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  1. Book: Alternative pre-mRNA splicing

    Stamm, Stefan

    theory and protocols

    2012  

    Author's details ed. by Stefan Stamm
    Keywords Alternative Splicing ; RNA Precursors ; RNS-Spleißen
    Subject RNA-Spleißen ; Splicing ; Spleißen
    Language English
    Size XXXVII, 622 S. : Ill., graph. Darst.
    Publisher Wiley-Blackwell
    Publishing place Weinheim
    Publishing country Germany
    Document type Book
    HBZ-ID HT016615848
    ISBN 978-3-527-32606-8 ; 3-527-32606-5
    Database Catalogue ZB MED Medicine, Health

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    Shelf markLoan statusLocation
    2012 A 1516 order for loan Magazin

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  2. Book ; Online: Occupational exposure to inhalable and respirable dust fractions

    Mattenklott, Markus / Pflaumbaum, Wolfgang / Smola, Thomas / Stamm, Roger / Steinhausen, Marco / Binde, Gisela / Arnone, Mario / Auras, Stefan

    (IFA-Report ; 2020, 6e)

    2021  

    Institution Deutsche Gesetzliche Unfallversicherung e.V
    Author's details DGUV Deutsche Gesetzliche Unfallversicherung ; authors: general information: Dr. rer. nat. Markus Mattenklott, Dr. rer. nat. Wolfgang Pflaumbaum, Dr. rer. nat. Thomas Smola, Dr. rer. nat. Roger Stamm, Dr. rer. nat. Marco Steinhausen, IFA, Sankt Augustin; Dr. rer. nat. Gisela Binde, BGHM, Düsseldorf ; exposure data: Dr. rer. nat. Mario Arnone, IFA, Sankt Augustin; Dr. phil. nat. Stefan Auras, BGHW, Mannheim [und 16 andere]
    Series title IFA-Report ; 2020, 6e
    IFA-Report / IFA, Institut für Arbeitsschutz der Deutschen Gesetzlichen Unfallversicherung
    Collection IFA-Report / IFA, Institut für Arbeitsschutz der Deutschen Gesetzlichen Unfallversicherung
    Language English
    Size 1 Online-Ressource (303 Seiten, 6,51 MB), Illustrationen, Diagramme
    Publisher Deutsche Gesetzliche Unfallversicherung (DGUV)
    Publishing place Berlin
    Publishing country Germany
    Document type Book ; Online
    Note Deutsche, englische, französiche und spanische Zusammenfassung ; Open Access
    HBZ-ID HT021227383
    ISBN 978-3-948657-18-5 ; 9783948657178 ; 3-948657-18-1 ; 3948657173
    Database ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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  3. Book ; Online: Arbeitsbedingte Exposition gegenüber der einatembaren und der alveolengängigen Staubfraktion

    Mattenklott, Markus / Pflaumbaum, Wolfgang / Smola, Thomas / Stamm, Roger / Steinhausen, Marco / Binde, Gisela / Arnone, Mario / Auras, Stefan

    (IFA Report ; 2020, 6)

    2020  

    Institution Deutsche Gesetzliche Unfallversicherung e.V. / Institut für Arbeitsschutz
    Deutsche Gesetzliche Unfallversicherung e.V
    Author's details DGUV Deutsche Gesetzliche Unfallversicherung ; Autorinnen und Autoren: Allgemeine Informationen: Dr. rer. nat. Markus Mattenklott, Dr. rer. nat. Wolfgang Pflaumbaum, Dr. rer. nat. Thomas Smola, Dr. rer. nat. Roger Stamm, Dr. rer. nat. Marco Steinhausen, IFA, Sankt Augustin; Dr. rer. nat. Gisela Binde, BGHM, Düsseldorf ; Expositionsdaten: Dr. rer. nat. Mario Arnone, IFA, Sankt Augustin; Dr. phil. nat. Stefan Auras, BGHW, Mannheim [und 16 andere] ; Institut für Arbeitsschutz der Deutschen Gesetzlichen Unfallversicherung (IFA), Sankt Augustin
    Series title IFA Report ; 2020, 6
    IFA-Report / IFA, Institut für Arbeitsschutz der Deutschen Gesetzlichen Unfallversicherung
    Collection IFA-Report / IFA, Institut für Arbeitsschutz der Deutschen Gesetzlichen Unfallversicherung
    Language German
    Size 1 Online-Ressource (304 Seiten, 11,34 MB), Illustrationen
    Publisher Deutsche Gesetzliche Unfallversicherung (DGUV)
    Publishing place Berlin
    Publishing country Germany
    Document type Book ; Online
    Note Literaturverzeichnis: Seite 302-303 ; Deutsche, englische, französiche und spanische Zusammenfassung ; Open Access
    HBZ-ID HT020874281
    ISBN 978-3-948657-18-5 ; 9783948657178 ; 3-948657-18-1 ; 3948657173
    Database ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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  4. Article ; Online: Reduced basis surrogates for quantum spin systems based on tensor networks.

    Brehmer, Paul / Herbst, Michael F / Wessel, Stefan / Rizzi, Matteo / Stamm, Benjamin

    Physical review. E

    2023  Volume 108, Issue 2-2, Page(s) 25306

    Abstract: Within the reduced basis methods approach, an effective low-dimensional subspace of a quantum many-body Hilbert space is constructed in order to investigate, e.g., the ground-state phase diagram. The basis of this subspace is built from solutions of ... ...

    Abstract Within the reduced basis methods approach, an effective low-dimensional subspace of a quantum many-body Hilbert space is constructed in order to investigate, e.g., the ground-state phase diagram. The basis of this subspace is built from solutions of snapshots, i.e., ground states corresponding to particular and well-chosen parameter values. Here, we show how a greedy strategy to assemble the reduced basis and thus to select the parameter points can be implemented based on matrix-product-state calculations. Once the reduced basis has been obtained, observables required for the computation of phase diagrams can be computed with a computational complexity independent of the underlying Hilbert space for any parameter value. We illustrate the efficiency and accuracy of this approach for different one-dimensional quantum spin-1 models, including anisotropic as well as biquadratic exchange interactions, leading to rich quantum phase diagrams.
    Language English
    Publishing date 2023-09-18
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2844562-4
    ISSN 2470-0053 ; 2470-0045
    ISSN (online) 2470-0053
    ISSN 2470-0045
    DOI 10.1103/PhysRevE.108.025306
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Influence of FTDP-17 mutants on circular tau RNAs.

    Margvelani, Giorgi / Welden, Justin R / Maquera, Andrea Arizaca / Van Eyk, Jennifer E / Murray, Christopher / Miranda Sardon, Sandra C / Stamm, Stefan

    Biochimica et biophysica acta. Molecular basis of disease

    2024  Volume 1870, Issue 4, Page(s) 167036

    Abstract: At least 53 mutations in the microtubule associated protein tau gene (MAPT) have been identified that cause frontotemporal dementia. 47 of these mutations are localized between exons 7 and 13. They could thus affect the formation of circular RNAs ( ... ...

    Abstract At least 53 mutations in the microtubule associated protein tau gene (MAPT) have been identified that cause frontotemporal dementia. 47 of these mutations are localized between exons 7 and 13. They could thus affect the formation of circular RNAs (circRNAs) from the MAPT gene that occurs through backsplicing from exon 12 to either exon 10 or exon 7. We analyzed representative mutants and found that five FTDP-17 mutations increase the formation of 12➔7 circRNA and three different mutations increase the amount of 12➔10 circRNA. CircRNAs are translated after undergoing adenosine to inosine RNA editing, catalyzed by ADAR enzymes. We found that the interferon induced ADAR1-p150 isoform has the strongest effect on circTau RNA translation. ADAR1-p150 activity had a stronger effect on circTau RNA expression and strongly decreased 12➔7 circRNA, but unexpectedly increased 12➔10 circRNA. In both cases, ADAR-activity strongly promoted translation of circTau RNAs. Unexpectedly, we found that the 12➔7 circTau protein interacts with eukaryotic initiation factor 4B (eIF4B), which is reduced by four FTDP-17 mutations located in the second microtubule domain. These are the first studies of the effect of human mutations on circular RNA formation and translation. They show that point mutations influence circRNA expression levels, likely through changes in pre-mRNA structures. The effect of the mutations is surpassed by editing of the circular RNAs, leading to their translation. Thus, circular RNAs and their editing status should be considered when analyzing FTDP-17 mutations.
    MeSH term(s) Humans ; Frontotemporal Dementia/genetics ; Mutation ; RNA/genetics ; RNA, Circular/genetics ; tau Proteins/genetics
    Chemical Substances RNA (63231-63-0) ; RNA, Circular ; tau Proteins ; MAPT protein, human
    Language English
    Publishing date 2024-01-28
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 60-7
    ISSN 1879-260X ; 1879-2596 ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650 ; 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4889 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
    ISSN (online) 1879-260X ; 1879-2596 ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650
    ISSN 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4889 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
    DOI 10.1016/j.bbadis.2024.167036
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Surrogate models for quantum spin systems based on reduced-order modeling.

    Herbst, Michael F / Stamm, Benjamin / Wessel, Stefan / Rizzi, Matteo

    Physical review. E

    2022  Volume 105, Issue 4-2, Page(s) 45303

    Abstract: We present a methodology to investigate phase diagrams of quantum models based on the principle of the reduced basis method (RBM). The RBM is built from a few ground-state snapshots, i.e., lowest eigenvectors of the full system Hamiltonian computed at ... ...

    Abstract We present a methodology to investigate phase diagrams of quantum models based on the principle of the reduced basis method (RBM). The RBM is built from a few ground-state snapshots, i.e., lowest eigenvectors of the full system Hamiltonian computed at well-chosen points in the parameter space of interest. We put forward a greedy strategy to assemble such a small-dimensional basis, i.e., to select where to spend the numerical effort needed for the snapshots. Once the RBM is assembled, physical observables required for mapping out the phase diagram (e.g., structure factors) can be computed for any parameter value with a modest computational complexity, considerably lower than the one associated to the underlying Hilbert space dimension. We benchmark the method in two test cases, a chain of excited Rydberg atoms and a geometrically frustrated antiferromagnetic two-dimensional lattice model, and illustrate the accuracy of the approach. In particular, we find that the ground-state manifold can be approximated to sufficient accuracy with a moderate number of basis functions, which increases very mildly when the number of microscopic constituents grows-in stark contrast to the exponential growth of the Hilbert space needed to describe each of the few snapshots. A combination of the presented RBM approach with other numerical techniques circumventing even the latter big cost, e.g., tensor network methods, is a tantalizing outlook of this work.
    Language English
    Publishing date 2022-04-18
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2844562-4
    ISSN 2470-0053 ; 2470-0045
    ISSN (online) 2470-0053
    ISSN 2470-0045
    DOI 10.1103/PhysRevE.105.045303
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: C/D box snoRNAs in viral infections: RNA viruses use old dogs for new tricks.

    Stamm, Stefan / Lodmell, J Stephen

    Non-coding RNA research

    2019  Volume 4, Issue 2, Page(s) 46–53

    Abstract: C/D box snoRNAs (SNORDs) are a highly expressed class of non-coding RNAs. Besides their well-established role in rRNA modification, C/D box snoRNAs form protein complexes devoid of fibrillarin and regulate pre-mRNA splicing and polyadenylation of ... ...

    Abstract C/D box snoRNAs (SNORDs) are a highly expressed class of non-coding RNAs. Besides their well-established role in rRNA modification, C/D box snoRNAs form protein complexes devoid of fibrillarin and regulate pre-mRNA splicing and polyadenylation of numerous genes. There is an emerging body of evidence for functional interactions between RNA viruses and C/D box snoRNAs. The infectivity of some RNA viruses depends on enzymatically active fibrillarin, and many RNA viral proteins associate with nucleolin or nucleophosmin, suggesting that viruses benefit from their cytosolic accumulation. These interactions are likely reflected by morphological changes in the nucleolus, often leading to relocalization of nucleolar proteins and ncRNAs to the cytosol that are a characteristic feature of viral infections. Knock-down studies have also shown that RNA viruses need specific C/D box snoRNAs for optimal replication, suggesting that RNA viruses benefit from gene expression programs regulated by SNORDs, or that viruses have evolved "new" uses for these humble ncRNAs to advance their prospects during infection.
    Language English
    Publishing date 2019-02-14
    Publishing country Netherlands
    Document type Journal Article ; Review
    ISSN 2468-0540
    ISSN (online) 2468-0540
    DOI 10.1016/j.ncrna.2019.02.001
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article: Influence of FTDP-17 mutants on circular Tau RNAs.

    Margvelani, Giorgi / Welden, Justin R / Maquera, Andrea Arizaca / Van Eyk, Jennifer E / Murray, Christopher / Miranda Sardon, Sandra C / Stamm, Stefan

    bioRxiv : the preprint server for biology

    2023  

    Language English
    Publishing date 2023-09-21
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2023.09.08.556913
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Pre-mRNA structures forming circular RNAs.

    Welden, Justin R / Stamm, Stefan

    Biochimica et biophysica acta. Gene regulatory mechanisms

    2019  Volume 1862, Issue 11-12, Page(s) 194410

    Abstract: Circular RNAs are a recently discovered class of RNAs formed by covalently linking the 5' and 3' end of an RNA. Pre-mRNAs generate circular RNAs through a back-splicing mechanism. Whereas in linear splicing a 5' splice site is connected to a downstream 3' ...

    Abstract Circular RNAs are a recently discovered class of RNAs formed by covalently linking the 5' and 3' end of an RNA. Pre-mRNAs generate circular RNAs through a back-splicing mechanism. Whereas in linear splicing a 5' splice site is connected to a downstream 3' splice site, in back-splicing the 5' splice site is connected to an upstream 3' splice site. Both mechanisms use the spliceosome for catalysis. For back-splicing to occur, the back-splice sites must frequently be brought into close proximity, which is achieved through the formation of secondary structures in the pre-mRNA. In general, these pre-mRNA structures are formed by RNA base pairing between complementary sequences flanking the back-splicing sites. Proteins can abolish these RNA structures through binding to one of the complementary strands. However, proteins can also promote back-splicing without strong RNA structures through multimerization after binding to intronic regions flanking circular exons. In humans, Alu-elements comprising around 11% of the human genome are the best-characterized elements generating structures promoting circular RNA formation. Thus, intronic pre-mRNA structures contribute to the formation of circular RNAs.
    MeSH term(s) Alu Elements ; Base Pairing ; Humans ; Models, Molecular ; Nucleic Acid Conformation ; RNA 3' Polyadenylation Signals ; RNA Precursors/chemistry ; RNA Splice Sites ; RNA Splicing ; RNA, Circular/chemistry ; Spliceosomes/chemistry ; Spliceosomes/genetics
    Chemical Substances RNA Precursors ; RNA Splice Sites ; RNA, Circular
    Language English
    Publishing date 2019-08-14
    Publishing country Netherlands
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S. ; Review
    ZDB-ID 2918786-2
    ISSN 1876-4320 ; 1874-9399
    ISSN (online) 1876-4320
    ISSN 1874-9399
    DOI 10.1016/j.bbagrm.2019.194410
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    Zs.A 7156: Show issues Location:
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  10. Article ; Online: Synthesis, Absolute Configurations, and Biological Activities of Floral Scent Compounds from Night-Blooming Araceae.

    Stamm, Patrick / Etl, Florian / Maia, Artur Campos D / Dötterl, Stefan / Schulz, Stefan

    The Journal of organic chemistry

    2021  Volume 86, Issue 7, Page(s) 5245–5254

    Abstract: The uncommon jasmone derivatives dehydrojasmone, isojasmol, and isojasmyl acetate, floral scent compounds from night-blooming Araceae, were synthesized in a scalable synthesis employing conjugate addition with a selenoacetal as the key step. The ... ...

    Abstract The uncommon jasmone derivatives dehydrojasmone, isojasmol, and isojasmyl acetate, floral scent compounds from night-blooming Araceae, were synthesized in a scalable synthesis employing conjugate addition with a selenoacetal as the key step. The stereoselective strategy with subsequent enzymatic kinetic resolution allowed determining the absolute configuration of the natural compounds by GC on a chiral phase. The homoterpene (
    MeSH term(s) Araceae ; Flowers ; Odorants ; Pheromones ; Pollination ; Volatile Organic Compounds
    Chemical Substances Pheromones ; Volatile Organic Compounds
    Language English
    Publishing date 2021-03-16
    Publishing country United States
    Document type Journal Article
    ZDB-ID 123490-0
    ISSN 1520-6904 ; 0022-3263
    ISSN (online) 1520-6904
    ISSN 0022-3263
    DOI 10.1021/acs.joc.1c00145
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    Zs.A 4473: Show issues Location:
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