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Items: 1 to 50 of 131

1.

Automated Design of Pluripotent Stem Cell Self-Organization.

Libby ARG, Briers D, Haghighi I, Joy DA, Conklin BR, Belta C, McDevitt TC.

Cell Syst. 2019 Nov 27;9(5):483-495.e10. doi: 10.1016/j.cels.2019.10.008. Epub 2019 Nov 20.

PMID:
31759947
2.

AlleleAnalyzer: a tool for personalized and allele-specific sgRNA design.

Keough KC, Lyalina S, Olvera MP, Whalen S, Conklin BR, Pollard KS.

Genome Biol. 2019 Aug 15;20(1):167. doi: 10.1186/s13059-019-1783-3.

3.

Phenotype-Based High-Throughput Classification of Long QT Syndrome Subtypes Using Human Induced Pluripotent Stem Cells.

Yoshinaga D, Baba S, Makiyama T, Shibata H, Hirata T, Akagi K, Matsuda K, Kohjitani H, Wuriyanghai Y, Umeda K, Yamamoto Y, Conklin BR, Horie M, Takita J, Heike T.

Stem Cell Reports. 2019 Aug 13;13(2):394-404. doi: 10.1016/j.stemcr.2019.06.007. Epub 2019 Aug 1.

4.

Mapping cis-regulatory chromatin contacts in neural cells links neuropsychiatric disorder risk variants to target genes.

Song M, Yang X, Ren X, Maliskova L, Li B, Jones IR, Wang C, Jacob F, Wu K, Traglia M, Tam TW, Jamieson K, Lu SY, Ming GL, Li Y, Yao J, Weiss LA, Dixon JR, Judge LM, Conklin BR, Song H, Gan L, Shen Y.

Nat Genet. 2019 Aug;51(8):1252-1262. doi: 10.1038/s41588-019-0472-1. Epub 2019 Jul 31.

PMID:
31367015
5.

Contractile deficits in engineered cardiac microtissues as a result of MYBPC3 deficiency and mechanical overload.

Ma Z, Huebsch N, Koo S, Mandegar MA, Siemons B, Boggess S, Conklin BR, Grigoropoulos CP, Healy KE.

Nat Biomed Eng. 2018 Dec;2(12):955-967. doi: 10.1038/s41551-018-0280-4. Epub 2018 Sep 10.

6.

Unbiased detection of CRISPR off-targets in vivo using DISCOVER-Seq.

Wienert B, Wyman SK, Richardson CD, Yeh CD, Akcakaya P, Porritt MJ, Morlock M, Vu JT, Kazane KR, Watry HL, Judge LM, Conklin BR, Maresca M, Corn JE.

Science. 2019 Apr 19;364(6437):286-289. doi: 10.1126/science.aav9023. Epub 2019 Apr 18.

7.

On the road to a gene drive in mammals.

Conklin BR.

Nature. 2019 Feb;566(7742):43-45. doi: 10.1038/d41586-019-00185-y. No abstract available.

PMID:
30710124
8.

MESP1 knock-down in human iPSC attenuates early vascular progenitor cell differentiation after completed primitive streak specification.

Eskildsen TV, Ayoubi S, Thomassen M, Burton M, Mandegar MA, Conklin BR, Jensen CH, Andersen DC, Sheikh SP.

Dev Biol. 2019 Jan 1;445(1):1-7. doi: 10.1016/j.ydbio.2018.10.020. Epub 2018 Oct 31.

9.

Spatiotemporal mosaic self-patterning of pluripotent stem cells using CRISPR interference.

Libby AR, Joy DA, So PL, Mandegar MA, Muncie JM, Mendoza-Camacho FN, Weaver VM, Conklin BR, McDevitt TC.

Elife. 2018 Oct 9;7. pii: e36045. doi: 10.7554/eLife.36045.

10.

Detection and Quantification of HDR and NHEJ Induced by Genome Editing at Endogenous Gene Loci Using Droplet Digital PCR.

Miyaoka Y, Mayerl SJ, Chan AH, Conklin BR.

Methods Mol Biol. 2018;1768:349-362. doi: 10.1007/978-1-4939-7778-9_20.

11.

Quantitatively characterizing drug-induced arrhythmic contractile motions of human stem cell-derived cardiomyocytes.

Hoang P, Huebsch N, Bang SH, Siemons BA, Conklin BR, Healy KE, Ma Z, Jacquir S.

Biotechnol Bioeng. 2018 Aug;115(8):1958-1970. doi: 10.1002/bit.26709. Epub 2018 Apr 27.

12.

Generation of spatial-patterned early-developing cardiac organoids using human pluripotent stem cells.

Hoang P, Wang J, Conklin BR, Healy KE, Ma Z.

Nat Protoc. 2018 Apr;13(4):723-737. doi: 10.1038/nprot.2018.006. Epub 2018 Mar 15.

13.

A BAG3 chaperone complex maintains cardiomyocyte function during proteotoxic stress.

Judge LM, Perez-Bermejo JA, Truong A, Ribeiro AJ, Yoo JC, Jensen CL, Mandegar MA, Huebsch N, Kaake RM, So PL, Srivastava D, Pruitt BL, Krogan NJ, Conklin BR.

JCI Insight. 2017 Jul 20;2(14). pii: 94623. doi: 10.1172/jci.insight.94623. eCollection 2017 Jul 20.

14.

Multi-Imaging Method to Assay the Contractile Mechanical Output of Micropatterned Human iPSC-Derived Cardiac Myocytes.

Ribeiro AJS, Schwab O, Mandegar MA, Ang YS, Conklin BR, Srivastava D, Pruitt BL.

Circ Res. 2017 May 12;120(10):1572-1583. doi: 10.1161/CIRCRESAHA.116.310363. Epub 2017 Apr 11. Review.

15.

CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells.

Liu SJ, Horlbeck MA, Cho SW, Birk HS, Malatesta M, He D, Attenello FJ, Villalta JE, Cho MY, Chen Y, Mandegar MA, Olvera MP, Gilbert LA, Conklin BR, Chang HY, Weissman JS, Lim DA.

Science. 2017 Jan 6;355(6320). pii: aah7111. doi: 10.1126/science.aah7111. Epub 2016 Dec 15.

16.

Engineered human pluripotent-stem-cell-derived intestinal tissues with a functional enteric nervous system.

Workman MJ, Mahe MM, Trisno S, Poling HM, Watson CL, Sundaram N, Chang CF, Schiesser J, Aubert P, Stanley EG, Elefanty AG, Miyaoka Y, Mandegar MA, Conklin BR, Neunlist M, Brugmann SA, Helmrath MA, Wells JM.

Nat Med. 2017 Jan;23(1):49-59. doi: 10.1038/nm.4233. Epub 2016 Nov 21.

17.

BMP-SMAD-ID promotes reprogramming to pluripotency by inhibiting p16/INK4A-dependent senescence.

Hayashi Y, Hsiao EC, Sami S, Lancero M, Schlieve CR, Nguyen T, Yano K, Nagahashi A, Ikeya M, Matsumoto Y, Nishimura K, Fukuda A, Hisatake K, Tomoda K, Asaka I, Toguchida J, Conklin BR, Yamanaka S.

Proc Natl Acad Sci U S A. 2016 Nov 15;113(46):13057-13062. Epub 2016 Oct 28.

18.

Ligand-binding domains of nuclear receptors facilitate tight control of split CRISPR activity.

Nguyen DP, Miyaoka Y, Gilbert LA, Mayerl SJ, Lee BH, Weissman JS, Conklin BR, Wells JA.

Nat Commun. 2016 Jul 1;7:12009. doi: 10.1038/ncomms12009.

19.

Using Digital Polymerase Chain Reaction to Detect Single-Nucleotide Substitutions Induced by Genome Editing.

Miyaoka Y, Chan AH, Conklin BR.

Cold Spring Harb Protoc. 2016 Aug 1;2016(8). doi: 10.1101/pdb.prot086801.

PMID:
27250210
20.

Detecting Single-Nucleotide Substitutions Induced by Genome Editing.

Miyaoka Y, Chan AH, Conklin BR.

Cold Spring Harb Protoc. 2016 Aug 1;2016(8). doi: 10.1101/pdb.top090845.

PMID:
27250209
21.

Miniaturized iPS-Cell-Derived Cardiac Muscles for Physiologically Relevant Drug Response Analyses.

Huebsch N, Loskill P, Deveshwar N, Spencer CI, Judge LM, Mandegar MA, Fox CB, Mohamed TM, Ma Z, Mathur A, Sheehan AM, Truong A, Saxton M, Yoo J, Srivastava D, Desai TA, So PL, Healy KE, Conklin BR.

Sci Rep. 2016 Apr 20;6:24726. doi: 10.1038/srep24726.

22.

Systematic quantification of HDR and NHEJ reveals effects of locus, nuclease, and cell type on genome-editing.

Miyaoka Y, Berman JR, Cooper SB, Mayerl SJ, Chan AH, Zhang B, Karlin-Neumann GA, Conklin BR.

Sci Rep. 2016 Mar 31;6:23549. doi: 10.1038/srep23549.

23.

CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs.

Mandegar MA, Huebsch N, Frolov EB, Shin E, Truong A, Olvera MP, Chan AH, Miyaoka Y, Holmes K, Spencer CI, Judge LM, Gordon DE, Eskildsen TV, Villalta JE, Horlbeck MA, Gilbert LA, Krogan NJ, Sheikh SP, Weissman JS, Qi LS, So PL, Conklin BR.

Cell Stem Cell. 2016 Apr 7;18(4):541-53. doi: 10.1016/j.stem.2016.01.022. Epub 2016 Mar 10.

24.

Generating trunk neural crest from human pluripotent stem cells.

Huang M, Miller ML, McHenry LK, Zheng T, Zhen Q, Ilkhanizadeh S, Conklin BR, Bronner ME, Weiss WA.

Sci Rep. 2016 Jan 27;6:19727. doi: 10.1038/srep19727.

25.

Efficient CRISPR/Cas9-Based Genome Engineering in Human Pluripotent Stem Cells.

Kime C, Mandegar MA, Srivastava D, Yamanaka S, Conklin BR, Rand TA.

Curr Protoc Hum Genet. 2016 Jan 1;88:21.4.1-21.4.23. doi: 10.1002/0471142905.hg2104s88.

26.

Self-organizing human cardiac microchambers mediated by geometric confinement.

Ma Z, Wang J, Loskill P, Huebsch N, Koo S, Svedlund FL, Marks NC, Hua EW, Grigoropoulos CP, Conklin BR, Healy KE.

Nat Commun. 2015 Jul 14;6:7413. doi: 10.1038/ncomms8413.

27.

Loss of Gi G-Protein-Coupled Receptor Signaling in Osteoblasts Accelerates Bone Fracture Healing.

Wang L, Hsiao EC, Lieu S, Scott M, O'Carroll D, Urrutia A, Conklin BR, Colnot C, Nissenson RA.

J Bone Miner Res. 2015 Oct;30(10):1896-904. doi: 10.1002/jbmr.2540. Epub 2015 May 14.

28.

Structure-based discovery of NANOG variant with enhanced properties to promote self-renewal and reprogramming of pluripotent stem cells.

Hayashi Y, Caboni L, Das D, Yumoto F, Clayton T, Deller MC, Nguyen P, Farr CL, Chiu HJ, Miller MD, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Tomoda K, Conklin BR, Wilson IA, Yamanaka S, Fletterick RJ.

Proc Natl Acad Sci U S A. 2015 Apr 14;112(15):4666-71. doi: 10.1073/pnas.1502855112. Epub 2015 Mar 30.

29.

A non-invasive platform for functional characterization of stem-cell-derived cardiomyocytes with applications in cardiotoxicity testing.

Maddah M, Heidmann JD, Mandegar MA, Walker CD, Bolouki S, Conklin BR, Loewke KE.

Stem Cell Reports. 2015 Apr 14;4(4):621-31. doi: 10.1016/j.stemcr.2015.02.007. Epub 2015 Mar 19.

30.

Human iPSC-based cardiac microphysiological system for drug screening applications.

Mathur A, Loskill P, Shao K, Huebsch N, Hong S, Marcus SG, Marks N, Mandegar M, Conklin BR, Lee LP, Healy KE.

Sci Rep. 2015 Mar 9;5:8883. doi: 10.1038/srep08883.

31.

Assessing the osteoblast transcriptome in a model of enhanced bone formation due to constitutive Gs-G protein signaling in osteoblasts.

Wattanachanya L, Wang L, Millard SM, Lu WD, O'Carroll D, Hsiao EC, Conklin BR, Nissenson RA.

Exp Cell Res. 2015 May 1;333(2):289-302. doi: 10.1016/j.yexcr.2015.02.009. Epub 2015 Feb 20.

32.

Gαi/o-coupled receptor signaling restricts pancreatic β-cell expansion.

Berger M, Scheel DW, Macias H, Miyatsuka T, Kim H, Hoang P, Ku GM, Honig G, Liou A, Tang Y, Regard JB, Sharifnia P, Yu L, Wang J, Coughlin SR, Conklin BR, Deneris ES, Tecott LH, German MS.

Proc Natl Acad Sci U S A. 2015 Mar 3;112(9):2888-93. doi: 10.1073/pnas.1319378112. Epub 2015 Feb 18.

33.

Astrocytic adenosine receptor A2A and Gs-coupled signaling regulate memory.

Orr AG, Hsiao EC, Wang MM, Ho K, Kim DH, Wang X, Guo W, Kang J, Yu GQ, Adame A, Devidze N, Dubal DB, Masliah E, Conklin BR, Mucke L.

Nat Neurosci. 2015 Mar;18(3):423-34. doi: 10.1038/nn.3930. Epub 2015 Jan 26.

34.

Automated Video-Based Analysis of Contractility and Calcium Flux in Human-Induced Pluripotent Stem Cell-Derived Cardiomyocytes Cultured over Different Spatial Scales.

Huebsch N, Loskill P, Mandegar MA, Marks NC, Sheehan AS, Ma Z, Mathur A, Nguyen TN, Yoo JC, Judge LM, Spencer CI, Chukka AC, Russell CR, So PL, Conklin BR, Healy KE.

Tissue Eng Part C Methods. 2015 May;21(5):467-79. doi: 10.1089/ten.TEC.2014.0283. Epub 2015 Jan 14.

35.

Calcium transients closely reflect prolonged action potentials in iPSC models of inherited cardiac arrhythmia.

Spencer CI, Baba S, Nakamura K, Hua EA, Sears MA, Fu CC, Zhang J, Balijepalli S, Tomoda K, Hayashi Y, Lizarraga P, Wojciak J, Scheinman MM, Aalto-Setälä K, Makielski JC, January CT, Healy KE, Kamp TJ, Yamanaka S, Conklin BR.

Stem Cell Reports. 2014 Aug 12;3(2):269-81. doi: 10.1016/j.stemcr.2014.06.003. Epub 2014 Jul 4.

36.

Synthetic control of mammalian-cell motility by engineering chemotaxis to an orthogonal bioinert chemical signal.

Park JS, Rhau B, Hermann A, McNally KA, Zhou C, Gong D, Weiner OD, Conklin BR, Onuffer J, Lim WA.

Proc Natl Acad Sci U S A. 2014 Apr 22;111(16):5896-901. doi: 10.1073/pnas.1402087111. Epub 2014 Apr 7.

37.

Human induced pluripotent stem cell-based microphysiological tissue models of myocardium and liver for drug development.

Mathur A, Loskill P, Hong S, Lee J, Marcus SG, Dumont L, Conklin BR, Willenbring H, Lee LP, Healy KE.

Stem Cell Res Ther. 2013;4 Suppl 1:S14. doi: 10.1186/scrt375. Epub 2013 Dec 20. Review.

38.

Isolation of single-base genome-edited human iPS cells without antibiotic selection.

Miyaoka Y, Chan AH, Judge LM, Yoo J, Huang M, Nguyen TD, Lizarraga PP, So PL, Conklin BR.

Nat Methods. 2014 Mar;11(3):291-3. doi: 10.1038/nmeth.2840. Epub 2014 Feb 9.

39.

Induced pluripotent stem cells from patients with human fibrodysplasia ossificans progressiva show increased mineralization and cartilage formation.

Matsumoto Y, Hayashi Y, Schlieve CR, Ikeya M, Kim H, Nguyen TD, Sami S, Baba S, Barruet E, Nasu A, Asaka I, Otsuka T, Yamanaka S, Conklin BR, Toguchida J, Hsiao EC.

Orphanet J Rare Dis. 2013 Dec 9;8:190. doi: 10.1186/1750-1172-8-190.

40.

Three-dimensional filamentous human diseased cardiac tissue model.

Ma Z, Koo S, Finnegan MA, Loskill P, Huebsch N, Marks NC, Conklin BR, Grigoropoulos CP, Healy KE.

Biomaterials. 2014 Feb;35(5):1367-77. doi: 10.1016/j.biomaterials.2013.10.052. Epub 2013 Nov 21.

41.

The C-terminus of the long AKAP13 isoform (AKAP-Lbc) is critical for development of compensatory cardiac hypertrophy.

Taglieri DM, Johnson KR, Burmeister BT, Monasky MM, Spindler MJ, DeSantiago J, Banach K, Conklin BR, Carnegie GK.

J Mol Cell Cardiol. 2014 Jan;66:27-40. doi: 10.1016/j.yjmcc.2013.10.010. Epub 2013 Oct 23.

42.

Sculpting genomes with a hammer and chisel.

Conklin BR.

Nat Methods. 2013 Sep;10(9):839-40. doi: 10.1038/nmeth.2608. No abstract available.

43.

A robust method to derive functional neural crest cells from human pluripotent stem cells.

Kreitzer FR, Salomonis N, Sheehan A, Huang M, Park JS, Spindler MJ, Lizarraga P, Weiss WA, So PL, Conklin BR.

Am J Stem Cells. 2013 Jun 30;2(2):119-31. Print 2013.

44.

AKAP13 Rho-GEF and PKD-binding domain deficient mice develop normally but have an abnormal response to β-adrenergic-induced cardiac hypertrophy.

Spindler MJ, Burmeister BT, Huang Y, Hsiao EC, Salomonis N, Scott MJ, Srivastava D, Carnegie GK, Conklin BR.

PLoS One. 2013 Apr 26;8(4):e62705. doi: 10.1371/journal.pone.0062705. Print 2013.

45.

Structure of a novel winged-helix like domain from human NFRKB protein.

Kumar A, Möcklinghoff S, Yumoto F, Jaroszewski L, Farr CL, Grzechnik A, Nguyen P, Weichenberger CX, Chiu HJ, Klock HE, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Conklin BR, Fletterick RJ, Wilson IA.

PLoS One. 2012;7(9):e43761. doi: 10.1371/journal.pone.0043761. Epub 2012 Sep 11.

46.

Derivation conditions impact X-inactivation status in female human induced pluripotent stem cells.

Tomoda K, Takahashi K, Leung K, Okada A, Narita M, Yamada NA, Eilertson KE, Tsang P, Baba S, White MP, Sami S, Srivastava D, Conklin BR, Panning B, Yamanaka S.

Cell Stem Cell. 2012 Jul 6;11(1):91-9. doi: 10.1016/j.stem.2012.05.019.

47.

GO-Elite: a flexible solution for pathway and ontology over-representation.

Zambon AC, Gaj S, Ho I, Hanspers K, Vranizan K, Evelo CT, Conklin BR, Pico AR, Salomonis N.

Bioinformatics. 2012 Aug 15;28(16):2209-10. doi: 10.1093/bioinformatics/bts366. Epub 2012 Jun 27.

48.

WikiPathways: building research communities on biological pathways.

Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin BR, Evelo CT, Pico AR.

Nucleic Acids Res. 2012 Jan;40(Database issue):D1301-7. doi: 10.1093/nar/gkr1074. Epub 2011 Nov 16.

49.

Model for long QT syndrome type 2 using human iPS cells demonstrates arrhythmogenic characteristics in cell culture.

Lahti AL, Kujala VJ, Chapman H, Koivisto AP, Pekkanen-Mattila M, Kerkelä E, Hyttinen J, Kontula K, Swan H, Conklin BR, Yamanaka S, Silvennoinen O, Aalto-Setälä K.

Dis Model Mech. 2012 Mar;5(2):220-30. doi: 10.1242/dmm.008409. Epub 2011 Nov 3.

50.

Mineral composition is altered by osteoblast expression of an engineered G(s)-coupled receptor.

Kazakia GJ, Speer D, Shanbhag S, Majumdar S, Conklin BR, Nissenson RA, Hsiao EC.

Calcif Tissue Int. 2011 Jul;89(1):10-20. doi: 10.1007/s00223-011-9487-z. Epub 2011 Apr 28.

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