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  1. Article ; Online: Author Correction: tgCRISPRi: efficient gene knock-down using truncated gRNAs and catalytically active Cas9.

    Auradkar, Ankush / Guichard, Annabel / Kaduwal, Saluja / Sneider, Marketta / Bier, Ethan

    Nature communications

    2024  Volume 15, Issue 1, Page(s) 3183

    Language English
    Publishing date 2024-04-12
    Publishing country England
    Document type Published Erratum
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-024-47644-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: MTG-Link: leveraging barcode information from linked-reads to assemble specific loci.

    Guichard, Anne / Legeai, Fabrice / Tagu, Denis / Lemaitre, Claire

    BMC bioinformatics

    2023  Volume 24, Issue 1, Page(s) 284

    Abstract: Background: Local assembly with short and long reads has proven to be very useful in many applications: reconstruction of the sequence of a locus of interest, gap-filling in draft assemblies, as well as alternative allele reconstruction of large ... ...

    Abstract Background: Local assembly with short and long reads has proven to be very useful in many applications: reconstruction of the sequence of a locus of interest, gap-filling in draft assemblies, as well as alternative allele reconstruction of large Structural Variants. Whereas linked-read technologies have a great potential to assemble specific loci as they provide long-range information while maintaining the power and accuracy of short-read sequencing, there is a lack of local assembly tools for linked-read data.
    Results: We present MTG-Link, a novel local assembly tool dedicated to linked-reads. The originality of the method lies in its read subsampling step which takes advantage of the barcode information contained in linked-reads mapped in flanking regions. We validated our approach on several datasets from different linked-read technologies. We show that MTG-Link is able to assemble successfully large sequences, up to dozens of Kb. We also demonstrate that the read subsampling step of MTG-Link considerably improves the local assembly of specific loci compared to other existing short-read local assembly tools. Furthermore, MTG-Link was able to fully characterize large insertion variants and deletion breakpoints in a human genome and to reconstruct dark regions in clinically-relevant human genes. It also improved the contiguity of a 1.3 Mb locus of biological interest in several individual genomes of the mimetic butterfly Heliconius numata.
    Conclusions: MTG-Link is an efficient local assembly tool designed for different linked-read sequencing technologies. MTG-Link source code is available at https://github.com/anne-gcd/MTG-Link and as a Bioconda package.
    MeSH term(s) Humans ; Sequence Analysis, DNA/methods ; High-Throughput Nucleotide Sequencing/methods ; Software ; Genome, Human
    Language English
    Publishing date 2023-07-14
    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/s12859-023-05395-w
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: tgCRISPRi: efficient gene knock-down using truncated gRNAs and catalytically active Cas9.

    Auradkar, Ankush / Guichard, Annabel / Kaduwal, Saluja / Sneider, Marketta / Bier, Ethan

    Nature communications

    2023  Volume 14, Issue 1, Page(s) 5587

    Abstract: CRISPR-interference (CRISPRi), a highly effective method for silencing genes in mammalian cells, employs an enzymatically dead form of Cas9 (dCas9) complexed with one or more guide RNAs (gRNAs) with 20 nucleotides (nt) of complementarity to transcription ...

    Abstract CRISPR-interference (CRISPRi), a highly effective method for silencing genes in mammalian cells, employs an enzymatically dead form of Cas9 (dCas9) complexed with one or more guide RNAs (gRNAs) with 20 nucleotides (nt) of complementarity to transcription initiation sites of target genes. Such gRNA/dCas9 complexes bind to DNA, impeding transcription of the targeted locus. Here, we present an alternative gene-suppression strategy using active Cas9 complexed with truncated gRNAs (tgRNAs). Cas9/tgRNA complexes bind to specific target sites without triggering DNA cleavage. When targeted near transcriptional start sites, these short 14-15 nts tgRNAs efficiently repress expression of several target genes throughout somatic tissues in Drosophila melanogaster without generating any detectable target site mutations. tgRNAs also can activate target gene expression when complexed with a Cas9-VPR fusion protein or modulate enhancer activity, and can be incorporated into a gene-drive, wherein a traditional gRNA sustains drive while a tgRNA inhibits target gene expression.
    MeSH term(s) Animals ; CRISPR-Cas Systems/genetics ; Drosophila melanogaster/genetics ; Gene Knockdown Techniques ; CRISPR-Associated Protein 9/genetics ; DNA Cleavage ; Mammals
    Chemical Substances CRISPR-Associated Protein 9 (EC 3.1.-)
    Language English
    Publishing date 2023-09-11
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-023-40836-3
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Cancer-Related Alopecia: From Etiologies to Global Management.

    Quesada, Stanislas / Guichard, Alexandre / Fiteni, Frédéric

    Cancers

    2021  Volume 13, Issue 21

    Abstract: Alopecia represents a multifaceted challenge with distinct etiologies and consequences. Transposed to the world of oncology, different types of alopecia and molecular pathways have been characterized, allowing a better understanding of the underlying ... ...

    Abstract Alopecia represents a multifaceted challenge with distinct etiologies and consequences. Transposed to the world of oncology, different types of alopecia and molecular pathways have been characterized, allowing a better understanding of the underlying mechanisms. In patients with cancer, alopecia can be iatrogenic (i.e., due to conventional chemotherapies, endocrine therapies, targeted therapies, immunotherapies, radiotherapy and surgery) or a direct consequence of the disease itself (e.g., malnutrition, scalp metastases and paraneoplastic syndromes). Identification of the actual incriminated mechanism(s) is therefore essential in order to deliver appropriate supportive care, whether preventive or curative. On the preventive side, the last few years have seen the advent of the automated cooling cap, a prophylactic approach supported by several randomized clinical trials. On the curative side, although the treatments currently available are limited, several promising therapeutic approaches are under development. Appropriate alopecia management is essential, particularly regarding its psychological repercussions with significant consequences on the quality of life of patients and their family and with a potential impact on treatment compliance.
    Language English
    Publishing date 2021-11-05
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2527080-1
    ISSN 2072-6694
    ISSN 2072-6694
    DOI 10.3390/cancers13215556
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Pulmonate slug evolution is reflected in the de novo genome of Arion vulgaris Moquin-Tandon, 1855.

    Chen, Zeyuan / Doğan, Özgül / Guiglielmoni, Nadège / Guichard, Anne / Schrödl, Michael

    Scientific reports

    2022  Volume 12, Issue 1, Page(s) 14226

    Abstract: Stylommatophoran pulmonate land slugs and snails successfully completed the water-to-land transition from an aquatic ancestor and flourished on land. Of the 30,000 estimated species, very few genomes have so far been published. Here, we assembled and ... ...

    Abstract Stylommatophoran pulmonate land slugs and snails successfully completed the water-to-land transition from an aquatic ancestor and flourished on land. Of the 30,000 estimated species, very few genomes have so far been published. Here, we assembled and characterized a chromosome-level genome of the "Spanish" slug, Arion vulgaris Moquin-Tandon, 1855, a notorious pest land slug in Europe. Using this reference genome, we conclude that a whole-genome duplication event occurred approximately 93-109 Mya at the base of Stylommatophora and might have promoted land invasion and adaptive radiation. Comparative genomic analyses reveal that genes related to the development of kidney, blood vessels, muscle, and nervous systems had expanded in the last common ancestor of land pulmonates, likely an evolutionary response to the terrestrial challenges of gravity and water loss. Analyses of A. vulgaris gene families and positively selected genes show the slug has evolved a stronger ability to counteract the greater threats of external damage, radiation, and water loss lacking a protective shell. Furthermore, a recent burst of long interspersed elements in the genome of A. vulgaris might affect gene regulation and contribute to rapid phenotype changes in A. vulgaris, which might be conducive to its rapid adaptation and invasiveness.
    MeSH term(s) Animals ; Europe ; Gastropoda/genetics ; Snails/genetics ; Water
    Chemical Substances Water (059QF0KO0R)
    Language English
    Publishing date 2022-08-20
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-022-18099-7
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Hair Transplantation in Endocrine Therapy-Induced Alopecia.

    Bouhanna, Pierre / Larif, Molka / Guichard, Alexandre

    Dermatologic surgery : official publication for American Society for Dermatologic Surgery [et al.

    2021  Volume 47, Issue 3, Page(s) 438–440

    MeSH term(s) Adult ; Aged ; Alopecia/chemically induced ; Alopecia/surgery ; Antineoplastic Agents/adverse effects ; Antineoplastic Agents/therapeutic use ; Breast Neoplasms/drug therapy ; Dermatologic Surgical Procedures/methods ; Female ; Hair/transplantation ; Humans ; Middle Aged
    Chemical Substances Antineoplastic Agents
    Language English
    Publishing date 2021-07-30
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1227586-4
    ISSN 1524-4725 ; 1076-0512
    ISSN (online) 1524-4725
    ISSN 1076-0512
    DOI 10.1097/DSS.0000000000002459
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

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  7. Article: Giardia duodenalis et son implication dans diverses dermatoses.

    Humbert, P / Guichard, A / Bennani, I / Chiheb, S

    Annales de dermatologie et de venereologie

    2017  Volume 144, Issue 11, Page(s) 676–684

    Abstract: Backgound: Over the last thirty years, the scientific community has become increasingly interested in the intestinal flora, whether commensal or pathogenic, and its impact on other organs. In dermatology, the correlation between intestinal microbial ... ...

    Title translation Giardia duodenalis and its involvement in skin diseases.
    Abstract Backgound: Over the last thirty years, the scientific community has become increasingly interested in the intestinal flora, whether commensal or pathogenic, and its impact on other organs. In dermatology, the correlation between intestinal microbial agents and cutaneous lesions is well established. Giardia duodenalis, an intestinal parasite, has been particularly widely studied. The aim of this work is to provide a review of studies demonstrating the involvement of G. duodenalis in various forms of dermatosis.
    Patients and methods: The data were obtained by an English-language literature search of Medline, PubMed and Google Scholar for the period 1975-2015. Among the thirty case reports since 1976, we selected the twenty most objective and clinically relevant.
    Results and discussion: This review demonstrates that intestinal giardiasis may be an etiological factor, either alone or in combination with other agents, of various dermatoses through inflammatory and allergic mechanisms or intestinal hyperpermeability. The mucocutaneous lesions are varied: urticaria, angioedema, atopic dermatitis, erythema nodosum, Wells syndrome, among others. The role and origin of the infection are often unknown, and it is thus difficult to determine the interval between parasite infestation and the onset of skin lesions. Consequently, a fecal examination to identify G. duodenalis should be considered in chronic urticaria or angioedema, and where atopic dermatitis occurs in adulthood without any specific etiology. Therapeutic test should be done in every suspicion.
    MeSH term(s) Angioedema/etiology ; Antiprotozoal Agents/therapeutic use ; Cellulitis/etiology ; Dermatitis, Atopic/etiology ; Eosinophilia/etiology ; Erythema Nodosum/etiology ; Female ; Giardia lamblia/immunology ; Giardia lamblia/pathogenicity ; Giardia lamblia/physiology ; Giardiasis/complications ; Giardiasis/diagnosis ; Giardiasis/drug therapy ; Humans ; Hypersensitivity/etiology ; Inflammation ; Intestines/parasitology ; Male ; Skin Diseases/etiology ; Skin Diseases/immunology ; Urticaria/etiology ; Water/parasitology
    Chemical Substances Antiprotozoal Agents ; Water (059QF0KO0R)
    Language French
    Publishing date 2017-09-29
    Publishing country France
    Document type Journal Article ; Review
    ZDB-ID 391805-1
    ISSN 2214-5451 ; 0151-9638
    ISSN (online) 2214-5451
    ISSN 0151-9638
    DOI 10.1016/j.annder.2017.08.002
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  8. Article ; Online: Equity at all cost-and any price-for research funding in Canada?

    Guichard, Anne / Ridde, Valéry

    Canadian journal of public health = Revue canadienne de sante publique

    2018  Volume 110, Issue 1, Page(s) 114–117

    Abstract: This commentary is in response to the May 2018 announcement by the Canadian Institutes of Health Research (CIHR) of a new procedure to ensure fairer access to health research funding for participants. As such, all applicants to CIHR's funding programs ... ...

    Abstract This commentary is in response to the May 2018 announcement by the Canadian Institutes of Health Research (CIHR) of a new procedure to ensure fairer access to health research funding for participants. As such, all applicants to CIHR's funding programs will now be required to complete a five-question questionnaire covering the dimensions of gender, age, Indigenous origin, visible minorities, and disability. On this basis, CIHR intends to gain a better understanding of the performance of its funding programs in terms of equity. In this commentary, we wish to question the theoretical and conceptual assumptions of a vision of equity framed principally in terms of diversity upstream from the research process as a founding principle of more equitable health research in Canada. We draw attention to the fact that diversity policies do not necessarily challenge inequity in research funding or in research projects. Having established the urgent need for action on equity to improve the health of populations, we recall the ethical responsibility of research and researchers to better take the various facets of equity in research into account. We recommend expanding efforts to understand and reflexively address both equity and diversity when considering the performance of population health research programs.
    MeSH term(s) Canada ; Costs and Cost Analysis ; Health Equity/economics ; Humans ; Research Support as Topic/economics
    Language English
    Publishing date 2018-09-19
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 417262-0
    ISSN 1920-7476 ; 0008-4263
    ISSN (online) 1920-7476
    ISSN 0008-4263
    DOI 10.17269/s41997-018-0136-4
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  9. Article ; Online: Percutaneous FlowTriever Retrieval/Aspiration System for Impending Paradoxical Embolism: A New Tool?

    Piliero, Nicolas / Guichard, Apolline / Bedague, Damien / Sebestyen, Alexandre / Saunier, Carole / Bouvaist, Hélène

    JACC. Cardiovascular interventions

    2022  Volume 15, Issue 19, Page(s) 1994–1995

    MeSH term(s) Embolism, Paradoxical/diagnostic imaging ; Embolism, Paradoxical/etiology ; Foramen Ovale, Patent ; Humans ; Pulmonary Embolism ; Treatment Outcome
    Language English
    Publishing date 2022-09-14
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2452157-7
    ISSN 1876-7605 ; 1936-8798
    ISSN (online) 1876-7605
    ISSN 1936-8798
    DOI 10.1016/j.jcin.2022.07.042
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    Zs.A 6669: Show issues Location:
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  10. Article: Les inégalités sociales de santé, enjeux pour les soins infirmiers.

    Guichard, Anne / Potvin, Louise

    Soins; la revue de reference infirmiere

    2017  Volume 62, Issue 817, Page(s) 16–18

    Abstract: The main factors of social inequalities in health lie outside the healthcare system. In a context centred on curative care, the influence of social determinants on people's health is a challenge facing nursing care and highlights the need to reinforce ... ...

    Title translation Social inequalities in health, challenges for nursing care.
    Abstract The main factors of social inequalities in health lie outside the healthcare system. In a context centred on curative care, the influence of social determinants on people's health is a challenge facing nursing care and highlights the need to reinforce cross-sector action.
    MeSH term(s) Health Status Disparities ; Humans ; Nursing Care/organization & administration ; Social Determinants of Health ; Socioeconomic Factors
    Language French
    Publishing date 2017-04-18
    Publishing country France
    Document type Journal Article
    ZDB-ID 604655-1
    ISSN 0038-0814
    ISSN 0038-0814
    DOI 10.1016/j.soin.2017.05.004
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