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  1. Article ; Online: When Cold Is Hot: Immune Checkpoint Inhibition Therapy for Rhabdoid Tumors.

    Yarmarkovich, Mark / Maris, John M

    Cancer cell

    2019  Volume 36, Issue 6, Page(s) 575–576

    Abstract: Carcinogen-induced cancers typically have high mutation burdens and an inflamed microenvironment and thus are poised to respond to immune checkpoint inhibitors (ICIs). However, cancers with loss-of-function mutations in the SWI/SNF complex have few ... ...

    Abstract Carcinogen-induced cancers typically have high mutation burdens and an inflamed microenvironment and thus are poised to respond to immune checkpoint inhibitors (ICIs). However, cancers with loss-of-function mutations in the SWI/SNF complex have few additional mutations yet also have an inflamed immunophenotype and should respond to ICI therapy.
    MeSH term(s) Chromatin Assembly and Disassembly/immunology ; DNA Helicases/genetics ; Humans ; Immunotherapy/methods ; Mutation/genetics ; Nuclear Proteins/genetics ; Nuclear Proteins/immunology ; Rhabdoid Tumor/drug therapy ; Rhabdoid Tumor/genetics ; Transcription Factors/genetics
    Chemical Substances Nuclear Proteins ; Transcription Factors ; DNA Helicases (EC 3.6.4.-)
    Language English
    Publishing date 2019-12-18
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 2078448-X
    ISSN 1878-3686 ; 1535-6108
    ISSN (online) 1878-3686
    ISSN 1535-6108
    DOI 10.1016/j.ccell.2019.11.006
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: A SARS-CoV-2 Vaccination Strategy Focused on Population-Scale Immunity.

    Yarmarkovich, Mark / Warrington, John M / Farrel, Alvin / Maris, John M

    SSRN

    2020  , Page(s) 3575161

    Abstract: Here we propose a vaccination strategy for SARS-CoV-2 based on identification of both highly conserved regions of the virus and newly acquired adaptations that are presented by MHC class I and II across the vast majority of the population, are highly ... ...

    Abstract Here we propose a vaccination strategy for SARS-CoV-2 based on identification of both highly conserved regions of the virus and newly acquired adaptations that are presented by MHC class I and II across the vast majority of the population, are highly dissimilar from the human proteome, and are predicted B cell epitopes. We present 65 peptide sequences that we expect to result in a safe and effective vaccine which can be rapidly tested in DNA, mRNA, or synthetic peptide constructs. These include epitopes that are contained within evolutionarily divergent regions of the spike protein reported to increase infectivity through increased binding to the ACE2 receptor, and within a novel furin cleavage site thought to increase membrane fusion. This vaccination strategy specifically targets unique vulnerabilities of SARS-CoV-2 and should engage a robust adaptive immune response in the vast majority of the human population.
    Keywords covid19
    Language English
    Publishing date 2020-04-14
    Publishing country United States
    Document type Preprint
    ISSN 1556-5068
    ISSN (online) 1556-5068
    DOI 10.2139/ssrn.3575161
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: A SARS-CoV-2 Vaccination Strategy Focused on Population-Scale Immunity.

    Yarmarkovich, Mark / Warrington, John M / Farrel, Alvin / Maris, John M

    bioRxiv : the preprint server for biology

    2020  

    Abstract: Here we propose a vaccination strategy for SARS-CoV-2 based on identification of both highly conserved regions of the virus and newly acquired adaptations that are presented by MHC class I and II across the vast majority of the population, are highly ... ...

    Abstract Here we propose a vaccination strategy for SARS-CoV-2 based on identification of both highly conserved regions of the virus and newly acquired adaptations that are presented by MHC class I and II across the vast majority of the population, are highly dissimilar from the human proteome, and are predicted B cell epitopes. We present 65 peptide sequences that we expect to result in a safe and effective vaccine which can be rapidly tested in DNA, mRNA, or synthetic peptide constructs. These include epitopes that are contained within evolutionarily divergent regions of the spike protein reported to increase infectivity through increased binding to the ACE2 receptor, and within a novel furin cleavage site thought to increase membrane fusion. This vaccination strategy specifically targets unique vulnerabilities of SARS-CoV-2 and should engage a robust adaptive immune response in the vast majority of the human population.
    Keywords covid19
    Language English
    Publishing date 2020-04-02
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2020.03.31.018978
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Identification of SARS-CoV-2 Vaccine Epitopes Predicted to Induce Long-Term Population-Scale Immunity.

    Yarmarkovich, Mark / Warrington, John M / Farrel, Alvin / Maris, John M

    Cell reports. Medicine

    2020  Volume 1, Issue 3, Page(s) 100036

    Abstract: Here we propose a SARS-CoV-2 vaccine design concept based on identification of highly conserved regions of the viral genome and newly acquired adaptations, both predicted to generate epitopes presented on major histocompatibility complex (MHC) class I ... ...

    Abstract Here we propose a SARS-CoV-2 vaccine design concept based on identification of highly conserved regions of the viral genome and newly acquired adaptations, both predicted to generate epitopes presented on major histocompatibility complex (MHC) class I and II across the vast majority of the population. We further prioritize genomic regions that generate highly dissimilar peptides from the human proteome and are also predicted to produce B cell epitopes. We propose sixty-five 33-mer peptide sequences, a subset of which can be tested using DNA or mRNA delivery strategies. These include peptides that are contained within evolutionarily divergent regions of the spike protein reported to increase infectivity through increased binding to the ACE2 receptor and within a newly evolved furin cleavage site thought to increase membrane fusion. Validation and implementation of this vaccine concept could specifically target specific vulnerabilities of SARS-CoV-2 and should engage a robust adaptive immune response in the vast majority of the population.
    Keywords covid19
    Language English
    Publishing date 2020-06-08
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ISSN 2666-3791
    ISSN (online) 2666-3791
    DOI 10.1016/j.xcrm.2020.100036
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Digesting dietary miRNA therapeutics.

    Yarmarkovich, Mark / Hirschi, Kendal D

    Oncotarget

    2015  Volume 6, Issue 16, Page(s) 13848–13849

    MeSH term(s) Animals ; Caenorhabditis elegans ; Diet ; Humans ; MicroRNAs/administration & dosage ; MicroRNAs/genetics ; MicroRNAs/metabolism ; RNA Interference/physiology
    Chemical Substances MicroRNAs
    Language English
    Publishing date 2015-06-10
    Publishing country United States
    Document type Editorial
    ZDB-ID 2560162-3
    ISSN 1949-2553 ; 1949-2553
    ISSN (online) 1949-2553
    ISSN 1949-2553
    DOI 10.18632/oncotarget.4357
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Identification of SARS-CoV-2 Vaccine Epitopes Predicted to Induce Long-Term Population-Scale Immunity

    Mark Yarmarkovich / John M. Warrington / Alvin Farrel / John M. Maris

    Cell Reports Medicine, Vol 1, Iss 3, Pp 100036- (2020)

    2020  

    Abstract: Summary: Here we propose a SARS-CoV-2 vaccine design concept based on identification of highly conserved regions of the viral genome and newly acquired adaptations, both predicted to generate epitopes presented on major histocompatibility complex (MHC) ... ...

    Abstract Summary: Here we propose a SARS-CoV-2 vaccine design concept based on identification of highly conserved regions of the viral genome and newly acquired adaptations, both predicted to generate epitopes presented on major histocompatibility complex (MHC) class I and II across the vast majority of the population. We further prioritize genomic regions that generate highly dissimilar peptides from the human proteome and are also predicted to produce B cell epitopes. We propose sixty-five 33-mer peptide sequences, a subset of which can be tested using DNA or mRNA delivery strategies. These include peptides that are contained within evolutionarily divergent regions of the spike protein reported to increase infectivity through increased binding to the ACE2 receptor and within a newly evolved furin cleavage site thought to increase membrane fusion. Validation and implementation of this vaccine concept could specifically target specific vulnerabilities of SARS-CoV-2 and should engage a robust adaptive immune response in the vast majority of the population.
    Keywords COVID-19 ; SARS-CoV-2 ; coronavirus ; vaccine ; DNA vaccine ; RNA vaccine ; Medicine (General) ; R5-920
    Language English
    Publishing date 2020-06-01T00:00:00Z
    Publisher Elsevier
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Article: SARS-CoV-2 multiepitope vaccine constructs designed to drive long-term immunity in the majority of the population

    Yarmarkovich, Mark / Warrington, John M. / Farrel, Alvin / Maris, John M.

    Clinical Cancer Research

    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #840471
    Database COVID19

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  8. Article ; Online: A SARS-CoV-2 Vaccination Strategy Focused on Population-Scale Immunity

    Yarmarkovich, Mark / Warrington, John M. / Farrel, Alvin / Maris, John M.

    SSRN Electronic Journal ; ISSN 1556-5068

    2020  

    Keywords covid19
    Language English
    Publisher Elsevier BV
    Publishing country us
    Document type Article ; Online
    DOI 10.2139/ssrn.3575161
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article ; Online: Identification of SARS-CoV-2 Vaccine Epitopes Predicted to Induce Long-Term Population-Scale Immunity

    Yarmarkovich, Mark / Warrington, John M. / Farrel, Alvin / Maris, John M.

    Cell Reports Medicine

    2020  Volume 1, Issue 3, Page(s) 100036

    Keywords covid19
    Language English
    Publisher Elsevier BV
    Publishing country us
    Document type Article ; Online
    ISSN 2666-3791
    DOI 10.1016/j.xcrm.2020.100036
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

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    Inter-library loan at ZB MED

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  10. Article ; Online: A SARS-CoV-2 Vaccination Strategy Focused on Population-Scale Immunity

    Yarmarkovich, Mark / Warrington, John M. / Farrel, Alvin / Maris, John M.

    bioRxiv

    Abstract: Here we propose a vaccination strategy for SARS-CoV-2 based on identification of both highly conserved regions of the virus and newly acquired adaptations that are presented by MHC class I and II across the vast majority of the population, are highly ... ...

    Abstract Here we propose a vaccination strategy for SARS-CoV-2 based on identification of both highly conserved regions of the virus and newly acquired adaptations that are presented by MHC class I and II across the vast majority of the population, are highly dissimilar from the human proteome, and are predicted B cell epitopes. We present 65 peptide sequences that we expect to result in a safe and effective vaccine which can be rapidly tested in DNA, mRNA, or synthetic peptide constructs. These include epitopes that are contained within evolutionarily divergent regions of the spike protein reported to increase infectivity through increased binding to the ACE2 receptor, and within a novel furin cleavage site thought to increase membrane fusion. This vaccination strategy specifically targets unique vulnerabilities of SARS-CoV-2 and should engage a robust adaptive immune response in the vast majority of the human population.
    Keywords covid19
    Language English
    Publishing date 2020-04-02
    Publisher Cold Spring Harbor Laboratory
    Document type Article ; Online
    DOI 10.1101/2020.03.31.018978
    Database COVID19

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