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Bruce Conklin, MD

TitleProfessor
SchoolUCSF School of Medicine
DepartmentMedicine
Address1650 Owens St
San Francisco CA 94107
Phone415-734-2712
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    Collapse Biography 
    Collapse Education and Training
    University of California, Berkeley, CAA.B.1982Public Health
    Case Western Reserve U., Cleveland, OHM.D.1988Medicine

    Collapse Overview 
    Collapse Overview
    Therapeutic Approaches to Genetic Disease

    Genome Engineering
    The late Richard Feynman once said, “What I cannot create, I do not understand.” Human genetics began as observational science, but newly developed genome-engineering tools now allow us to directly test the cellular consequences of discrete genetic changes. We have developed efficient methods to edit one residue at a time in living human induced pluripotent stem (iPS) cells, resulting in “isogenic” lines of iPS cells. These isogenic lines form models that are now yielding phenotypes that are helping to explain the molecular basis of several human diseases. We are constructing collections of these isogenic lines that carry a range of disease mutations, from the most severe (rare) to the moderate (common) forms of cardiomyopathy.

    Precise Genome Editing for Human Therapy
    The rapid development of genome engineering, such as with the CRISPR system, now allows us to contemplate using these tools for human therapy in selective tissues. Using genome editing to “fix” a disease gene has great promise, because it could permanently correct the disease. However, tremendous challenges remain to ensure that only a specific part of the genome is edited, without causing “off-target” DNA damage that could lead to cancer. We focused on developing therapeutic editing for diseases of the heart and retina, because each tissue has unique challenges and opportunities. The heart has many newly described gene mutations that result in lethal heart failure (cardiomyopathy). Genome engineering can be used to cure cardiomyopathy mutations and validate targets for drug therapy; however, current engineering methods will need to be greatly enhanced before it can be used in vivo in the heart. In contrast, the retina has the advantage of a limited number of cells that can be directly targeted for therapy. These properties could potentially cure blindness caused by many gene mutations that currently have no therapy. We are developing proof-of-concept therapeutic editing methods in the retina that can be expanded to other tissues, such as the heart.

    Human Cardiac Disease Models
    We use iPS cells to model the genetic causes of human cardiomyopathy. Surprisingly, little is known about many genes associated with heart failure, from cardiomyopathy to abnormal heart rhythm, that results in “sudden death.” The heart provides an ideal system to determine the molecular basis of gene associations in human genetics. Until recently, modeling human gene variants in human cardiac tissue has been impossible. Human iPS cells now allow us to produce cardiovascular tissues that are identical, except for a single gene that has been altered by genome engineering. Our efforts have already been used to uncover multiple disease phenotypes and targets for drug therapy.

    CRISPR-Based Screens in Human Cardiac Disease Models
    Recently, we developed CRISPR-inhibition (CRISPRi) cell lines for highthroughput gene inactivation of thousands of different genes. CRISPRi screens can be used to identify the molecular basis of development, so that we can construct more mature human tissues and improved disease models. These studies will also allow us to identify drug targets that could be used for treating cardiomyopathy and other major diseases. We are currently focused on finding new pathways to enhance cardiac regeneration. In the future, other versions of the CRISPR system could be used to activate genes and control the epigenetic state of the genome.

    Future Directions
    We are developing new genome engineering methods in human iPS cells to identify therapeutic targets in cardiac disease. We are using these same tools to develop strategies for therapeutic genome editing. The combination of human iPS cells and genome editing provide unprecedented opportunities to explore new areas of biology and discover new therapies for disease.

    Selected Recent Publications
    1. Mandegar MA, Huebsch N, Frolov E, SHin E, Weissman JS, Qi LS, So P-L, Conklin BR. (2016) CRISPR interference efficiently induces gene knockdown and models disease in iPSCs. Cell Stem Cell. 18 1-13, April 7, 2016
    2. Huebsch N et al. (2015) Automated video-based analysis of contractility and calcium flux in human-induced pluripotent stem cell-derived cardiomyocytes cultured over different spatial scales. Tissue Eng. Part C Methods 21:467.
    3. Ma Z et al. (2015) Self-organizing human cardiac microchambers mediated by geometric confinement. Nat. Commun. 6:7413.
    4. Miyaoka Y et al. (2014) Isolation of single-base genome-edited human iPS cells without antibiotic selection. Nat. Methods 11:291.
    5. Spencer CI et al. (2014) Calcium transients closely reflect prolonged action potentials in iPSC models of inherited cardiac arrhythmia. Stem Cell Reports 3:269.


    Collapse Research 
    Collapse Research Activities and Funding
    Therapeutic genome editing to treat Best disease
    NIH/NEI R01EY028249Sep 30, 2017 - Jun 30, 2022
    Role: Principal Investigator
    Protein quality control, cardiomyopathy, cardiotoxicity and human isogenic iPSCs
    NIH/NHLBI R01HL135358Jul 15, 2017 - Jun 30, 2021
    Role: Principal Investigator
    Identifying Therapeutic Targets for RNA Splicing-Related Cardiomyopathy
    NIH/NHLBI R01HL130533Dec 14, 2015 - Nov 30, 2019
    Role: Principal Investigator
    Disease Specific Cardiac Tissue Models
    NIH/NHLBI R01HL108677Sep 5, 2011 - May 31, 2015
    Role: Co-Principal Investigator
    Structures of Protein Complexes Regulating Transcription in Enbryonic Stem Cells
    NIH/NIGMS U01GM094614Sep 30, 2010 - Jun 30, 2015
    Role: Co-Investigator
    Induced Pluripotent Stem Cells in the Understanding and Treatment of Heart Diseas
    NIH/NHLBI U01HL100406Sep 30, 2009 - Jun 30, 2016
    Role: Co-Principal Investigator
    The Epigenetic Landscape of Heart Development
    NIH/NHLBI U01HL098179Sep 30, 2009 - Aug 31, 2015
    Role: Co-Principal Investigator
    Induced pluripotent stem cells in the understanding and treatment of heart diseas
    NIH/NHLBI R03HL096254Dec 1, 2008 - May 31, 2009
    Role: Co-Principal Investigator
    Transcriptional Networks During Cardiac Differentiation
    NIH/NHLBI P01HL089707Jul 1, 2007 - Jul 31, 2018
    Role: Co-Investigator
    GenMAPP-CS, a dynamic resource pathway analysis
    NIH/NIGMS R01GM080223Aug 18, 2004 - Jul 31, 2012
    Role: Principal Investigator
    GenMAPP: A tool for pathway analysis of genomic data
    NIH/NHGRI R01HG003053Aug 18, 2004 - Oct 31, 2007
    Role: Principal Investigator
    COLLABORATIVE R01--ROLES OF G PROTEINS IN CARDIOMYOPATHY
    NIH/NHLBI R01HL061689Sep 30, 1998 - Aug 31, 2003
    Role: Principal Investigator
    Tissue Engineering with a Modular RASSL Toolbox
    NIH/NHLBI R01HL060664Jul 1, 1998 - Jun 30, 2013
    Role: Principal Investigator
    MUTANT G PROTEINS REVEAL SIGNALING PATHWAYS
    NIH/NHLBI K11HL002555Jan 1, 1991 - Dec 31, 1995
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Websites
    Collapse In The News
    Collapse Faculty Mentoring

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
    List All   |   Timeline
    1. 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 B. A BAG3 chaperone complex maintains cardiomyocyte function during proteotoxic stress. JCI Insight. 2017 Jul 20; 2(14). PMID: 28724793.
      View in: PubMed
    2. Ribeiro AJ, Schwab O, Mandegar MA, Ang YS, Conklin B, Srivastava D, Pruitt BL. Multi-Imaging Method to Assay the Contractile Mechanical Output of Micropatterned Human iPSC-Derived Cardiac Myocytes. Circ Res. 2017 May 12; 120(10):1572-1583. PMID: 28400398.
      View in: PubMed
    3. 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 B, Chang HY, Weissman JS, Lim DA. CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Science. 2017 01 06; 355(6320). PMID: 27980086.
      View in: PubMed
    4. 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 B, Neunlist M, Brugmann SA, Helmrath MA, Wells JM. Engineered human pluripotent-stem-cell-derived intestinal tissues with a functional enteric nervous system. Nat Med. 2017 Jan; 23(1):49-59. PMID: 27869805.
      View in: PubMed
    5. 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 B, Yamanaka S. BMP-SMAD-ID promotes reprogramming to pluripotency by inhibiting p16/INK4A-dependent senescence. Proc Natl Acad Sci U S A. 2016 Nov 15; 113(46):13057-13062. PMID: 27794120.
      View in: PubMed
    6. Miyaoka Y, Chan AH, Conklin B. Detecting Single-Nucleotide Substitutions Induced by Genome Editing. Cold Spring Harb Protoc. 2016 Aug 01; 2016(8):pdb.top090845. PMID: 27250209.
      View in: PubMed
    7. Miyaoka Y, Chan AH, Conklin B. Using Digital Polymerase Chain Reaction to Detect Single-Nucleotide Substitutions Induced by Genome Editing. Cold Spring Harb Protoc. 2016 Aug 01; 2016(8):pdb.prot086801. PMID: 27250210.
      View in: PubMed
    8. Nguyen DP, Miyaoka Y, Gilbert LA, Mayerl SJ, Lee BH, Weissman JS, Conklin B, Wells JA. Ligand-binding domains of nuclear receptors facilitate tight control of split CRISPR activity. Nat Commun. 2016 Jul 01; 7:12009. PMID: 27363581; PMCID: PMC4932181.
    9. Huebsch N, Loskill P, Deveshwar N, Spencer CI, Judge LM, Mandegar MA, B Fox C, Mohamed TM, Ma Z, Mathur A, Sheehan AM, Truong A, Saxton M, Yoo J, Srivastava D, Desai TA, So PL, Healy KE, Conklin B. Miniaturized iPS-Cell-Derived Cardiac Muscles for Physiologically Relevant Drug Response Analyses. Sci Rep. 2016 Apr 20; 6:24726. PMID: 27095412; PMCID: PMC4837370.
    10. Miyaoka Y, Berman JR, Cooper SB, Mayerl SJ, Chan AH, Zhang B, Karlin-Neumann GA, Conklin B. Systematic quantification of HDR and NHEJ reveals effects of locus, nuclease, and cell type on genome-editing. Sci Rep. 2016 Mar 31; 6:23549. PMID: 27030102; PMCID: PMC4814844.
    11. 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 B. CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs. Cell Stem Cell. 2016 Apr 07; 18(4):541-53. PMID: 26971820; PMCID: PMC4830697 [Available on 04/07/17].
    12. Huang M, Miller ML, McHenry LK, Zheng T, Zhen Q, Ilkhanizadeh S, Conklin B, Bronner ME, Weiss WA. Generating trunk neural crest from human pluripotent stem cells. Sci Rep. 2016 Jan 27; 6:19727. PMID: 26812940; PMCID: PMC4728437.
    13. Kime C, Mandegar MA, Srivastava D, Yamanaka S, Conklin B, Rand TA. Efficient CRISPR/Cas9-Based Genome Engineering in Human Pluripotent Stem Cells. Curr Protoc Hum Genet. 2016 Jan 01; 88:Unit 21.4. PMID: 26724721; PMCID: PMC4726454 [Available on 01/01/17].
    14. Ma Z, Wang J, Loskill P, Huebsch N, Koo S, Svedlund FL, Marks NC, Hua EW, Grigoropoulos CP, Conklin B, Healy KE. Self-organizing human cardiac microchambers mediated by geometric confinement. Nat Commun. 2015 Jul 14; 6:7413. PMID: 26172574; PMCID: PMC4503387.
    15. Nobuta H, Cilio MR, Danhaive O, Tsai HH, Tupal S, Chang SM, Murnen A, Kreitzer F, Bravo V, Czeisler C, Gokozan HN, Gygli P, Bush S, Weese-Mayer DE, Conklin B, Yee SP, Huang EJ, Gray PA, Rowitch D, Otero JJ. Dysregulation of locus coeruleus development in congenital central hypoventilation syndrome. Acta Neuropathol. 2015 Aug; 130(2):171-83. PMID: 25975378; PMCID: PMC4503865.
    16. Wang L, Hsiao EC, Lieu S, Scott M, O'Carroll D, Urrutia A, Conklin B, Colnot C, Nissenson RA. Loss of Gi G-Protein-Coupled Receptor Signaling in Osteoblasts Accelerates Bone Fracture Healing. J Bone Miner Res. 2015 Oct; 30(10):1896-904. PMID: 25917236.
      View in: PubMed
    17. 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 B, Wilson IA, Yamanaka S, Fletterick RJ. Structure-based discovery of NANOG variant with enhanced properties to promote self-renewal and reprogramming of pluripotent stem cells. Proc Natl Acad Sci U S A. 2015 Apr 14; 112(15):4666-71. PMID: 25825768; PMCID: PMC4403148.
    18. Maddah M, Heidmann JD, Mandegar MA, Walker CD, Bolouki S, Conklin B, Loewke KE. A non-invasive platform for functional characterization of stem-cell-derived cardiomyocytes with applications in cardiotoxicity testing. Stem Cell Reports. 2015 Apr 14; 4(4):621-31. PMID: 25801505; PMCID: PMC4400609.
    19. Mathur A, Loskill P, Shao K, Huebsch N, Hong S, Marcus SG, Marks N, Mandegar M, Conklin B, Lee LP, Healy KE. Human iPSC-based cardiac microphysiological system for drug screening applications. Sci Rep. 2015 Mar 09; 5:8883. PMID: 25748532; PMCID: PMC4352848.
    20. Wattanachanya L, Wang L, Millard SM, Lu WD, O'Carroll D, Hsiao EC, Conklin B, Nissenson RA. Assessing the osteoblast transcriptome in a model of enhanced bone formation due to constitutive Gs-G protein signaling in osteoblasts. Exp Cell Res. 2015 May 01; 333(2):289-302. PMID: 25704759; PMCID: PMC4408231.
    21. 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 B, Deneris ES, Tecott LH, German MS. Gai/o-coupled receptor signaling restricts pancreatic ß-cell expansion. Proc Natl Acad Sci U S A. 2015 Mar 03; 112(9):2888-93. PMID: 25695968; PMCID: PMC4352814.
    22. 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 B, Mucke L. Astrocytic adenosine receptor A2A and Gs-coupled signaling regulate memory. Nat Neurosci. 2015 Mar; 18(3):423-34. PMID: 25622143; PMCID: PMC4340760.
    23. 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 B, Healy KE. Automated Video-Based Analysis of Contractility and Calcium Flux in Human-Induced Pluripotent Stem Cell-Derived Cardiomyocytes Cultured over Different Spatial Scales. Tissue Eng Part C Methods. 2015 May; 21(5):467-79. PMID: 25333967; PMCID: PMC4410286.
    24. 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 B. Calcium transients closely reflect prolonged action potentials in iPSC models of inherited cardiac arrhythmia. Stem Cell Reports. 2014 Aug 12; 3(2):269-81. PMID: 25254341; PMCID: PMC4175159.
    25. Park JS, Rhau B, Hermann A, McNally KA, Zhou C, Gong D, Weiner OD, Conklin B, Onuffer J, Lim WA. Synthetic control of mammalian-cell motility by engineering chemotaxis to an orthogonal bioinert chemical signal. Proc Natl Acad Sci U S A. 2014 Apr 22; 111(16):5896-901. PMID: 24711398; PMCID: PMC4000811.
    26. Miyaoka Y, Chan AH, Judge LM, Yoo J, Huang M, Nguyen TD, Lizarraga PP, So PL, Conklin B. Isolation of single-base genome-edited human iPS cells without antibiotic selection. Nat Methods. 2014 Mar; 11(3):291-3. PMID: 24509632; PMCID: PMC4063274.
    27. Mathur A, Loskill P, Hong S, Lee J, Marcus SG, Dumont L, Conklin B, Willenbring H, Lee LP, Healy KE. Human induced pluripotent stem cell-based microphysiological tissue models of myocardium and liver for drug development. Stem Cell Res Ther. 2013; 4 Suppl 1:S14. PMID: 24565415; PMCID: PMC4029618.
    28. 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 B, Toguchida J, Hsiao EC. Induced pluripotent stem cells from patients with human fibrodysplasia ossificans progressiva show increased mineralization and cartilage formation. Orphanet J Rare Dis. 2013 Dec 09; 8:190. PMID: 24321451; PMCID: PMC3892046.
    29. Ma Z, Koo S, Finnegan MA, Loskill P, Huebsch N, Marks NC, Conklin B, Grigoropoulos CP, Healy KE. Three-dimensional filamentous human diseased cardiac tissue model. Biomaterials. 2014 Feb; 35(5):1367-77. PMID: 24268663; PMCID: PMC3900500.
    30. Taglieri DM, Johnson KR, Burmeister BT, Monasky MM, Spindler MJ, DeSantiago J, Banach K, Conklin B, Carnegie GK. The C-terminus of the long AKAP13 isoform (AKAP-Lbc) is critical for development of compensatory cardiac hypertrophy. J Mol Cell Cardiol. 2014 Jan; 66:27-40. PMID: 24161911; PMCID: PMC4074493.
    31. Conklin B. Sculpting genomes with a hammer and chisel. Nat Methods. 2013 Sep; 10(9):839-40. PMID: 23985729; PMCID: PMC3868218.
    32. Kreitzer FR, Salomonis N, Sheehan A, Huang M, Park JS, Spindler MJ, Lizarraga P, Weiss WA, So PL, Conklin B. A robust method to derive functional neural crest cells from human pluripotent stem cells. Am J Stem Cells. 2013; 2(2):119-31. PMID: 23862100; PMCID: PMC3708511.
    33. Spindler MJ, Burmeister BT, Huang Y, Hsiao EC, Salomonis N, Scott MJ, Srivastava D, Carnegie GK, Conklin B. AKAP13 Rho-GEF and PKD-binding domain deficient mice develop normally but have an abnormal response to ß-adrenergic-induced cardiac hypertrophy. PLoS One. 2013; 8(4):e62705. PMID: 23658642; PMCID: PMC3637253.
    34. 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 B, Fletterick RJ, Wilson IA. Structure of a novel winged-helix like domain from human NFRKB protein. PLoS One. 2012; 7(9):e43761. PMID: 22984442; PMCID: PMC3439487.
    35. 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 B, Panning B, Yamanaka S. Derivation conditions impact X-inactivation status in female human induced pluripotent stem cells. Cell Stem Cell. 2012 Jul 06; 11(1):91-9. PMID: 22770243; PMCID: PMC3396435.
    36. Zambon AC, Gaj S, Ho I, Hanspers K, Vranizan K, Evelo CT, Conklin B, Pico AR, Salomonis N. GO-Elite: a flexible solution for pathway and ontology over-representation. Bioinformatics. 2012 Aug 15; 28(16):2209-10. PMID: 22743224; PMCID: PMC3413395.
    37. Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin B, Evelo CT, Pico AR. WikiPathways: building research communities on biological pathways. Nucleic Acids Res. 2012 Jan; 40(Database issue):D1301-7. PMID: 22096230; PMCID: PMC3245032.
    38. Lahti AL, Kujala VJ, Chapman H, Koivisto AP, Pekkanen-Mattila M, Kerkelä E, Hyttinen J, Kontula K, Swan H, Conklin B, Yamanaka S, Silvennoinen O, Aalto-Setälä K. Model for long QT syndrome type 2 using human iPS cells demonstrates arrhythmogenic characteristics in cell culture. Dis Model Mech. 2012 Mar; 5(2):220-30. PMID: 22052944; PMCID: PMC3291643.
    39. Kazakia GJ, Speer D, Shanbhag S, Majumdar S, Conklin B, Nissenson RA, Hsiao EC. Mineral composition is altered by osteoblast expression of an engineered G(s)-coupled receptor. Calcif Tissue Int. 2011 Jul; 89(1):10-20. PMID: 21526395; PMCID: PMC3110278.
    40. Millard SM, Louie AM, Wattanachanya L, Wronski TJ, Conklin B, Nissenson RA. Blockade of receptor-activated G(i) signaling in osteoblasts in vivo leads to site-specific increases in cortical and cancellous bone formation. J Bone Miner Res. 2011 Apr; 26(4):822-32. PMID: 20939063; PMCID: PMC3179326.
    41. Hsiao EC, Nguyen TD, Ng JK, Scott MJ, Chang WC, Zahed H, Conklin B. Constitutive Gs activation using a single-construct tetracycline-inducible expression system in embryonic stem cells and mice. Stem Cell Res Ther. 2011 Mar 04; 2(2):11. PMID: 21375737; PMCID: PMC3226282.
    42. Kelder T, Conklin B, Evelo CT, Pico AR. Finding the right questions: exploratory pathway analysis to enhance biological discovery in large datasets. PLoS Biol. 2010 Aug 31; 8(8). PMID: 20824171; PMCID: PMC2930872.
    43. Salomonis N, Conklin B. Stem cell pluripotency: alternative modes of transcription regulation. Cell Cycle. 2010 Aug 15; 9(16):3133-4. PMID: 20814242; PMCID: PMC3866144.
    44. van Laake LW, Qian L, Cheng P, Huang Y, Hsiao EC, Conklin B, Srivastava D. Reporter-based isolation of induced pluripotent stem cell- and embryonic stem cell-derived cardiac progenitors reveals limited gene expression variance. Circ Res. 2010 Aug 06; 107(3):340-7. PMID: 20558827; PMCID: PMC2919280.
    45. Emig D, Salomonis N, Baumbach J, Lengauer T, Conklin B, Albrecht M. AltAnalyze and DomainGraph: analyzing and visualizing exon expression data. Nucleic Acids Res. 2010 Jul; 38(Web Server issue):W755-62. PMID: 20513647; PMCID: PMC2896198.
    46. Salomonis N, Schlieve CR, Pereira L, Wahlquist C, Colas A, Zambon AC, Vranizan K, Spindler MJ, Pico AR, Cline MS, Clark TA, Williams A, Blume JE, Samal E, Mercola M, Merrill BJ, Conklin B. Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation. Proc Natl Acad Sci U S A. 2010 Jun 08; 107(23):10514-9. PMID: 20498046; PMCID: PMC2890851.
    47. Hsiao EC, Boudignon BM, Halloran BP, Nissenson RA, Conklin B. Gs G protein-coupled receptor signaling in osteoblasts elicits age-dependent effects on bone formation. J Bone Miner Res. 2010 Mar; 25(3):584-93. PMID: 20200944; PMCID: PMC3153396.
    48. Hsiao EC, Millard SM, Louie A, Huang Y, Conklin B, Nissenson RA. Ligand-mediated activation of an engineered gs g protein-coupled receptor in osteoblasts increases trabecular bone formation. Mol Endocrinol. 2010 Mar; 24(3):621-31. PMID: 20150184; PMCID: PMC2840804.
    49. Lo B, Parham L, Alvarez-Buylla A, Cedars M, Conklin B, Fisher S, Gates E, Giudice L, Halme DG, Hershon W, Kriegstein A, Kwok PY, Wagner R. Cloning mice and men: prohibiting the use of iPS cells for human reproductive cloning. Cell Stem Cell. 2010 Jan 08; 6(1):16-20. PMID: 20085739; PMCID: PMC4035242.
    50. van Iersel MP, Pico AR, Kelder T, Gao J, Ho I, Hanspers K, Conklin B, Evelo CT. The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. BMC Bioinformatics. 2010 Jan 04; 11:5. PMID: 20047655; PMCID: PMC2824678.
    51. Nakamura K, Salomonis N, Tomoda K, Yamanaka S, Conklin B. G(i)-coupled GPCR signaling controls the formation and organization of human pluripotent colonies. PLoS One. 2009 Nov 10; 4(11):e7780. PMID: 19936228; PMCID: PMC2777408.
    52. Salomonis N, Nelson B, Vranizan K, Pico AR, Hanspers K, Kuchinsky A, Ta L, Mercola M, Conklin B. Alternative splicing in the differentiation of human embryonic stem cells into cardiac precursors. PLoS Comput Biol. 2009 Nov; 5(11):e1000553. PMID: 19893621; PMCID: PMC2764345.
    53. Conklin B. Journal club. A geneticist wonders why we need to sleep. Nature. 2009 Oct 01; 461(7264):573. PMID: 19794457.
      View in: PubMed
    54. Lo B, Conklin B. Consent: criteria should be drawn up for tissue donors. Nature. 2009 Oct 01; 461(7264):593. PMID: 19794473.
      View in: PubMed
    55. Kelder T, Pico AR, Hanspers K, van Iersel MP, Evelo C, Conklin B. Mining biological pathways using WikiPathways web services. PLoS One. 2009 Jul 30; 4(7):e6447. PMID: 19649250; PMCID: PMC2714472.
    56. Neumann SA, Tingley WG, Conklin B, Shrader CJ, Peet E, Muldoon MF, Jennings JR, Ferrell RE, Manuck SB. AKAP10 (I646V) functional polymorphism predicts heart rate and heart rate variability in apparently healthy, middle-aged European-Americans. Psychophysiology. 2009 May; 46(3):466-72. PMID: 19496216; PMCID: PMC2890278.
    57. Kita-Matsuo H, Barcova M, Prigozhina N, Salomonis N, Wei K, Jacot JG, Nelson B, Spiering S, Haverslag R, Kim C, Talantova M, Bajpai R, Calzolari D, Terskikh A, McCulloch AD, Price JH, Conklin B, Chen HS, Mercola M. Lentiviral vectors and protocols for creation of stable hESC lines for fluorescent tracking and drug resistance selection of cardiomyocytes. PLoS One. 2009; 4(4):e5046. PMID: 19352491; PMCID: PMC2662416.
    58. Aalto-Setälä K, Conklin B, Lo B. Obtaining consent for future research with induced pluripotent cells: opportunities and challenges. PLoS Biol. 2009 Feb 24; 7(2):e42. PMID: 19243222; PMCID: PMC2652391.
    59. Pico AR, Smirnov IV, Chang JS, Yeh RF, Wiemels JL, Wiencke JK, Tihan T, Conklin B, Wrensch M. SNPLogic: an interactive single nucleotide polymorphism selection, annotation, and prioritization system. Nucleic Acids Res. 2009 Jan; 37(Database issue):D803-9. PMID: 18984625; PMCID: PMC2686434.
    60. van Iersel MP, Kelder T, Pico AR, Hanspers K, Coort S, Conklin B, Evelo C. Presenting and exploring biological pathways with PathVisio. BMC Bioinformatics. 2008 Sep 25; 9:399. PMID: 18817533; PMCID: PMC2569944.
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    119. Felder CC, Ma AL, Conklin B. Carbachol-induced reverse transformation of Chinese hamster ovary cells transfected with and expressing the m5 muscarinic acetylcholine receptor. FEBS Lett. 1989 Mar 13; 245(1-2):75-9. PMID: 2466702.
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