The literature of human and other host-associated microbiome studies is expanding rapidly, but systematic comparisons among published results of host-associated microbiome signatures of differential abundance remain difficult.
GenomicSuperSignature: interpretation of RNA-seq experiments through robust, efficient comparison to public databases
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Multiomic Integration of Public Oncology Databases in Bioconductor
Public multiomic databases, such as The Cancer Genome Atlas (TCGA)1 and the cBioPortal repository,2,3 provide extensive data on the molecular landscape of cancer, but their incorporation in multiomic analyses has been hindered by the complexity of data coordination, selection, and management.
Multiomic Analysis of Subtype Evolution and Heterogeneity in High-Grade Serous Ovarian Carcinoma
Genome and Epigenome Ludwig Geistlinger, Sehyun Oh, Marcel Ramos, Lucas Schiffer, Rebecca S. LaRue, Christine M. Henzler, Sarah A. Munro, Claire Daughters, Andrew C. Nelson, Boris J. Winterhoff, Zenas Chang, Shobhana Talukdar, Mihir Shetty, Sally A. Mullany, Martin Morgan, Giovanni Parmigiani, Michael J. Birrer, Li-Xuan Qin, Markus Riester, Timothy K. Starr and Levi Waldron DOI: 10.1158/0008-5472.CAN-20-0521 Published October 2020 This article requires a subscription to view the full text.
Multiomic Analysis of Subtype Evolution and Heterogeneity in High-Grade Serous Ovarian Carcinoma
Genome and Epigenome Ludwig Geistlinger, Sehyun Oh, Marcel Ramos, Lucas Schiffer, Rebecca S. LaRue, Christine M. Henzler, Sarah A. Munro, Claire Daughters, Andrew C. Nelson, Boris J. Winterhoff, Zenas Chang, Shobhana Talukdar, Mihir Shetty, Sally A. Mullany, Martin Morgan, Giovanni Parmigiani, Michael J. Birrer, Li-Xuan Qin, Markus Riester, Timothy K.
Multi-omic analysis of subtype evolution and heterogeneity in high-grade serous ovarian carcinoma
Research Article Ludwig Geistlinger, Sehyun Oh, Marcel Ramos, Lucas Schiffer, Rebecca S. LaRue, Christine M. Henzler, Sarah A. Munro, Claire Daughters, Andrew C. Nelson, Boris J. Winterhoff, Zenas Chang, Shobhana Talukdar, Mihir Shetty, Sally A. Mullany, Martin Morgan, Giovanni Parmigiani, Michael J. Birrer, Li-Xuan Qin, Markus Riester, Timothy K.
Reliable Analysis of Clinical Tumor-Only Whole-Exome Sequencing Data
Copy number alterations (CNAs) are typically measured by the ratio of tumor to normal DNA abundance. However, tumor purity and ploidy affect this ratio and must be incorporated to infer absolute copy numbers.1,2 Information from germline single-nucleotide polymorphisms (SNPs) further allows deconvolution of absolute copy number into the 2 parental copy numbers.
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