2019

Boettcher M, Covarrubias S, Biton A, Blau J, Wang H, Zaitlen N, et al. Tracing cellular heterogeneity in pooled genetic screens via multi-level barcoding.. Vol 20.; 2019. (BMC Genomics; vol 20; no 1).

2018

Bulut-Karslioglu A, Macrae TA, Oses-Prieto JA, Covarrubias S, Percharde M, Ku G, et al. The Transcriptionally Permissive Chromatin State of Embryonic Stem Cells Is Acutely Tuned to Translational Output.. Vol 22.; 2018. (Cell Stem Cell; vol 22; no 3).
Elling R, Robinson EK, Shapleigh B, Liapis SC, Covarrubias S, Katzman S, et al. Genetic Models Reveal cis and trans Immune-Regulatory Activities for lincRNA-Cox2.. Vol 25.; 2018. (Cell Rep; vol 25; no 6).
Oprea TI, Bologa CG, Brunak S, Campbell A, Gan GN, Gaulton A, et al. Unexplored therapeutic opportunities in the human genome..; 2018. (Nat Rev Drug Discov).
Lu Y, Cao J, Napoli M, Xia Z, Zhao N, Creighton CJ, et al. MiR-205 Regulates Basal Cell Identity and Stem Cell Regenerative Potential during Mammary Reconstitution..; 2018. (Stem Cells).
Jee D, Yang J-, Park S-, Farmer D', Wen J, Chou T, et al. Dual Strategies for Argonaute2-Mediated Biogenesis of Erythroid miRNAs Underlie Conserved Requirements for Slicing in Mammals.. Vol 69.; 2018. (Mol Cell; vol 69; no 2).
Lee J, Pappalardo Z, Chopra DG, Hennings TG, Vaughn I, Lan C, et al. A genetic interaction map of insulin production identifies Mfi as an inhibitor of mitochondrial fission..; 2018. (Endocrinology).
Boettcher M, Tian R, Blau JA, Markegard E, Wagner RT, Wu D, et al. Dual gene activation and knockout screen reveals directional dependencies in genetic networks..; 2018. (Nat Biotechnol).
Tromp AT, Van Gent M, Abrial P, Martin A, Jansen JP, De Haas CJ, et al. Human CD45 is an F-component-specific receptor for the staphylococcal toxin Panton-Valentine leukocidin..; 2018. (Nat Microbiol).
Shang W, Jiang Y, Boettcher M, Ding K, Mollenauer M, Liu Z, et al. Genome-wide CRISPR screen identifies FAM49B as a key regulator of actin dynamics and T cell activation..; 2018. (Proc Natl Acad Sci USA).
Oprea TI, Jan L, Johnson GL, Roth BL, Ma'ayan A, Schürer S, et al. Far away from the lamppost.. Vol 16.; 2018. (PLoS Biol; vol 16; no 12).

2017

Pappalardo Z, Chopra DG, Hennings TG, Richards H, Choe J, Yang K, et al. A Whole Genome RNA Interference Screen Reveals a Role for Spry2 in Insulin Transcription and the Unfolded Protein Response..; 2017. (Diabetes).
Farmer D', Nathan S, Finley JK, Yu KS, Emmerson E, Byrnes LE, et al. Defining epithelial cell dynamics and lineage relationships in the developing lacrimal gland.. Vol 144.; 2017. (Development; vol 144; no 13).
Farmer D', Finley JK, Chen FY, Tarifeño-Saldivia E, McNamara NA, Knox SM, et al. miR-205 is a critical regulator of lacrimal gland development..; 2017. (Dev Biol).
Inoue F, Kircher M, Martin B, Cooper GM, Witten DM, McManus MT, et al. A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity.. Vol 27.; 2017. (Genome Res; vol 27; no 1).
Hangauer MJ, Viswanathan VS, Ryan MJ, Bole D, Eaton JK, Matov A, et al. Drug-tolerant persister cancer cells are vulnerable to GPX4 inhibition..; 2017. (Nature).
Farmer D', McManus MT. MicroRNAs in ectodermal appendages.. Vol 43.; 2017. (Curr Opin Genet Dev; vol 43).
Covarrubias S, Robinson EK, Shapleigh B, Vollmers A, Katzman S, Hanley N, et al. CRISPR/Cas9-based screening of long noncoding RNAs (lncRNAs) in macrophages with an NF-kappa B reporter..; 2017. (J Biol Chem).

2016

Gerhard DS, Clemons PA, Shamji AF, Hon C, Wagner BK, Schreiber SL, et al. Transforming Big Data into cancer-relevant insight: An initial, multi-tier approach to assess reproducibility and relevance..; 2016. (Mol Cancer Res).
Pua HH, Steiner DF, Patel S, Gonzalez JR, Ortiz-Carpena JF, Kageyama R, et al. MicroRNAs 24 and 27 Suppress Allergic Inflammation and Target a Network of Regulators of T Helper 2 Cell-Associated Cytokine Production..; 2016. (Immunity).
Horiuchi D, Camarda R, Zhou AY, Yau C, Momcilovic O, Balakrishnan S, et al. PIM1 kinase inhibition as a targeted therapy against triple-negative breast tumors with elevated MYC expression.. Vol 22.; 2016. (Nat Med; vol 22; no 11).

2015

Boettcher M, McManus MT. Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR.. Vol 58.; 2015. (Mol Cell; vol 58; no 4).
Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, et al. Integrative analysis of 111 reference human epigenomes.. Vol 518.; 2015. (Nature; vol 518; no 7539).
Gascard P, Bilenky M, Sigaroudinia M, Zhao J, Li L, Carles A, et al. Epigenetic and transcriptional determinants of the human breast.. Vol 6.; 2015. (Nat Commun; vol 6).
Patton JG, Franklin JL, Weaver AM, Vickers K, Zhang B, Coffey RJ, et al. Biogenesis, delivery, and function of extracellular RNA.. Vol 4.; 2015. (J Extracell Vesicles; vol 4).
Khan IS, Park CY, Mavropoulos A, Shariat N, Pollack JL, Barczak AJ, et al. Identification of MiR-205 As a MicroRNA That Is Highly Expressed in Medullary Thymic Epithelial Cells.. Vol 10.; 2015. (PLoS ONE; vol 10; no 8).

2014

Wang H, Flach H, Onizawa M, Wei L, McManus MT, Weiss A. Negative regulation of Hif1a expression and TH17 differentiation by the hypoxia-regulated microRNA miR-210..; 2014. (Nat Immunol).
van de Weijer ML, Bassik MC, Luteijn RD, Voorburg CM, Lohuis MA, Kremmer E, et al. A high-coverage shRNA screen identifies TMEM129 as an E3 ligase involved in ER-associated protein degradation.. Vol 5.; 2014. (Nat Commun; vol 5).
Mattis AN, Song G, Hitchner K, Kim RY, Lee AY, Sharma AD, et al. A screen in mice uncovers repression of lipoprotein lipase by microRNA-29a as a mechanism for lipid distribution away from the liver..; 2014. (Hepatology).
Morris JP, Greer R, Russ HA, von Figura G, Kim GE, Busch A, et al. Dicer Regulates Differentiation and Viability during Mouse Pancreatic Cancer Initiation.. Vol 9.; 2014. (PLoS ONE; vol 9; no 5).
Qin H, Diaz A, Blouin L, Lebbink RJ, Patena W, Tanbun P, et al. Systematic Identification of Barriers to Human iPSC Generation.. Vol 158.; 2014. (Cell; vol 158; no 2).
Greiner VJ, Manin C, Larquet E, Ikhelef N, Gréco F, Naville S, et al. Characterization of the structural modifications accompanying the loss of HBsAg particle immunogenicity.. Vol 32.; 2014. (Vaccine; vol 32; no 9).
Zhao W, Pollack JL, Blagev DP, Zaitlen N, McManus MT, Erle DJ. Massively parallel functional annotation of 3' untranslated regions..; 2014. (Nat Biotechnol).
Hangauer MJ, Carpenter S, McManus MT. Discovering the complexity of the metazoan transcriptome.. Vol 15.; 2014. (Genome Biol; vol 15; no 4).

2013

Hangauer MJ, Vaughn IW, McManus MT. Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs.. Vol 9.; 2013. (PLoS Genet; vol 9; no 6).
Blau JA, McManus MT. Renewable RNAi. Nat Biotechnol. 2013;31(4):319-20.
Hangauer MJ, Vaughn IW, McManus MT. Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs. PLoS Genet. 2013;9(6):e1003569.
Cao H, Jheon A, Li X, Sun Z, Wang J, Florez S, et al. The Pitx2:miR-200c/141:noggin pathway regulates Bmp signaling and ameloblast differentiation. Development. 2013;140(16):3348-59.
Farmer D', Shariat N, Park CY, Liu HJ, Mavropoulos A, McManus MT. Partially Penetrant Postnatal Lethality of an Epithelial Specific MicroRNA in a Mouse Knockout. PLoS ONE. 2013;8(10):e76634.
Bronevetsky Y, Villarino AV, Eisley CJ, Barbeau R, Barczak AJ, Heinz GA, et al. T cell activation induces proteasomal degradation of Argonaute and rapid remodeling of the microRNA repertoire. J Exp Med. 2013;210(2):417-32.
Matheny CJ, Wei MC, Bassik MC, Donnelly AJ, Kampmann M, Iwasaki M, et al. Next-Generation NAMPT Inhibitors Identified by Sequential High-Throughput Phenotypic Chemical and Functional Genomic Screens. Chem Biol. 2013;20(11):1352-63.
Bassik MC, Kampmann M, Lebbink RJ, Wang S, Hein MY, Poser I, et al. A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility. Cell. 2013;152(4):909-22.

2012

Ku GM, Kim H, Vaughn IW, Hangauer MJ, Oh CM, German MS, et al. Research resource: RNA-Seq reveals unique features of the pancreatic β-cell transcriptome.. Vol 26.; 2012. (Mol Endocrinol; vol 26; no 10).
Greiner VJ, Ronzon F, Larquet E, Desbat B, Estèves C, Bonvin J, et al. The structure of HBsAg particles is not modified upon their adsorption on aluminium hydroxide gel.. Vol 30.; 2012. (Vaccine; vol 30; no 35).
Repetto E, Briata P, Kuziner N, Harfe BD, McManus MT, Gherzi R, et al. Let-7b/c enhance the stability of a tissue-specific mRNA during mammalian organogenesis as part of a feedback loop involving KSRP. PLoS Genet. 2012;8(7):e1002823.
Ku GM, Pappalardo Z, Luo CC, German MS, McManus MT. An siRNA screen in pancreatic beta cells reveals a role for Gpr27 in insulin production. PLoS Genet. 2012;8(1):e1002449.
Ku GM, Kim H, Vaughn IW, Hangauer MJ, Oh CM, German MS, et al. Research resource: RNA-Seq reveals unique features of the pancreatic β-cell transcriptome. Mol Endocrinol. 2012;26(10):1783-92.
Choi YS, Patena W, Leavitt AD, McManus MT. Widespread RNA 3'-end oligouridylation in mammals. RNA. 2012;18(3):394-401.
Upton J-, Wang L, Han D, Wang ES, Huskey NE, Lim L, et al. IRE1α cleaves select microRNAs during ER stress to derepress translation of proapoptotic Caspase-2. Science. 2012;338(6108):818-22.
Liu X, Jin D-, McManus MT, Mourelatos Z. Precursor microRNA-programmed silencing complex assembly pathways in mammals. Mol Cell. 2012;46(4):507-17.
Park CY, Jeker LT, Carver-Moore K, Oh A, Liu HJ, Cameron R, et al. A resource for the conditional ablation of microRNAs in the mouse. Cell Rep. 2012;1(4):385-91.
Dallas A, Ilves H, Ge Q, Kumar P, Shorenstein J, Kazakov SA, et al. Right- and left-loop short shRNAs have distinct and unusual mechanisms of gene silencing. Nucleic Acids Res. 2012;40(18):9255-71.

2011

Greiner VJ, Shvadchak V, Fritz J, Arntz Y, Didier P, Frisch B, et al. Characterization of the mechanisms of HIV-1 Vpr(52-96) internalization in cells.. Vol 93.; 2011. (Biochimie; vol 93; no 10).
Villarino AV, Katzman SD, Gallo E, Miller O, Jiang S, McManus MT, et al. Posttranscriptional silencing of effector cytokine mRNA underlies the anergic phenotype of self-reactive T cells. Immunity. 2011;34(1):50-60.
Zhang Z, O'Rourke JR, McManus MT, Lewandoski M, Harfe BD, Sun X. The microRNA-processing enzyme Dicer is dispensable for somite segmentation but essential for limb bud positioning. Dev Biol. 2011;351(2):254-65.
Lebbink RJ, Lowe M, Chan T, Khine H, Wang X, McManus MT. Polymerase II promoter strength determines efficacy of microRNA adapted shRNAs. PLoS ONE. 2011;6(10):e26213.

2010

Greiner VJ, Egelé C, Oncul S, Ronzon F, Manin C, Klymchenko A, et al. Characterization of the lipid and protein organization in HBsAg viral particles by steady-state and time-resolved fluorescence spectroscopy.. Vol 92.; 2010. (Biochimie; vol 92; no 8).
Dugas JC, Cuellar TL, Scholze A, Ason B, Ibrahim A, Emery B, et al. Dicer1 and miR-219 Are required for normal oligodendrocyte differentiation and myelination. Neuron. 2010;65(5):597-611.
Park CY, Choi YS, McManus MT. Analysis of microRNA knockouts in mice. Hum Mol Genet. 2010;19(R2):R169-75.

2009

Shin D, Shin J-, McManus MT, Ptácek LJ, Fu Y-. Dicer ablation in oligodendrocytes provokes neuronal impairment in mice. Ann Neurol. 2009;66(6):843-57.
Ruggiero T, Tarifeño-Saldivia E, De Santa F, Zupo S, Harfe BD, McManus MT, et al. LPS induces KH-type splicing regulatory protein-dependent processing of microRNA-155 precursors in macrophages. FASEB J. 2009;23(9):2898-908.
Papaioannou MD, Pitetti J-, Ro S, Park C, Aubry F, Schaad O, et al. Sertoli cell Dicer is essential for spermatogenesis in mice. Dev Biol. 2009;326(1):250-9.
Bassik MC, Lebbink RJ, L Churchman S, Ingolia NT, Patena W, Leproust EM, et al. Rapid creation and quantitative monitoring of high coverage shRNA libraries. Nat Methods. 2009;6(6):443-5.
Pastorelli LM, Wells S, Fray M, Smith A, Hough T, Harfe BD, et al. Genetic analyses reveal a requirement for Dicer1 in the mouse urogenital tract. Mamm Genome. 2009;20(3):140-51.
Gaspar-Maia A, Alajem A, Polesso F, Sridharan R, Mason MJ, Heidersbach A, et al. Chd1 regulates open chromatin and pluripotency of embryonic stem cells. Nature. 2009;460(7257):863-8.
Sekine S, Ogawa R, Ito R, Hiraoka N, McManus MT, Kanai Y, et al. Disruption of Dicer1 induces dysregulated fetal gene expression and promotes hepatocarcinogenesis. Gastroenterology. 2009;136(7):2304-2315.e1-4.
Sekine S, Ogawa R, McManus MT, Kanai Y, Hebrok M. Dicer is required for proper liver zonation. J Pathol. 2009;219(3):365-72.
Soukup GA, Fritzsch B, Pierce ML, Weston MD, Jahan I, McManus MT, et al. Residual microRNA expression dictates the extent of inner ear development in conditional Dicer knockout mice. Dev Biol. 2009;328(2):328-41.
Tan GS, Garchow BG, Liu X, Yeung J, Morris JP, Cuellar TL, et al. Expanded RNA-binding activities of mammalian Argonaute 2. Nucleic Acids Res. 2009;37(22):7533-45.
Huang T-, Wu F, Loeb GB, Hsu R, Heidersbach A, Brincat A, et al. Up-regulation of miR-21 by HER2/neu signaling promotes cell invasion. J Biol Chem. 2009;284(27):18515-24.

2008

Davis TH, Cuellar TL, Koch SM, Barker AJ, Harfe BD, McManus MT, et al. Conditional loss of Dicer disrupts cellular and tissue morphogenesis in the cortex and hippocampus. J Neurosci. 2008;28(17):4322-30.
Ku G, McManus MT. Behind the scenes of a small RNA gene-silencing pathway. Hum Gene Ther. 2008;19(1):17-26.
Reid JG, Nagaraja AK, Lynn FC, Drabek RB, Muzny DM, Shaw CA, et al. Mouse let-7 miRNA populations exhibit RNA editing that is constrained in the 5'-seed/ cleavage/anchor regions and stabilize predicted mmu-let-7a:mRNA duplexes. Genome Res. 2008;18(10):1571-81.
Osokine I, Hsu R, Loeb GB, McManus MT. Unintentional miRNA ablation is a risk factor in gene knockout studies: a short report. PLoS Genet. 2008;4(2):e34.
Maatouk DM, Loveland KL, McManus MT, Moore K, Harfe BD. Dicer1 is required for differentiation of the mouse male germline. Biol Reprod. 2008;79(4):696-703.
McManus MT. Michael T. McManus: Interrupting biology [interview by Hema Bashyam]. J Exp Med. 2008;205(3):506-7.
Zhou X, Jeker LT, Fife BT, Zhu S, Anderson MS, McManus MT, et al. Selective miRNA disruption in T reg cells leads to uncontrolled autoimmunity. J Exp Med. 2008;205(9):1983-91.
Choi PS, Zakhary L, Choi W-, Caron S, Alvarez-Saavedra M, Miska EA, et al. Members of the miRNA-200 family regulate olfactory neurogenesis. Neuron. 2008;57(1):41-55.
Cuellar TL, Davis TH, Nelson PT, Loeb GB, Harfe BD, Ullian E, et al. Dicer loss in striatal neurons produces behavioral and neuroanatomical phenotypes in the absence of neurodegeneration. Proc Natl Acad Sci USA. 2008;105(14):5614-9.
Harvey SJ, Jarad G, Cunningham J, Goldberg S, Schermer B, Harfe BD, et al. Podocyte-specific deletion of dicer alters cytoskeletal dynamics and causes glomerular disease. J Am Soc Nephrol. 2008;19(11):2150-8.
Damiani D, Alexander JJ, O'Rourke JR, McManus MT, Jadhav AP, Cepko CL, et al. Dicer inactivation leads to progressive functional and structural degeneration of the mouse retina. J Neurosci. 2008;28(19):4878-87.

2007

Crittenden JR, Heidersbach A, McManus MT. Lentiviral strategies for RNAi knockdown of neuronal genes. Curr Protoc Neurosci. 2007;Chapter 5:Unit 5.26.
O'Rourke JR, Georges SA, Seay HR, Tapscott SJ, McManus MT, Goldhamer DJ, et al. Essential role for Dicer during skeletal muscle development. Dev Biol. 2007;311(2):359-68.
Zhao Y, Ransom JF, Li A, Vedantham V, von Drehle M, Muth AN, et al. Dysregulation of cardiogenesis, cardiac conduction, and cell cycle in mice lacking miRNA-1-2. Cell. 2007;129(2):303-17.
Lynn FC, Skewes-Cox P, Kosaka Y, McManus MT, Harfe BD, German MS. MicroRNA expression is required for pancreatic islet cell genesis in the mouse. Diabetes. 2007;56(12):2938-45.

2006

Harris KS, Zhang Z, McManus MT, Harfe BD, Sun X. Dicer function is essential for lung epithelium morphogenesis. Proc Natl Acad Sci USA. 2006;103(7):2208-13.
Heidersbach A, Gaspar-Maia A, McManus MT, Ramalho-Santos M. RNA interference in embryonic stem cells and the prospects for future therapies. Gene Ther. 2006;13(6):478-86.
Harper RW, Xu C, McManus MT, Heidersbach A, Eiserich JP. Duox2 exhibits potent heme peroxidase activity in human respiratory tract epithelium. FEBS Lett. 2006;580(22):5150-4.

2005

Cuellar TL, McManus MT. MicroRNAs and endocrine biology. J Endocrinol. 2005;187(3):327-32.
Harfe BD, McManus MT, Mansfield JH, Hornstein E, Tabin CJ. The RNaseIII enzyme Dicer is required for morphogenesis but not patterning of the vertebrate limb. Proc Natl Acad Sci USA. 2005;102(31):10898-903.
Hong J-, Hwang ES, McManus MT, Amsterdam A, Tian Y, Kalmukova R, et al. TAZ, a transcriptional modulator of mesenchymal stem cell differentiation. Science. 2005;309(5737):1074-8.
Morris JP, McManus MT. Slowing down the Ras lane: miRNAs as tumor suppressors? Sci STKE. 2005;2005(297):pe41.
Hornstein E, Mansfield JH, Yekta S, Hu JK, Harfe BD, McManus MT, et al. The microRNA miR-196 acts upstream of Hoxb8 and Shh in limb development. Nature. 2005;438(7068):671-4.

2004

Mansfield JH, Harfe BD, Nissen R, Obenauer J, Srineel J, Chaudhuri A, et al. MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression. Nat Genet. 2004;36(10):1079-83.
McManus MT. Small RNAs and immunity. Immunity. 2004;21(6):747-56.
Ventura A, Meissner A, Dillon CP, McManus MT, Sharp PA, Van Parijs L, et al. Cre-lox-regulated conditional RNA interference from transgenes. Proc Natl Acad Sci USA. 2004;101(28):10380-5.

2003

Rubinson DA, Dillon CP, Kwiatkowski AV, Sievers C, Yang L, Kopinja J, et al. A lentivirus-based system to functionally silence genes in primary mammalian cells, stem cells and transgenic mice by RNA interference. Nat Genet. 2003;33(3):401-6.
Ge Q, McManus MT, Nguyen T, Shen C-, Sharp PA, Eisen HN, et al. RNA interference of influenza virus production by directly targeting mRNA for degradation and indirectly inhibiting all viral RNA transcription. Proc Natl Acad Sci USA. 2003;100(5):2718-23.
McManus MT. MicroRNAs and cancer. Semin Cancer Biol. 2003;13(4):253-8.

2002

McManus MT, Sharp PA. Gene silencing in mammals by small interfering RNAs. Nat Rev Genet. 2002;3(10):737-47.
Chen Z, Indjeian VB, McManus MT, Wang L, Dynlacht BD. CP110, a cell cycle-dependent CDK substrate, regulates centrosome duplication in human cells. Dev Cell. 2002;3(3):339-50.
McManus MT, Haines BB, Dillon CP, Whitehurst CE, Van Parijs L, Chen J, et al. Small interfering RNA-mediated gene silencing in T lymphocytes. J Immunol. 2002;169(10):5754-60.
McManus MT, Petersen CP, Haines BB, Chen J, Sharp PA. Gene silencing using micro-RNA designed hairpins. RNA. 2002;8(6):842-50.

2001

McManus MT, Shimamura M, Grams J, Hajduk SL. Identification of candidate mitochondrial RNA editing ligases from Trypanosoma brucei. RNA. 2001;7(2):167-75.

2000

McManus MT, Adler BK, Pollard VW, Hajduk SL. Trypanosoma brucei guide RNA poly(U) tail formation is stabilized by cognate mRNA. Mol Cell Biol. 2000;20(3):883-91.
Grams J, McManus MT, Hajduk SL. Processing of polycistronic guide RNAs is associated with RNA editing complexes in Trypanosoma brucei. EMBO J. 2000;19(20):5525-32.

1998

Sabatini RS, Adler BK, Madison-Antenucci S, McManus MT, Hajduk SL. Biochemical methods for analysis of kinetoplastid RNA editing. Methods. 1998;15(1):15-26.

1997

Hajduk SL, Adler B, Madison-Antenucci S, McManus MT, Sabatini R. Insertional and deletional RNA editing in trypanosome mitochondria. Nucleic Acids Symp Ser. 1997;(36):15-8.