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  1. AU="Allan, Alasdair"
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  1. Article ; Online: The parenting hub of the hypothalamus is a focus of imprinted gene action.

    Higgs, Matthew J / Webberley, Anna E / Allan, Alasdair J / Talat, Moaz / John, Rosalind M / Isles, Anthony R

    PLoS genetics

    2023  Volume 19, Issue 10, Page(s) e1010961

    Abstract: Imprinted genes are subject to germline epigenetic modification resulting in parental-specific allelic silencing. Although genomic imprinting is thought to be important for maternal behaviour, this idea is based on serendipitous findings from a small ... ...

    Abstract Imprinted genes are subject to germline epigenetic modification resulting in parental-specific allelic silencing. Although genomic imprinting is thought to be important for maternal behaviour, this idea is based on serendipitous findings from a small number of imprinted genes. Here, we undertook an unbiased systems biology approach, taking advantage of the recent delineation of specific neuronal populations responsible for controlling parental care, to test whether imprinted genes significantly converge to regulate parenting behaviour. Using single-cell RNA sequencing datasets, we identified a specific enrichment of imprinted gene expression in a recognised "parenting hub", the galanin-expressing neurons of the preoptic area. We tested the validity of linking enriched expression in these neurons to function by focusing on MAGE family member L2 (Magel2), an imprinted gene not previously linked to parenting behaviour. We confirmed expression of Magel2 in the preoptic area galanin expressing neurons. We then examined the parenting behaviour of Magel2-null(+/p) mice. Magel2-null mothers, fathers and virgin females demonstrated deficits in pup retrieval, nest building and pup-directed motivation, identifying a central role for this gene in parenting. Finally, we show that Magel2-null mothers and fathers have a significant reduction in POA galanin expressing cells, which in turn contributes to a reduced c-Fos response in the POA upon exposure to pups. Our findings identify a novel imprinted gene that impacts parenting behaviour and, moreover, demonstrates the utility of using single-cell RNA sequencing data to predict gene function from expression and in doing so here, have identified a purposeful role for genomic imprinting in mediating parental behaviour.
    MeSH term(s) Female ; Animals ; Mice ; Galanin/genetics ; Galanin/metabolism ; Parenting ; Hypothalamus/metabolism ; Genomic Imprinting/genetics ; Phenotype ; Antigens, Neoplasm/genetics ; Proteins/genetics
    Chemical Substances Galanin (88813-36-9) ; Magel2 protein, mouse ; Antigens, Neoplasm ; Proteins
    Language English
    Publishing date 2023-10-19
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2186725-2
    ISSN 1553-7404 ; 1553-7390
    ISSN (online) 1553-7404
    ISSN 1553-7390
    DOI 10.1371/journal.pgen.1010961
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Genotyping Genome-Edited Founders and Subsequent Generation.

    Mackenzie, Matthew / Fower, Alex / Allan, Alasdair J / Codner, Gemma F / Bunton-Stasyshyn, Rosie K / Teboul, Lydia

    Methods in molecular biology (Clifton, N.J.)

    2023  Volume 2631, Page(s) 103–134

    Abstract: Targeted nucleases allow the production of many types of genetic mutations directly in the early embryo. However, the outcome of their activity is a repair event of unpredictable nature, and the founder animals that are produced are generally of a mosaic ...

    Abstract Targeted nucleases allow the production of many types of genetic mutations directly in the early embryo. However, the outcome of their activity is a repair event of unpredictable nature, and the founder animals that are produced are generally of a mosaic nature. Here, we present the molecular assays and genotyping strategies that will support the screening of the first generation for potential founders and the validation of positive animals in the subsequent generation, according to the type of mutation generated.
    MeSH term(s) Animals ; CRISPR-Cas Systems ; Gene Editing ; Genotype ; Mutation ; Genome
    Language English
    Publishing date 2023-09-20
    Publishing country United States
    Document type Journal Article
    ISSN 1940-6029
    ISSN (online) 1940-6029
    DOI 10.1007/978-1-0716-2990-1_4
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Book: Augmented Reality in iOS

    Allan, Alasdair

    Building Apps with Sensors and Computer Vision

    2012  

    Author's details Alasdair Allan
    Language English
    Size 50 S.
    Edition 1., neue Ausg.
    Publisher O'Reilly & Associates
    Publishing place Sebastopol, CA
    Document type Book
    ISBN 1449308503 ; 9781449308506
    Database Former special subject collection: coastal and deep sea fishing

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  4. Book: Augmented Reality in iOS

    Allan, Alasdair

    Building Apps with Sensors and Computer Vision

    2012  

    Author's details Alasdair Allan
    Language English
    Size 50 S.
    Edition 1., neue Ausg.
    Publisher O'Reilly & Associates
    Publishing place Sebastopol, CA
    Document type Book
    ISBN 1449308503 ; 9781449308506
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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  5. Book ; Online: Basic sensors in iOS

    Allan, Alasdair

    "Programming the accelerometer, gyroscope, camera, and magnetometer"--Cover

    2011  

    Abstract: What really sets the iPhone apart from laptops and PCs is its use of onboard sensors, including those that are location-enabled. This concise book takes experienced iPhone and Mac developers on a detailed tour of iPhone and iPad hardware by explaining ... ...

    Author's details Alasdair Allan
    Abstract What really sets the iPhone apart from laptops and PCs is its use of onboard sensors, including those that are location-enabled. This concise book takes experienced iPhone and Mac developers on a detailed tour of iPhone and iPad hardware by explaining how these sensors work, and what they're capable of doing. With this book, you'll build sample applications for each sensor, and learn hands-on how to take advantage of the data each sensor produces. You'll gain valuable experience that you can immediately put to work inside your own iOS applications for the iPhone, iPod touch, and iPad. This b
    Language English
    Size Online-Ressource
    Edition 1st ed
    Publisher O'Reilly
    Publishing place Sebastopol, CA
    Document type Book ; Online
    Note Description based upon print version of record
    ISBN 9781449308469 ; 1449308465
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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  6. Book ; Online: iOS Sensor Apps with Arduino

    Allan, Alasdair

    Wiring the iPhone and iPad into the Internet of Things

    2011  

    Abstract: Turn your iPhone or iPad into the hub of a distributed sensor network with the help of an Arduino microcontroller. With this concise guide, you'll learn how to connect an external sensor to an iOS device and have them talk to each other through Arduino. ... ...

    Abstract Turn your iPhone or iPad into the hub of a distributed sensor network with the help of an Arduino microcontroller. With this concise guide, you'll learn how to connect an external sensor to an iOS device and have them talk to each other through Arduino. You'll also build an iOS application that will parse the sensor values it receives and plot the resulting measurements, all in real-time. iOS processes data from its own onboard sensors, and now you can extend its reach with this simple, low-cost project. If you're an Objective-C programmer who likes to experiment, this book explains the basi
    Language English
    Size Online-Ressource (126 p.)
    Publisher O'Reilly Media, Inc
    Publishing place Sebastopol
    Document type Book ; Online
    Note Description based upon print version of record
    ISBN 9781449308483 ; 1449308481
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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  7. Book: iOS 4 sensor programming

    Allan, Alasdair

    augmented reality and location enabled iPhone and iPads Apps

    2010  

    Author's details by Alasdair Allan
    Language English
    Publisher O'Reilly
    Publishing place Farnham
    Document type Book
    ISBN 1449382657 ; 9781449382650
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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  8. Article ; Online: Excess of guide RNA reduces knockin efficiency and drastically increases on-target large deletions.

    Chenouard, Vanessa / Leray, Isabelle / Tesson, Laurent / Remy, Severine / Allan, Alasdair / Archer, Daniel / Caulder, Adam / Fortun, Agnès / Bernardeau, Karine / Cherifi, Yacine / Teboul, Lydia / David, Laurent / Anegon, Ignacio

    iScience

    2023  Volume 26, Issue 4, Page(s) 106399

    Abstract: CRISPR-Cas9 cleavage efficacy and accuracy are the main challenges gene editing faces, and they are particularly affected by the optimal formation of the ribonucleoprotein (RNP) complex. We used nano differential scanning fluorimetry, a label and ... ...

    Abstract CRISPR-Cas9 cleavage efficacy and accuracy are the main challenges gene editing faces, and they are particularly affected by the optimal formation of the ribonucleoprotein (RNP) complex. We used nano differential scanning fluorimetry, a label and immobilization-free assay, to demonstrate that an equimolar ratio of Cas9 and guide RNA (gRNA) is optimal for RNP complex formation. We almost achieved 50% of green fluorescent protein (GFP) to blue fluorescent protein (BFP) conversion using a biallelic homozygous GFP human induced pluripotent stem cell line, when 0.4 μM of Cas9, equimolar Cas9/gRNA ratio and 2 μM of single-stranded oligonucleotide, were used and showed that increasing Cas9/gRNA ratio did not further improve KI efficiency. Additionally, excess gRNA decreased point mutation KI efficiency in rat embryos and drastically increased the occurrence of on-target large deletions. These findings highlight the importance of CRISPR/Cas9 stoichiometric optimization to ensure efficient and accurate KI generation, which will be applicable to other
    Language English
    Publishing date 2023-03-14
    Publishing country United States
    Document type Journal Article
    ISSN 2589-0042
    ISSN (online) 2589-0042
    DOI 10.1016/j.isci.2023.106399
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Long-read sequencing for fast and robust identification of correct genome-edited alleles: PCR-based and Cas9 capture methods.

    McCabe, Christopher V / Price, Peter D / Codner, Gemma F / Allan, Alasdair J / Caulder, Adam / Christou, Skevoulla / Loeffler, Jorik / Mackenzie, Matthew / Malzer, Elke / Mianné, Joffrey / Nowicki, Krystian J / O'Neill, Edward J / Pike, Fran J / Hutchison, Marie / Petit-Demoulière, Benoit / Stewart, Michelle E / Gates, Hilary / Wells, Sara / Sanderson, Nicholas D /
    Teboul, Lydia

    PLoS genetics

    2024  Volume 20, Issue 3, Page(s) e1011187

    Abstract: Background: Recent developments in CRISPR/Cas9 genome-editing tools have facilitated the introduction of precise alleles, including genetic intervals spanning several kilobases, directly into the embryo. However, the introduction of donor templates, via ...

    Abstract Background: Recent developments in CRISPR/Cas9 genome-editing tools have facilitated the introduction of precise alleles, including genetic intervals spanning several kilobases, directly into the embryo. However, the introduction of donor templates, via homology directed repair, can be erroneous or incomplete and these techniques often produce mosaic founder animals. Thus, newly generated alleles must be verified at the sequence level across the targeted locus. Screening for the presence of the desired mutant allele using traditional sequencing methods can be challenging due to the size of the interval to be sequenced, together with the mosaic nature of founders.
    Methodology/principal findings: In order to help disentangle the genetic complexity of these animals, we tested the application of Oxford Nanopore Technologies long-read sequencing at the targeted locus and found that the achievable depth of sequencing is sufficient to offset the sequencing error rate associated with the technology used to validate targeted regions of interest. We have assembled an analysis workflow that facilitates interrogating the entire length of a targeted segment in a single read, to confirm that the intended mutant sequence is present in both heterozygous animals and mosaic founders. We used this workflow to compare the output of PCR-based and Cas9 capture-based targeted sequencing for validation of edited alleles.
    Conclusion: Targeted long-read sequencing supports in-depth characterisation of all experimental models that aim to produce knock-in or conditional alleles, including those that contain a mix of genome-edited alleles. PCR- or Cas9 capture-based modalities bring different advantages to the analysis.
    MeSH term(s) Animals ; CRISPR-Cas Systems/genetics ; Alleles ; Gene Editing/methods ; Recombinational DNA Repair ; Polymerase Chain Reaction
    Language English
    Publishing date 2024-03-08
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2186725-2
    ISSN 1553-7404 ; 1553-7390
    ISSN (online) 1553-7404
    ISSN 1553-7390
    DOI 10.1371/journal.pgen.1011187
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Two Lineages of

    Gibson, Mark S / Allan, Alasdair J / Sanderson, Nicholas D / Birch, James / Gubbins, Simon / Ellis, Shirley A / Hammond, John A

    Journal of immunology (Baltimore, Md. : 1950)

    2020  Volume 204, Issue 9, Page(s) 2455–2463

    Abstract: Cattle possess the most diverse repertoire of NK cell receptor genes among all mammals studied to date. Killer cell receptor genes encoded within the NK complex and killer cell Ig-like receptor genes encoded within the leukocyte receptor complex have ... ...

    Abstract Cattle possess the most diverse repertoire of NK cell receptor genes among all mammals studied to date. Killer cell receptor genes encoded within the NK complex and killer cell Ig-like receptor genes encoded within the leukocyte receptor complex have both been expanded and diversified. Our previous studies identified two divergent and polymorphic
    MeSH term(s) Alleles ; Animals ; Cattle ; Gene Frequency/genetics ; Gene Frequency/immunology ; Genotype ; Killer Cells, Natural/immunology ; NK Cell Lectin-Like Receptor Subfamily A/genetics ; NK Cell Lectin-Like Receptor Subfamily A/immunology ; RNA, Messenger/genetics ; RNA, Messenger/immunology ; Ruminants/genetics ; Ruminants/immunology ; Transcription, Genetic/genetics ; Transcription, Genetic/immunology
    Chemical Substances NK Cell Lectin-Like Receptor Subfamily A ; RNA, Messenger
    Language English
    Publishing date 2020-03-25
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 3056-9
    ISSN 1550-6606 ; 0022-1767 ; 1048-3233 ; 1047-7381
    ISSN (online) 1550-6606
    ISSN 0022-1767 ; 1048-3233 ; 1047-7381
    DOI 10.4049/jimmunol.1801363
    Database MEDical Literature Analysis and Retrieval System OnLINE

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