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Inhibition of Respiratory Syncytial Virus Infection by Small Non-Coding RNA Fragments.
Published in:
International Journal of Molecular Sciences, 2022, v. 23, n. 11, p. 5990, doi. 10.3390/ijms23115990
By:
- Pålsson, Sandra Axberg;
- Sekar, Vaishnovi;
- Kutter, Claudia;
- Friedländer, Marc R.;
- Spetz, Anna-Lena
Publication type:
Article
Malat1 affects transcription and splicing through distinct pathways in mouse embryonic stem cells.
Published in:
NAR Genomics & Bioinformatics, 2024, v. 6, n. 2, p. 1, doi. 10.1093/nargab/lqae045
By:
- Aslanzadeh, Morteza;
- Stanicek, Laura;
- Tarbier, Marcel;
- hez, Emilio Mármol-Sánc;
- Biryukova, Inna;
- Friedländer, Marc R.
Publication type:
Article
A combined approach for single-cell mRNA and intracellular protein expression analysis.
Published in:
Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-02142-w
By:
- Reimegård, Johan;
- Tarbier, Marcel;
- Danielsson, Marcus;
- Schuster, Jens;
- Baskaran, Sathishkumar;
- Panagiotou, Styliani;
- Dahl, Niklas;
- Friedländer, Marc R.;
- Gallant, Caroline J.
Publication type:
Article
Next-generation sequencing reveals two populations of damage-induced small RNAs at endogenous DNA double-strand breaks.
Published in:
Nucleic Acids Research, 2018, v. 46, n. 22, p. 11869, doi. 10.1093/nar/gky1107
By:
- Bonath, Franziska;
- Domingo-Prim, Judit;
- Tarbier, Marcel;
- Friedländer, Marc R;
- Visa, Neus
Publication type:
Article
Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery.
Published in:
Nucleic Acids Research, 2013, v. 41, n. 6, p. 3619, doi. 10.1093/nar/gkt072
By:
- Li, Na;
- You, Xintian;
- Chen, Tao;
- Mackowiak, Sebastian D.;
- Friedländer, Marc R.;
- Weigt, Martina;
- Du, Hang;
- Gogol-Döring, Andreas;
- Chang, Zisong;
- Dieterich, Christoph;
- Hu, Yuhui;
- Chen, Wei
Publication type:
Article
miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades.
Published in:
Nucleic Acids Research, 2012, v. 40, n. 1, p. 37, doi. 10.1093/nar/gkr688
By:
- Friedländer, Marc R.;
- Mackowiak, Sebastian D.;
- Na Li;
- Wei Chen;
- Rajewsky, Nikolaus
Publication type:
Article
Corrigendum: Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories.
Published in:
Nature Biotechnology, 2014, v. 32, n. 3, p. 291, doi. 10.1038/nbt0314-291a
By:
- C 't Hoen, Peter A;
- Friedländer, Marc R;
- Almlöf, Jonas;
- Sammeth, Michael;
- Pulyakhina, Irina;
- Anvar, Seyed Yahya;
- Laros, Jeroen F J;
- Buermans, Henk P J;
- Karlberg, Olof;
- Brännvall, Mathias
Publication type:
Article
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories.
Published in:
Nature Biotechnology, 2013, v. 31, n. 11, p. 1015, doi. 10.1038/nbt.2702
By:
- 't Hoen, Peter A C;
- Friedländer, Marc R;
- Almlöf, Jonas;
- Sammeth, Michael;
- Pulyakhina, Irina;
- Anvar, Seyed Yahya;
- Laros, Jeroen F J;
- Buermans, Henk P J;
- Karlberg, Olof;
- Brännvall, Mathias;
- van Ommen, Gert-Jan B;
- Estivill, Xavier;
- Guigó, Roderic;
- Syvänen, Ann-Christine;
- Gut, Ivo G;
- Dermitzakis, Emmanouil T;
- Antonarakis, Stylianos E;
- Brazma, Alvis;
- Flicek, Paul;
- Schreiber, Stefan
Publication type:
Article
Discovering microRNAs from deep sequencing data using miRDeep.
Published in:
Nature Biotechnology, 2008, v. 26, n. 4, p. 407, doi. 10.1038/nbt1394
By:
- Friedländer, Marc R.;
- Wei Chen;
- Adamidi, Catherine;
- Maaskola, Jonas;
- Einspanier, Ralf;
- Knespel, Signe;
- Rajewsky, Nikolaus
Publication type:
Article
Differential Impact of Glucose Administered Intravenously and Orally on Circulating miR-375 Levels in Human Subjects.
Published in:
2017
By:
- Yan, Xin;
- Wang, Zhen;
- Westberg-Rasmussen, Sidse;
- Tarbier, Marcel;
- Rathjen, Thomas;
- Tattikota, Sudhir G;
- Peck, Bailey C E;
- Kanke, Matt;
- Oxvig, Claus;
- Frystyk, Jan;
- Starup-Linde, Jakob;
- Sethupathy, Praveen;
- Friedländer, Marc R;
- Gregersen, Søren;
- Poy, Matthew N
Publication type:
journal article
Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression.
Published in:
Nature Methods, 2009, v. 6, n. 10, p. 745, doi. 10.1038/nmeth.1370
By:
- Stoeckius, Marlon;
- Maaskola, Jonas;
- Colombo, Teresa;
- Rahn, Hans-Peter;
- Friedländer, Marc R.;
- Na Li;
- Wei Chen;
- Piano, Fabio;
- Rajewsky, Nikolaus
Publication type:
Article
The SWI/SNF subunit BRG1 affects alternative splicing by changing RNA binding factor interactions with nascent RNA.
Published in:
Molecular Genetics & Genomics, 2022, v. 297, n. 2, p. 463, doi. 10.1007/s00438-022-01863-9
By:
- Gañez-Zapater, Antoni;
- Mackowiak, Sebastian D.;
- Guo, Yuan;
- Tarbier, Marcel;
- Jordán-Pla, Antonio;
- Friedländer, Marc R.;
- Visa, Neus;
- Östlund Farrants, Ann-Kristin
Publication type:
Article
EXOSC10 is required for RPA assembly and controlled DNA end resection at DNA double-strand breaks.
Published in:
Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-10153-9
By:
- Domingo-Prim, Judit;
- Endara-Coll, Martin;
- Bonath, Franziska;
- Jimeno, Sonia;
- Prados-Carvajal, Rosario;
- Friedländer, Marc R.;
- Huertas, Pablo;
- Visa, Neus
Publication type:
Article
The Circulating Transcriptome as a Source of Biomarkers for Melanoma.
Published in:
Cancers, 2019, v. 11, n. 1, p. 70, doi. 10.3390/cancers11010070
By:
- Solé, Carla;
- Tramonti, Daniela;
- Schramm, Maike;
- Goicoechea, Ibai;
- Armesto, María;
- Hernandez, Luiza I.;
- Manterola, Lorea;
- Fernandez-Mercado, Marta;
- Mujika, Karmele;
- Tuneu, Anna;
- Jaka, Ane;
- Tellaetxe, Maitena;
- Friedländer, Marc R.;
- Estivill, Xavier;
- Piazza, Paolo;
- Ortiz-Romero, Pablo L.;
- Middleton, Mark R.;
- Lawrie, Charles H.
Publication type:
Article
Evidence for the biogenesis of more than 1,000 novel human microRNAs.
Published in:
Genome Biology, 2014, v. 15, n. 4, p. 1, doi. 10.1186/gb-2014-15-4-r57
By:
- Friedländer, Marc R.;
- Lizano, Esther;
- Houben, Anna J. S.;
- Bezdan, Daniela;
- Báñez-Coronel, Mónica;
- Kudla, Grzegorz;
- Mateu-Huertas, Elisabet;
- Kagerbauer, Birgit;
- González, Justo;
- Chen, Kevin C.;
- LeProust, Emily M.;
- Martí, Eulàlia;
- Estivill, Xavier
Publication type:
Article
Environmental Enrichment Induces Epigenomic and Genome Organization Changes Relevant for Cognition.
Published in:
Frontiers in Molecular Neuroscience, 2021, v. 13, p. N.PAG, doi. 10.3389/fnmol.2021.664912
By:
- Espeso-Gil, Sergio;
- Holik, Aliaksei Z.;
- Bonnin, Sarah;
- Jhanwar, Shalu;
- Chandrasekaran, Sandhya;
- Pique-Regi, Roger;
- Albaigès-Ràfols, Júlia;
- Maher, Michael;
- Permanyer, Jon;
- Irimia, Manuel;
- Friedländer, Marc R.;
- Pons-Espinal, Meritxell;
- Akbarian, Schahram;
- Dierssen, Mara;
- Maass, Philipp G.;
- Hor, Charlotte N.;
- Ossowski, Stephan
Publication type:
Article
Detection of transcriptome-wide microRNA–target interactions in single cells with agoTRIBE.
Published in:
Nature Biotechnology, 2024, v. 42, n. 8, p. 1296, doi. 10.1038/s41587-023-01951-0
By:
- Sekar, Vaishnovi;
- Mármol-Sánchez, Emilio;
- Kalogeropoulos, Panagiotis;
- Stanicek, Laura;
- Sagredo, Eduardo A.;
- Widmark, Albin;
- Doukoumopoulos, Evangelos;
- Bonath, Franziska;
- Biryukova, Inna;
- Friedländer, Marc R.
Publication type:
Article
Transcriptome and genome sequencing uncovers functional variation in humans.
Published in:
Nature, 2013, v. 501, n. 7468, p. 506, doi. 10.1038/nature12531
By:
- Lappalainen, Tuuli;
- Sammeth, Michael;
- Friedländer, Marc R.;
- 't Hoen, Peter A. C.;
- Monlong, Jean;
- Rivas, Manuel A.;
- Gonzàlez-Porta, Mar;
- Kurbatova, Natalja;
- Griebel, Thasso;
- Ferreira, Pedro G.;
- Barann, Matthias;
- Wieland, Thomas;
- Greger, Liliana;
- van Iterson, Maarten;
- Almlöf, Jonas;
- Ribeca, Paolo;
- Pulyakhina, Irina;
- Esser, Daniela;
- Giger, Thomas;
- Tikhonov, Andrew
Publication type:
Article
Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity.
Published in:
Nucleic Acids Research, 2024, v. 52, n. 6, p. 3121, doi. 10.1093/nar/gkae109
By:
- Edelbroek, Bart;
- Kjellin, Jonas;
- Biryukova, Inna;
- Liao, Zhen;
- Lundberg, Torgny;
- Noegel, Angelika A;
- Eichinger, Ludwig;
- Friedländer, Marc R;
- Söderbom, Fredrik
Publication type:
Article
MirGeneDB 2.1: toward a complete sampling of all major animal phyla.
Published in:
Nucleic Acids Research, 2022, v. 50, n. D1, p. D204, doi. 10.1093/nar/gkab1101
By:
- Fromm, Bastian;
- Høye, Eirik;
- Domanska, Diana;
- Zhong, Xiangfu;
- Aparicio-Puerta, Ernesto;
- Ovchinnikov, Vladimir;
- Umu, Sinan U;
- Chabot, Peter J;
- Kang, Wenjing;
- Aslanzadeh, Morteza;
- Tarbier, Marcel;
- Mármol-Sánchez, Emilio;
- Urgese, Gianvito;
- Johansen, Morten;
- Hovig, Eivind;
- Hackenberg, Michael;
- Friedländer, Marc R;
- Peterson, Kevin J
Publication type:
Article
MirGeneDB 2.0: the metazoan microRNA complement.
Published in:
Nucleic Acids Research, 2020, v. 48, n. D1, p. D132, doi. 10.1093/nar/gkz885
By:
- Fromm, Bastian;
- Domanska, Diana;
- Høye, Eirik;
- Ovchinnikov, Vladimir;
- Kang, Wenjing;
- Aparicio-Puerta, Ernesto;
- Johansen, Morten;
- Flatmark, Kjersti;
- Mathelier, Anthony;
- Hovig, Eivind;
- Hackenberg, Michael;
- Friedländer, Marc R;
- Peterson, Kevin J
Publication type:
Article
MirGeneDB 2.0: the metazoan microRNA complement.
Published in:
Nucleic Acids Research, 2020, v. 48, n. D1, p. D1172, doi. 10.1093/nar/gkz1016
By:
- Fromm, Bastian;
- Domanska, Diana;
- Høye, Eirik;
- Ovchinnikov, Vladimir;
- Kang, Wenjing;
- Aparicio-Puerta, Ernesto;
- Johansen, Morten;
- Flatmark, Kjersti;
- Mathelier, Anthony;
- Hovig, Eivind;
- Hackenberg, Michael;
- Friedländer, Marc R;
- Peterson, Kevin J
Publication type:
Article
Evolutionary Implications of the microRNA- and piRNA Complement of Lepidodermella squamata (Gastrotricha).
Published in:
Non-Coding RNA, 2019, v. 5, n. 1, p. 1, doi. 10.3390/ncrna5010019
By:
- Fromm, Bastian;
- Tosar, Juan Pablo;
- Aguilera, Felipe;
- Friedländer, Marc R.;
- Bachmann, Lutz;
- Hejnol, Andreas
Publication type:
Article
miRTrace reveals the organismal origins of microRNA sequencing data.
Published in:
Genome Biology, 2018, v. 19, n. 1, p. N.PAG, doi. 10.1186/s13059-018-1588-9
By:
- Kang, Wenjing;
- Eldfjell, Yrin;
- Fromm, Bastian;
- Estivill, Xavier;
- Biryukova, Inna;
- Friedländer, Marc R.
Publication type:
Article
Characterisation of novel microRNAs in the Black flying fox (Pteropus alecto) by deep sequencing.
Published in:
BMC Genomics, 2014, v. 15, n. 1, p. 682, doi. 10.1186/1471-2164-15-682
By:
- Cowled, Christopher;
- Stewart, Cameron R;
- Likic, Vladimir A;
- Friedländer, Marc R;
- Tachedjian, Mary;
- Jenkins, Kristie A;
- Tizard, Mark L;
- Cottee, Pauline;
- Marsh, Glenn A;
- Peng Zhou;
- Baker, Michelle L;
- Bean, Andrew G;
- Lin-fa Wang
Publication type:
Article
Deciphering the porcine intestinal microRNA transcriptome.
Published in:
BMC Genomics, 2010, v. 11, p. 275, doi. 10.1186/1471-2164-11-275
By:
- Sharbati, Soroush;
- Friedländer, Marc R.;
- Sharbati, Jutta;
- Hoeke, Lena;
- Wei Chen;
- Keller, Andreas;
- Stähler, Peer F.;
- Rajewsky, Nikolaus;
- Einspanier, Ralf
Publication type:
Article
Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API.
Published in:
Bioinformatics, 2020, v. 36, n. 3, p. 698, doi. 10.1093/bioinformatics/btz675
By:
- Desvignes, Thomas;
- Loher, Phillipe;
- Eilbeck, Karen;
- Ma, Jeffery;
- Urgese, Gianvito;
- Fromm, Bastian;
- Sydes, Jason;
- Aparicio-Puerta, Ernesto;
- Barrera, Victor;
- Espín, Roderic;
- Thibord, Florian;
- Ros, Xavier Bofill-De;
- Londin, Eric;
- Telonis, Aristeidis G;
- Ficarra, Elisa;
- Friedländer, Marc R;
- Postlethwait, John H;
- Rigoutsos, Isidore;
- Hackenberg, Michael;
- Vlachos, Ioannis S
Publication type:
Article
Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis.
Published in:
Bioinformatics, 2016, v. 32, n. 5, p. 673, doi. 10.1093/bioinformatics/btv632
By:
- Pantano, Lorena;
- Friedländer, Marc R.;
- Escaramís, Georgia;
- Lizano, Esther;
- Pallarès-Albanell, Joan;
- Ferrer, Isidre;
- Estivill, Xavier;
- Martí, Eulàlia
Publication type:
Article
Nuclear gene proximity and protein interactions shape transcript covariations in mammalian single cells.
Published in:
Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-19011-5
By:
- Tarbier, Marcel;
- Mackowiak, Sebastian D.;
- Frade, João;
- Catuara-Solarz, Silvina;
- Biryukova, Inna;
- Gelali, Eleni;
- Menéndez, Diego Bárcena;
- Zapata, Luis;
- Ossowski, Stephan;
- Bienko, Magda;
- Gallant, Caroline J.;
- Friedländer, Marc R.
Publication type:
Article

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