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  1. Book ; Online ; E-Book: Bioinformatics techniques for drug discovery

    Kaushik, Aman Chandra / Kumar, Ajay / Bharadwaj, Shiv / Chaudhary, Ravi / Sahi, Shakti

    applications for complex diseases

    (SpringerBriefs in computer science)

    2018  

    Author's details Aman Chandra Kaushik, Ajay Kumar, Shiv Bharadwaj, Ravi Chaudhary, Shakti Sahi
    Series title SpringerBriefs in computer science
    Language English
    Size 1 Online-Ressource (xi, 57 Seiten), Illustrationen, Diagramme
    Publisher Springer
    Publishing place Cham
    Publishing country Switzerland
    Document type Book ; Online ; E-Book
    Remark Zugriff für angemeldete ZB MED-Nutzerinnen und -Nutzer
    HBZ-ID HT019740610
    ISBN 978-3-319-75732-2 ; 9783319757315 ; 3-319-75732-6 ; 3319757318
    DOI 10.1007/978-3-319-75732-2
    Database ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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  2. Article ; Online: Current understanding on TREM-2 molecular biology and physiopathological functions.

    Bharadwaj, Shiv / Groza, Yaroslava / Mierzwicka, Joanna M / Malý, Petr

    International immunopharmacology

    2024  Volume 134, Page(s) 112042

    Abstract: Triggering receptor expressed on myeloid cells 2 (TREM-2), a glycosylated receptor belonging to the immunoglobin superfamily and especially expressed in the myeloid cell lineage, is frequently explained as a reminiscent receptor for both adaptive and ... ...

    Abstract Triggering receptor expressed on myeloid cells 2 (TREM-2), a glycosylated receptor belonging to the immunoglobin superfamily and especially expressed in the myeloid cell lineage, is frequently explained as a reminiscent receptor for both adaptive and innate immunity regulation. TREM-2 is also acknowledged to influence NK cell differentiation via the PI3K and PLCγ signaling pathways, as well as the partial activation or direct inhibition of T cells. Additionally, TREM-2 overexpression is substantially linked to cell-specific functions, such as enhanced phagocytosis, reduced toll-like receptor (TLR)-mediated inflammatory cytokine production, increased transcription of anti-inflammatory cytokines, and reshaped T cell function. Whereas TREM-2-deficient cells exhibit diminished phagocytic function and enhanced proinflammatory cytokines production, proceeding to inflammatory injuries and an immunosuppressive environment for disease progression. Despite the growing literature supporting TREM-2
    Language English
    Publishing date 2024-05-03
    Publishing country Netherlands
    Document type Journal Article ; Review
    ZDB-ID 2043785-7
    ISSN 1878-1705 ; 1567-5769
    ISSN (online) 1878-1705
    ISSN 1567-5769
    DOI 10.1016/j.intimp.2024.112042
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: Editorial: Advances in the therapeutic targeting of human matrix metalloproteinases in health and disease.

    Bharadwaj, Shiv / Sahoo, Amaresh Kumar / Yadava, Umesh

    Frontiers in molecular biosciences

    2023  Volume 10, Page(s) 1150474

    Language English
    Publishing date 2023-03-10
    Publishing country Switzerland
    Document type Editorial
    ZDB-ID 2814330-9
    ISSN 2296-889X
    ISSN 2296-889X
    DOI 10.3389/fmolb.2023.1150474
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Current therapeutic targets and multifaceted physiological impacts of caffeine.

    Song, Xinjie / Kirtipal, Nikhil / Lee, Sunjae / Malý, Petr / Bharadwaj, Shiv

    Phytotherapy research : PTR

    2023  Volume 37, Issue 12, Page(s) 5558–5598

    Abstract: Caffeine, which shares consubstantial structural similarity with purine adenosine, has been demonstrated as a nonselective adenosine receptor antagonist for eliciting most of the biological functions at physiologically relevant dosages. Accumulating ... ...

    Abstract Caffeine, which shares consubstantial structural similarity with purine adenosine, has been demonstrated as a nonselective adenosine receptor antagonist for eliciting most of the biological functions at physiologically relevant dosages. Accumulating evidence supports caffeine's beneficial effects against different disorders, such as total cardiovascular diseases and type 2 diabetes. Conversely, paradoxical effects are also linked to caffeine ingestion in humans including hypertension-hypotension and tachycardia-bradycardia. These observations suggest the association of caffeine action with its ingested concentration and/or concurrent interaction with preferential molecular targets to direct explicit events in the human body. Thus, a coherent analysis of the functional targets of caffeine, relevant to normal physiology, and disease pathophysiology, is required to understand the pharmacology of caffeine. This review provides a broad overview of the experimentally validated targets of caffeine, particularly those of therapeutic interest, and the impacts of caffeine on organ-specific physiology and pathophysiology. Overall, the available empirical and epidemiological evidence supports the dose-dependent functional activities of caffeine and advocates for further studies to get insights into the caffeine-induced changes under specific conditions, such as asthma, DNA repair, and cancer, in view of its therapeutic applications.
    MeSH term(s) Humans ; Caffeine/pharmacology ; Caffeine/chemistry ; Diabetes Mellitus, Type 2 ; Hypertension/drug therapy ; Cardiovascular Diseases
    Chemical Substances Caffeine (3G6A5W338E)
    Language English
    Publishing date 2023-09-07
    Publishing country England
    Document type Journal Article ; Review
    ZDB-ID 639136-9
    ISSN 1099-1573 ; 0951-418X
    ISSN (online) 1099-1573
    ISSN 0951-418X
    DOI 10.1002/ptr.8000
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.B 3092: Show issues Location:
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  5. Article ; Online: Interleukin 6 polymorphisms as an indicator of COVID-19 severity in humans.

    Kirtipal, Nikhil / Bharadwaj, Shiv

    Journal of biomolecular structure & dynamics

    2020  Volume 39, Issue 12, Page(s) 4563–4565

    MeSH term(s) COVID-19 ; Humans ; Interleukin-6/genetics ; SARS-CoV-2
    Chemical Substances Interleukin-6
    Keywords covid19
    Language English
    Publishing date 2020-06-12
    Publishing country England
    Document type Letter
    ZDB-ID 49157-3
    ISSN 1538-0254 ; 0739-1102
    ISSN (online) 1538-0254
    ISSN 0739-1102
    DOI 10.1080/07391102.2020.1776640
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Targeting neuroblastoma by small-molecule inhibitors of human ALYREF protein: mechanistic insights using molecular dynamics simulations.

    Goswami, Nidhi / Singh, Archana / Bharadwaj, Shiv / Sahoo, Amaresh Kumar / Singh, Indrakant K

    Journal of biomolecular structure & dynamics

    2023  Volume 42, Issue 3, Page(s) 1352–1367

    Abstract: Neuroblastoma is a tumour of the sympathetic nervous system mainly prevalent in children. Many strategies have been employed to target several drug-targetable proteins for the clinical management of neuroblastoma. However, the heterogeneous nature of ... ...

    Abstract Neuroblastoma is a tumour of the sympathetic nervous system mainly prevalent in children. Many strategies have been employed to target several drug-targetable proteins for the clinical management of neuroblastoma. However, the heterogeneous nature of neuroblastoma presents serious challenges in drug development for its treatment. Albeit numerous medications have been developed to target various signalling pathways in neuroblastoma, the redundant nature of the tumour pathways makes its suppression unsuccessful. Recently, the quest for neuroblastoma therapy resulted in the identification of human ALYREF, a nuclear protein that plays an essential role in tumour growth and progression. Therefore, this study used the structure-based drug discovery method to identify the putative inhibitors targeting ALYREF for the Neuroblastoma treatment. Herein, a library of 119 blood-brain barrier crossing small molecules from the ChEMBL database was downloaded and docked against the predicted binding pocket of the human ALYREF protein. Based on docking scores, the top four compounds were considered for intermolecular interactions and molecular dynamics simulation analysis, which revealed CHEMBL3752986 and CHEMBL3753744 with substantial affinity and stability with the ALYREF. These results were further supported by binding free energies and essential dynamics analysis of the respective complexes. Hence, this study advocates the sorted compounds targeting ALYREF for further
    MeSH term(s) Child ; Humans ; Molecular Dynamics Simulation ; Neuroblastoma/drug therapy ; Nuclear Proteins ; Blood-Brain Barrier ; Cell Movement ; Molecular Docking Simulation ; Transcription Factors ; RNA-Binding Proteins
    Chemical Substances Nuclear Proteins ; ALYREF protein, human ; Transcription Factors ; RNA-Binding Proteins
    Language English
    Publishing date 2023-05-09
    Publishing country England
    Document type Journal Article
    ZDB-ID 49157-3
    ISSN 1538-0254 ; 0739-1102
    ISSN (online) 1538-0254
    ISSN 0739-1102
    DOI 10.1080/07391102.2023.2204376
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Interleukin 6 polymorphisms as an indicator of COVID-19 severity in humans

    Kirtipal, Nikhil / Bharadwaj, Shiv

    Journal of Biomolecular Structure and Dynamics

    2020  , Page(s) 1–3

    Keywords Molecular Biology ; Structural Biology ; General Medicine ; covid19
    Language English
    Publisher Informa UK Limited
    Publishing country uk
    Document type Article ; Online
    ZDB-ID 49157-3
    ISSN 1538-0254 ; 0739-1102
    ISSN (online) 1538-0254
    ISSN 0739-1102
    DOI 10.1080/07391102.2020.1776640
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article: From SARS to SARS-CoV-2, insights on structure, pathogenicity and immunity aspects of pandemic human coronaviruses

    Kirtipal, Nikhil / Bharadwaj, Shiv / Kang, Sang Gu

    Infection, genetics, and evolution. 2020 Nov., v. 85

    2020  

    Abstract: Human Coronaviruses (HCoV), periodically emerging across the world, are potential threat to humans such as severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) – diseases termed as COVID-19. Current SARS-CoV-2 outbreak have fueled ongoing efforts ...

    Abstract Human Coronaviruses (HCoV), periodically emerging across the world, are potential threat to humans such as severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) – diseases termed as COVID-19. Current SARS-CoV-2 outbreak have fueled ongoing efforts to exploit various viral target proteins for therapy, but strategies aimed at blocking the viral proteins as in drug and vaccine development have largely failed. In fact, evidence has now shown that coronaviruses undergoes rapid recombination to generate new strains of altered virulence; additionally, escaped the host antiviral defense system and target humoral immune system which further results in severe deterioration of the body such as by cytokine storm. This demands the understanding of phenotypic and genotypic classification, and pathogenesis of SARS-CoV-2 for the production of potential therapy. In lack of clear clinical evidences for the pathogenesis of COVID-19, comparative analysis of previous pandemic HCoVs associated immunological responses can provide insights into COVID-19 pathogenesis. In this review, we summarize the possible origin and transmission mode of CoVs and the current understanding on the viral genome integrity of known pandemic virus against SARS-CoV-2. We also consider the host immune response and viral evasion based on available clinical evidences which would be helpful to remodel COVID-19 pathogenesis; and hence, development of therapeutics against broad spectrum of coronaviruses.
    Keywords COVID-19 infection ; Severe acute respiratory syndrome coronavirus 2 ; cytokines ; drugs ; evolution ; humans ; immune response ; immune system ; infection ; pandemic ; pathogenesis ; phenotype ; therapeutics ; vaccine development ; viral genome ; virulence ; viruses
    Language English
    Dates of publication 2020-11
    Publishing place Elsevier B.V.
    Document type Article
    Note NAL-AP-2-clean
    ZDB-ID 2037068-4
    ISSN 1567-1348
    ISSN 1567-1348
    DOI 10.1016/j.meegid.2020.104502
    Database NAL-Catalogue (AGRICOLA)

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    Zs.A 5645: Show issues Location:
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  10. Article ; Online: From SARS to SARS-CoV-2, insights on structure, pathogenicity and immunity aspects of pandemic human coronaviruses.

    Kirtipal, Nikhil / Bharadwaj, Shiv / Kang, Sang Gu

    Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases

    2020  Volume 85, Page(s) 104502

    Abstract: Human Coronaviruses (HCoV), periodically emerging across the world, are potential threat to humans such as severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) - diseases termed as COVID-19. Current SARS-CoV-2 outbreak have fueled ongoing efforts ...

    Abstract Human Coronaviruses (HCoV), periodically emerging across the world, are potential threat to humans such as severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) - diseases termed as COVID-19. Current SARS-CoV-2 outbreak have fueled ongoing efforts to exploit various viral target proteins for therapy, but strategies aimed at blocking the viral proteins as in drug and vaccine development have largely failed. In fact, evidence has now shown that coronaviruses undergoes rapid recombination to generate new strains of altered virulence; additionally, escaped the host antiviral defense system and target humoral immune system which further results in severe deterioration of the body such as by cytokine storm. This demands the understanding of phenotypic and genotypic classification, and pathogenesis of SARS-CoV-2 for the production of potential therapy. In lack of clear clinical evidences for the pathogenesis of COVID-19, comparative analysis of previous pandemic HCoVs associated immunological responses can provide insights into COVID-19 pathogenesis. In this review, we summarize the possible origin and transmission mode of CoVs and the current understanding on the viral genome integrity of known pandemic virus against SARS-CoV-2. We also consider the host immune response and viral evasion based on available clinical evidences which would be helpful to remodel COVID-19 pathogenesis; and hence, development of therapeutics against broad spectrum of coronaviruses.
    MeSH term(s) Animals ; Coronavirus Infections/transmission ; Genome, Viral ; Humans ; Pandemics ; Phylogeny ; Severe acute respiratory syndrome-related coronavirus/chemistry ; Severe acute respiratory syndrome-related coronavirus/classification ; Severe acute respiratory syndrome-related coronavirus/genetics ; Severe acute respiratory syndrome-related coronavirus/pathogenicity ; SARS-CoV-2/chemistry ; SARS-CoV-2/classification ; SARS-CoV-2/genetics ; SARS-CoV-2/pathogenicity ; Virulence
    Keywords covid19
    Language English
    Publishing date 2020-08-13
    Publishing country Netherlands
    Document type Journal Article ; Review
    ZDB-ID 2037068-4
    ISSN 1567-7257 ; 1567-1348
    ISSN (online) 1567-7257
    ISSN 1567-1348
    DOI 10.1016/j.meegid.2020.104502
    Database MEDical Literature Analysis and Retrieval System OnLINE

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