Publications by authors named "Jan F Prins"

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NeoSplice: a bioinformatics method for prediction of splice variant neoantigens.
Shengjie Chai, Christof C Smith, Tavleen K Kochar, Sally A Hunsucker, Wolfgang Beck, Jan F Prins

Bioinform Adv· May 2022

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Single-Cell Transcriptomic Analyses of Cell Fate Transitions during Human Cardiac Reprogramming.
Yang Zhou, Ziqing Liu, Joshua D Welch, Xu Gao, Li Wang, Jan F Prins

Cell Stem Cell· July 2019

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Single-cell transcriptomics reconstructs fate conversion from fibroblast to cardiomyocyte.
Ziqing Liu, Li Wang, Joshua D Welch, Hong Ma, Yang Zhou, Jan F Prins

Nature· November 2017

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MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics.
Joshua D Welch, Alexander J Hartemink, Jan F Prins

Genome Biol· July 2017

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Selective single cell isolation for genomics using microraft arrays.
Joshua D Welch, Lindsay A Williams, Matthew DiSalvo, Alicia T Brandt, Raoud Marayati, Jan F Prins

Nucleic Acids Res· September 2016

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Robust detection of alternative splicing in a population of single cells.
Joshua D Welch, Yin Hu, Jan F Prins

Nucleic Acids Res· May 2016

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SLICER: inferring branched, nonlinear cellular trajectories from single cell RNA-seq data.
Joshua D Welch, Alexander J Hartemink, Jan F Prins

Genome Biol· May 2016

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EnD-Seq and AppEnD: sequencing 3' ends to identify nontemplated tails and degradation intermediates.
Joshua D Welch, Michael K Slevin, Deirdre C Tatomer, Robert J Duronio, Jan F Prins

RNA· July 2015

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Pseudogenes transcribed in breast invasive carcinoma show subtype-specific expression and ceRNA potential.
Joshua D Welch, Jeanette Baran-Gale, Charles M Perou, Praveen Sethupathy, Jan F Prins

BMC Genomics· February 2015

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Cache-Aware Asymptotically-Optimal Sampling-Based Motion Planning.
Jeffrey Ichnowski, Jan F Prins, Ron Alterovitz

IEEE Int Conf Robot Autom· May 2014

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Deep sequencing shows multiple oligouridylations are required for 3' to 5' degradation of histone mRNAs on polyribosomes.
Michael K Slevin, Stacie Meaux, Joshua D Welch, Rebecca Bigler, Paula L Miliani de Marval, Jan F Prins

Mol Cell· March 2014

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Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects.
Jeremy M Simon, Kathryn E Hacker, Darshan Singh, A Rose Brannon, Joel S Parker, Jan F Prins

Genome Res· February 2014

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BlackOPs: increasing confidence in variant detection through mappability filtering.
Christopher R Cabanski, Matthew D Wilkerson, Matthew Soloway, Joel S Parker, Jinze Liu, Jan F Prins

Nucleic Acids Res· October 2013

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A robust method for transcript quantification with RNA-seq data.
Yan Huang, Yin Hu, Corbin D Jones, James N MacLeod, Derek Y Chiang, Jan F Prins

J Comput Biol· March 2013

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DiffSplice: the genome-wide detection of differential splicing events with RNA-seq.
Yin Hu, Yan Huang, Ying Du, Christian F Orellana, Darshan Singh, Jan F Prins

Nucleic Acids Res· January 2013

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FDM: a graph-based statistical method to detect differential transcription using RNA-seq data.
Darshan Singh, Christian F Orellana, Yin Hu, Corbin D Jones, Yufeng Liu, Jan F Prins

Bioinformatics· October 2011

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MapSplice: accurate mapping of RNA-seq reads for splice junction discovery.
Kai Wang, Darshan Singh, Zheng Zeng, Stephen J Coleman, Yan Huang, Jan F Prins

Nucleic Acids Res· October 2010

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A probabilistic framework for aligning paired-end RNA-seq data.
Yin Hu, Kai Wang, Xiaping He, Derek Y Chiang, Jan F Prins

Bioinformatics· August 2010

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