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  1. Article ; Online: The Potential Role of the J-T

    Vicente, Jose / Strauss, David G / Upreti, Vijay V / Fossler, Michael J / Sager, Philip T / Noveck, Robert

    Journal of clinical pharmacology

    2019  Volume 59, Issue 7, Page(s) 909–914

    MeSH term(s) Animals ; Arrhythmias, Cardiac/chemically induced ; Arrhythmias, Cardiac/mortality ; Biomarkers ; Death, Sudden, Cardiac ; Drug Development/standards ; Drug-Related Side Effects and Adverse Reactions/diagnosis ; Electrocardiography ; Guidelines as Topic ; Humans ; Pharmacology, Clinical/organization & administration ; Societies, Scientific ; Torsades de Pointes/chemically induced ; Torsades de Pointes/mortality ; United States
    Chemical Substances Biomarkers
    Language English
    Publishing date 2019-03-25
    Publishing country England
    Document type Journal Article
    ZDB-ID 188980-1
    ISSN 1552-4604 ; 0091-2700 ; 0021-9754
    ISSN (online) 1552-4604
    ISSN 0091-2700 ; 0021-9754
    DOI 10.1002/jcph.1411
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Combining genotypes and T cell receptor distributions to infer genetic loci determining V(D)J recombination probabilities.

    Russell, Magdalena L / Souquette, Aisha / Levine, David M / Schattgen, Stefan A / Allen, E Kaitlynn / Kuan, Guillermina / Simon, Noah / Balmaseda, Angel / Gordon, Aubree / Thomas, Paul G / Matsen, Frederick A / Bradley, Philip

    eLife

    2022  Volume 11

    Abstract: ... determined biases and immune exposures. T cells combine a random V(D)J recombination process with a selection ... Every T cell receptor (TCR) repertoire is shaped by a complex probabilistic tangle of genetically ... from a large human cohort, we infer specific genetic loci associated with V(D)J recombination probabilities ...

    Abstract Every T cell receptor (TCR) repertoire is shaped by a complex probabilistic tangle of genetically determined biases and immune exposures. T cells combine a random V(D)J recombination process with a selection process to generate highly diverse and functional TCRs. The extent to which an individual's genetic background is associated with their resulting TCR repertoire diversity has yet to be fully explored. Using a previously published repertoire sequencing dataset paired with high-resolution genome-wide genotyping from a large human cohort, we infer specific genetic loci associated with V(D)J recombination probabilities using genome-wide association inference. We show that V(D)J gene usage profiles are associated with variation in the
    MeSH term(s) Genetic Loci ; Genome-Wide Association Study ; Genotype ; Humans ; Probability ; Receptors, Antigen, T-Cell/genetics ; V(D)J Recombination/genetics
    Chemical Substances Receptors, Antigen, T-Cell
    Language English
    Publishing date 2022-03-22
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2687154-3
    ISSN 2050-084X ; 2050-084X
    ISSN (online) 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.73475
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: PROMIDISα: A T-cell receptor α signature associated with immunodeficiencies caused by V(D)J recombination defects.

    Berland, Aurélie / Rosain, Jérémie / Kaltenbach, Sophie / Allain, Vincent / Mahlaoui, Nizar / Melki, Isabelle / Fievet, Alice / Dubois d'Enghien, Catherine / Ouachée-Chardin, Marie / Perrin, Laurence / Auger, Nathalie / Cipe, Funda Erol / Finocchi, Andrea / Dogu, Figen / Suarez, Felipe / Moshous, Despina / Leblanc, Thierry / Belot, Alexandre / Fieschi, Claire /
    Boutboul, David / Malphettes, Marion / Galicier, Lionel / Oksenhendler, Eric / Blanche, Stéphane / Fischer, Alain / Revy, Patrick / Stoppa-Lyonnet, Dominique / Picard, Capucine / de Villartay, Jean-Pierre

    The Journal of allergy and clinical immunology

    2018  Volume 143, Issue 1, Page(s) 325–334.e2

    Abstract: Background: V(D)J recombination ensures the diversity of the adaptive immune system ... Although its complete defect causes severe combined immunodeficiency (ie, T: Objective: We aimed at developing ... biomarkers based on analysis of the T-cell receptor (TCR) α repertoire to assist in the diagnosis of patients ...

    Abstract Background: V(D)J recombination ensures the diversity of the adaptive immune system. Although its complete defect causes severe combined immunodeficiency (ie, T
    Objective: We aimed at developing biomarkers based on analysis of the T-cell receptor (TCR) α repertoire to assist in the diagnosis of patients with primary immunodeficiencies with V(D)J recombination and DNA repair deficiencies.
    Methods: We used flow cytometric (fluorescence-activated cell sorting) analysis to quantify TCR-Vα7.2-expressing T lymphocytes in peripheral blood and developed PROMIDISα, a multiplex RT-PCR/next-generation sequencing assay, to evaluate a subset of the TCRα repertoire in T lymphocytes.
    Results: The combined fluorescence-activated cell sorting and PROMIDISα analyses revealed specific signatures in patients with V(D)J recombination-defective primary immunodeficiencies or ataxia telangiectasia/Nijmegen breakage syndromes.
    Conclusion: Analysis of the TCRα repertoire is particularly appropriate in a prospective way to identify patients with partial immune defects caused by suboptimal V(D)J recombination activity, a DNA repair defect, or both. It also constitutes a valuable tool for the retrospective in vivo functional validation of variants identified through exome or panel sequencing. Its broader implementation might be of interest to assist early diagnosis of patients presenting with hypomorphic DNA repair defects inclined to experience acute toxicity during prehematopoietic stem cell transplantation conditioning.
    MeSH term(s) Adolescent ; Adult ; Child ; Child, Preschool ; Female ; Humans ; Immunologic Deficiency Syndromes/genetics ; Immunologic Deficiency Syndromes/immunology ; Immunologic Deficiency Syndromes/pathology ; Infant ; Infant, Newborn ; Male ; Middle Aged ; Prospective Studies ; Receptors, Antigen, T-Cell, alpha-beta/genetics ; Receptors, Antigen, T-Cell, alpha-beta/immunology ; Retrospective Studies ; V(D)J Recombination/immunology
    Chemical Substances Receptors, Antigen, T-Cell, alpha-beta
    Language English
    Publishing date 2018-06-12
    Publishing country United States
    Document type Clinical Trial ; Journal Article ; Multicenter Study ; Research Support, Non-U.S. Gov't
    ZDB-ID 121011-7
    ISSN 1097-6825 ; 1085-8725 ; 0091-6749
    ISSN (online) 1097-6825 ; 1085-8725
    ISSN 0091-6749
    DOI 10.1016/j.jaci.2018.05.028
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Automated T-wave Delineator Algorithm for J-t

    Hosseini, Meisam / Johannesen, Lars / Vicente, Jose / Strauss, David G

    Journal of electrocardiology

    2016  Volume 49, Issue 6, Page(s) 935–936

    Language English
    Publishing date 2016-11
    Publishing country United States
    Document type Journal Article
    ZDB-ID 410286-1
    ISSN 1532-8430 ; 0022-0736
    ISSN (online) 1532-8430
    ISSN 0022-0736
    DOI 10.1016/j.jelectrocard.2016.09.036
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Combining genotypes and T cell receptor distributions to infer genetic loci determining V(D)J recombination probabilities

    Magdalena L Russell / Aisha Souquette / David M Levine / Stefan A Schattgen / E Kaitlynn Allen / Guillermina Kuan / Noah Simon / Angel Balmaseda / Aubree Gordon / Paul G Thomas / Frederick A Matsen IV / Philip Bradley

    eLife, Vol

    2022  Volume 11

    Abstract: ... determined biases and immune exposures. T cells combine a random V(D)J recombination process with a selection ... Every T cell receptor (TCR) repertoire is shaped by a complex probabilistic tangle of genetically ... from a large human cohort, we infer specific genetic loci associated with V(D)J recombination probabilities ...

    Abstract Every T cell receptor (TCR) repertoire is shaped by a complex probabilistic tangle of genetically determined biases and immune exposures. T cells combine a random V(D)J recombination process with a selection process to generate highly diverse and functional TCRs. The extent to which an individual’s genetic background is associated with their resulting TCR repertoire diversity has yet to be fully explored. Using a previously published repertoire sequencing dataset paired with high-resolution genome-wide genotyping from a large human cohort, we infer specific genetic loci associated with V(D)J recombination probabilities using genome-wide association inference. We show that V(D)J gene usage profiles are associated with variation in the TCRB locus and, specifically for the functional TCR repertoire, variation in the major histocompatibility complex locus. Further, we identify specific variations in the genes encoding the Artemis protein and the TdT protein to be associated with biasing junctional nucleotide deletion and N-insertion, respectively. These results refine our understanding of genetically-determined TCR repertoire biases by confirming and extending previous studies on the genetic determinants of V(D)J gene usage and providing the first examples of trans genetic variants which are associated with modifying junctional diversity. Together, these insights lay the groundwork for further explorations into how immune responses vary between individuals.
    Keywords t cell receptor repertoire ; VDJ recombination probabilities ; GWAS ; Artemis ; TdT ; Medicine ; R ; Science ; Q ; Biology (General) ; QH301-705.5
    Subject code 616
    Language English
    Publishing date 2022-03-01T00:00:00Z
    Publisher eLife Sciences Publications Ltd
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Volcanically-Induced Environmental and Floral Changes Across the Triassic-Jurassic (T-J) Transition

    Peixin Zhang / Jing Lu / Minfang Yang / David P. G. Bond / Sarah E. Greene / Le Liu / Yuanfu Zhang / Ye Wang / Ziwei Wang / Shan Li / Longyi Shao / Jason Hilton

    Frontiers in Ecology and Evolution, Vol

    2022  Volume 10

    Abstract: ... a multidisciplinary record of volcanism and environmental change from an expanded Triassic-Jurassic (T-J) transition ... phases during the T-J transition. Each of these can be correlated with large, negative C isotope ... a collapse in land plant diversity during the T-J transition. ...

    Abstract The End-Triassic Mass Extinction (ETME) saw the catastrophic loss of ca. 50% of marine genera temporally associated with emplacement of the Central Atlantic Magmatic Province (CAMP). However, the effects of the ETME on land is a controversial topic. Evaluation of the disparate cause(s) and effects of the extinction requires additional, detailed terrestrial records of these events. Here, we present a multidisciplinary record of volcanism and environmental change from an expanded Triassic-Jurassic (T-J) transition preserved in lacustrine sediments from the Jiyuan Basin, North China. High-resolution chemostratigraphy, palynological, kerogen, and sedimentological data reveal that terrestrial conditions responded to and were defined by large-scale volcanism. The record of sedimentary mercury reveals two discrete CAMP eruptive phases during the T-J transition. Each of these can be correlated with large, negative C isotope excursions (CIE-I of −4.7‰; CIE-II of −2.9‰), significantly reduced plant diversity (with ca. 45 and 44% generic losses, respectively), enhanced wildfire (marked by increased fusinite or charcoal content), and major climatic shifts toward drier and hotter conditions (indicated by the occurrence of calcareous nodules, increased Classopollis pollen content, and PCA analysis). Our results show that CAMP eruptions may have followed a bimodal eruptive model and demonstrate the powerful ability of large-scale volcanism to alter the global C cycle and profoundly affect the climate, in turn leading to enhanced wildfires and a collapse in land plant diversity during the T-J transition.
    Keywords End-Triassic Mass Extinction ; palynology ; volcanism ; paleoenvironment ; paleoclimate ; carbon cycle ; Evolution ; QH359-425 ; Ecology ; QH540-549.5
    Subject code 550
    Language English
    Publishing date 2022-03-01T00:00:00Z
    Publisher Frontiers Media S.A.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Article ; Online: The J to T-peak interval as a biomarker in drug safety studies: A method of accuracy assessment applied to two algorithms.

    Chiu, W Brian / de Bie, Johan / Mortara, David W

    Journal of electrocardiology

    2017  Volume 50, Issue 6, Page(s) 758–761

    Abstract: Objectives: To evaluate performance of J-to-T-peak (JTP) measurements of 12-lead ECGs, in a five ... in context of the measurement, e.g. T-wave morphology, autonomic nervous system state.: Results ...

    Abstract Objectives: To evaluate performance of J-to-T-peak (JTP) measurements of 12-lead ECGs, in a five-arm study using drugs with various levels of electrolyte channel block.
    Methods: The novel evaluation method distinguishes between different aspects of measurement. "Random noise" is the variability among repeated measurements made without changing the conditions. "Context noise" is the variability of changes in context of the measurement, e.g. T-wave morphology, autonomic nervous system state.
    Results: The average random noise of our RR-corrected JTPc measurements in standard deviations was 3.0 ms and not dependent on the drug. The average context noise was 4.0 ms for ranolazine, verapamil, and placebo, and 8.8 ms for dofetilide and quinidine. Measurement consistency is corroborated by linear fit confidence intervals of baseline- and placebo-corrected JTPc versus drug concentration.
    Conclusions: Systematic differences were found in JTPc drug response between the Mortara method and published data. Residual signal component in the context noise may influence future study design.
    MeSH term(s) Algorithms ; Biomarkers/analysis ; Electrocardiography/methods ; Heart Conduction System/drug effects ; Humans ; Ion Channels/drug effects ; Phenethylamines/pharmacology ; Potassium Channel Blockers/pharmacology ; Quinidine/pharmacology ; Ranolazine/pharmacology ; Sodium Channel Blockers/pharmacology ; Sulfonamides/pharmacology ; Verapamil/pharmacology
    Chemical Substances Biomarkers ; Ion Channels ; Phenethylamines ; Potassium Channel Blockers ; Sodium Channel Blockers ; Sulfonamides ; Ranolazine (A6IEZ5M406) ; Verapamil (CJ0O37KU29) ; Quinidine (ITX08688JL) ; dofetilide (R4Z9X1N2ND)
    Language English
    Publishing date 2017-11
    Publishing country United States
    Document type Journal Article
    ZDB-ID 410286-1
    ISSN 1532-8430 ; 0022-0736
    ISSN (online) 1532-8430
    ISSN 0022-0736
    DOI 10.1016/j.jelectrocard.2017.07.011
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Crystallins, cataract, and dynamic lens proteostasis. A commentary on P.W.N. Schmid, N.C.H. Lim, C. Peters, K.C. Back, B. Bourgeois, F. Pirolt, B. Richter, J. Peschek, O. Puk, O.V. Amarie, C. Dalke, M. Haslbeck, S. Weinkauf, T. Madl, J. Graw, and J. Buchner (2021) Imbalances in the eye lens proteome are linked to cataract formation, Nat. Struct. Mol. Biol.28, 143-151. doi: 10.1038/s41594-020-00543-9.

    Grosas, Aidan B / Thorn, David C / Carver, John A

    Experimental eye research

    2021  Volume 208, Page(s) 108619

    Language English
    Publishing date 2021-05-10
    Publishing country England
    Document type Letter ; Comment
    ZDB-ID 80122-7
    ISSN 1096-0007 ; 0014-4835
    ISSN (online) 1096-0007
    ISSN 0014-4835
    DOI 10.1016/j.exer.2021.108619
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  9. Article ; Online: Re: Evaluation and Management of the Adolescent Varicocele: T. F. Kolon J Urol 2015; 194: 1194-1201.

    Diamond, David A / Kurtz, Michael P

    The Journal of urology

    2016  Volume 195, Issue 4 Pt 1, Page(s) 1173–1175

    MeSH term(s) Adolescent ; Humans ; Male ; Varicocele
    Language English
    Publishing date 2016
    Publishing country United States
    Document type Letter ; Comment
    ZDB-ID 3176-8
    ISSN 1527-3792 ; 0022-5347
    ISSN (online) 1527-3792
    ISSN 0022-5347
    DOI 10.1016/j.juro.2015.10.170
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Localization of CD8 T cell epitope within cardiac myosin heavy chain-α334-352 that induces autoimmune myocarditis in A/J mice.

    Massilamany, Chandirasegaran / Gangaplara, Arunakumar / Basavalingappa, Rakesh H / Rajasekaran, Rajkumar A / Khalilzad-Sharghi, Vahid / Han, Zhongji / Othman, Shadi / Steffen, David / Reddy, Jay

    International journal of cardiology

    2016  Volume 202, Page(s) 311–321

    Abstract: ... 352-induced experimental autoimmune myocarditis in A/J mice (H-2a), we discovered that Myhc334-352 ... supposedly a CD4 T cell epitope, also induced antigen-specific CD8 T cells that transfer disease to naive ... animals.: Methods and results: In our efforts to identify the CD8 T cell determinants, we localized ...

    Abstract Background: Cardiac myosin heavy chain-α (Myhc), an intracellular protein expressed in the cardiomyocytes, has been identified as a major autoantigen in cardiac autoimmunity. In our studies with Myhc334-352-induced experimental autoimmune myocarditis in A/J mice (H-2a), we discovered that Myhc334-352, supposedly a CD4 T cell epitope, also induced antigen-specific CD8 T cells that transfer disease to naive animals.
    Methods and results: In our efforts to identify the CD8 T cell determinants, we localized Myhc338-348 within the full length-Myhc334-352, leading to four key findings. (1) By acting as a dual epitope, Myhc338-348 induces both CD4 and CD8 T cell responses. (2) In a major histocompatibility complex (MHC) class I-stabilization assay, Myhc338-348 was found to bind H-2Dd-but not H-2Kk or H-2Ld-alleles. (3) The CD8 T cell response induced by Myhc338-348 was antigen-specific, as evaluated by MHC class I/H-2Dd dextramer staining. The antigen-sensitized T cells predominantly produced interferon-γ, the critical cytokine of effector cytotoxic T lymphocytes. (4) Myhc338-348 was found to induce myocarditis in immunized animals as determined by histology and magnetic resonance microscopy imaging.
    Conclusions: Our data provide new insights as to how different immune cells can recognize the same antigen and inflict damage through different mechanisms.
    MeSH term(s) Animals ; Autoimmune Diseases/immunology ; CD8 Antigens/immunology ; Cells, Cultured ; Cytokines/immunology ; Female ; Immunodominant Epitopes/immunology ; Magnetic Resonance Imaging ; Mice ; Mice, Inbred A ; Myocarditis/etiology ; Myocarditis/immunology ; Myosin Heavy Chains/immunology ; Staining and Labeling ; beta 2-Microglobulin/immunology
    Chemical Substances CD8 Antigens ; Cytokines ; Immunodominant Epitopes ; beta 2-Microglobulin ; Myosin Heavy Chains (EC 3.6.4.1)
    Language English
    Publishing date 2016-01-01
    Publishing country Netherlands
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 779519-1
    ISSN 1874-1754 ; 0167-5273
    ISSN (online) 1874-1754
    ISSN 0167-5273
    DOI 10.1016/j.ijcard.2015.09.016
    Database MEDical Literature Analysis and Retrieval System OnLINE

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