Works matching AU Bork, Peer

Results: 294

The microbiome explored: recent insights and future challenges.

Published in:

Nature Reviews Microbiology, 2013, v. 11, n. 3, p. 213, doi. 10.1038/nrmicro2973

By:

Blaser, Martin;
Bork, Peer;
Fraser, Claire;
Knight, Rob;
Wang, Jun

Publication type:

Article

Molecular eco-systems biology: towards an understanding of community function.

Published in:

Nature Reviews Microbiology, 2008, v. 6, n. 9, p. 693, doi. 10.1038/nrmicro1935

By:

Raes, Jeroen;
Bork, Peer

Publication type:

Article

RTK: efficient rarefaction analysis of large datasets.

Published in:

Bioinformatics, 2017, v. 33, n. 16, p. 2594, doi. 10.1093/bioinformatics/btx206

By:

Saary, Paul;
Forslund, Kristoffer;
Bork, Peer;
Hildebrand, Falk

Publication type:

Article

CART—a chemical annotation retrieval toolkit.

Published in:

Bioinformatics, 2016, v. 32, n. 18, p. 2869, doi. 10.1093/bioinformatics/btw233

By:

Deghou, Samy;
Zeller, Georg;
Iskar, Murat;
Driessen, Marja;
Castillo, Mercedes;
van Noort, Vera;
Bork, Peer

Publication type:

Article

MOCAT2: a metagenomic assembly, annotation and profiling framework.

Published in:

Bioinformatics, 2016, v. 32, n. 16, p. 2520, doi. 10.1093/bioinformatics/btw183

By:

Kultima, Jens Roat;
Coelho, Luis Pedro;
Forslund, Kristoffer;
Huerta-Cepas, Jaime;
Li, Simone S.;
Driessen, Marja;
Voigt, Anita Yvonne;
Zeller, Georg;
Sunagawa, Shinichi;
Bork, Peer

Publication type:

Article

DvD: An R/Cytoscape pipeline for drug repurposing using public repositories of gene expression data.

Published in:

Bioinformatics, 2013, v. 29, n. 1, p. 132, doi. 10.1093/bioinformatics/bts656

By:

Pacini, Clare;
Iorio, Francesco;
Gonçalves, Emanuel;
Iskar, Murat;
Klabunde, Thomas;
Bork, Peer;
Saez-Rodriguez, Julio

Publication type:

Article

SmashCommunity: a metagenomic annotation and analysis tool.

Published in:

Bioinformatics, 2010, v. 26, n. 23, p. 2977, doi. 10.1093/bioinformatics/btq536

By:

Arumugam, Manimozhiyan;
Harrington, Eoghan D.;
Foerstner, Konrad U.;
Raes, Jeroen;
Bork, Peer

Publication type:

Article

SmashCell: a software framework for the analysis of single-cell amplified genome sequences.

Published in:

Bioinformatics, 2010, v. 26, n. 23, p. 2979, doi. 10.1093/bioinformatics/btq564

By:

Harrington, Eoghan D.;
Arumugam, Manimozhiyan;
Raes, Jeroen;
Bork, Peer;
Relman, David A.

Publication type:

Article

AQUA: automated quality improvement for multiple sequence alignments.

Published in:

Bioinformatics, 2010, v. 26, n. 2, p. 263, doi. 10.1093/bioinformatics/btp651

By:

Muller, Jean;
Creevey, Christopher J.;
Thompson, Julie D.;
Arendt, Detlev;
Bork, Peer

Publication type:

Article

Sircah: a tool for the detection and visualization of alternative transcripts.

Published in:

Bioinformatics, 2008, v. 24, n. 17, p. 1959, doi. 10.1093/bioinformatics/btn361

By:

Harrington, Eoghan D.;
Bork, Peer

Publication type:

Article

Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation.

Published in:

Bioinformatics, 2007, v. 23, n. 1, p. 127

By:

Peer Bork

Publication type:

Article

LSAT: learning about alternative transcripts in MEDLINE.

Published in:

Bioinformatics, 2006, v. 22, n. 7, p. 857, doi. 10.1093/bioinformatics/btk044

By:

Parantu K. Shah;
Peer Bork

Publication type:

Article

Medusa: a simple tool for interaction graph analysis.

Published in:

Bioinformatics, 2005, v. 21, n. 24, p. 4432, doi. 10.1093/bioinformatics/bti696

By:

Sean D. Hooper;
Peer Bork

Publication type:

Article

Efficient Recovery of Complete Gut Viral Genomes by Combined Short‐ and Long‐Read Sequencing.

Published in:

Advanced Science, 2024, v. 11, n. 13, p. 1, doi. 10.1002/advs.202305818

By:

Chen, Jingchao;
Sun, Chuqing;
Dong, Yanqi;
Jin, Menglu;
Lai, Senying;
Jia, Longhao;
Zhao, Xueyang;
Wang, Huarui;
Gao, Na L.;
Bork, Peer;
Liu, Zhi;
Chen, Wei‐Hua;
Zhao, Xing‐Ming

Publication type:

Article

Long‐Read Sequencing Reveals Extensive DNA Methylations in Human Gut Phagenome Contributed by Prevalently Phage‐Encoded Methyltransferases.

Published in:

Advanced Science, 2023, v. 10, n. 25, p. 1, doi. 10.1002/advs.202302159

By:

Sun, Chuqing;
Chen, Jingchao;
Jin, Menglu;
Zhao, Xueyang;
Li, Yun;
Dong, Yanqi;
Gao, Na;
Liu, Zhi;
Bork, Peer;
Zhao, Xing‐Ming;
Chen, Wei‐Hua

Publication type:

Article

Gut microbiota composition is associated with environmental landscape in honey bees.

Published in:

Ecology & Evolution (20457758), 2018, v. 8, n. 1, p. 441, doi. 10.1002/ece3.3597

By:

Jones, Julia C.;
Fruciano, Carmelo;
Hildebrand, Falk;
Al Toufalilia, Hasan;
Balfour, Nicholas J.;
Bork, Peer;
Engel, Philipp;
Ratnieks, Francis L. W.;
Hughes, William O. H.

Publication type:

Article

Metagenomic assessment of the global diversity and distribution of bacteria and fungi.

Published in:

Environmental Microbiology, 2021, v. 23, n. 1, p. 316, doi. 10.1111/1462-2920.15314

By:

Bahram, Mohammad;
Netherway, Tarquin;
Frioux, Clémence;
Ferretti, Pamela;
Coelho, Luis Pedro;
Geisen, Stefan;
Bork, Peer;
Hildebrand, Falk

Publication type:

Article

GUNC: detection of chimerism and contamination in prokaryotic genomes.

Published in:

Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02393-0

By:

Orakov, Askarbek;
Fullam, Anthony;
Coelho, Luis Pedro;
Khedkar, Supriya;
Szklarczyk, Damian;
Mende, Daniel R.;
Schmidt, Thomas S. B.;
Bork, Peer

Publication type:

Article

Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine learning toolbox.

Published in:

Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02306-1

By:

Wirbel, Jakob;
Zych, Konrad;
Essex, Morgan;
Karcher, Nicolai;
Kartal, Ece;
Salazar, Guillem;
Bork, Peer;
Sunagawa, Shinichi;
Zeller, Georg

Publication type:

Article

Discovery, scoring and utilization of human single nucleotide polymorphisms: a multidisciplinary problem.

Published in:

European Journal of Human Genetics, 2000, v. 8, n. 2, p. 154, doi. 10.1038/sj.ejhg.5200424

By:

Isaksson, Anders;
Landegren, Ulf;
Syvänen, Ann-Christine;
Bork, Peer;
Stein, Christian;
Ortigao, Flavio;
Brookes, Anthony J

Publication type:

Article

Estimating rates of alternative splicing in mammals and invertebrates.

Published in:

2004

By:

Harrington, E. D.;
Boue, S.;
Valcarcel, Juan;
Reich, Jens G.;
Bork, Peer

Publication type:

Letter

Bioinformatics in the post-sequence era.

Published in:

Nature Genetics, 2003, v. 33, p. 305, doi. 10.1038/ng1109

By:

Kanehisa, Minoru;
Bork, Peer

Publication type:

Article

SPG20 is mutated in Troyer syndrome, an hereditary spastic paraplegia.

Published in:

Nature Genetics, 2002, v. 31, n. 4, p. 347, doi. 10.1038/ng937

By:

Patel, Heema;
Cross, Harold;
Proukakis, Christos;
Hershberger, Ruth;
Bork, Peer;
Ciccarelli, Francesca D.;
Patton, Michael A.;
McKusick, Victor A.;
Crosby, Andrew H.

Publication type:

Article

Association of genes to genetically inherited diseases using data mining.

Published in:

Nature Genetics, 2002, v. 31, n. 3, p. 316, doi. 10.1038/ng895

By:

Perez-Iratxeta, Carolina;
Bork, Peer;
Andrade, Miguel A.

Publication type:

Article

Alternative splicing and genome complexity.

Published in:

Nature Genetics, 2002, v. 30, n. 1, p. 29, doi. 10.1038/ng803

By:

Brett, David;
Pospisil, Heike;
Valcárcel, Juan;
Reich, Jens;
Bork, Peer

Publication type:

Article

More than 1,000 putative new human signalling proteins revealed by EST data mining.

Published in:

Nature Genetics, 2000, v. 25, n. 2, p. 201, doi. 10.1038/76069

By:

Schultz, Jörg;
Doerks, Tobias;
Ponting, Chris P.;
Copley, Richard R.;
Bork, Peer

Publication type:

Article

A point of entry into genomics.

Published in:

1999

By:

Bork, Peer;
Huynen, Martijn

Publication type:

Book Review

Genome phylogeny based on gene content.

Published in:

Nature Genetics, 1999, v. 21, n. 1, p. 108, doi. 10.1038/5052

By:

Snel, Berend;
Bork, Peer;
Huynen, Martijn A.

Publication type:

Article

The Tenth Asia Pacific Bioinformatics Conference (APBC 2012).

Published in:

2012

By:

Phoebe Chen, Yi-Ping;
Bork, Peer

Publication type:

Proceeding

Large gene overlaps in prokaryotic genomes: result of functional constraints or mispredictions?

Published in:

BMC Genomics, 2008, v. 9, p. 1, doi. 10.1186/1471-2164-9-335

By:

Pallejà, Albert;
Harrington, Eoghan D.;
Bork, Peer

Publication type:

Article

Non-random retention of protein-coding overlapping genes in Metazoa.

Published in:

BMC Genomics, 2008, v. 9, p. 1, doi. 10.1186/1471-2164-9-174

By:

Soldà, Giulia;
Suyama, Mikita;
Pelucchi, Paride;
Boi, Silvia;
Guffanti, Alessandro;
Rizzi, Ermanno;
Bork, Peer;
Tenchini, Maria Luisa;
Ciccarelli, Francesca D.

Publication type:

Article

Frameshift mutations in coding repeats of protein tyrosine phosphatase genes in colorectal tumors with microsatellite instability.

Published in:

2008

By:

Korff S;
Woerner SM;
Yuan YP;
Bork P;
von Knebel Doeberitz M;
Gebert J;
Korff, Sebastian;
Woerner, Stefan M;
Yuan, Yan P;
Bork, Peer;
von Knebel Doeberitz, Magnus;
Gebert, Johannes

Publication type:

journal article

In situ structural analysis of the human nuclear pore complex.

Published in:

Nature, 2015, v. 526, n. 7571, p. 140, doi. 10.1038/nature15381

By:

von Appen, Alexander;
Kosinski, Jan;
Sparks, Lenore;
Ori, Alessandro;
DiGuilio, Amanda L.;
Vollmer, Benjamin;
Mackmull, Marie-Therese;
Banterle, Niccolo;
Parca, Luca;
Kastritis, Panagiotis;
Buczak, Katarzyna;
Mosalaganti, Shyamal;
Hagen, Wim;
Andres-Pons, Amparo;
Lemke, Edward A.;
Bork, Peer;
Antonin, Wolfram;
Glavy, Joseph S.;
Bui, Khanh Huy;
Beck, Martin

Publication type:

Article

Gene annotation from scientific literature using mappings between keyword systems.

Published in:

Bioinformatics, 2004, v. 20, n. 13, p. 2084, doi. 10.1093/bioinformatics/bth207

By:

Antonio J. Pérez;
Carolina Perez-Iratxeta;
Peer Bork;
Guillermo Thode;
Miguel A. Andrade

Publication type:

Article

Comparative analysis of protein interaction networks.

Published in:

Bioinformatics, 2002, v. 18, p. S64, doi. 10.1093/bioinformatics/18.suppl_2.S64

By:

Bork, Peer

Publication type:

Article

NAIL--Network Analysis Interface for Linking HMMER results.

Published in:

Bioinformatics, 2000, v. 16, n. 7, p. 656, doi. 10.1093/bioinformatics/16.7.656

By:

Sánchez-Pulido, Luis;
Yuan, Yan P.;
Andrade, Miguel A.;
Bork, Peer

Publication type:

Article

Associative database of protein sequences.

Published in:

Bioinformatics, 1999, v. 15, n. 9, p. 741, doi. 10.1093/bioinformatics/15.9.741

By:

Hanke, Jens;
Lehmann, Gerrit;
Bork, Peer;
Reich, Jens G.

Publication type:

Article

valuation of human‐readable annotation in biomolecular sequence databases with biological rule libraries.

Published in:

Bioinformatics, 1999, v. 15, n. 7, p. 528, doi. 10.1093/bioinformatics/15.7.528

By:

Eisenhaber, Frank;
Bork, Peer

Publication type:

Article

Towards detection of orthologues in sequence databases.

Published in:

Bioinformatics, 1998, v. 14, n. 3, p. 285, doi. 10.1093/bioinformatics/14.3.285

By:

Yuan, Yan P.;
Eulenstein, Oliver;
Vingron, Martin;
Bork, Peer

Publication type:

Article

Systematic genomic screening and analysis of mRNA in untranslated regions and mRNA precursors: combining experimental and computational approaches.

Published in:

Bioinformatics, 1998, v. 14, n. 3, p. 271, doi. 10.1093/bioinformatics/14.3.271

By:

Dandekar, Thomas;
Beyer, Katrin;
Bork, Peer;
Kenealy, Mary-Rose;
Pantopoulos, Kostas;
Hentze, Mathias;
Sonntag-Buck, Vera;
Flouriot, Gilles;
Gannon, Frank;
Schreiber, Sonja

Publication type:

Article

Frame: detection of genomic sequencing errors.

Published in:

Bioinformatics, 1998, v. 14, n. 4, p. 367, doi. 10.1093/bioinformatics/14.4.367

By:

Brown, Nigel P.;
Sander, Chris;
Bork, Peer

Publication type:

Article

Spore number control and breeding in Saccharomyces cerevisiae: a key role for a self-organizing system.

Published in:

Journal of Cell Biology, 2005, v. 171, n. 4, p. 627, doi. 10.1083/jcb.200507168

By:

Taxis, Christof;
Keller, Philipp;
Kavagiou, Zaharoula;
Jensen, Lars Juhl;
Colombelli, Julien;
Bork, Peer;
Stelzer, Ernst H. K.;
Knop, Michael

Publication type:

Article

Progressive alcohol‐related liver fibrosis is characterised by imbalanced collagen formation and degradation.

Published in:

Alimentary Pharmacology & Therapeutics, 2021, v. 54, n. 8, p. 1070, doi. 10.1111/apt.16567

By:

Thiele, Maja;
Johansen, Stine;
Gudmann, Natasja S.;
Madsen, Bjørn;
Kjærgaard, Maria;
Nielsen, Mette Juul;
Leeming, Diana J.;
Jacobsen, Suganya;
Bendtsen, Flemming;
Møller, Søren;
Detlefsen, Sönke;
Karsdal, Morten;
Krag, Aleksander;
Arumugam, Manimozhian;
Bork, Peer;
Hansen, Torben;
Anastasiadou, Ema;
Hartoft, Christina;
Israelsen, Hans;
Legido‐Quigley, Cristina

Publication type:

Article

Orthology prediction methods: A quality assessment using curated protein families.

Published in:

BioEssays, 2011, v. 33, n. 10, p. 769, doi. 10.1002/bies.201100062

By:

Trachana, Kalliopi;
Larsson, Tomas A.;
Powell, Sean;
Chen, Wei-Hua;
Doerks, Tobias;
Muller, Jean;
Bork, Peer

Publication type:

Article

Shared components of protein complexes—versatile building blocks or biochemical artefacts?

Published in:

BioEssays, 2004, v. 26, n. 12, p. 1333, doi. 10.1002/bies.20141

By:

Krause, Roland;
von Mering, Christian;
Bork, Peer;
Dandekar, Thomas

Publication type:

Article

Alternative splicing and evolution.

Published in:

BioEssays, 2003, v. 25, n. 11, p. 1031, doi. 10.1002/bies.10371

By:

Boue, Stephanie;
Letunic, Ivica;
Bork, Peer

Publication type:

Article

A Phylogeny-Based Benchmarking Test for Orthology Inference Reveals the Limitations of Function-Based Validation.

Published in:

PLoS ONE, 2014, v. 9, n. 11, p. 1, doi. 10.1371/journal.pone.0111122

By:

Trachana, Kalliopi;
Forslund, Kristoffer;
Larsson, Tomas;
Powell, Sean;
Doerks, Tobias;
von Mering, Christian;
Bork, Peer

Publication type:

Article

MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit.

Published in:

PLoS ONE, 2012, v. 7, n. 10, p. 1, doi. 10.1371/journal.pone.0047656

By:

Kultima, Jens Roat;
Sunagawa, Shinichi;
Junhua Li;
Weineng Chen;
Hua Chen;
Mende, Daniel R.;
Arumugam, Manimozhiyan;
Qi Pan;
Binghang Liu;
Junjie Qin;
Jun Wang;
Bork, Peer

Publication type:

Article

Annotation of the M. tuberculosis Hypothetical Orfeome: Adding Functional Information to More than Half of the Uncharacterized Proteins.

Published in:

PLoS ONE, 2012, v. 7, n. 4, p. 1, doi. 10.1371/journal.pone.0034302

By:

Doerks, Tobias;
van Noort, Vera;
Minguez, Pablo;
Bork, Peer

Publication type:

Article

Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data.

Published in:

PLoS ONE, 2012, v. 7, n. 2, p. 1, doi. 10.1371/journal.pone.0031386

By:

Mende, Daniel R.;
Waller, Alison S.;
Sunagawa, Shinichi;
Järvelin, Aino I.;
Chan, Michelle M.;
Arumugam, Manimozhiyan;
Raes, Jeroen;
Bork, Peer

Publication type:

Article