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Items: 1 to 50 of 90


Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM.

Chen H, Albergante L, Hsu JY, Lareau CA, Lo Bosco G, Guan J, Zhou S, Gorban AN, Bauer DE, Aryee MJ, Langenau DM, Zinovyev A, Buenrostro JD, Yuan GC, Pinello L.

Nat Commun. 2019 Apr 23;10(1):1903. doi: 10.1038/s41467-019-09670-4.


CRISPR-suppressor scanning reveals a nonenzymatic role of LSD1 in AML.

Vinyard ME, Su C, Siegenfeld AP, Waterbury AL, Freedy AM, Gosavi PM, Park Y, Kwan EE, Senzer BD, Doench JG, Bauer DE, Pinello L, Liau BB.

Nat Chem Biol. 2019 May;15(5):529-539. doi: 10.1038/s41589-019-0263-0. Epub 2019 Apr 15.


Synthetic Lethality of Wnt Pathway Activation and Asparaginase in Drug-Resistant Acute Leukemias.

Hinze L, Pfirrmann M, Karim S, Degar J, McGuckin C, Vinjamur D, Sacher J, Stevenson KE, Neuberg DS, Orellana E, Stanulla M, Gregory RI, Bauer DE, Wagner FF, Stegmaier K, Gutierrez A.

Cancer Cell. 2019 Apr 15;35(4):664-676.e7. doi: 10.1016/j.ccell.2019.03.004.


Highly efficient therapeutic gene editing of human hematopoietic stem cells.

Wu Y, Zeng J, Roscoe BP, Liu P, Yao Q, Lazzarotto CR, Clement K, Cole MA, Luk K, Baricordi C, Shen AH, Ren C, Esrick EB, Manis JP, Dorfman DM, Williams DA, Biffi A, Brugnara C, Biasco L, Brendel C, Pinello L, Tsai SQ, Wolfe SA, Bauer DE.

Nat Med. 2019 May;25(5):776-783. doi: 10.1038/s41591-019-0401-y. Epub 2019 Mar 25.


CRISPResso2 provides accurate and rapid genome editing sequence analysis.

Clement K, Rees H, Canver MC, Gehrke JM, Farouni R, Hsu JY, Cole MA, Liu DR, Joung JK, Bauer DE, Pinello L.

Nat Biotechnol. 2019 Mar;37(3):224-226. doi: 10.1038/s41587-019-0032-3. No abstract available.


Validation of a Virtual Reality-Based Hip Arthroscopy Simulator.

Bauer DE, Wieser K, Aichmair A, Zingg PO, Dora C, Rahm S.

Arthroscopy. 2019 Mar;35(3):789-795. doi: 10.1016/j.arthro.2018.10.131. Epub 2019 Feb 4.


Editing aberrant splice sites efficiently restores β-globin expression in β-thalassemia.

Xu S, Luk K, Yao Q, Shen AH, Zeng J, Wu Y, Luo HY, Brendel C, Pinello L, Chui DHK, Wolfe SA, Bauer DE.

Blood. 2019 May 23;133(21):2255-2262. doi: 10.1182/blood-2019-01-895094. Epub 2019 Jan 31.


Getting Past HSC Security: Cyclosporine H Gives Lentiviruses an Entry Pass.

Bauer DE, Pai SY.

Cell Stem Cell. 2018 Dec 6;23(6):775-776. doi: 10.1016/j.stem.2018.11.008.


CRISPR-SURF: discovering regulatory elements by deconvolution of CRISPR tiling screen data.

Hsu JY, Fulco CP, Cole MA, Canver MC, Pellin D, Sher F, Farouni R, Clement K, Guo JA, Biasco L, Orkin SH, Engreitz JM, Lander ES, Joung JK, Bauer DE, Pinello L.

Nat Methods. 2018 Dec;15(12):992-993. doi: 10.1038/s41592-018-0225-6. No abstract available.


DrugThatGene: integrative analysis to streamline the identification of druggable genes, pathways and protein complexes from CRISPR screens.

Canver MC, Bauer DE, Maeda T, Pinello L.

Bioinformatics. 2019 Jun 1;35(11):1981-1984. doi: 10.1093/bioinformatics/bty913.


FAM210B is an erythropoietin target and regulates erythroid heme synthesis by controlling mitochondrial iron import and ferrochelatase activity.

Yien YY, Shi J, Chen C, Cheung JTM, Grillo AS, Shrestha R, Li L, Zhang X, Kafina MD, Kingsley PD, King MJ, Ablain J, Li H, Zon LI, Palis J, Burke MD, Bauer DE, Orkin SH, Koehler CM, Phillips JD, Kaplan J, Ward DM, Lodish HF, Paw BH.

J Biol Chem. 2018 Dec 21;293(51):19797-19811. doi: 10.1074/jbc.RA118.002742. Epub 2018 Oct 26.


Emerging Genetic Therapy for Sickle Cell Disease.

Orkin SH, Bauer DE.

Annu Rev Med. 2019 Jan 27;70:257-271. doi: 10.1146/annurev-med-041817-125507. Epub 2018 Oct 24.


CRISPRO: identification of functional protein coding sequences based on genome editing dense mutagenesis.

Schoonenberg VAC, Cole MA, Yao Q, Macias-Treviño C, Sher F, Schupp PG, Canver MC, Maeda T, Pinello L, Bauer DE.

Genome Biol. 2018 Oct 19;19(1):169. doi: 10.1186/s13059-018-1563-5.


Microplastics integrating the coastal planktonic community in the inner zone of the Río de la Plata estuary (South America).

Pazos RS, Bauer DE, Gómez N.

Environ Pollut. 2018 Dec;243(Pt A):134-142. doi: 10.1016/j.envpol.2018.08.064. Epub 2018 Aug 22.


An APOBEC3A-Cas9 base editor with minimized bystander and off-target activities.

Gehrke JM, Cervantes O, Clement MK, Wu Y, Zeng J, Bauer DE, Pinello L, Joung JK.

Nat Biotechnol. 2018 Nov;36(10):977-982. doi: 10.1038/nbt.4199. Epub 2018 Jul 30.


Genetic therapies for sickle cell disease.

Esrick EB, Bauer DE.

Semin Hematol. 2018 Apr;55(2):76-86. doi: 10.1053/j.seminhematol.2018.04.014. Epub 2018 May 7. Review.


AmpUMI: design and analysis of unique molecular identifiers for deep amplicon sequencing.

Clement K, Farouni R, Bauer DE, Pinello L.

Bioinformatics. 2018 Jul 1;34(13):i202-i210. doi: 10.1093/bioinformatics/bty264.


Efficacy of standardized training on a virtual reality simulator to advance knee and shoulder arthroscopic motor skills.

Rahm S, Wieser K, Bauer DE, Waibel FW, Meyer DC, Gerber C, Fucentese SF.

BMC Musculoskelet Disord. 2018 May 16;19(1):150. doi: 10.1186/s12891-018-2072-0.


Integrated design, execution, and analysis of arrayed and pooled CRISPR genome-editing experiments.

Canver MC, Haeussler M, Bauer DE, Orkin SH, Sanjana NE, Shalem O, Yuan GC, Zhang F, Concordet JP, Pinello L.

Nat Protoc. 2018 May;13(5):946-986. doi: 10.1038/nprot.2018.005. Epub 2018 Apr 12.


Direct Promoter Repression by BCL11A Controls the Fetal to Adult Hemoglobin Switch.

Liu N, Hargreaves VV, Zhu Q, Kurland JV, Hong J, Kim W, Sher F, Macias-Trevino C, Rogers JM, Kurita R, Nakamura Y, Yuan GC, Bauer DE, Xu J, Bulyk ML, Orkin SH.

Cell. 2018 Apr 5;173(2):430-442.e17. doi: 10.1016/j.cell.2018.03.016. Epub 2018 Mar 29.


Are commercially-available precontoured anatomical clavicle plating systems offering the purported superior optimum fitting to the clavicle? A cadaveric analysis and review of literature.

Bauer DE, Hingsammer A, Schenk P, Vlachopoulos L, Imam MA, Fürnstahl P, Meyer DC.

Orthop Traumatol Surg Res. 2018 Oct;104(6):755-758. doi: 10.1016/j.otsr.2018.01.013. Epub 2018 Mar 16.


Genome-wide CRISPR-Cas9 Screen Identifies Leukemia-Specific Dependence on a Pre-mRNA Metabolic Pathway Regulated by DCPS.

Yamauchi T, Masuda T, Canver MC, Seiler M, Semba Y, Shboul M, Al-Raqad M, Maeda M, Schoonenberg VAC, Cole MA, Macias-Trevino C, Ishikawa Y, Yao Q, Nakano M, Arai F, Orkin SH, Reversade B, Buonamici S, Pinello L, Akashi K, Bauer DE, Maeda T.

Cancer Cell. 2018 Mar 12;33(3):386-400.e5. doi: 10.1016/j.ccell.2018.01.012. Epub 2018 Feb 22.


Risk factors for perioperative morbidity in spine surgeries of different complexities: a multivariate analysis of 1,009 consecutive patients.

Farshad M, Bauer DE, Wechsler C, Gerber C, Aichmair A.

Spine J. 2018 Sep;18(9):1625-1631. doi: 10.1016/j.spinee.2018.02.003. Epub 2018 Feb 13.


14q32 and let-7 microRNAs regulate transcriptional networks in fetal and adult human erythroblasts.

Lessard S, Beaudoin M, Orkin SH, Bauer DE, Lettre G.

Hum Mol Genet. 2018 Apr 15;27(8):1411-1420. doi: 10.1093/hmg/ddy051.


Mid- to long-term results of total ankle replacement in patients with haemophilic arthropathy: A 10-year follow-up.

Eckers F, Bauer DE, Hingsammer A, Sutter R, Brand B, Viehöfer A, Wirth SH.

Haemophilia. 2018 Mar;24(2):307-315. doi: 10.1111/hae.13386. Epub 2017 Dec 22.


Recent progress in understanding and manipulating haemoglobin switching for the haemoglobinopathies.

Vinjamur DS, Bauer DE, Orkin SH.

Br J Haematol. 2018 Mar;180(5):630-643. doi: 10.1111/bjh.15038. Epub 2017 Nov 28. Review.


Growing and Genetically Manipulating Human Umbilical Cord Blood-Derived Erythroid Progenitor (HUDEP) Cell Lines.

Vinjamur DS, Bauer DE.

Methods Mol Biol. 2018;1698:275-284. doi: 10.1007/978-1-4939-7428-3_17.


Total knee arthroplasty in patients with a history of illicit intravenous drug abuse.

Bauer DE, Hingsammer A, Ernstbrunner L, Aichmair A, Rosskopf AB, Eckers F, Wieser K, Fucentese SF.

Int Orthop. 2018 Jan;42(1):101-107. doi: 10.1007/s00264-017-3655-3. Epub 2017 Oct 14.


Gene Therapy.

Bauer DE, Kohn DB.

Hematol Oncol Clin North Am. 2017 Oct;31(5):xiii-xiv. doi: 10.1016/j.hoc.2017.07.001. Epub 2017 Aug 7. No abstract available.


Curative approaches for sickle cell disease: A review of allogeneic and autologous strategies.

Bauer DE, Brendel C, Fitzhugh CD.

Blood Cells Mol Dis. 2017 Sep;67:155-168. doi: 10.1016/j.bcmd.2017.08.014. Epub 2017 Sep 1. Review.


Technical considerations for the use of CRISPR/Cas9 in hematology research.

Gundry MC, Dever DP, Yudovich D, Bauer DE, Haas S, Wilkinson AC, Singbrant S.

Exp Hematol. 2017 Oct;54:4-11. doi: 10.1016/j.exphem.2017.07.006. Epub 2017 Jul 27. Review.


An erythroid-specific ATP2B4 enhancer mediates red blood cell hydration and malaria susceptibility.

Lessard S, Gatof ES, Beaudoin M, Schupp PG, Sher F, Ali A, Prehar S, Kurita R, Nakamura Y, Baena E, Ledoux J, Oceandy D, Bauer DE, Lettre G.

J Clin Invest. 2017 Aug 1;127(8):3065-3074. doi: 10.1172/JCI94378. Epub 2017 Jul 17.


Postoperative alignment of TKA in patients with severe preoperative varus or valgus deformity: is there a difference between surgical techniques?

Rahm S, Camenzind RS, Hingsammer A, Lenz C, Bauer DE, Farshad M, Fucentese SF.

BMC Musculoskelet Disord. 2017 Jun 21;18(1):272. doi: 10.1186/s12891-017-1628-8.


Erythropoietin signaling regulates heme biosynthesis.

Chung J, Wittig JG, Ghamari A, Maeda M, Dailey TA, Bergonia H, Kafina MD, Coughlin EE, Minogue CE, Hebert AS, Li L, Kaplan J, Lodish HF, Bauer DE, Orkin SH, Cantor AB, Maeda T, Phillips JD, Coon JJ, Pagliarini DJ, Dailey HA, Paw BH.

Elife. 2017 May 29;6. pii: e24767. doi: 10.7554/eLife.24767.


Genome-wide association study of red blood cell traits in Hispanics/Latinos: The Hispanic Community Health Study/Study of Latinos.

Hodonsky CJ, Jain D, Schick UM, Morrison JV, Brown L, McHugh CP, Schurmann C, Chen DD, Liu YM, Auer PL, Laurie CA, Taylor KD, Browning BL, Li Y, Papanicolaou G, Rotter JI, Kurita R, Nakamura Y, Browning SR, Loos RJF, North KE, Laurie CC, Thornton TA, Pankratz N, Bauer DE, Sofer T, Reiner AP.

PLoS Genet. 2017 Apr 28;13(4):e1006760. doi: 10.1371/journal.pgen.1006760. eCollection 2017 Apr.


Quantitative assessment of timing, efficiency, specificity and genetic mosaicism of CRISPR/Cas9-mediated gene editing of hemoglobin beta gene in rhesus monkey embryos.

Midic U, Hung PH, Vincent KA, Goheen B, Schupp PG, Chen DD, Bauer DE, VandeVoort CA, Latham KE.

Hum Mol Genet. 2017 Jul 15;26(14):2678-2689. doi: 10.1093/hmg/ddx154.


Conventional Versus Computer-Assisted Corrective Osteotomy of the Forearm: a Retrospective Analysis of 56 Consecutive Cases.

Bauer DE, Zimmermann S, Aichmair A, Hingsammer A, Schweizer A, Nagy L, Fürnstahl P.

J Hand Surg Am. 2017 Jun;42(6):447-455. doi: 10.1016/j.jhsa.2017.03.024. Epub 2017 Apr 20.


Functional interrogation of non-coding DNA through CRISPR genome editing.

Canver MC, Bauer DE, Orkin SH.

Methods. 2017 May 15;121-122:118-129. doi: 10.1016/j.ymeth.2017.03.008. Epub 2017 Mar 10. Review.


Variant-aware saturating mutagenesis using multiple Cas9 nucleases identifies regulatory elements at trait-associated loci.

Canver MC, Lessard S, Pinello L, Wu Y, Ilboudo Y, Stern EN, Needleman AJ, Galactéros F, Brugnara C, Kutlar A, McKenzie C, Reid M, Chen DD, Das PP, A Cole M, Zeng J, Kurita R, Nakamura Y, Yuan GC, Lettre G, Bauer DE, Orkin SH.

Nat Genet. 2017 Apr;49(4):625-634. doi: 10.1038/ng.3793. Epub 2017 Feb 20.


Characterization of genomic deletion efficiency mediated by clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 nuclease system in mammalian cells.

Canver MC, Bauer DE, Dass A, Yien YY, Chung J, Masuda T, Maeda T, Paw BH, Orkin SH.

J Biol Chem. 2017 Feb 10;292(6):2556. doi: 10.1074/jbc.A114.564625. No abstract available.


Strict in vivo specificity of the Bcl11a erythroid enhancer.

Smith EC, Luc S, Croney DM, Woodworth MB, Greig LC, Fujiwara Y, Nguyen M, Sher F, Macklis JD, Bauer DE, Orkin SH.

Blood. 2016 Nov 10;128(19):2338-2342. doi: 10.1182/blood-2016-08-736249. Epub 2016 Oct 5.


Lineage-specific BCL11A knockdown circumvents toxicities and reverses sickle phenotype.

Brendel C, Guda S, Renella R, Bauer DE, Canver MC, Kim YJ, Heeney MM, Klatt D, Fogel J, Milsom MD, Orkin SH, Gregory RI, Williams DA.

J Clin Invest. 2016 Oct 3;126(10):3868-3878. doi: 10.1172/JCI87885. Epub 2016 Sep 6.


Intensive treatment and survival outcomes in NUT midline carcinoma of the head and neck.

Chau NG, Hurwitz S, Mitchell CM, Aserlind A, Grunfeld N, Kaplan L, Hsi P, Bauer DE, Lathan CS, Rodriguez-Galindo C, Tishler RB, Haddad RI, Sallan SE, Bradner JE, French CA.

Cancer. 2016 Dec 1;122(23):3632-3640. doi: 10.1002/cncr.30242. Epub 2016 Aug 10.


Forward genetic screen of human transposase genomic rearrangements.

Henssen AG, Jiang E, Zhuang J, Pinello L, Socci ND, Koche R, Gonen M, Villasante CM, Armstrong SA, Bauer DE, Weng Z, Kentsis A.

BMC Genomics. 2016 Aug 4;17:548. doi: 10.1186/s12864-016-2877-x.


Analyzing CRISPR genome-editing experiments with CRISPResso.

Pinello L, Canver MC, Hoban MD, Orkin SH, Kohn DB, Bauer DE, Yuan GC.

Nat Biotechnol. 2016 Jul 12;34(7):695-7. doi: 10.1038/nbt.3583. No abstract available.


Fetal haemoglobin in sickle-cell disease: from genetic epidemiology to new therapeutic strategies.

Lettre G, Bauer DE.

Lancet. 2016 Jun 18;387(10037):2554-64. doi: 10.1016/S0140-6736(15)01341-0. Review.


A genome editing primer for the hematologist.

Hoban MD, Bauer DE.

Blood. 2016 May 26;127(21):2525-35. doi: 10.1182/blood-2016-01-678151. Epub 2016 Apr 6. Review.


Transcription factors LRF and BCL11A independently repress expression of fetal hemoglobin.

Masuda T, Wang X, Maeda M, Canver MC, Sher F, Funnell AP, Fisher C, Suciu M, Martyn GE, Norton LJ, Zhu C, Kurita R, Nakamura Y, Xu J, Higgs DR, Crossley M, Bauer DE, Orkin SH, Kharchenko PV, Maeda T.

Science. 2016 Jan 15;351(6270):285-9. doi: 10.1126/science.aad3312.


Genetic treatment of a molecular disorder: gene therapy approaches to sickle cell disease.

Hoban MD, Orkin SH, Bauer DE.

Blood. 2016 Feb 18;127(7):839-48. doi: 10.1182/blood-2015-09-618587. Epub 2016 Jan 12. Review.


Hematopoietic stem cells develop in the absence of endothelial cadherin 5 expression.

Anderson H, Patch TC, Reddy PN, Hagedorn EJ, Kim PG, Soltis KA, Chen MJ, Tamplin OJ, Frye M, MacLean GA, Hübner K, Bauer DE, Kanki JP, Vogin G, Huston NC, Nguyen M, Fujiwara Y, Paw BH, Vestweber D, Zon LI, Orkin SH, Daley GQ, Shah DI.

Blood. 2015 Dec 24;126(26):2811-20. doi: 10.1182/blood-2015-07-659276. Epub 2015 Sep 18.

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