AlanJeromePerez-RathkeMDPhD

PubMed

• 4 citations
  Minimalistic 3D chromatin models: Sparse interactions in single cells drive the chromatin fold and form many-body units.
  Jie Liang, Alan Perez-Rathke> ;Current Opinion in Structural Biology. 2021 Aug 13
• 6 citations
  Interpreting personal transcriptomes: personalized mechanism-scale profiling of RNA-seq data.
  Alan Perez-Rathke, Haiquan Li, Yves A. Lussier> ;Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 2012 Nov 1
• Simulation of pH-Dependent, Loop-Based Membrane Protein Gating Using Pretzel.
  Alan Perez-Rathke, Monifa A. Fahie, Christina Chisholm, Min Chen, Jie Liang> ;Methods in Molecular Biology. 2021 Jan 1
• 16 citations
  High-resolution single-cell 3D-models of chromatin ensembles during Drosophila embryogenesis.
  Qiu Sun, Alan Perez-Rathke, Daniel M. Czajkowsky, Zhifeng Shao, Jie Liang> ;Nature Communications. 2021 Jan 8
• 18 citations
  CHROMATIX: computing the functional landscape of many-body chromatin interactions in transcriptionally active loci from deconvolved single cells
  Alan Perez-Rathke, Qiu Sun, Boshen Wang, Valentina Boeva, Zhifeng Shao, Jie Liang> ;Genome Biology. 2020 Jan 16
• 1 citations
  Structure-based Method for Predicting Deleterious Missense SNPs
  Boshen Wang, Wei Tian, Xue Lei, Alan Perez-Rathke, Yan Yuan Tseng, Jie Liang> ;... IEEE-EMBS International Conference on Biomedical and Health Informatics. IEEE-EMBS International Conference on Biomedical and Health Informatics. 2019 May 1
• 3 citations
  Alterations in Chromatin Folding Patterns in Cancer Variant-Enriched Loci
  Alan Perez-Rathke, Samira Mali, Lin Du, Jie Liang> ;... IEEE-EMBS International Conference on Biomedical and Health Informatics. IEEE-EMBS International Conference on Biomedical and Health Informatics. 2019 May 1
• A general method for predicting amino acid residues experiencing hydrogen exchange
  Boshen Wang, Alan Perez-Rathke, Renhao Li, Jie Liang> ;... IEEE-EMBS International Conference on Biomedical and Health Informatics. IEEE-EMBS International Conference on Biomedical and Health Informatics. 2018 Mar 1
• 27 citations
  Mechanism of OmpG pH-dependent gating from loop ensemble and single channel studies
  Alan Perez-Rathke, Monifa Akilah Verna Fahie, Christina Chisholm, Jie Liang, Min Chen> ;Journal of the American Chemical Society. 2018 Jan 11
• 3 citations
  Research note: A high performance multiple sequence alignment system for pyrosequencing reads from multiple reference genomes
  Fahad Saeed, Alan Perez-Rathke, Jaroslaw Gwarnicki, Tanya Y. Berger-Wolf, Ashfaq Khokhar> ;Journal of Parallel and Distributed Computing. 2012 Jan 1
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