Works matching AU Johnson, Rory

Results: 27

CAIPIRINHA accelerated SPACE enables 10-min isotropic 3D TSE MRI of the ankle for optimized visualization of curved and oblique ligaments and tendons.

Published in:

2017

By:

Kalia, Vivek;
Fritz, Benjamin;
Johnson, Rory;
Gilson, Wesley;
Raithel, Esther;
Fritz, Jan;
Gilson, Wesley D

Publication type:

journal article

Integrative transcriptome analysis suggest processing of a subset of long non-coding RNAs to small RNAs.

Published in:

Biology Direct, 2012, v. 7, n. 1, p. 25, doi. 10.1186/1745-6150-7-25

By:

Jalali, Saakshi;
Gunanathan Jayaraj, Gopal;
Scaria, Vinod;
Johnson, Rory;
Khanin, Raya;
Smalheiser, Neil

Publication type:

Article

A Point Mutation in a lincRNA Upstream of GDNF Is Associated to a Canine Insensitivity to Pain: A Spontaneous Model for Human Sensory Neuropathies.

Published in:

PLoS Genetics, 2016, v. 12, n. 12, p. 1, doi. 10.1371/journal.pgen.1006482

By:

Plassais, Jocelyn;
Lagoutte, Laetitia;
Correard, Solenne;
Paradis, Manon;
Guaguère, Eric;
Hédan, Benoit;
Pommier, Alix;
Botherel, Nadine;
Cadiergues, Marie-Christine;
Pilorge, Philippe;
Silversides, David;
Bizot, Maud;
Samuels, Mark;
Arnan, Carme;
Johnson, Rory;
Hitte, Christophe;
Salbert, Gilles;
Méreau, Agnès;
Quignon, Pascale;
Derrien, Thomas

Publication type:

Article

Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features.

Published in:

Scientific Reports, 2017, p. 41544, doi. 10.1038/srep41544

By:

Lanzós, Andrés;
Carlevaro-Fita, Joana;
Mularoni, Loris;
Reverter, Ferran;
Palumbo, Emilio;
Guigó, Roderic;
Johnson, Rory

Publication type:

Article

Noncoding RNAs: biology and applications—a Keystone Symposia report.

Published in:

Annals of the New York Academy of Sciences, 2021, v. 1506, n. 1, p. 118, doi. 10.1111/nyas.14713

By:

Cable, Jennifer;
Heard, Edith;
Hirose, Tetsuro;
Prasanth, Kannanganattu V.;
Chen, Ling‐Ling;
Henninger, Jonathan E.;
Quinodoz, Sofia A.;
Spector, David L.;
Diermeier, Sarah D.;
Porman, Allison M.;
Kumar, Dhiraj;
Feinberg, Mark W.;
Shen, Xiaohua;
Unfried, Juan Pablo;
Johnson, Rory;
Chen, Chun‐Kan;
Wilusz, Jeremy E.;
Lempradl, Adelheid;
McGeary, Sean E.;
Wahba, Lamia

Publication type:

Article

REST Regulates Distinct Transcriptional Networks in Embryonic and Neural Stem Cells.

Published in:

PLoS Biology, 2008, v. 6, n. 10, p. 2205, doi. 10.1371/journal.pbio.0060256

By:

Johnson, Rory;
Teh, Christina Hui-leng;
Kunarso, Galih;
Kee Yew Wong;
Srinivasan, Gopalan;
Cooper, Megan L.;
Volta, Manuela;
Chan, Sarah Su-ling;
Lipovich, Leonard;
Pollard, Steven M.;
Karuturi, R. Krishna Murthy;
Chia-lin Wei;
Buckley, Noel J.;
Stanton, Lawrence W.

Publication type:

Article

Human vtRNA1-1 Levels Modulate Signaling Pathways and Regulate Apoptosis in Human Cancer Cells.

Published in:

Biomolecules (2218-273X), 2020, v. 10, n. 4, p. 614, doi. 10.3390/biom10040614

By:

Bracher, Lisamaria;
Ferro, Iolanda;
Pulido-Quetglas, Carlos;
Ruepp, Marc-David;
Johnson, Rory;
Polacek, Norbert

Publication type:

Article

Cancer Essential Genes Stratified Lung Adenocarcinoma Patients with Distinct Survival Outcomes and Identified a Subgroup from the Terminal Respiratory Unit Type with Different Proliferative Signatures in Multiple Cohorts.

Published in:

Cancers, 2021, v. 13, n. 9, p. 2128, doi. 10.3390/cancers13092128

By:

Ho, Kuo-Hao;
Huang, Tzu-Wen;
Liu, Ann-Jeng;
Shih, Chwen-Ming;
Chen, Ku-Chung;
Johnson, Rory

Publication type:

Article

Genome-wide profiling of the cardiac transcriptome after myocardial infarction identifies novel heart-specific long non-coding RNAs.

Published in:

European Heart Journal, 2015, v. 36, n. 6, p. 353, doi. 10.1093/eurheartj/ehu180

By:

Ounzain, Samir;
Micheletti, Rudi;
Beckmann, Tal;
Schroen, Blanche;
Alexanian, Michael;
Pezzuto, Iole;
Crippa, Stefania;
Nemir, Mohamed;
Sarre, Alexandre;
Johnson, Rory;
Dauvillier, Jérôme;
Burdet, Frédéric;
Ibberson, Mark;
Guigó, Roderic;
Xenarios, Ioannis;
Heymans, Stephane;
Pedrazzini, Thierry

Publication type:

Article

DECKO: Single-oligo, dual-CRISPR deletion of genomic elements including long non-coding RNAs.

Published in:

BMC Genomics, 2015, v. 16, p. 1, doi. 10.1186/s12864-015-2086-z

By:

Aparicio-Prat, Estel;
Arnan, Carme;
Sala, Ilaria;
Bosch, Núria;
Guigó, Roderic;
Johnson, Rory

Publication type:

Article

Gene Dysregulation in Huntington’s Disease: REST, MicroRNAs and Beyond.

Published in:

NeuroMolecular Medicine, 2009, v. 11, n. 3, p. 183, doi. 10.1007/s12017-009-8063-4

By:

Johnson, Rory;
Buckley, Noel

Publication type:

Article

Lessons from the functional characterization of lncRNAs: introduction to mammalian genome special issue.

Published in:

2022

By:

Maquat, Lynne;
Johnson, Rory;
Valadkhan, Saba;
Carninci, Piero

Publication type:

Editorial

Designing libraries for pooled CRISPR functional screens of long noncoding RNAs.

Published in:

Mammalian Genome, 2022, v. 33, n. 2, p. 312, doi. 10.1007/s00335-021-09918-9

By:

Pulido-Quetglas, Carlos;
Johnson, Rory

Publication type:

Article

Functional identification of cis-regulatory long noncoding RNAs at controlled false discovery rates.

Published in:

Nucleic Acids Research, 2024, v. 52, n. 6, p. 2821, doi. 10.1093/nar/gkae075

By:

Dhaka, Bhavya;
Zimmerli, Marc;
Hanhart, Daniel;
Moser, Mario B;
Guillen-Ramirez, Hugo;
Mishra, Sanat;
Esposito, Roberta;
Polidori, Taisia;
Widmer, Maro;
García-Pérez, Raquel;
Julio, Marianna Kruithof-de;
Pervouchine, Dmitri;
Melé, Marta;
Chouvardas, Panagiotis;
Johnson, Rory

Publication type:

Article

LnCompare: gene set feature analysis for human long non-coding RNAs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W523, doi. 10.1093/nar/gkz410

By:

Carlevaro-Fita, Joana;
Liu, Leibo;
Zhou, Yuan;
Zhang, Shan;
Chouvardas, Panagiotis;
Johnson, Rory;
Li, Jianwei

Publication type:

Article

GENCODE reference annotation for the human and mouse genomes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. D1, p. D766, doi. 10.1093/nar/gky955

By:

Frankish, Adam;
Diekhans, Mark;
Ferreira, Anne-Maud;
Johnson, Rory;
Jungreis, Irwin;
Loveland, Jane;
Mudge, Jonathan M;
Sisu, Cristina;
Wright, James;
Armstrong, Joel;
Barnes, If;
Berry, Andrew;
Bignell, Alexandra;
Carbonell Sala, Silvia;
Chrast, Jacqueline;
Cunningham, Fiona;
Di Domenico, Tomás;
Donaldson, Sarah;
Fiddes, Ian T;
García Girón, Carlos

Publication type:

Article

A transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification.

Published in:

Cardiovascular Research, 2023, v. 119, n. 6, p. 1361, doi. 10.1093/cvr/cvac191

By:

Plaisance, Isabelle;
Chouvardas, Panagiotis;
Sun, Yuliangzi;
Nemir, Mohamed;
Aghagolzadeh, Parisa;
Aminfar, Farhang;
Shen, Sophie;
Shim, Woo Jun;
Rochais, Francesca;
Johnson, Rory;
Palpant, Nathan;
Pedrazzini, Thierry

Publication type:

Article

Is REST a regulator of pluripotency?

Published in:

2009

By:

Buckley, Noel J.;
Johnson, Rory;
Sun, Yuh-Man;
Stanton, Lawrence W.

Publication type:

Letter

Is Evolutionary Conservation a Useful Predictor for Cancer Long Noncoding RNAs? Insights from the Cancer LncRNA Census 3.

Published in:

Non-Coding RNA, 2022, v. 8, n. 6, p. 82, doi. 10.3390/ncrna8060082

By:

Vancura, Adrienne;
Gutierrez, Alejandro H.;
Hennig, Thorben;
Pulido-Quetglas, Carlos;
Slack, Frank J.;
Johnson, Rory;
Haefliger, Simon

Publication type:

Article

Paired guide RNA CRISPR-Cas9 screening for protein-coding genes and lncRNAs involved in transdifferentiation of human B-cells to macrophages.

Published in:

BMC Genomics, 2022, v. 23, n. 1, p. 1, doi. 10.1186/s12864-022-08612-7

By:

Arnan, Carme;
Ullrich, Sebastian;
Pulido-Quetglas, Carlos;
Nurtdinov, Ramil;
Esteban, Alexandre;
Blanco-Fernandez, Joan;
Aparicio-Prat, Estel;
Johnson, Rory;
Pérez-Lluch, Sílvia;
Guigó, Roderic

Publication type:

Article

CASPR, an analysis pipeline for single and paired guide RNA CRISPR screens, reveals optimal target selection for long non-coding RNAs.

Published in:

Bioinformatics, 2020, v. 36, n. 6, p. 1673, doi. 10.1093/bioinformatics/btz811

By:

Bergadà-Pijuan, Judith;
Pulido-Quetglas, Carlos;
Vancura, Adrienne;
Johnson, Rory

Publication type:

Article

CASC11 and PVT1 spliced transcripts play an oncogenic role in colorectal carcinogenesis.

Published in:

Frontiers in Oncology, 2022, v. 12, p. 1, doi. 10.3389/fonc.2022.954634

By:

Zamani, Mina;
Foroughmand, Ali-Mohammad;
Hajjari, Mohammad-Reza;
Bakhshinejad, Babak;
Johnson, Rory;
Galehdari, Hamid

Publication type:

Article

Evolution of the Vertebrate Gene Regulatory Network Controlled by the Transcriptional Repressor REST.

Published in:

Molecular Biology & Evolution, 2009, v. 26, n. 7, p. 1491, doi. 10.1093/molbev/msp058

By:

Johnson, Rory;
Samuel, John;
Ng, Calista Keow Leng;
Jauch, Ralf;
Stanton, Lawrence W.;
Wood, Ian C.

Publication type:

Article

Identification of the REST regulon reveals extensive transposable element-mediated binding site duplication.

Published in:

Nucleic Acids Research, 2006, v. 34, n. 14, p. 3862, doi. 10.1093/nar/gkl525

By:

Johnson, Rory;
Gamblin, Richard J.;
Ooi, Lezanne;
Bruce, Alexander W.;
Donaldson, Ian J.;
Westhead, David R.;
Wood, Ian C.;
Jackson, Richard M.;
Buckley, Noel J.

Publication type:

Article

Human long non-coding RNAs promote pluripotency and neuronal differentiation by association with chromatin modifiers and transcription factors.

Published in:

EMBO Journal, 2012, v. 31, n. 3, p. 522, doi. 10.1038/emboj.2011.459

By:

Ng, Shi-Yan;
Johnson, Rory;
Stanton, Lawrence W

Publication type:

Article

A Genome-Wide Screen for Genetic Variants That Modify the Recruitment of REST to Its Target Genes.

Published in:

PLoS Genetics, 2012, v. 8, n. 4, p. 1, doi. 10.1371/journal.pgen.1002624

By:

Johnson, Rory;
Richter, Nadine;
Bogu, Gireesh K.;
Bhinge, Akshay;
Siaw Wei Teng;
Siew Hua Choo;
Andrieux, Lise O.;
de Benedictis, Cinzia;
Jauch, Ralf;
Stanton, Lawrence W.

Publication type:

Article

Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion.

Published in:

PLoS Computational Biology, 2017, v. 13, n. 3, p. 1, doi. 10.1371/journal.pcbi.1005341

By:

Pulido-Quetglas, Carlos;
Aparicio-Prat, Estel;
Arnan, Carme;
Polidori, Taisia;
Hermoso, Toni;
Palumbo, Emilio;
Ponomarenko, Julia;
Guigo, Roderic;
Johnson, Rory

Publication type:

Article