P. Ryvkin

发表

Massively parallel digital transcriptional profiling of single cells

Grace X. Y. Zheng, Nolan G. Ericson, T. Mikkelsen, 2016, Nature Communications.

Massively parallel digital transcriptional profiling of single cells

Grace X. Y. Zheng, T. Mikkelsen, Jessica M. Terry, 2016, bioRxiv.

Global analysis of RNA secondary structure in two metazoans.

Paul Ryvkin, Otto Valladares, Li-San Wang, 2012, Cell reports.

Genome-Wide Double-Stranded RNA Sequencing Reveals the Functional Significance of Base-Paired RNAs in Arabidopsis

P. Ryvkin, B. Gregory, O. Valladares, 2010, PLoS genetics.

Rap1 relocalization contributes to the chromatin-mediated gene expression profile and pace of cell senescence.

Stephen R Master, Paul Ryvkin, Li-San Wang, 2013, Genes & development.

Phylogenetic Trees From Sequences

P. Ryvkin, Li-San Wang, 2010 .

Methods in and applications of the sequencing of short non-coding RNAs

P. Ryvkin, 2013 .

Analysis of Nonlinear Gene Expression Progression Reveals Extensive Pathway and Age-Specific Transitions in Aging Human Brains

P. Ryvkin, F. Johnson, Li-San Wang, 2013, PloS one.

Computational detection and analysis of sequences with duplex-derived interstrand G-quadruplex forming potential.

P. Ryvkin, F. Johnson, K. Cao, 2012, Methods.

CoRAL: predicting non-coding RNAs from small RNA-sequencing data

Yuk Yee Leung, Lyle H. Ungar, Paul Ryvkin, 2013, Nucleic acids research.

Duplication Mechanism and Disruptions in Flanking Regions Determine the Fate of Mammalian Gene Duplicates

Jin Jun, Paul Ryvkin, Edward Hemphill, 2009, J. Comput. Biol..

Duplication Mechanism and Disruptions in Flanking Regions Influence the Fate of Mammalian Gene Duplicates

Jin Jun, Paul Ryvkin, Edward Hemphill, 2008, RECOMB-CG.

The Birth of New Genes by RNA- and DNA-Mediated Duplication during Mammalian Evolution

Ion I. Mandoiu, Jin Jun, Paul Ryvkin, 2009, J. Comput. Biol..

Estimating the Relative Contributions of New Genes from Retrotransposition and Segmental Duplication Events during Mammalian Evolution

Ion I. Mandoiu, Jin Jun, Paul Ryvkin, 2008, RECOMB-CG.

Using machine learning and high-throughput RNA sequencing to classify the precursors of small non-coding RNAs.

Yuk Yee Leung, Paul Ryvkin, Li-San Wang, 2014, Methods.

Altered gene expression in the Werner and Bloom syndromes is associated with sequences having G-quadruplex forming potential

P. Ryvkin, F. Johnson, Li-San Wang, 2009, Nucleic acids research.

HAMR: high-throughput annotation of modified ribonucleotides

Yuk Yee Leung, Paul Ryvkin, Otto Valladares, 2013, RNA.

Microarray-Based Cell-Free DNA Analysis Improves Noninvasive Prenatal Testing

Craig A. Struble, Paul Ryvkin, Arnold Oliphant, 2014, Fetal Diagnosis and Therapy.

Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin

J. Trojanowski, P. Ryvkin, B. Gregory, 2015, PloS one.

SAVoR: a server for sequencing annotation and visualization of RNA structures

Li-San Wang, Fan Li, Paul Ryvkin, 2012, Nucleic Acids Res..

Invited: Multiclass RNA function classification using next-generation sequencing

Yuk Yee Leung, Li-San Wang, Paul Ryvkin, 2011, 2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences (ICCABS).

Computational approaches to the detection and analysis of sequences with intramolecular G-quadruplex forming potential.

P. Ryvkin, Li-San Wang, Steve G. Hershman, 2010, Methods in molecular biology.