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James Darnell, Jr., 1973
The Rockefeller University
Jan 01, 0001
James E. Darnell, Jr. The origins of mRNA and the structure of the mammalian chromosome
Lecture delivered September 20, 1973
Posted with permission
Published by: Academic Press
Pathogenic variants in glutamyl-tRNAGln amidotransferase subunits cause a lethal mitochondrial cardiomyopathy disorder.
Marisa W Friederich, Sharita Timal, Christopher A Powell, Cristina Dallabona, Alina Kurolap, Sara Palacios-Zambrano, Drago Bratkovic, Terry GJ Derks, David Bick, Katelijne Bouman, Kathryn C Chatfield, Nadine Damouny-Naoum, Megan K Dishop, Tzipora C Falik-Zaccai, Fuad Fares, Ayalla Fedida, Ileana Ferrero, Renata C Gallagher, Rafael Garesse, Micol Gilberti, Cristina González, Katherine Gowan, Clair Habib, Rebecca K Halligan, Limor Kalfon, Kaz Knight, Dirk Lefeber, Laura Mamblona, Hanna Mandel, Adi Mory, John Ottoson, Tamar Paperna, Ger JM Pruijn, Pedro F Rebelo-Guiomar, Ann Saada, Bruno Sainz, Hayley Salvemini, Mirthe H Schoots, Jan A Smeitink, Maciej J Szukszto, Hendrik J Ter Horst, Frans van den Brandt, Francjan J van Spronsen, Joris A Veltman, Eric Wartchow, Liesbeth T Wintjes, Yaniv Zohar, Miguel A Fernández-Moreno, Hagit N Baris, Claudia Donnini, Michal Minczuk, Richard J Rodenburg, Johan LK Van Hove
Dec 07, 2018
Mitochondrial protein synthesis requires charging mt-tRNAs with their cognate amino acids by mitochondrial aminoacyl-tRNA synthetases, with the exception of glutaminyl mt-tRNA (mt-tRNAGln). mt-tRNAGln is indirectly charged by a...
Amino Acid Sequence Cardiomyopathies Female FIBROBLASTS Humans Infant Infant Newborn Lentivirus Male Mitochondrial Diseases Models Molecular Mutation Myocardium Nitrogenous Group Transferases Oxidative Phosphorylation Pedigree Protein Biosynthesis Protein Subunits RNA Transfer Saccharomyces cerevisiae
Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis.
Lovorka Stojic, Aaron TL Lun, Jasmin Mangei, Patrice Mascalchi, Valentina Quarantotti, Alexis R Barr, Chris Bakal, John C Marioni, Fanni Gergely, Duncan T Odom
Sep 05, 2018
Artificial miRNAs Reduce Human Mutant Huntingtin Throughout the Striatum in a Transgenic Sheep Model of Huntington's Disease.
Edith L Pfister, Natalie DiNardo, Erica Mondo, Florie Borel, Faith Conroy, Cara Fraser, Gwladys Gernoux, Xin Han, Danjing Hu, Emily Johnson, Lori Kennington, PengPeng Liu, Suzanne J Reid, Ellen Sapp, Petr Vodicka, Tim Kuchel, A Jennifer Morton, David Howland, Richard Moser, Miguel Sena-Esteves, Guangping Gao, Christian Mueller, Marian DiFiglia, Neil Aronin
Sep 20, 2018
Huntington's disease (HD) is a fatal neurodegenerative disease caused by a genetic expansion of the CAG repeat region in the huntingtin (HTT) gene. Studies in HD mouse models have shown that artificial miRNAs can reduce mutant...
AAV Huntington's disease RNAi large animal models Animals Animals Genetically Modified Dependovirus Disease Models Animal Electrolytes Genetic Vectors Genome Viral Humans Huntingtin Protein Huntington Disease Immunoassay Injections Kidney Liver MicroRNAs Microglia Mutant Proteins Neostriatum Neurons RNA Messenger Sheep
GABA promotes gastrin-releasing peptide secretion in NE/NE-like cells
Susana R Solorzano, Ivan Imaz-Rosshandler, Ignacio Camacho-Arroyo, Pilar García-Tobilla, Gustavo Morales-Montor, Patricia Salazar, Ma Leticia Arena-Ortiz, Mauricio Rodríguez-Dorantes
Sep 20, 2018
In prostate cancer (PCa), neuroendocrine cells (NE) have been associated with the progression of the disease due to the secretion of neuropeptides that are capable of diffusing and influence surrounding cells. The GABAergic...
Freiburg RNA tools
Martin Raden, Syed M Ali, Omer S Alkhnbashi, Anke Busch, Fabrizio Costa, Jason A Davis, Florian Eggenhofer, Rick Gelhausen, Jens Georg, Steffen Heyne, Michael Hiller, Kousik Kundu, Robert Kleinkauf, Steffen C Lott, Mostafa M Mohamed, Alexander Mattheis, Milad Miladi, Andreas S Richter, Sebastian Will, Joachim Wolff, Patrick R Wright, Rolf Backofen
Nov 06, 2018
The Freiburg RNA tools webserver is a well established online resource for RNA-focused research. It provides a unified user interface and comprehensive result visualization for efficient command line tools. The webserver...
Alterations in sperm long RNA contribute to the epigenetic inheritance of the effects of postnatal trauma.
K Gapp, G van Steenwyk, PL Germain, W Matsushima, KLM Rudolph, F Manuella, M Roszkowski, G Vernaz, T Ghosh, P Pelczar, IM Mansuy, EA Miska
Nov 18, 2018
Psychiatric diseases have a strong heritable component known to not be restricted to DNA sequence-based genetic inheritance alone but to also involve epigenetic factors in germ cells. Initial evidence suggested that sperm RNA is...
Injury-induced perivascular niche supports alternative differentiation of adult rodent CNS progenitor cells.
Justyna Ulanska-Poutanen, Jakub Mieczkowski, Chao Zhao, Katarzyna Konarzewska, Beata Kaza, Hartmut Bf Pohl, Lukasz Bugajski, Bozena Kaminska, Robin Jm Franklin, Malgorzata Zawadzka
Nov 19, 2018
Schwann Cells adult CNS progenitors neuroscience perivascular niche rat remyelination Animals Astrocytes Bone Morphogenetic Proteins Cell Differentiation Cellular Microenvironment Central Nervous System Demyelinating Diseases Endothelial Cells Gene Expression Regulation Ligands Oligodendroglia Peripheral Nervous System RNA Messenger Rats Stem Cell Niche Stem Cells Wnt Signaling Pathway Wounds and Injuries
lncRNA Spehd Regulates Hematopoietic Stem and Progenitor Cells and Is Required for Multilineage Differentiation.
M Joaquina Delás, Benjamin T Jackson, Tatjana Kovacevic, Silvia Vangelisti, Ester Munera Maravilla, Sophia A Wild, Eva Maria Stork, Nicolas Erard, Simon RV Knott, Gregory J Hannon
Apr 05, 2019
HSC Hematopoiesis lncRNA Oxidative Phosphorylation Animals Bone Marrow Transplantation Cell Differentiation Cell Line Tumor Cell Lineage Cyclin-Dependent Kinase 6 Female GATA2 Transcription Factor Hematopoiesis Hematopoietic Stem Cells Mice Mice Inbred C57BL Oxidative Phosphorylation Proto-Oncogene Proteins RNA Interference RNA Long Noncoding RNA Small Interfering Regeneration Trans-Activators
Enhancing Mitofusin/Marf ameliorates neuromuscular dysfunction in Drosophila models of TDP-43 proteinopathies.
Bilal Khalil, Marie-Jeanne Cabirol-Pol, Laetitia Miguel, Alexander J Whitworth, Magalie Lecourtois, Jean-Charles Liévens
Apr 05, 2019
ALS Dynamin-related protein 1 FTLD Mitochondria Mitochondrial Dynamics Animals DNA-Binding Proteins Disease Models Animal Drosophila Drosophila Proteins Dynamins Gene Expression Locomotion Membrane Proteins Mitochondria Mitochondrial Dynamics Molecular Targeted Therapy Neuromuscular Junction Neurons RNA Messenger TDP-43 Proteinopathies
Cryo-EM Structures of MDA5-dsRNA Filaments at Different Stages of ATP Hydrolysis.
Double-stranded RNA (dsRNA) is a potent proinflammatory signature of viral infection. Long cytosolic dsRNA is recognized by MDA5. The cooperative assembly of MDA5 into helical filaments on dsRNA nucleates the assembly of a...
AGS ATPase Aicardi-Goutières syndrome DExD/H-box RNA helicase RIG-I-like receptor RLR SF2 helicases SMS Singleton-Merten syndrome cryo-EM Cryoelectron Microscopy helical reconstruction innate immune pattern recognition nucleic acid sensing superfamily 2 helicases Adenosine Triphosphate Cryoelectron Microscopy HEK293 Cells Humans Hydrolysis Hydrophobic and Hydrophilic Interactions Interferon-Induced Helicase IFIH1 Interferon-beta Molecular Docking Simulation Mutation Nucleic Acid Conformation Protein Conformation RNA Double-Stranded Signal Transduction Structure-Activity Relationship
Tissue- and sex-specific small RNAomes reveal sex differences in response to the environment.
Alexandra Bezler, Fabian Braukmann, Sean M West, Arthur Duplan, Raffaella Conconi, Frédéric Schütz, Pierre Gönczy, Fabio Piano, Kristin Gunsalus, Eric A Miska, Laurent Keller
Feb 15, 2019
Structural and Functional Determinants of AC8 Trafficking, Targeting and Responsiveness in Lipid Raft Microdomains.
The fidelity of cAMP in controlling numerous cellular functions rests crucially on the precise organization of cAMP microdomains that are sustained by the scaffolding properties of adenylyl cyclase. Earlier studies suggested...
Adenylyl cyclase Caveolin Cholesterol Lipid rafts plasma membrane cAMP Adenylyl Cyclases Bacterial Proteins Brefeldin A Bridged Bicyclo Compounds Heterocyclic Caveolin 1 Cyclic AMP Cytoskeleton Gene Expression Genes Reporter Green Fluorescent Proteins Guanine Nucleotide Exchange Factors HEK293 Cells Humans Luminescent Proteins Membrane Microdomains Mutagenesis Site-Directed Protein Transport RNA Small Interfering Recombinant Fusion Proteins Thiazolidines beta-Cyclodextrins
TransRate
TransRate is a tool for reference-free quality assessment of de novo transcriptome assemblies. Using only the sequenced reads and the assembly as input, we show that multiple common artifacts of de novo transcriptome assembly...
Phenotypes can be robust and evolvable if mutations have non-local effects on sequence constraints.
The mapping between biological genotypes and phenotypes plays an important role in evolution, and understanding the properties of this mapping is crucial to determine the outcome of evolutionary processes. One of the most...
The AP-1-BATF and -BATF3 module is essential for growth, survival and TH17/ILC3 skewing of anaplastic large cell lymphoma.
Nikolai Schleussner, Olaf Merkel, Mariantonia Costanza, Huan-Chang Liang, Franziska Hummel, Chiara Romagnani, Pawel Durek, Ioannis Anagnostopoulos, Michael Hummel, Korinna Jöhrens, Antonia Niedobitek, Patrick R Griffin, Roberto Piva, Henrike L Sczakiel, Wilhelm Woessmann, Christine Damm-Welk, Christian Hinze, Dagmar Stoiber, Bernd Gillissen, Suzanne D Turner, Eva Kaergel, Linda von Hoff, Michael Grau, Georg Lenz, Bernd Dörken, Claus Scheidereit, Lukas Kenner, Martin Janz, Stephan Mathas
Mar 20, 2018
Transcription factor AP-1 is constitutively activated and IRF4 drives growth and survival in ALK+ and ALK- anaplastic large cell lymphoma (ALCL). Here we demonstrate high-level BATF and BATF3 expression in ALCL. Both BATFs bind...
Basic-Leucine Zipper Transcription Factors Binding Sites CRISPR-Cas Systems Carrier Proteins Cell Death Cell Line Tumor Cell Survival Cytokines Gene Editing Gene Expression Regulation Neoplastic Gene Knockdown Techniques Humans Lymphoma Large-Cell Anaplastic Protein Binding Protein Kinase Inhibitors RNA Small Interfering T-Lymphocyte Subsets Th17 Cells Transcription Factor AP-1 Transcriptome
Extent, causes, and consequences of small RNA expression variation in human adipose tissue.
Leopold Parts, Åsa K Hedman, Sarah Keildson, Andrew J Knights, Cei Abreu-Goodger, Martijn van de Bunt, José Afonso Guerra-Assunção, Nenad Bartonicek, Stijn van Dongen, Reedik Mägi, James Nisbet, Amy Barrett, Mattias Rantalainen, Alexandra C Nica, Michael A Quail, Kerrin S Small, Daniel Glass, Anton J Enright, John Winn, MuTHER Consortium, Panos Deloukas, Emmanouil T Dermitzakis, Mark I McCarthy, Timothy D Spector, Richard Durbin, Cecilia M Lindgren
Jan 18, 2018
Small RNAs are functional molecules that modulate mRNA transcripts and have been implicated in the aetiology of several common diseases. However, little is known about the extent of their variability within the human population....
Animals Blood Glucose Body Fat Distribution Body Mass Index Fasting Female Gene Expression Regulation genetic variation Genome-Wide Association Study Genotype High-Throughput Nucleotide Sequencing Humans Insulin MicroRNAs Middle Aged Polymorphism Single Nucleotide RNA Messenger RNA Small Nucleolar RNA Small Untranslated Subcutaneous Fat
Detecting microRNA binding and siRNA off-target effects from expression data.
Sylamer is a method for detecting microRNA target and small interfering RNA off-target signals in 3' untranslated regions from a ranked gene list, sorted from upregulated to downregulated, after a microRNA perturbation or RNA...
Contribution of epigenetic landscapes and transcription factors to X-chromosome reactivation in the inner cell mass.
Maud Borensztein, Ikuhiro Okamoto, Laurène Syx, Guillaume Guilbaud, Christel Picard, Katia Ancelin, Rafael Galupa, Patricia Diabangouaya, Nicolas Servant, Emmanuel Barillot, Azim Surani, Mitinori Saitou, Chong-Jian Chen, Konstantinos Anastassiadis, Edith Heard
Jan 24, 2018
X-chromosome inactivation is established during early development. In mice, transcriptional repression of the paternal X-chromosome (Xp) and enrichment in epigenetic marks such as H3K27me3 is achieved by the early blastocyst...
RNAcentral
AI Petrov, SJE Kay, I Kalvari, KL Howe, KA Gray, EA Bruford, PJ Kersey, G Cochrane, RD Finn, A Bateman, A Kozomara, S Griffiths-Jones, A Frankish, CW Zwieb, BY Lau, KP Williams, PP Chan, TM Lowe, JJ Cannone, RR Gutell, MA Machnicka, JM Bujnicki, M Yoshihama, N Kenmochi, B Chai, JR Cole, M Szymanski, WM Karlowski, V Wood, E Huala, TZ Berardini, Y Zhao, R Chen, W Zhu, MD Paraskevopoulou, IS Vlachos, AG Hatzigeorgiou, L Ma, Z Zhang, J Puetz, PF Stadler, D McDonald, S Basu, P Fey, SR Engel, JM Cherry, PJ Volders, P Mestdagh, J Wower, M Clark, XC Quek, ME Dinger
Jul 31, 2017
Souporcell
Haynes Heaton, Arthur M Talman, Andrew Knights, Maria Imaz, Daniel J Gaffney, Richard Durbin, Martin Hemberg, Mara Kn Lawniczak
Apr 01, 2020
The circadian clock components BMAL1 and REV-ERBα regulate flavivirus replication.
Xiaodong Zhuang, Andrea Magri, Michelle Hill, Alvina G Lai, Abhinav Kumar, Srinivasa Bhargav Rambhatla, Claire L Donald, Andrea F Lopez-Clavijo, Simon Rudge, Katherine Pinnick, Wai Hoong Chang, Peter AC Wing, Ryan Brown, Ximing Qin, Peter Simmonds, Thomas F Baumert, David Ray, Andrew Loudon, Peter Balfe, Michael Wakelam, Sam Butterworth, Alain Kohl, Catherine L Jopling, Nicole Zitzmann, Jane A McKeating
Jun 27, 2019
The circadian clock regulates immune responses to microbes and affects pathogen replication, but the underlying molecular mechanisms are not well understood. Here we demonstrate that the circadian components BMAL1 and REV-ERBα...
ARNTL Transcription Factors Cell Line Circadian Clocks DNA Replication dengue dengue virus Flavivirus Gene Expression Regulation Genes Essential Hepacivirus Hepatitis C Hepatocytes Humans Nuclear Receptor Subfamily 1 Group D Member 1 Proteomics RNA Messenger Virus Internalization Virus Replication Zika Virus Zika Virus Infection
TET2 Regulates the Neuroinflammatory Response in Microglia.
Alejandro Carrillo-Jimenez, Özgen Deniz, Maria Victoria Niklison-Chirou, Rocio Ruiz, Karina Bezerra-Salomão, Vassilis Stratoulias, Rachel Amouroux, Ping Kei Yip, Anna Vilalta, Mathilde Cheray, Alexander Michael Scott-Egerton, Eloy Rivas, Khadija Tayara, Irene García-Domínguez, Juan Garcia-Revilla, Juan Carlos Fernandez-Martin, Ana Maria Espinosa-Oliva, Xianli Shen, Peter St George-Hyslop, Guy Charles Brown, Petra Hajkova, Bertrand Joseph, Jose Luis Venero, Miguel Ramos Branco, Miguel Angel Burguillos
Oct 29, 2019
Epigenomic mechanisms regulate distinct aspects of the inflammatory response in immune cells. Despite the central role for microglia in neuroinflammation and neurodegeneration, little is known about their epigenomic regulation...
TET2 TLR-4 epigenetics metabolism Microglia Neuroinflammation Alzheimer Disease Amyloid Animals Brain DNA-Binding Proteins Dioxygenases Enhancer Elements Genetic Humans Interleukin-6 Lipopolysaccharides Male Mice Mice Inbred C57BL Mice Knockout Microglia Nitric Oxide Synthase Type II Proto-Oncogene Proteins RNA Interference RNA Small Interfering Rats Transcription Factor RelA Transcription Genetic
RORα and 25-Hydroxycholesterol Crosstalk Regulates Lipid Droplet Homeostasis in Macrophages.
Zewen Kelvin Tuong, Patrick Lau, Ximing Du, Nicholas D Condon, Joel M Goode, Tae Gyu Oh, Jeremy C Yeo, George EO Muscat, Jennifer L Stow
Sep 02, 2019
Nuclear hormone receptors have important roles in the regulation of metabolic and inflammatory pathways. The retinoid-related orphan receptor alpha (Rorα)-deficient staggerer (sg/sg) mice display several phenotypes indicative of...
Animals Bone Marrow Cells Cells Cultured Chromatography Thin Layer Drug Inverse Agonism Hydroxycholesterols Lipid Droplets Lipid Metabolism Lipids MACROPHAGES Male Mice Mice Inbred C3H Mice Knockout Nuclear Receptor Subfamily 1 Group F Member 1 RNA Interference RNA Messenger Receptors LDL Steroid Hydroxylases Up-Regulation
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