Kang W; Fromm B; Houben AJ; Høye E; Bezdan D; Arnan C; Thrane K; Asp M; Johnson R; Biryukova I; Friedländer MR, 2021. MapToCleave: High-throughput profiling of microRNA biogenesis in living cells. Cell Rep 37(7):110015
Reimegård J; Tarbier M; Danielsson M; Schuster J; Baskaran S; Panagiotou S; Dahl N; Friedländer MR; Gallant CJ, 2021. A combined approach for single-cell mRNA and intracellular protein expression analysis. Commun Biol 4(1):624
Espeso-Gil S; Holik AZ; Bonnin S; Jhanwar S; Chandrasekaran S; Pique-Regi R; Albaigès-Ràfols J; Maher M; Permanyer J; Irimia M; Friedländer MR; Pons-Espinal M; Akbarian S; Dierssen M; Maass PG; Hor CN; Ossowski S, 2021. Environmental Enrichment Induces Epigenomic and Genome Organization Changes Relevant for Cognition. Front Mol Neurosci 14:664912
Malkani S; Chin CR; Cekanaviciute E; Mortreux M; Okinula H; Tarbier M; Schreurs AS; Shirazi-Fard Y; Tahimic CGT; Rodriguez DN; Sexton BS; Butler D; Verma A; Bezdan D; Durmaz C; MacKay M; Melnick A; Meydan C; Li S; Garrett-Bakelman F; Fromm B; Afshinnekoo E; Langhorst BW; Dimalanta ET; Cheng-Campbell M; Blaber E; Schisler JC; Vanderburg C; Friedländer MR; McDonald JT; Costes SV; Rutkove S; Grabham P; Mason CE; Beheshti A, 2020. Circulating miRNA Spaceflight Signature Reveals Targets for Countermeasure Development. Cell Rep 33(10):108448
Tarbier M; Mackowiak SD; Frade J; Catuara-Solarz S; Biryukova I; Gelali E; Menéndez DB; Zapata L; Ossowski S; Bienko M; Gallant CJ; Friedländer MR, 2020. Nuclear gene proximity and protein interactions shape transcript covariations in mammalian single cells. Nat Commun 11(1):5445
Mozūraitis R; Hajkazemian M; Zawada JW; Szymczak J; Pålsson K; Sekar V; Biryukova I; Friedländer MR; Koekemoer LL; Baird JK; Borg-Karlson AK; Emami SN, 2020. Male swarming aggregation pheromones increase female attraction and mating success among multiple African malaria vector mosquito species. Nat Ecol Evol 4(10):1395-1401
Fromm B; Keller A; Yang X; Friedlander MR; Peterson KJ; Griffiths-Jones S, 2020. Quo vadis microRNAs? Trends Genet 36(7):461-463
Baronti L; Guzzetti I; Ebrahimi P; Friebe Sandoz S; Steiner E; Schlagnitweit J; Fromm B; Silva L; Fontana C; Chen AA; Petzold K, 2020. Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA. Nature 583(7814):139-144
Fromm B; Domanska D; Høye E; Ovchinnikov V; Kang W; Aparicio-Puerta E; Johansen M; Flatmark K; Mathelier A; Hovig E; Hackenberg M; Friedländer MR; Peterson KJ, 2020. MirGeneDB 2.0: the metazoan microRNA complement. Nucleic Acids Res 48(D1):D132-D141
Desvignes T; Loher P; Eilbeck K; Ma J; Urgese G; Fromm B; Sydes J; Aparicio-Puerta E; Barrera V; Espín R; Thibord F; Bofill-De Ros X; Londin E; Telonis AG; Ficarra E; Friedländer MR; Postlethwait JH; Rigoutsos I; Hackenberg M; Vlachos IS; Halushka MK; Pantano L, 2020. Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API. Bioinformatics 36(3):698-703
Fromm B; Kang W; Rovira C; Cayota A; Witwer K; Friedländer MR; Tosar JP, 2019. Plant microRNAs in human sera are likely contaminants. J Nutr Biochem 65:139-140
Solé C; Tramonti D; Schramm M; Goicoechea I; Armesto M; Hernandez LI; Manterola L; Fernandez-Mercado M; Mujika K; Tuneu A; Jaka A; Tellaetxe M; Friedländer MR; Estivill X; Piazza P; Ortiz-Romero PL; Middleton MR; Lawrie CH, 2019. The Circulating Transcriptome as a Source of Biomarkers for Melanoma. Cancers (Basel) 11.
Fromm B; Tosar JP; Aguilera F; Friedländer MR; Bachmann L; Hejnol A, 2019. Evolutionary Implications of the microRNA- and piRNA Complement of Lepidodermella squamata (Gastrotricha). Noncoding RNA 5.
Masser AE; Kang W; Roy J; Mohanakrishnan Kaimal J; Quintana-Cordero J; Friedländer MR; Andréasson C, 2019. Cytoplasmic protein misfolding titrates Hsp70 to activate nuclear Hsf1. Elife 8.
Domingo-Prim J; Endara-Coll M; Bonath F; Jimeno S; Prados-Carvajal R; Friedländer MR; Huertas P; Visa N, 2019. EXOSC10 is required for RPA assembly and controlled DNA end resection at DNA double-strand breaks. Nat Commun 10(1):2135
Hansen EP; Fromm B; Andersen SD; Marcilla A; Andersen KL; Borup A; Williams AR; Jex AR; Gasser RB; Young ND; Hall RS; Stensballe A; Ovchinnikov V; Yan Y; Fredholm M; Thamsborg SM; Nejsum P, 2019. Exploration of extracellular vesicles from Ascaris suum provides evidence of parasite-host cross talk. J Extracell Vesicles 8(1):1578116
Kang W; Eldfjell Y; Fromm B; Estivill X; Biryukova I; Friedländer MR, 2018. miRTrace reveals the organismal origins of microRNA sequencing data. Genome Biol 19(1):213
Bonath F; Domingo-Prim J; Tarbier M; Friedländer MR; Visa N, 2018. Next-generation sequencing reveals two populations of damage-induced small RNAs at endogenous DNA double-strand breaks. Nucleic Acids Research
Yan X; Wang Z; Bishop CA; Weitkunat K; Feng X; Tarbier M; Luo J; Friedländer MR; Burkhardt R; Klaus S; Willnow TE; Poy MN, 2018. Control of hepatic gluconeogenesis by Argonaute2. Mol Metab 18:15-24
Bråte J; Neumann RS; Fromm B; Haraldsen AAB; Tarver JE; Suga H; Donoghue PCJ; Peterson KJ; Ruiz-Trillo I; Grini PE; Shalchian-Tabrizi K, 2018. Unicellular Origin of the Animal MicroRNA Machinery. Curr Biol 28(20):3288-3295.e5
Fromm B; Kang W; Rovira C; Cayota A; Witwer K; Friedländer MR; Tosar JP, 2018. Plant microRNAs in human sera are likely contaminants. J Nutr Biochem.
Bhambri A; Dhaunta N; Patel SS; Hardikar M; Bhatt A; Srikakulam N; Shridhar S; Vellarikkal S; Pandey R; Jayarajan R; Verma A; Kumar V; Gautam P; Khanna Y; Khan JA; Fromm B; Peterson KJ; Scaria V; Sivasubbu S; Pillai B, 2018. Large scale changes in the transcriptome of Eisenia fetida during regeneration. PLoS One 13(9):e0204234
Langlet F; Tarbier M; Haeusler RA; Camastra S; Ferrannini E; Friedländer MR; Accili D, 2018. microRNA-205-5p is a modulator of insulin sensitivity that inhibits FOXO function. Mol Metab 17:49-60
Zapata L; Susak H; Drechsel O; Friedländer MR; Estivill X; Ossowski S, 2017. Signatures of positive selection reveal a universal role of chromatin modifiers as cancer driver genes. Sci Rep 7(1):13124
Yan X; Wang Z; Westberg-Rasmussen S; Tarbier M; Rathjen T; Tattikota SG; Peck BCE; Kanke M; Oxvig C; Frystyk J; Starup-Linde J; Sethupathy P; Friedländer MR; Gregersen S; Poy MN, 2017. Differential Impact of Glucose Administered Intravenously and Orally on Circulating miR-375 Levels in Human Subjects. J Clin Endocrinol Metab 102(10):3749-3755
Bustamante M, Hernandez-Ferrer C, Sarria Y, Harrison GI, Nonell L, Kang W, Friedländer MR, Estivill X, González JR, Nieuwenhuijsen M, Young AR (2017), ‘The acute effects of ultraviolet radiation on the blood transcriptome are independent of plasma 25OHD3’, Environ Res., 159:239-248.
Nejedla M, Li Z, Masser AE, Biancospino M, Spiess M, Mackowiak SD, Friedländer MR, Karlsson R (2017), ‘A Fluorophore Fusion Construct of Human Profilin I with Non-Compromised Poly(L-Proline) Binding Capacity Suitable for Imaging’, J Mol Biol., 429(7):964-976.
Kang W, Bang-Berthelsen CH, Holm A, Houben AJ, Müller AH, Thymann T, Pociot F, Estivill X, Friedländer MR (2017), ‘Survey of 800+ data sets from human tissue and body fluid reveals xenomiRs are likely artifacts’, RNA, 23(4):433-445.
Ferreira PG, Oti M, Barann M, Wieland T, Ezquina S, Friedländer MR, Rivas MA, Esteve-Codina A; GEUVADIS Consortium, Rosenstiel P, Strom TM, Lappalainen T, Guigó R, Sammeth M (2016), ‘Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing’, Sci Rep., 6:32406.
Gowda NK, Kaimal JM, Masser AE, Kang W, Friedländer MR, Andréasson C (2016), ‘Cytosolic splice isoform of Hsp70 nucleotide exchange factor Fes1 is required for the degradation of misfolded proteins in yeast’, Mol Biol Cell, 27(8):1210-9.
Sand M, Bechara FG, Gambichler T, Sand D, Friedländer MR, Bromba M, Schnabel R, Hessam S (2016), ‘Next-generation sequencing of the basal cell carcinoma miRNome and a description of novel microRNA candidates under neoadjuvant vismodegib therapy: an integrative molecular and surgical case study’, Ann Oncol., 27(2):332-8.
Pantano L, Friedländer MR, Escaramís G, Lizano E, Pallarès-Albanell J, Ferrer I, Estivill X, Martí E (2016), ‘Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis’, Bioinformatics, 32(5):673-81.
Tattikota SG, Rathjen T, Hausser J, Khedkar A, Kabra UD, Pandey V, Sury M, Wessels HH, Mollet IG, Eliasson L, Selbach M, Zinzen RP, Zavolan M, Kadener S, Tschöp MH, Jastroch M, Friedländer MR, Poy MN (2015), ‘miR-184 Regulates Pancreatic β-Cell Function According to Glucose Metabolism’, J Biol Chem., 290(33):20284-94.
Rivas MA, Pirinen M, Conrad DF, Lek M, Tsang EK, Karczewski KJ, Maller JB, Kukurba KR, DeLuca DS, Fromer M, Ferreira PG, Smith KS, Zhang R, Zhao F, Banks E, Poplin R, Ruderfer DM, Purcell SM, Tukiainen T, Minikel EV, Stenson PD, Cooper DN, Huang KH, Sullivan TJ, Nedzel J; GTEx Consortium; Geuvadis Consortium, Bustamante CD, Li JB, Daly MJ, Guigo R, Donnelly P, Ardlie K, Sammeth M, Dermitzakis ET, McCarthy MI, Montgomery SB, Lappalainen T, MacArthur DG (2015), ‘Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome’, Science, 348(6235):666-9.
Kang W, Friedländer MR (2015), ‘Computational Prediction of miRNA Genes from Small RNA Sequencing Data’, Front Bioeng Biotechnol., 3:7.
Greger L, Su J, Rung J, Ferreira PG; Geuvadis consortium, Lappalainen T, Dermitzakis ET, Brazma A (2014), ‘Tandem RNA chimeras contribute to transcriptome diversity in human population and are associated with intronic genetic variants.’, PLoS One, 9(8):e104567.
Cowled C, Stewart CR, Likic VA, Friedländer MR, Tachedjian M, Jenkins KA, Tizard ML, Cottee P, Marsh GA, Zhou P, Baker ML, Bean AG, Wang LF (2014), ‘Characterisation of novel microRNAs in the Black flying fox (Pteropus alecto) by deep sequencing’, BMC Genomics, 15:682.
Friedländer, MR. Lizano, E. Houben, A. Bezdan, D. Bañez-Coronel, M. Kudla, G. Mateu-Huertas, E. Kagerbauer, B. González, J. Chen, KC. LeProust, EM. Martí, E. Estivill, X. (2014) Evidence for the biogenesis of more than 1,000 novel human microRNAs, Genome Biology, advance access, 15:R57.
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Alvarez-Mora, MI. Rodriguez-Revenga, L. Madrigal, I. Torres-Silva, F. Mateu-Huertas, E. Lizano, E. Friedländer, MR. Mart,í E. Estivill, X. Milà, M.,(2013), MicroRNA expression profiling in blood from fragile X-associated tremor/ataxia syndrome patients, Genes Brain Behavior, 12(6):595-603.
Miñones-Moyano, E. Friedländer, MR. Kagerbauer, B. Porta, S. Escaramís, G. Ferrer, I. Estivill, X. Martí, E., (2013)., Upregulation of a small vault RNA (svRNA2-1a) is an early event in Parkinson’s disease and induces neuronal dysfunction, RNA Biology, 10(7):1093-106.
Li, N. You, X. Chen, T. Mackowiak, SD. Friedländer, MR. Weigt, M. Du, H. Gogol-Döring, Hu T. Chen, W., (2013), Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery, Nucleic Acids Research, 41(6):3619-34.
Friedländer, MR. Mackowiak, SD. Li, N. Chen, W. Rajewsky, N. (2012)., miRDeep2 accurately identifies known and hundreds of novel miRNAs in seven animal clades, Nucleic Acids Research, 40(1):37-52.
Song, JL. Stoeckius, M. Maaskola, J. Friedländer, MR. Juliano, C. Lebedeva, S. Thompson, W. Rajewsky, N. Wessel, G. (2012), Select microRNAs are essential for early development in the sea urchin, Developmental Biology, 362(1):104-13.
Sharbati, S. Friedländer, MR. Sharbati, J. Hoeke, L. Chen, W. Keller, A. Stähler, PF. Rajewsky, N. Einspanier R, (2010), Deciphering the porcine intestinal microRNA transcriptome, BMC Genomics, 11:275.
Stoeckius, M. Maaskola, J. Colombo, T. Rahn, HP. Friedländer, MR. Li, N. Chen, W. Piano, F. Rajewsky, N. (2009), Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression, Nature Methods, 6(10):745-51.
Friedländer, MR. Adamidi, C. Han, T. Lebedeva, S. Isenbarger, T. Hirst, M. Marra, M. Nusbaum, C. Lee, WL. Jenkin, JC. Sánchez Alvarado A, Kim, JK. Rajewsky, N. High-resolution profiling and discovery of planarian small RNAs, (2009), Proceedings of the National Academy of Science, 106(28):11546-51.
Ender, C. Krek, A. Friedländer, MR. Beitzinger, M. Weinmann, L. Chen, W. Pfeffer, S. Rajewsky, N. Meister, G. (2008), A human snoRNA with microRNA-like functions, Molecular Cell, 32(4):519-28.
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