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  1. Article ; Online: The Louis-Jeantet Prize 2013: Michael Stratton, Peter Hegemann and Georg Nagel.

    Bushati, Natascha / Rossier, Bernard C

    EMBO molecular medicine

    2013  Volume 5, Issue 2, Page(s) 167–168

    MeSH term(s) Awards and Prizes ; BRCA2 Protein/genetics ; BRCA2 Protein/metabolism ; Chlorophyta/genetics ; Chlorophyta/metabolism ; Germany ; History, 20th Century ; History, 21st Century ; Neoplasms/genetics ; Neoplasms/history ; Neoplasms/metabolism ; Proto-Oncogene Proteins B-raf/genetics ; Proto-Oncogene Proteins B-raf/metabolism ; Rhodopsin/genetics ; Rhodopsin/metabolism ; United Kingdom
    Chemical Substances BRCA2 Protein ; Rhodopsin (9009-81-8) ; BRAF protein, human (EC 2.7.11.1) ; Proto-Oncogene Proteins B-raf (EC 2.7.11.1)
    Language English
    Publishing date 2013-01-22
    Publishing country England
    Document type Biography ; Editorial ; Historical Article
    ZDB-ID 2467145-9
    ISSN 1757-4684 ; 1757-4676
    ISSN (online) 1757-4684
    ISSN 1757-4676
    DOI 10.1002/emmm.201202394
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  2. Article: MicroRNAs in neurodegeneration.

    Bushati, Natascha / Cohen, Stephen M

    Current opinion in neurobiology

    2008  Volume 18, Issue 3, Page(s) 292–296

    Abstract: microRNAs (miRNAs) act as post-transcriptional regulators of gene expression in diverse cellular and developmental processes. Many miRNAs are expressed specifically in the central nervous system, where they have roles in differentiation, neuronal ... ...

    Abstract microRNAs (miRNAs) act as post-transcriptional regulators of gene expression in diverse cellular and developmental processes. Many miRNAs are expressed specifically in the central nervous system, where they have roles in differentiation, neuronal survival, and potentially also in plasticity and learning. The absence of miRNAs in a variety of specific postmitotic neurons can lead to progressive loss of these neurons and behavioral defects reminiscent of the phenotypes seen in the pathologies of neurodegenerative diseases. Here, we review recent studies which provide a link between miRNA function and neurodegeneration. We also discuss evidence which might suggest involvement of miRNAs in the emergence or progression of neurodegenerative diseases.
    MeSH term(s) Animals ; Humans ; MicroRNAs/genetics ; MicroRNAs/metabolism ; Nerve Degeneration/genetics ; Nerve Degeneration/metabolism
    Chemical Substances MicroRNAs
    Language English
    Publishing date 2008-06
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 1078046-4
    ISSN 1873-6882 ; 0959-4388
    ISSN (online) 1873-6882
    ISSN 0959-4388
    DOI 10.1016/j.conb.2008.07.001
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article: microRNA functions.

    Bushati, Natascha / Cohen, Stephen M

    Annual review of cell and developmental biology

    2007  Volume 23, Page(s) 175–205

    Abstract: microRNAs (miRNAs) are small noncoding RNAs that play important roles in posttranscriptional gene regulation. In animal cells, miRNAs regulate their targets by translational inhibition and mRNA destabilization. Here, we review recent work in animal ... ...

    Abstract microRNAs (miRNAs) are small noncoding RNAs that play important roles in posttranscriptional gene regulation. In animal cells, miRNAs regulate their targets by translational inhibition and mRNA destabilization. Here, we review recent work in animal models that provide insight into the diverse roles of miRNAs in vivo.
    MeSH term(s) Animals ; Gene Expression Regulation ; Genetic Diseases, Inborn/genetics ; Humans ; MicroRNAs/chemistry ; MicroRNAs/metabolism ; MicroRNAs/physiology
    Chemical Substances MicroRNAs
    Language English
    Publishing date 2007
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 1293750-2
    ISSN 1530-8995 ; 1081-0706
    ISSN (online) 1530-8995
    ISSN 1081-0706
    DOI 10.1146/annurev.cellbio.23.090506.123406
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: An intuitive graphical visualization technique for the interrogation of transcriptome data.

    Bushati, Natascha / Smith, James / Briscoe, James / Watkins, Christopher

    Nucleic acids research

    2011  Volume 39, Issue 17, Page(s) 7380–7389

    Abstract: The complexity of gene expression data generated from microarrays and high-throughput sequencing make their analysis challenging. One goal of these analyses is to define sets of co-regulated genes and identify patterns of gene expression. To date, ... ...

    Abstract The complexity of gene expression data generated from microarrays and high-throughput sequencing make their analysis challenging. One goal of these analyses is to define sets of co-regulated genes and identify patterns of gene expression. To date, however, there is a lack of easily implemented methods that allow an investigator to visualize and interact with the data in an intuitive and flexible manner. Here, we show that combining a nonlinear dimensionality reduction method, t-statistic Stochastic Neighbor Embedding (t-SNE), with a novel visualization technique provides a graphical mapping that allows the intuitive investigation of transcriptome data. This approach performs better than commonly used methods, offering insight into underlying patterns of gene expression at both global and local scales and identifying clusters of similarly expressed genes. A freely available MATLAB-implemented graphical user interface to perform t-SNE and nearest neighbour plots on genomic data sets is available at www.nimr.mrc.ac.uk/research/james-briscoe/visgenex.
    MeSH term(s) Algorithms ; Animals ; Chick Embryo ; Cluster Analysis ; Computer Graphics ; Humans ; Mice ; Neurons/metabolism ; Principal Component Analysis ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism ; Transcriptome
    Language English
    Publishing date 2011-06-19
    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/gkr462
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  5. Article ; Online: Drosophila microRNAs 263a/b confer robustness during development by protecting nascent sense organs from apoptosis.

    Hilgers, Valérie / Bushati, Natascha / Cohen, Stephen M

    PLoS biology

    2010  Volume 8, Issue 6, Page(s) e1000396

    Abstract: miR-263a/b are members of a conserved family of microRNAs that are expressed in peripheral sense organs across the animal kingdom. Here we present evidence that miR-263a and miR-263b play a role in protecting Drosophila mechanosensory bristles from ... ...

    Abstract miR-263a/b are members of a conserved family of microRNAs that are expressed in peripheral sense organs across the animal kingdom. Here we present evidence that miR-263a and miR-263b play a role in protecting Drosophila mechanosensory bristles from apoptosis by down-regulating the pro-apoptotic gene head involution defective. Both microRNAs are expressed in the bristle progenitors, and despite a difference in their seed sequence, they share this key common target. In miR-263a and miR-263b deletion mutants, loss of bristles appears to be sporadic, suggesting that the role of the microRNAs may be to ensure robustness of the patterning process by promoting survival of these functionally specified cells. In the context of the retina, this mechanism ensures that the interommatidial bristles are protected during the developmentally programmed wave of cell death that prunes excess cells in order to refine the pattern of the pupal retina.
    MeSH term(s) Animals ; Apoptosis/genetics ; Base Sequence ; DNA Primers ; Drosophila/genetics ; Immunohistochemistry ; MicroRNAs/genetics ; Microscopy, Electron, Scanning ; Mutation ; Sense Organs/cytology ; Transgenes
    Chemical Substances DNA Primers ; MicroRNAs
    Language English
    Publishing date 2010-06-15
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2126776-5
    ISSN 1545-7885 ; 1544-9173
    ISSN (online) 1545-7885
    ISSN 1544-9173
    DOI 10.1371/journal.pbio.1000396
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: miR-124 controls male reproductive success in Drosophila.

    Weng, Ruifen / Chin, Jacqueline S R / Yew, Joanne Y / Bushati, Natascha / Cohen, Stephen M

    eLife

    2013  Volume 2, Page(s) e00640

    Abstract: Many aspects of social behavior are controlled by sex-specific pheromones. Gender-appropriate production of the sexually dimorphic transcription factors doublesex and fruitless controls sexual differentiation and sexual behavior. miR-124 mutant males ... ...

    Abstract Many aspects of social behavior are controlled by sex-specific pheromones. Gender-appropriate production of the sexually dimorphic transcription factors doublesex and fruitless controls sexual differentiation and sexual behavior. miR-124 mutant males exhibited increased male-male courtship and reduced reproductive success with females. Females showed a strong preference for wild-type males over miR-124 mutant males when given a choice of mates. These effects were traced to aberrant pheromone production. We identified the sex-specific splicing factor transformer as a functionally significant target of miR-124 in this context, suggesting a role for miR-124 in the control of male sexual differentiation and behavior, by limiting inappropriate expression of the female form of transformer. miR-124 is required to ensure fidelity of gender-appropriate pheromone production in males. Use of a microRNA provides a secondary means of controlling the cascade of sex-specific splicing events that controls sexual differentiation in Drosophila. DOI:http://dx.doi.org/10.7554/eLife.00640.001.
    MeSH term(s) Animals ; Female ; Male ; MicroRNAs/genetics ; MicroRNAs/physiology ; Mutation ; Reproduction/genetics ; Reproduction/physiology ; Sex Attractants/biosynthesis ; Sexual Behavior, Animal
    Chemical Substances MIRN124 microRNA, Drosophila ; MicroRNAs ; Sex Attractants
    Language English
    Publishing date 2013-06-11
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2687154-3
    ISSN 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.00640
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  7. Article: Temporal reciprocity of miRNAs and their targets during the maternal-to-zygotic transition in Drosophila.

    Bushati, Natascha / Stark, Alexander / Brennecke, Julius / Cohen, Stephen M

    Current biology : CB

    2008  Volume 18, Issue 7, Page(s) 501–506

    Abstract: During oogenesis, female animals load their eggs with messenger RNAs (mRNAs) that will be translated to produce new proteins in the developing embryo. Some of these maternally provided mRNAs are stable and continue to contribute to development long after ...

    Abstract During oogenesis, female animals load their eggs with messenger RNAs (mRNAs) that will be translated to produce new proteins in the developing embryo. Some of these maternally provided mRNAs are stable and continue to contribute to development long after the onset of transcription of the embryonic (zygotic) genome. However, a subset of maternal mRNAs are degraded during the transition from purely maternal to mixed maternal-zygotic gene expression. In Drosophila, two independent RNA degradation pathways are used to promote turnover of maternal transcripts during the maternal-to-zygotic transition [1]. The first is driven by maternally encoded factors, including SMAUG [2], whereas the second is activated about 2 hr after fertilization, coinciding with the onset of zygotic transcription. Here, we report that a cluster of zygotically expressed microRNAs (miRNAs) targets maternal mRNAs for turnover, as part of the zygotic degradation pathway. miRNAs are small noncoding RNAs that silence gene expression by repressing translation of their target mRNAs and by promoting mRNA turnover. Intriguingly, use of miRNAs to promote mRNA turnover during the maternal-to-zygotic transition appears to be a conserved phenomenon because a comparable role was reported for miR-430 in zebrafish [3]. The finding that unrelated miRNAs regulate the maternal to zygotic transition in different animals suggests convergent evolution.
    MeSH term(s) Animals ; Down-Regulation ; Drosophila/embryology ; Drosophila/genetics ; Drosophila/metabolism ; Female ; Fertility/genetics ; MicroRNAs/genetics ; MicroRNAs/metabolism ; RNA, Messenger, Stored/metabolism ; Sequence Deletion ; Time Factors ; Zygote/metabolism
    Chemical Substances MicroRNAs ; RNA, Messenger, Stored
    Language English
    Publishing date 2008-04-08
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1071731-6
    ISSN 1879-0445 ; 0960-9822
    ISSN (online) 1879-0445
    ISSN 0960-9822
    DOI 10.1016/j.cub.2008.02.081
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  8. Article ; Online: Recombinase-mediated cassette exchange provides a versatile platform for gene targeting: knockout of miR-31b.

    Weng, Ruifen / Chen, Ya-Wen / Bushati, Natascha / Cliffe, Adam / Cohen, Stephen M

    Genetics

    2009  Volume 183, Issue 1, Page(s) 399–402

    Abstract: A series of vectors has been designed to enhance the versatility of targeted homologous recombination. Recombinase-mediated cassette exchange permits sequential targeting at any locus and improves flexibility in making user-defined mutations. Application ...

    Abstract A series of vectors has been designed to enhance the versatility of targeted homologous recombination. Recombinase-mediated cassette exchange permits sequential targeting at any locus and improves flexibility in making user-defined mutations. Application of RMCE to delete an intronic microRNA gene is described.
    MeSH term(s) Animals ; Animals, Genetically Modified ; Drosophila melanogaster/genetics ; Gene Targeting/methods ; Gene Transfer Techniques ; Genetic Vectors/chemical synthesis ; Genetic Vectors/genetics ; MicroRNAs/genetics ; Models, Biological ; Mutagenesis, Insertional/methods ; Recombinases/physiology ; Recombination, Genetic
    Chemical Substances MicroRNAs ; Recombinases
    Language English
    Publishing date 2009-06-29
    Publishing country United States
    Document type Evaluation Study ; Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2167-2
    ISSN 1943-2631 ; 0016-6731
    ISSN (online) 1943-2631
    ISSN 0016-6731
    DOI 10.1534/genetics.109.105213
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  9. Article: Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution.

    Stark, Alexander / Brennecke, Julius / Bushati, Natascha / Russell, Robert B / Cohen, Stephen M

    Cell

    2005  Volume 123, Issue 6, Page(s) 1133–1146

    Abstract: MicroRNAs are small noncoding RNAs that serve as posttranscriptional regulators of gene expression in higher eukaryotes. Their widespread and important role in animals is highlighted by recent estimates that 20%-30% of all genes are microRNA targets. ... ...

    Abstract MicroRNAs are small noncoding RNAs that serve as posttranscriptional regulators of gene expression in higher eukaryotes. Their widespread and important role in animals is highlighted by recent estimates that 20%-30% of all genes are microRNA targets. Here, we report that a large set of genes involved in basic cellular processes avoid microRNA regulation due to short 3'UTRs that are specifically depleted of microRNA binding sites. For individual microRNAs, we find that coexpressed genes avoid microRNA sites, whereas target genes and microRNAs are preferentially expressed in neighboring tissues. This mutually exclusive expression argues that microRNAs confer accuracy to developmental gene-expression programs, thus ensuring tissue identity and supporting cell-lineage decisions.
    MeSH term(s) 3' Untranslated Regions/genetics ; Animals ; Base Sequence ; Basic Helix-Loop-Helix Transcription Factors/genetics ; Cell Line ; Drosophila/embryology ; Drosophila/genetics ; Drosophila Proteins/genetics ; Embryo, Nonmammalian/metabolism ; Evolution, Molecular ; Gene Expression Regulation, Developmental/genetics ; Homeodomain Proteins/genetics ; In Situ Hybridization ; Membrane Proteins/genetics ; MicroRNAs/genetics ; MicroRNAs/physiology ; Molecular Sequence Data ; Muscles/embryology ; Muscles/metabolism ; Nerve Tissue Proteins/genetics ; Nervous System/embryology ; Nervous System/metabolism ; Nuclear Proteins/genetics ; RNA, Messenger/genetics ; Sequence Homology, Nucleic Acid ; Tropomyosin/genetics ; Vacuolar Proton-Translocating ATPases/genetics
    Chemical Substances 3' Untranslated Regions ; Basic Helix-Loop-Helix Transcription Factors ; Drosophila Proteins ; Homeodomain Proteins ; Membrane Proteins ; MicroRNAs ; Nerve Tissue Proteins ; Nuclear Proteins ; RNA, Messenger ; Tm1 protein, Drosophila ; Tropomyosin ; cpo protein, Drosophila ; gliotactin ; l(1)sc protein, Drosophila ; repo protein, Drosophila ; Vacuolar Proton-Translocating ATPases (EC 3.6.1.-)
    Language English
    Publishing date 2005-12-06
    Publishing country United States
    Document type Journal Article
    ZDB-ID 187009-9
    ISSN 1097-4172 ; 0092-8674
    ISSN (online) 1097-4172
    ISSN 0092-8674
    DOI 10.1016/j.cell.2005.11.023
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  10. Article: A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands.

    Stark, Alexander / Bushati, Natascha / Jan, Calvin H / Kheradpour, Pouya / Hodges, Emily / Brennecke, Julius / Bartel, David P / Cohen, Stephen M / Kellis, Manolis

    Genes & development

    2008  Volume 22, Issue 1, Page(s) 8–13

    Abstract: MicroRNAs (miRNAs) are approximately 22-nucleotide RNAs that are processed from characteristic precursor hairpins and pair to sites in messages of protein-coding genes to direct post-transcriptional repression. Here, we report that the miRNA iab-4 locus ... ...

    Abstract MicroRNAs (miRNAs) are approximately 22-nucleotide RNAs that are processed from characteristic precursor hairpins and pair to sites in messages of protein-coding genes to direct post-transcriptional repression. Here, we report that the miRNA iab-4 locus in the Drosophila Hox cluster is transcribed convergently from both DNA strands, giving rise to two distinct functional miRNAs. Both sense and antisense miRNA products target neighboring Hox genes via highly conserved sites, leading to homeotic transformations when ectopically expressed. We also report sense/antisense miRNAs in mouse and find antisense transcripts close to many miRNAs in both flies and mammals, suggesting that additional sense/antisense pairs exist.
    MeSH term(s) Animals ; Base Sequence ; Body Patterning ; DNA/chemistry ; Drosophila/genetics ; Drosophila/growth & development ; Drosophila/metabolism ; Gene Expression Regulation, Developmental ; Genes, Homeobox ; Genes, Insect ; Genome ; Humans ; Mice ; MicroRNAs/biosynthesis ; MicroRNAs/genetics ; Models, Genetic ; Molecular Sequence Data ; Nucleic Acid Conformation ; RNA, Antisense/metabolism
    Chemical Substances MicroRNAs ; RNA, Antisense ; DNA (9007-49-2)
    Language English
    Publishing date 2008-01-01
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 806684-x
    ISSN 1549-5477 ; 0890-9369
    ISSN (online) 1549-5477
    ISSN 0890-9369
    DOI 10.1101/gad.1613108
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