Now showing items 1-20 of 21

    • Antisense Oligonucleotide-Mediated Transcript Knockdown in Zebrafish 

      Pauli, Andrea; Montague, Tessa G.; Lennox, Kim A.; Behlke, Mark A.; Schier, Alexander F. (Public Library of Science, 2015)
      Antisense oligonucleotides (ASOs) are synthetic, single-strand RNA-DNA hybrids that induce catalytic degradation of complementary cellular RNAs via RNase H. ASOs are widely used as gene knockdown reagents in tissue culture ...
    • Antisense Oligonucleotide-Mediated Transcript Knockdown in Zebrafish 

      Pauli, Andrea; Montague, Tessa G.; Lennox, Kim A.; Behlke, Mark A.; Schier, Alexander F. (Public Library of Science, 2015)
      Antisense oligonucleotides (ASOs) are synthetic, single-strand RNA-DNA hybrids that induce catalytic degradation of complementary cellular RNAs via RNase H. ASOs are widely used as gene knockdown reagents in tissue culture ...
    • Attenuation of Notch and Hedgehog Signaling Is Required for Fate Specification in the Spinal Cord 

      Huang, Peng; Xiong, Fengzhu; Megason, Sean; Schier, Alexander F (Public Library of Science, 2012)
      During the development of the spinal cord, proliferative neural progenitors differentiate into postmitotic neurons with distinct fates. How cells switch from progenitor states to differentiated fates is poorly understood. ...
    • Brain-wide mapping of neural activity controlling zebrafish exploratory locomotion 

      Dunn, Timothy W; Mu, Yu; Narayan, Sujatha; Randlett, Owen; Naumann, Eva A; Yang, Chao-Tsung; Schier, Alexander F; Freeman, Jeremy; Engert, Florian; Ahrens, Misha B (eLife Sciences Publications, Ltd, 2016)
      In the absence of salient sensory cues to guide behavior, animals must still execute sequences of motor actions in order to forage and explore. How such successive motor actions are coordinated to form global locomotion ...
    • Conservation of uORF repressiveness and sequence features in mouse, human and zebrafish 

      Chew, Guo-Liang; Pauli, Andrea; Schier, Alexander F. (Nature Publishing Group, 2016)
      Upstream open reading frames (uORFs) are ubiquitous repressive genetic elements in vertebrate mRNAs. While much is known about the regulation of individual genes by their uORFs, the range of uORF-mediated translational ...
    • Efficient Mutagenesis by Cas9 Protein-Mediated Oligonucleotide Insertion and Large-Scale Assessment of Single-Guide RNAs 

      Gagnon, James A.; Valen, Eivind; Thyme, Summer B.; Huang, Peng; Ahkmetova, Laila; Pauli, Andrea; Montague, Tessa G.; Zimmerman, Steven; Richter, Constance; Schier, Alexander F. (Public Library of Science, 2014)
      The CRISPR/Cas9 system has been implemented in a variety of model organisms to mediate site-directed mutagenesis. A wide range of mutation rates has been reported, but at a limited number of genomic target sites. To uncover ...
    • Genomic Imprinting in the Brain: the persistent influences from Mom and Dad 

      Perez, Julio David (2015-05-20)
      Most mammalian genes are equally expressed from the two inherited parental alleles. However, a puzzling subgroup known as imprinted genes are preferentially expressed from either the maternally- or paternally-inherited ...
    • Identification of an Operant Learning Circuit by Whole Brain Functional Imaging in Larval Zebrafish 

      Li, Jennifer Mengbo (2013-08-21)
      When confronted with changing environments, animals can generally adjust their behavior to optimize reward and minimize punishment. The process of modifying one's behavior based on its consequences is referred to as operant ...
    • Internal guide RNA interactions interfere with Cas9-mediated cleavage 

      Thyme, Summer B.; Akhmetova, Laila; Montague, Tessa G.; Valen, Eivind; Schier, Alexander F. (Nature Publishing Group, 2016)
      The CRISPR/Cas system uses guide RNAs (gRNAs) to direct sequence-specific DNA cleavage. Not every gRNA elicits cleavage and the mechanisms that govern gRNA activity have not been resolved. Low activity could result from ...
    • Members of the miRNA-200 Family Regulate Olfactory Neurogenesis 

      Choi, Wen-Yee; Caron, Sophie; Alvarez-Saavedra, Ezequiel; Miska, Eric A.; McManus, Mike; Harfe, Brian; Giraldez, Antonio J.; Horvitz, Robert H.; Choi, Philip S.; Zakhary, Lisa Maher; Schier, Alexander F; Dulac, Catherine (Elsevier, 2008)
      Summary: MicroRNAs (miRNAs) are highly expressed in vertebrate neural tissues, but the contribution of specific miRNAs to the development and function of different neuronal populations is still largely unknown. We report ...
    • Monitoring Neural Activity with Bioluminescence during Natural Behavior 

      Naumann, Eva Aimable; Kampff, Adam R.; Prober, David A.; Schier, Alexander F; Engert, Florian (Nature Publishing Group, 2010)
      Existing techniques for monitoring neural activity in awake, freely behaving vertebrates are invasive and difficult to target to genetically identified neurons. We used bioluminescence to non-invasively monitor the activity ...
    • Multicolor Brainbow Imaging in Zebrafish 

      Pan, Y. A.; Livet, J.; Sanes, Joshua R.; Lichtman, Jeff; Schier, Alexander F (Cold Spring Harbor Laboratory Press, 2011)
      This protocol describes how to use the Brainbow strategy to label neurons in many different hues. The Brainbow system uses a random Cre/lox recombination to create varied combinations of red, blue, and green fluorescent ...
    • Nanog-like Regulates Endoderm Formation through the Mxtx2-Nodal Pathway 

      Xu, Cong; Fan, Zi Peng; Müller, Patrick; Fogley, Rachel; DiBiase, Anthony; Trompouki, Eirini; Unternaehrer, Juli; Xiong, Fengzhu; Torregroza, Ingrid; Evans, Todd; Megason, Sean; Daley, George Quentin; Schier, Alexander F; Young, Richard A.; Zon, Leonard Ira (Elsevier, 2012)
      In mammalian embryonic stem cells, the acquisition of pluripotency is dependent on Nanog, but the in vivo analysis of Nanog has been hampered by its requirement for early mouse development. In an effort to examine the role ...
    • Optical Control of Metabotropic Glutamate Receptors 

      Levitz, Joshua; Pantoja, Carlos; Gaub, Benjamin; Janovjak, Harald; Reiner, Andreas; Hoagland, Adam; Schoppik, David; Kane, Brian; Stawski, Philipp; Schier, Alexander F.; Trauner, Dirk; Isacoff, Ehud Y. (2013)
      G-protein coupled receptors (GPCRs), the largest family of membrane signaling proteins, respond to neurotransmitters, hormones and small environmental molecules. The neuronal function of many GPCRs has been difficult to ...
    • Response to Nodal morphogen gradient is determined by the kinetics of target gene induction 

      Dubrulle, Julien; Jordan, Benjamin M; Akhmetova, Laila; Farrell, Jeffrey A; Kim, Seok-Hyung; Solnica-Krezel, Lilianna; Schier, Alexander F (eLife Sciences Publications, Ltd, 2015)
      Morphogen gradients expose cells to different signal concentrations and induce target genes with different ranges of expression. To determine how the Nodal morphogen gradient induces distinct gene expression patterns during ...
    • Spatial reconstruction of single-cell gene expression 

      Satija, Rahul; Farrell, Jeffrey A.; Gennert, David; Schier, Alexander F.; Regev, Aviv (2015)
      Spatial localization is a key determinant of cellular fate and behavior, but spatial RNA assays traditionally rely on staining for a limited number of RNA species. In contrast, single-cell RNA-seq allows for deep profiling ...
    • A Structural and Functional Investigation of Germ Plasm Organization Mediated by D. Melanogaster Oskar Protein 

      Srouji, John (2015-09-25)
      Germ cells are the unique source of gametes for multicellular organisms and are specified through different mechanisms. One such specification mechanism is inheritance-mediated, in which the molecular factors necessary and ...
    • The Tangential Nucleus Controls a Gravito-inertial Vestibulo-ocular Reflex 

      Bianco, Isaac; Ma, Leung-Hang; Schoppik, David E; Robson, Drew Norman; Orger, Michael B.; Beck, James C.; Li, Jennifer Mengbo; Schier, Alexander F; Engert, Florian; Baker, Robert (Elsevier, 2012)
      Whilst adult vertebrates sense changes in head position using two classes of accelerometer, at larval stages zebrafish lack functional semicircular canals and rely exclusively on their otolithic organs to transduce vestibular ...
    • Thermal navigation in larval zebrafish 

      Robson, Drew Norman (2013-10-08)
      Navigation in complex environments requires selection of appropriate actions as a function of local cues. To gain a quantitative and mechanistic understanding of zebrafish thermal navigation, we have developed a novel assay ...
    • Transcriptional Regulation of Nodal Target Genes in Early Zebrafish Development 

      Akhmetova, Laila (2016-05-06)
      Nodal signaling is one of the principal players in the process of gastrulation, during which the primary germ layers (endoderm, mesoderm, and ectoderm) are formed and organized in their proper locations. During my PhD I ...