P. Harrison

发表

Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein-coding ability

M. Gerstein, N. Carriero, D. Zheng, 2005, Nucleic acids research.

A question of size: the eukaryotic proteome and the problems in defining it.

M. Gerstein, M. Snyder, Anuj Kumar, 2002, Nucleic acids research.

Studying genomes through the aeons: protein families, pseudogenes and proteome evolution.

M. Gerstein, P. Harrison, 2002, Journal of molecular biology.

Comprehensive analysis of pseudogenes in prokaryotes: widespread gene decay and failure of putative horizontally transferred genes

M. Gerstein, Yang Liu, V. Kunin, 2004, Genome Biology.

Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome.

M. Gerstein, Zhaolei Zhang, P. Harrison, 2002, Genome research.

The transcriptional activity of human Chromosome 22.

J. Rinn, M. Gerstein, N. Luscombe, 2003, Genes & development.

An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions

Alan M. Moses, K. Dewar, M. Blanchette, 2013, Nature Genetics.

Experimentally verified reduced models of neocortical pyramidal cells

P. Harrison, 2014 .

Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome.

Mark Gerstein, Zhaolei Zhang, M. Gerstein, 2003, Genome research.

Mining Mammalian Transcript Data for Functional Long Non-Coding RNAs

P. Harrison, Amit N. Khachane, 2010, PloS one.

Integrated pseudogene annotation for human chromosome 22: evidence for transcription.

Mark Gerstein, Zhaolei Zhang, Deyou Zheng, 2005, Journal of molecular biology.

Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes.

Mark Gerstein, Zhaolei Zhang, Nathaniel Echols, 2002, Nucleic acids research.

Evolutionary behaviour of bacterial prion-like proteins

P. Harrison, 2019, PloS one.

A "polyORFomic" analysis of prokaryote genomes using disabled-homology filtering reveals conserved but undiscovered short ORFs.

Mark Gerstein, Nicholas Carriero, Yang Liu, 2003, Journal of molecular biology.

Compositionally Biased Dark Matter in the Protein Universe

P. Harrison, 2018, Proteomics.

Computational methods for pseudogene annotation based on sequence homology.

P. Harrison, 2014, Methods in molecular biology.

Genomic evidence for non-random endemic populations of decaying exons from mammalian genes

P. Harrison, D. Morais, 2009, BMC Genomics.

Origins and Evolution of the HET-s Prion-Forming Protein: Searching for Other Amyloid-Forming Solenoids

P. Harrison, Deena M. A. Gendoo, 2011, PloS one.

Conservation of Prion-Like Composition and Sequence in Prion-Formers and Prion-Like Proteins of Saccharomyces cerevisiae

P. Harrison, Ting Su, 2019, Front. Mol. Biosci..

PrionHome: A Database of Prions and Other Sequences Relevant to Prion Phenomena

Manish Kumar, R. Sowdhamini, P. Harrison, 2011, PloS one.

Genomic assessment of the evolution of the prion protein gene family in vertebrates.

Manish Kumar, P. Harrison, Amit N. Khachane, 2010, Genomics.

Discordant and chameleon sequences: Their distribution and implications for amyloidogenicity

P. Harrison, Deena M. A. Gendoo, 2011, Protein science : a publication of the Protein Society.

Deep conservation of prion-like composition in the eukaryotic prion-former Pub1/Tia1 family and its relatives

P. Harrison, Wanchun Su, 2020, PeerJ.

The extant immunoglobulin superfamily, member 1 gene results from an ancestral gene duplication in eutherian mammals

P. Harrison, D. Bernard, C. Smith, 2022, PloS one.

A method to assess compositional bias in biological sequences and its application to prion-like glutamine/asparagine-rich domains in eukaryotic proteomes

M. Gerstein, P. Harrison, 2003, Genome Biology.

The PrP-like proteins Shadoo and Doppel.

D. Westaway, P. Harrison, N. Daude, 2011, Topics in current chemistry.

Endothelium specific Weibel-Palade bodies in a continuous human cell line, EA.hy926

C. R. Bagnell, P. Harrison, J. E. Haizlip, 1990, In Vitro Cellular & Developmental Biology.

University of Birmingham Origins and evolution of the HET-s prion-forming protein

P. Harrison, Deena M. A. Gendoo, 2011 .

The distribution and evolution of Arabidopsis thaliana cis natural antisense transcripts

P. Harrison, C. Oliver, Johnathan Bouchard, 2015, BMC Genomics.

Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotation

Mark Gerstein, John E. Karro, Yangpan Yan, 2006, Nucleic Acids Res..

Strong association between pseudogenization mechanisms and gene sequence length

P. Harrison, Amit N. Khachane, 2009, Biology Direct.

PrionOme: A database of prions and other sequences relevant to prion phenomena

Manish Kumar, R. Sowdhamini, P. Harrison, 2011 .

The evolutionary fate of MULE-mediated duplications of host gene fragments in rice.

Douglas R Hoen, P. Harrison, Douglas R. Hoen, 2005, Genome research.

Homopeptide and Homocodon Levels are Coupled to GC/AT Bias Levels, Intrinsic Disorder Propensity and other Factors Across Diverse Fungi

P. Harrison, Yue Wang, 2020 .

Evolution of sequence traits of prion-like proteins linked to amyotrophic lateral sclerosis (ALS)

P. Harrison, Jiayi Luo, 2022, PeerJ.

Synthetic cycle of the initiation module of a formylating nonribosomal peptide synthetase

T. Martin Schmeing, P. Harrison, T. Schmeing, 2016, Nature.

Conserved Proteins of the RNA Interference System in the Arbuscular Mycorrhizal Fungus Rhizoglomus irregulare Provide New Insight into the Evolutionary History of Glomeromycota

P. Harrison, M. Hijri, Mengxuan Kong, 2018, Genome biology and evolution.

Analysis of the role of retrotransposition in gene evolution in vertebrates

Paul M. Harrison, Zhan Yu, David Morais, 2007, BMC Bioinformatics.

Large-Scale Evidence for Conservation of NMD Candidature Across Mammals

P. Harrison, D. A. de Lima Morais, 2010, PloS one.

Frame disruptions in human mRNA transcripts, and their relationship with splicing and protein structures

Zhan Yu, P. Harrison, Paul Harrison, 2007, BMC Genomics.

The relationship between protein domains and homopeptides in the Plasmodium falciparum proteome

P. Harrison, Yue Wang, Hsin Jou Yang, 2020, PeerJ.

The distribution and evolution of Arabidopsis thaliana cis natural antisense transcripts

P. Harrison, C. Oliver, Johnathan Bouchard, 2015, BMC Genomics.

SNPs on human chromosomes 21 and 22 -- analysis in terms of protein features and pseudogenes.

M. Gerstein, S. Balasubramanian, N. Luscombe, 2002, Pharmacogenomics.

Analysis of single nucleotide polymorphisms in human chromosomes 21 and 22

M. Gerstein, S. Balasubramanian, N. Luscombe, 2002 .

Evidence for Retrogene Origins of the Prion Gene Family

P. Harrison, G. Schmitt-Ulms, Sepehr Ehsani, 2011, PloS one.

Assessing the genomic evidence for conserved transcribed pseudogenes under selection

P. Harrison, Amit N. Khachane, Paul M Harrison, 2009, BMC Genomics.

A small reservoir of disabled ORFs in the yeast genome and its implications for the dynamics of proteome evolution.

Mark Gerstein, Nathaniel Echols, Ning Lan, 2002, Journal of molecular biology.

Identification of pseudogenes in the Drosophila melanogaster genome.

Mark Gerstein, Zhaolei Zhang, Paul Bertone, 2003, Nucleic acids research.

The ribosomal protein genes and Minute loci of Drosophila melanogaster

Michael Ashburner, Steven J Marygold, Steven J. Marygold, 2007, Genome Biology.

Digging deep for ancient relics: a survey of protein motifs in the intergenic sequences of four eukaryotic genomes.

Mark Gerstein, M. Gerstein, Zhaolei Zhang, 2002, Journal of molecular biology.

Molecular fossils in the human genome: identification and analysis of the pseudogenes in chromosomes 21 and 22.

Mark Gerstein, Nathaniel Echols, Paul Bertone, 2002, Genome research.

Digging for dead genes: an analysis of the characteristics of the pseudogene population in the Caenorhabditis elegans genome.

M. Gerstein, P. Harrison, N. Echols, 2001, Nucleic acids research.

fLPS 2.0: rapid annotation of compositionally-biased regions in biological sequences

P. Harrison, 2021, PeerJ.

fLPS: Fast discovery of compositional biases for the protein universe

P. Harrison, 2017, BMC Bioinformatics.

LPS-annotate: complete annotation of compositionally biased regions in the protein knowledgebase

Paul M. Harrison, Manish Kumar, Djamel Harbi, 2011, Database J. Biol. Databases Curation.

Exhaustive assignment of compositional bias reveals universally prevalent biased regions: analysis of functional associations in human and Drosophila

Paul M. Harrison, P. Harrison, 2006, BMC Bioinformatics.

A small reservoir of disabled ORFs in the Saccharomyces cerevisiae genome and its implications for the dynamics of proteome evolution

M. Gerstein, M. Snyder, N. Lan, 2001 .

Digging for Dead Genes: An Analysis of the Characteristics of the Pseudogene Population in the C. elegans Genome

Mark Gerstein, Nathaniel Echols, M. Gerstein, 2000 .

An integrated approach for finding overlooked genes in yeast

Kei-Hoi Cheung, Nathaniel Echols, Mark B. Gerstein, 2002, Nature Biotechnology.

PseudoPipe: an automated pseudogene identification pipeline

Mark Gerstein, John E. Karro, Deyou Zheng, 2006, Bioinform..

Variable absorption of mutational trends by prion-forming domains during Saccharomycetes evolution

P. Harrison, 2020, PeerJ.

The evolutionary scope and neurological disease linkage of yeast-prion-like proteins in humans

P. Harrison, Lu An, 2016, Biology Direct.

Emergence and evolution of yeast prion and prion-like proteins

P. Harrison, Lu An, David Fitzpatrick, 2016, BMC Evolutionary Biology.

Interaction Networks of Prion, Prionogenic and Prion-Like Proteins in Budding Yeast, and Their Role in Gene Regulation

P. Harrison, Djamel Harbi, 2014, PloS one.

Evolution of budding yeast prion-determinant sequences across diverse fungi.

F. Dietrich, J. Stajich, P. Harrison, 2007, Journal of molecular biology.

Computational Methods for Pseudogene Annotation Based on Sequence Homology.

P. Harrison, 2021, Methods in molecular biology.

Digging for Dead Genes : An Analysis of the Characteristics and Distribution of the Pseudogene Population in the Ribbon Worm Genome

M. Gerstein, P. Harrison, N. Echols, 2000 .

Discerning evolutionary trends in post-translational modification and the effect of intrinsic disorder: Analysis of methylation, acetylation and ubiquitination sites in human proteins

Mohanalakshmi Narasumani, Paul M Harrison, P. Harrison, 2018, PLoS Comput. Biol..

Homopeptide and homocodon levels across fungi are coupled to GC/AT-bias and intrinsic disorder, with unique behaviours for some amino acids

P. Harrison, Yue Wang, 2021, Scientific Reports.

Emergence and evolution of yeast prion and prion-like proteins

P. Harrison, D. Fitzpatrick, Lu An, 2016, BMC Evolutionary Biology.

Genetic interaction network of the Saccharomyces cerevisiae type 1 phosphatase Glc7

H. Bussey, G. Lesage, P. Harrison, 2008, BMC Genomics.

The Landscape of the Prion Protein's Structural Response to Mutation Revealed by Principal Component Analysis of Multiple NMR Ensembles

Paul M. Harrison, Deena M. A. Gendoo, P. Harrison, 2012, PLoS Comput. Biol..

Estimating the occurrence of primary ubiquinone deficiency by analysis of large-scale sequencing data

P. Harrison, S. Hekimi, Bryan G. Hughes, 2017, Scientific Reports.

Estimating the occurrence of primary ubiquinone deficiency by analysis of large-scale sequencing data

P. Harrison, S. Hekimi, Bryan G. Hughes, 2017, Scientific Reports.

Classifying prion and prion-like phenomena

P. Harrison, Djamel Harbi, 2014, Prion.

Intracellular soluble α‐synuclein oligomers reduce pyramidal cell excitability

Mark J. Wall, M. J. Richardson, P. Harrison, 2016, The Journal of physiology.

Thermodynamics of model prions and its implications for the problem of prion protein folding.

F. Cohen, H. Chan, S. Prusiner, 1999, Journal of molecular biology.

Ataxia in prion protein (PrP)-deficient mice is associated with upregulation of the novel PrP-like protein doppel.

Inyoul Y. Lee, L. Hood, F. Cohen, 1999, Journal of molecular biology.

Evaluation of the redesign of an undergraduate cell biology course.

Richard F. Schmid, Laura April McEwen, Jackie Vogel, 2009, CBE life sciences education.

Altered expression of synaptic protein mRNAs in STOP ( MAP 6 ) mutant mice

P. Harrison, S. Eastwood, A. Andrieux, 2018 .

Experimentally Verified Parameter Sets for Modelling Heterogeneous Neocortical Pyramidal-Cell Populations

Paul M. Harrison, Mark J. Wall, Laurent Badel, 2015, PLoS Comput. Biol..

Bioinformatical parsing of folding-on-binding proteins reveals their compositional and evolutionary sequence design

P. Harrison, Mohanalakshmi Narasumani, 2015, Scientific Reports.