EP3345003A4 - Identification of proteins in the absence of peptide identifications - Google Patents

Identification of proteins in the absence of peptide identifications Download PDF

Info

Publication number
EP3345003A4
EP3345003A4 EP16840911.8A EP16840911A EP3345003A4 EP 3345003 A4 EP3345003 A4 EP 3345003A4 EP 16840911 A EP16840911 A EP 16840911A EP 3345003 A4 EP3345003 A4 EP 3345003A4
Authority
EP
European Patent Office
Prior art keywords
proteins
absence
identification
peptide identifications
identifications
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Withdrawn
Application number
EP16840911.8A
Other languages
German (de)
French (fr)
Other versions
EP3345003A1 (en
Inventor
James Andrew SHERMAN
Stephen A. Tate
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
DH Technologies Development Pte Ltd
Original Assignee
DH Technologies Development Pte Ltd
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by DH Technologies Development Pte Ltd filed Critical DH Technologies Development Pte Ltd
Publication of EP3345003A1 publication Critical patent/EP3345003A1/en
Publication of EP3345003A4 publication Critical patent/EP3345003A4/en
Withdrawn legal-status Critical Current

Links

Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803—General methods of protein analysis not limited to specific proteins or families of proteins
    • G01N33/6848—Methods of protein analysis involving mass spectrometry
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • H—ELECTRICITY
    • H01—ELECTRIC ELEMENTS
    • H01J—ELECTRIC DISCHARGE TUBES OR DISCHARGE LAMPS
    • H01J49/00—Particle spectrometers or separator tubes
    • H01J49/0027—Methods for using particle spectrometers
    • H01J49/0036—Step by step routines describing the handling of the data generated during a measurement

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Molecular Biology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Medical Informatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Public Health (AREA)
  • Epidemiology (AREA)
  • Evolutionary Computation (AREA)
  • Bioethics (AREA)
  • Theoretical Computer Science (AREA)
  • Software Systems (AREA)
  • Artificial Intelligence (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Databases & Information Systems (AREA)
  • Evolutionary Biology (AREA)
  • Data Mining & Analysis (AREA)
  • Chemical & Material Sciences (AREA)
  • Urology & Nephrology (AREA)
  • Biomedical Technology (AREA)
  • Signal Processing (AREA)
  • Hematology (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Cell Biology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Other Investigation Or Analysis Of Materials By Electrical Means (AREA)
EP16840911.8A 2015-08-31 2016-08-19 Identification of proteins in the absence of peptide identifications Withdrawn EP3345003A4 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201562212282P 2015-08-31 2015-08-31
PCT/IB2016/054990 WO2017037563A1 (en) 2015-08-31 2016-08-19 Identification of proteins in the absence of peptide identifications

Publications (2)

Publication Number Publication Date
EP3345003A1 EP3345003A1 (en) 2018-07-11
EP3345003A4 true EP3345003A4 (en) 2019-05-15

Family

ID=58188507

Family Applications (1)

Application Number Title Priority Date Filing Date
EP16840911.8A Withdrawn EP3345003A4 (en) 2015-08-31 2016-08-19 Identification of proteins in the absence of peptide identifications

Country Status (2)

Country Link
EP (1) EP3345003A4 (en)
WO (1) WO2017037563A1 (en)

Families Citing this family (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US11959898B2 (en) * 2018-08-31 2024-04-16 Dh Technologies Development Pte. Ltd. Identification and scoring of related compounds in complex samples
KR20200087700A (en) * 2019-01-11 2020-07-21 난토믹스, 엘엘씨 Evaluating sdhb protein expression by mass spectrometry
US20230005727A1 (en) * 2019-11-14 2023-01-05 Dh Technologies Development Pte. Ltd. Method of Mass Analysis - SWATH with Orthogonal Fragmentation Methodology

Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005057208A1 (en) * 2003-12-03 2005-06-23 Prolexys Pharmaceuticals, Inc. Methods of identifying peptides and proteins
US20120049058A1 (en) * 2009-05-08 2012-03-01 Grothe Jr Robert A Methods and Systems for Matching Product Ions to Precursor in Tandem Mass Spectrometry
WO2012035412A2 (en) * 2010-09-15 2012-03-22 Dh Technologies Development Pte. Ltd. Data independent acquisition of production spectra and reference spectra library matching
US8530831B1 (en) * 2012-03-13 2013-09-10 Wisconsin Alumni Research Foundation Probability-based mass spectrometry data acquisition
WO2014195783A1 (en) * 2013-06-05 2014-12-11 Dh Technologies Development Pte. Ltd. Swathtm data-independent acquisition technology for the detection of host cell protein contaminants in biotherapeutics protein products

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US8063359B2 (en) * 2007-10-08 2011-11-22 University Of Central Florida Research Foundation, Inc. Systems and methods for identifying substances contained in a material

Patent Citations (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005057208A1 (en) * 2003-12-03 2005-06-23 Prolexys Pharmaceuticals, Inc. Methods of identifying peptides and proteins
US20120049058A1 (en) * 2009-05-08 2012-03-01 Grothe Jr Robert A Methods and Systems for Matching Product Ions to Precursor in Tandem Mass Spectrometry
WO2012035412A2 (en) * 2010-09-15 2012-03-22 Dh Technologies Development Pte. Ltd. Data independent acquisition of production spectra and reference spectra library matching
US20150144778A1 (en) * 2010-09-15 2015-05-28 Ronald F. Bonner Data Independent Acquisition of Product Ion Spectra and Reference Spectra Library Matching
US8530831B1 (en) * 2012-03-13 2013-09-10 Wisconsin Alumni Research Foundation Probability-based mass spectrometry data acquisition
WO2014195783A1 (en) * 2013-06-05 2014-12-11 Dh Technologies Development Pte. Ltd. Swathtm data-independent acquisition technology for the detection of host cell protein contaminants in biotherapeutics protein products

Non-Patent Citations (3)

* Cited by examiner, † Cited by third party
Title
L. C. GILLET ET AL: "Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis", MOLECULAR & CELLULAR PROTEOMICS, vol. 11, no. 6, 18 January 2012 (2012-01-18), XP055201307, ISSN: 1535-9476, DOI: 10.1074/mcp.O111.016717 *
See also references of WO2017037563A1 *
YING S. TING ET AL: "Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data", MOLECULAR & CELLULAR PROTEOMICS, vol. 14, no. 9, 27 July 2015 (2015-07-27), US, pages 2301 - 2307, XP055574543, ISSN: 1535-9476, DOI: 10.1074/mcp.O114.047035 *

Also Published As

Publication number Publication date
WO2017037563A1 (en) 2017-03-09
EP3345003A1 (en) 2018-07-11

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