Literature DB >> 19060866

Automated de novo protein sequencing of monoclonal antibodies.

Nuno Bandeira, Victoria Pham, Pavel Pevzner, David Arnott, Jennie R Lill.   

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Year:  2008        PMID： 19060866      PMCID： PMC2891972          DOI： 10.1038/nbt1208-1336

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN： 1087-0156            Impact factor:   54.908


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  18 in total

1.  Automated identification of amino acid sequence variations in proteins by HPLC/microspray tandem mass spectrometry.

Authors:  C L Gatlin; J K Eng; S T Cross; J C Detter; J R Yates
Journal:  Anal Chem       Date:  2000-02-15       Impact factor: 6.986

2.  High-throughput protein sequencing.

Authors:  Victoria Pham; Jake Tropea; Suzy Wong; James Quach; William J Henzel
Journal:  Anal Chem       Date:  2003-02-15       Impact factor: 6.986

3.  Multiple sequence alignment with the Clustal series of programs.

Authors:  Ramu Chenna; Hideaki Sugawara; Tadashi Koike; Rodrigo Lopez; Toby J Gibson; Desmond G Higgins; Julie D Thompson
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

4.  PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry.

Authors:  Bin Ma; Kaizhong Zhang; Christopher Hendrie; Chengzhi Liang; Ming Li; Amanda Doherty-Kirby; Gilles Lajoie
Journal:  Rapid Commun Mass Spectrom       Date:  2003       Impact factor: 2.419

Review 5.  Discovery and development of bevacizumab, an anti-VEGF antibody for treating cancer.

Authors:  Napoleone Ferrara; Kenneth J Hillan; Hans-Peter Gerber; William Novotny
Journal:  Nat Rev Drug Discov       Date:  2004-05       Impact factor: 84.694

6.  Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry.

Authors:  John E P Syka; Joshua J Coon; Melanie J Schroeder; Jeffrey Shabanowitz; Donald F Hunt
Journal:  Proc Natl Acad Sci U S A       Date:  2004-06-21       Impact factor: 11.205

7.  Comparative genome assembly.

Authors:  Mihai Pop; Adam Phillippy; Arthur L Delcher; Steven L Salzberg
Journal:  Brief Bioinform       Date:  2004-09       Impact factor: 11.622

8.  PepNovo: de novo peptide sequencing via probabilistic network modeling.

Authors:  Ari Frank; Pavel Pevzner
Journal:  Anal Chem       Date:  2005-02-15       Impact factor: 6.986

9.  Identification of post-translational modifications by blind search of mass spectra.

Authors:  Dekel Tsur; Stephen Tanner; Ebrahim Zandi; Vineet Bafna; Pavel A Pevzner
Journal:  Nat Biotechnol       Date:  2005-11-27       Impact factor: 54.908

10.  Dehydroalanine derived from cysteine is a common post-translational modification in human serum albumin.

Authors:  Raphael Bar-Or; Leonard T Rael; David Bar-Or
Journal:  Rapid Commun Mass Spectrom       Date:  2008       Impact factor: 2.419
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  43 in total

1.  De novo sequencing and homology searching.

Authors:  Bin Ma; Richard Johnson
Journal:  Mol Cell Proteomics       Date:  2011-11-16       Impact factor: 5.911

2.  SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing.

Authors:  Anton Bankevich; Sergey Nurk; Dmitry Antipov; Alexey A Gurevich; Mikhail Dvorkin; Alexander S Kulikov; Valery M Lesin; Sergey I Nikolenko; Son Pham; Andrey D Prjibelski; Alexey V Pyshkin; Alexander V Sirotkin; Nikolay Vyahhi; Glenn Tesler; Max A Alekseyev; Pavel A Pevzner
Journal:  J Comput Biol       Date:  2012-04-16       Impact factor: 1.479

3.  A proteomics approach for the identification and cloning of monoclonal antibodies from serum.

Authors:  Wan Cheung Cheung; Sean A Beausoleil; Xiaowu Zhang; Shuji Sato; Sandra M Schieferl; James S Wieler; Jason G Beaudet; Ravi K Ramenani; Lana Popova; Michael J Comb; John Rush; Roberto D Polakiewicz
Journal:  Nat Biotechnol       Date:  2012-03-25       Impact factor: 54.908

4.  Template proteogenomics: sequencing whole proteins using an imperfect database.

Authors:  Natalie E Castellana; Victoria Pham; David Arnott; Jennie R Lill; Vineet Bafna
Journal:  Mol Cell Proteomics       Date:  2010-02-17       Impact factor: 5.911

5.  Searching molecular structure databases with tandem mass spectra using CSI:FingerID.

Authors:  Kai Dührkop; Huibin Shen; Marvin Meusel; Juho Rousu; Sebastian Böcker
Journal:  Proc Natl Acad Sci U S A       Date:  2015-09-21       Impact factor: 11.205

6.  Combining phage display with de novo protein sequencing for reverse engineering of monoclonal antibodies.

Authors:  Keith W Rickert; Luba Grinberg; Robert M Woods; Susan Wilson; Michael A Bowen; Manuel Baca
Journal:  MAbs       Date:  2016       Impact factor: 5.857

Review 7.  Quantitative proteomic analysis of histone modifications.

Authors:  He Huang; Shu Lin; Benjamin A Garcia; Yingming Zhao
Journal:  Chem Rev       Date:  2015-02-17       Impact factor: 60.622

8.  Database-independent Protein Sequencing (DiPS) Enables Full-length de Novo Protein and Antibody Sequence Determination.

Authors:  Alon Savidor; Rotem Barzilay; Dalia Elinger; Yosef Yarden; Moshit Lindzen; Alexandra Gabashvili; Ophir Adiv Tal; Yishai Levin
Journal:  Mol Cell Proteomics       Date:  2017-03-27       Impact factor: 5.911

9.  Precision De Novo Peptide Sequencing Using Mirror Proteases of Ac-LysargiNase and Trypsin for Large-scale Proteomics.

Authors:  Hao Yang; Yan-Chang Li; Ming-Zhi Zhao; Fei-Lin Wu; Xi Wang; Wei-Di Xiao; Yi-Hao Wang; Jun-Ling Zhang; Fu-Qiang Wang; Feng Xu; Wen-Feng Zeng; Christopher M Overall; Si-Min He; Hao Chi; Ping Xu
Journal:  Mol Cell Proteomics       Date:  2019-01-08       Impact factor: 5.911

Review 10.  Proteogenomics to discover the full coding content of genomes: a computational perspective.

Authors:  Natalie Castellana; Vineet Bafna
Journal:  J Proteomics       Date:  2010-07-08       Impact factor: 4.044
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