LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 10 of total 661

Search options

  1. Article ; Online: Retinoic Acid and Retinoid X Receptors.

    Schubert, Michael / Germain, Pierre

    Cells

    2023  Volume 12, Issue 6

    Abstract: One of the most fundamental discoveries in human biology was that of the existence of essential micronutrients that the body cannot synthesize but nonetheless requires for proper functioning [ ... ]. ...

    Abstract One of the most fundamental discoveries in human biology was that of the existence of essential micronutrients that the body cannot synthesize but nonetheless requires for proper functioning [...].
    MeSH term(s) Humans ; Tretinoin/pharmacology ; Retinoid X Receptors ; Receptors, Retinoic Acid
    Chemical Substances Tretinoin (5688UTC01R) ; Retinoid X Receptors ; Receptors, Retinoic Acid
    Language English
    Publishing date 2023-03-10
    Publishing country Switzerland
    Document type Editorial ; Research Support, Non-U.S. Gov't
    ZDB-ID 2661518-6
    ISSN 2073-4409 ; 2073-4409
    ISSN (online) 2073-4409
    ISSN 2073-4409
    DOI 10.3390/cells12060864
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  2. Article ; Online: Retinoic Acid and Retinoid X Receptors

    Michael Schubert / Pierre Germain

    Cells, Vol 12, Iss 864, p

    2023  Volume 864

    Abstract: One of the most fundamental discoveries in human biology was that of the existence of essential micronutrients that the body cannot synthesize but nonetheless requires for proper functioning [.] ...

    Abstract One of the most fundamental discoveries in human biology was that of the existence of essential micronutrients that the body cannot synthesize but nonetheless requires for proper functioning [.]
    Keywords nuclear receptor signaling ; retinoic acid receptor ; retinoid X receptor ; pharmacology ; structure/function relationships ; genomic and non-genomic signaling ; Biology (General) ; QH301-705.5
    Language English
    Publishing date 2023-03-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  3. Article ; Online: Comment on "Volatile methylsiloxanes in personal care products - Using QuEChERS as a "green" analytical approach" by Daniela Capela, Vera Homem, Arminda Alves, Lúcia Santos.

    Germain, Pierre

    Talanta

    2017  Volume 174, Page(s) 156–157

    Abstract: In this recent paper, Capela et al. (2016) [1] describe an analytical method for determination of volatile methylsiloxanes (VMS) in a variety of personal care products (PCPs) using QuEChERS methodology (Lehotay et al., 2010) [2]. Subsequently, this ... ...

    Abstract In this recent paper, Capela et al. (2016) [1] describe an analytical method for determination of volatile methylsiloxanes (VMS) in a variety of personal care products (PCPs) using QuEChERS methodology (Lehotay et al., 2010) [2]. Subsequently, this method was then used by the authors to measure VMS levels in a cross-section of PCPs to estimate average daily dermal exposure, average daily inhalation exposure, and down the drain emissions of VMS components to the environment (Capela et al., 2016) [3]. The authors are commended for selecting a broad range of sample types for the investigation and for thoroughly describing the approaches used to validate the method. However, a careful analysis of the reported cyclic volatile methylsiloxane (cVMS) concentrations raises concerns that artifacts of cVMS analysis were not adequately controlled for in the method used to determine the cVMS concentrations in PCPs. The comments presented here apply beyond this particular article and serve as an opportunity to inform other researchers about the potential pitfalls and difficulties associated with cyclosiloxane analyses, even with what might appear to be a successfully validated method, while providing examples of the concerns and precautions that must be taken into consideration whenever analyzing for cVMS in complex matrices such as PCPs.
    Language English
    Publishing date 2017-11-01
    Publishing country Netherlands
    Document type Letter
    ZDB-ID 1500969-5
    ISSN 1873-3573 ; 0039-9140
    ISSN (online) 1873-3573
    ISSN 0039-9140
    DOI 10.1016/j.talanta.2017.05.054
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  4. Article: Bounds for spectral projectors on generic tori.

    Germain, Pierre / Rydin Myerson, Simon L

    Mathematische annalen

    2022  Volume 388, Issue 1, Page(s) 731–767

    Abstract: We investigate norms of spectral projectors on thin spherical shells for the Laplacian on generic tori, including generic rectangular tori. We state a conjecture and partially prove it, improving on previous results concerning arbitrary tori. ...

    Abstract We investigate norms of spectral projectors on thin spherical shells for the Laplacian on generic tori, including generic rectangular tori. We state a conjecture and partially prove it, improving on previous results concerning arbitrary tori.
    Language English
    Publishing date 2022-12-23
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2161244-4
    ISSN 0025-5831
    ISSN 0025-5831
    DOI 10.1007/s00208-022-02547-w
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  5. Article: On the identification of differentially-active transcription factors from ATAC-seq data.

    Gerbaldo, Felix / Sonder, Emanuel / Fischer, Vincent / Frei, Selina / Wang, Jiayi / Gapp, Katharina / Robinson, Mark D / Germain, Pierre-Luc

    bioRxiv : the preprint server for biology

    2024  

    Abstract: ATAC-seq has emerged as a rich epigenome profiling technique, and is commonly used to identify Transcription Factors (TFs) underlying given phenomena. A number of methods can be used to identify differentially-active TFs through the accessibility of ... ...

    Abstract ATAC-seq has emerged as a rich epigenome profiling technique, and is commonly used to identify Transcription Factors (TFs) underlying given phenomena. A number of methods can be used to identify differentially-active TFs through the accessibility of their DNA-binding motif, however little is known on the best approaches for doing so. Here we benchmark several such methods using a combination of curated datasets with various forms of short-term perturbations on known TFs, as well as semi-simulations. We include both methods specifically designed for this type of data as well as some that can be repurposed for it. We also investigate variations to these methods, and identify three particularly promising approaches (chromVAR-limma with critical adjustments, monaLisa and a combination of GC smooth quantile normalization and multivariate modeling). We further investigate the specific use of nucleosome-free fragments, the combination of top methods, and the impact of technical variation. Finally, we illustrate the use of the top methods on a novel dataset to characterize the impact on DNA accessibility of TRAnscription Factor TArgeting Chimeras (TRAFTAC), which can deplete TFs - in our case NFkB - at the protein level.
    Language English
    Publishing date 2024-03-10
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2024.03.06.583825
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  6. Article ; Online: enrichMiR predicts functionally relevant microRNAs based on target collections.

    Soutschek, Michael / Germade, Tomás / Germain, Pierre-Luc / Schratt, Gerhard

    Nucleic acids research

    2022  Volume 50, Issue W1, Page(s) W280–W289

    Abstract: MicroRNAs (miRNAs) are small non-coding RNAs that are among the main post-transcriptional regulators of gene expression. A number of data collections and prediction tools have gathered putative or confirmed targets of these regulators. It is often useful, ...

    Abstract MicroRNAs (miRNAs) are small non-coding RNAs that are among the main post-transcriptional regulators of gene expression. A number of data collections and prediction tools have gathered putative or confirmed targets of these regulators. It is often useful, for discovery and validation, to harness such collections to perform target enrichment analysis in given transcriptional signatures or gene-sets in order to predict involved miRNAs. While several methods have been proposed to this end, a flexible and user-friendly interface for such analyses using various approaches and collections is lacking. enrichMiR (https://ethz-ins.org/enrichMiR/) addresses this gap by enabling users to perform a series of enrichment tests, based on several target collections, to rank miRNAs according to their likely involvement in the control of a given transcriptional signature or gene-set. enrichMiR results can furthermore be visualised through interactive and publication-ready plots. To guide the choice of the appropriate analysis method, we benchmarked various tests across a panel of experiments involving the perturbation of known miRNAs. Finally, we showcase enrichMiR functionalities in a pair of use cases.
    MeSH term(s) MicroRNAs/genetics ; MicroRNAs/metabolism ; RNA, Messenger/genetics ; Software
    Chemical Substances MicroRNAs ; RNA, Messenger
    Language English
    Publishing date 2022-05-21
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 186809-3
    ISSN 1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
    ISSN (online) 1362-4962 ; 1362-4954
    ISSN 0301-5610 ; 0305-1048
    DOI 10.1093/nar/gkac395
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 1067: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  7. Article ; Online: Streamlining differential exon and 3' UTR usage with diffUTR.

    Gerber, Stefan / Schratt, Gerhard / Germain, Pierre-Luc

    BMC bioinformatics

    2021  Volume 22, Issue 1, Page(s) 189

    Abstract: Background: Despite the importance of alternative poly-adenylation and 3' UTR length for a variety of biological phenomena, there are limited means of detecting UTR changes from standard transcriptomic data.: Results: We present the diffUTR ... ...

    Abstract Background: Despite the importance of alternative poly-adenylation and 3' UTR length for a variety of biological phenomena, there are limited means of detecting UTR changes from standard transcriptomic data.
    Results: We present the diffUTR Bioconductor package which streamlines and improves upon differential exon usage (DEU) analyses, and leverages existing DEU tools and alternative poly-adenylation site databases to enable differential 3' UTR usage analysis. We demonstrate the diffUTR features and show that it is more flexible and more accurate than state-of-the-art alternatives, both in simulations and in real data.
    Conclusions: diffUTR enables differential 3' UTR analysis and more generally facilitates DEU and the exploration of their results.
    MeSH term(s) 3' Untranslated Regions ; Alternative Splicing ; Computational Biology ; Exons/genetics ; Poly A ; Transcriptome
    Chemical Substances 3' Untranslated Regions ; Poly A (24937-83-5)
    Language English
    Publishing date 2021-04-13
    Publishing country England
    Document type Journal Article
    ZDB-ID 2041484-5
    ISSN 1471-2105 ; 1471-2105
    ISSN (online) 1471-2105
    ISSN 1471-2105
    DOI 10.1186/s12859-021-04114-7
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  8. Article ; Online: scanMiR: a biochemically based toolkit for versatile and efficient microRNA target prediction.

    Soutschek, Michael / Gross, Fridolin / Schratt, Gerhard / Germain, Pierre-Luc

    Bioinformatics (Oxford, England)

    2022  Volume 38, Issue 9, Page(s) 2466–2473

    Abstract: Motivation: microRNAs are important post-transcriptional regulators of gene expression, but the identification of functionally relevant targets is still challenging. Recent research has shown improved prediction of microRNA-mediated repression using a ... ...

    Abstract Motivation: microRNAs are important post-transcriptional regulators of gene expression, but the identification of functionally relevant targets is still challenging. Recent research has shown improved prediction of microRNA-mediated repression using a biochemical model combined with empirically-derived k-mer affinity predictions; however, these findings are not easily applicable.
    Results: We translate this approach into a flexible and user-friendly bioconductor package, scanMiR, also available through a web interface. Using lightweight linear models, scanMiR efficiently scans for binding sites, estimates their affinity and predicts aggregated transcript repression. Moreover, flexible 3'-supplementary alignment enables the prediction of unconventional interactions, such as bindings potentially leading to target-directed microRNA degradation or slicing. We showcase scanMiR through a systematic scan for such unconventional sites on neuronal transcripts, including lncRNAs and circRNAs. Finally, in addition to the main bioconductor package implementing these functions, we provide a user-friendly web application enabling the scanning of sequences, the visualization of predicted bindings and the browsing of predicted target repression.
    Availability and implementation: scanMiR and companion packages are implemented in R, released under the GPL-3 and accessible on Bioconductor (https://bioconductor.org/packages/release/bioc/html/scanMiR.html) as well as through a shiny web server (https://ethz-ins.org/scanMiR/).
    Supplementary information: Supplementary data are available at Bioinformatics online.
    MeSH term(s) MicroRNAs/genetics ; Software ; RNA, Long Noncoding ; Binding Sites ; Transcription Factors
    Chemical Substances MicroRNAs ; RNA, Long Noncoding ; Transcription Factors
    Language English
    Publishing date 2022-02-18
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1422668-6
    ISSN 1367-4811 ; 1367-4803
    ISSN (online) 1367-4811
    ISSN 1367-4803
    DOI 10.1093/bioinformatics/btac110
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    In stock of ZB MED Cologne/Königswinter

    Zs.A 2374: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  9. Article ; Online: Ligands and DNA in the allosteric control of retinoid receptors function.

    Germain, Pierre / Rochel, Natacha / Bourguet, William

    Essays in biochemistry

    2021  Volume 65, Issue 6, Page(s) 887–899

    Abstract: Retinoids are a family of compounds that include both vitamin A (all-trans retinol) and its naturally occurring metabolites such as retinoic acids (e.g. all-trans retinoic acid) as well as synthetic analogs. They are critically involved in the regulation ...

    Abstract Retinoids are a family of compounds that include both vitamin A (all-trans retinol) and its naturally occurring metabolites such as retinoic acids (e.g. all-trans retinoic acid) as well as synthetic analogs. They are critically involved in the regulation of a wide variety of essential biological processes, such as embryogenesis and organogenesis, apoptosis, reproduction, vision, and the growth and differentiation of normal and neoplastic cells in vertebrates. The ability of these small molecules to control the expression of several hundred genes through binding to nuclear ligand-dependent transcription factors accounts for most of their functions. Three retinoic acid receptor (RARα,β,γ) and three retinoid X receptor (RXRα,β,γ) subtypes form a variety of RXR-RAR heterodimers that have been shown to mediate the pleiotropic effects of retinoids through the recruitment of high-molecular weight co-regulatory complexes to response-element DNA sequences found in the promoter region of their target genes. Hence, heterodimeric retinoid receptors are multidomain entities that respond to various incoming signals, such as ligand and DNA binding, by allosteric structural alterations which are the basis of further signal propagation. Here, we provide an overview of the current state of knowledge with regard to the structural mechanisms by which retinoids and DNA response elements act as allosteric effectors that may combine to finely tune RXR-RAR heterodimers activity.
    MeSH term(s) Animals ; DNA ; Ligands ; Receptors, Retinoic Acid/genetics ; Receptors, Retinoic Acid/metabolism ; Retinoid X Receptors/genetics ; Retinoids/metabolism ; Retinoids/pharmacology
    Chemical Substances Ligands ; Receptors, Retinoic Acid ; Retinoid X Receptors ; Retinoids ; DNA (9007-49-2)
    Language English
    Publishing date 2021-07-22
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 1744-1358 ; 0071-1365
    ISSN (online) 1744-1358
    ISSN 0071-1365
    DOI 10.1042/EBC20200168
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  10. Book: Investir dans les biotechs

    Germain, Pierre-Louis

    2016  

    Author's details Pierre-Louis Germain
    Language French
    Size 230 Seiten, Illustrationen
    Publisher Maxima Laurent du Mesnil, editeur
    Publishing place Paris
    Document type Book
    ISBN 9782840018452 ; 2840018454
    Database ECONomics Information System

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

To top