Bruce Conklin, MD

PROF IN RES-FY

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.

Education
2021 - DEI Champion, University of California San Francisco
01/1995 - Molecular Pharmacology, University of California San Francisco
06/1990 - Internal Medicine, Johns Hopkins Hospital
M.D., 06/1988 - Medicine, Case Western Reserve School of Medicine
A.B., 06/1982 - Public Health, University of California, Berkeley, CA
Honors and Awards
  • CWRU School of Medicine Distinguished Alumni Award, 2016
  • Fellow, California Academy of Sciences, 2011
  • Scientific American 50 Award, 2008
  • American Society for Clinical Investigation, 2003
  • Medical Resident Research Award-NIDDK, 1990
Websites
Publications

  1. Ramadoss GN, Namaganda SJ, Hamilton JR, Sharma R, Chow KG, Macklin BL, Sun M, Liu JC, Fellmann C, Watry HL, Jin J, Perez BS, Sandoval Espinoza CR, Matia MP, Lu SH, Judge LM, Nussenzweig A, Adamson B, Murthy N, Doudna JA, Kampmann M, Conklin BR. Neuronal DNA repair reveals strategies to influence CRISPR editing outcomes. bioRxiv : the preprint server for biology 2024. PMID: 38979269


  2. Yeh LH, Ivanov IE, Chandler T, Byrum JR, Chhun BB, Guo SM, Foltz C, Hashemi E, Perez-Bermejo JA, Wang H, Yu Y, Kazansky PG, Conklin BR, Han MH, Mehta SB. Permittivity tensor imaging: modular label-free imaging of 3D dry mass and 3D orientation at high resolution. Nature methods 2024. PMID: 38890427


  3. Van Lent J, Prior R, Pérez Siles G, Cutrupi AN, Kennerson ML, Vangansewinkel T, Wolfs E, Mukherjee-Clavin B, Nevin Z, Judge L, Conklin B, Tyynismaa H, Clark AJ, Bennett DL, Van Den Bosch L, Saporta M, Timmerman V. Advances and challenges in modeling inherited peripheral neuropathies using iPSCs. Experimental & molecular medicine 2024. PMID: 38825644


  4. Chu SN, Soupene E, Wienert B, Yin H, Sharma D, McCreary T, Jia K, Homma S, Hampton JP, Gardner JM, Conklin BR, MacKenzie TC, Porteus MH, Cromer MK. Dual α-globin and truncated EPO receptor knockin restores hemoglobin production in α-thalassemia-derived red blood cells. bioRxiv : the preprint server for biology 2024. PMID: 38766216


  5. Sachdev A, Gill K, Sckaff M, Birk AM, Aladesuyi Arogundade O, Brown KA, Chouhan RS, Issagholian-Lewin PO, Patel E, Watry HL, Bernardi MT, Keough KC, Tsai YC, Smith AST, Conklin BR, Clelland CD. Reversal of C9orf72 mutation-induced transcriptional dysregulation and pathology in cultured human neurons by allele-specific excision. Proceedings of the National Academy of Sciences of the United States of America 2024. PMID: 38621131


  6. Perez-Bermejo JA, Reisman SJ, Ma J, Carrison-Stone D, Cerrito C, Ribeiro AJS, Conklin BR, Yu K. Give heart cells a beat: An interactive museum exhibit that synchronizes stem cell-derived cardiomyocytes to visitors' heartbeat. Stem cell reports 2024. PMID: 38335963


  7. Salomonsson SE, Maltos AM, Gill K, Aladesuyi Arogundade O, Brown KA, Sachdev A, Sckaff M, Lam KJK, Fisher IJ, Chouhan RS, Van Laar VS, Marley CB, McLaughlin I, Bankiewicz KS, Tsai YC, Conklin BR, Clelland CD. Validated assays for the quantification of C9orf72 human pathology. Scientific Reports 2024. PMID: 38191789


  8. Simon N Chu, Eric Soupene, Beeke Wienert, Han Yin, Devesh Sharma, Kun Jia, Shota Homma, Jessica P Hampton, Bruce Conklin, Tippi C. MacKenzie, Matthew Porteus, Kyle Cromer. Dual a-Globin and Truncated EPO Receptor Knockin Restores Hemoglobin Production in a-Thalassemia-Derived Hematopoietic Stem and Progenitor Cells. Blood 2023. PMID:


  9. Juan A. Perez-Bermejo, Luke M. Judge, Christina L. Jensen, Kenneth Wu, Hannah L. Watry, Annie Truong, Jaclyn J. Ho, Matthew Carter, Wendy V. Runyon, Robyn M. Kaake, Ernst H. Pulido, Mohammad A. Mandegar, Danielle L. Swaney, Po-Lin So, Nevan J. Krogan, Bruce R. Conklin. Functional analysis of a common BAG3 allele associated with protection from heart failure. Nature cardiovascular research 2023. PMID:


  10. Iwagawa T, Masumoto H, Tabuchi H, Tani K, Conklin BR, Watanabe S. Evaluation of CRISPR/Cas9 exon-skipping vector for choroideremia using human induced pluripotent stem cell-derived RPE. The journal of gene medicine 2022. PMID: 36413603


  11. Pantazis CB, Yang A, Lara E, McDonough JA, Blauwendraat C, Peng L, Oguro H, Kanaujiya J, Zou J, Sebesta D, Pratt G, Cross E, Blockwick J, Buxton P, Kinner-Bibeau L, Medura C, Tompkins C, Hughes S, Santiana M, Faghri F, Nalls MA, Vitale D, Ballard S, Qi YA, Ramos DM, Anderson KM, Stadler J, Narayan P, Papademetriou J, Reilly L, Nelson MP, Aggarwal S, Rosen LU, Kirwan P, Pisupati V, Coon SL, Scholz SW, Priebe T, ?ttl M, Dong J, Meijer M, Janssen LJM, Lourenco VS, van der Kant R, Crusius D, Paquet D, Raulin AC, Bu G, Held A, Wainger BJ, Gabriele RMC, Casey JM, Wray S, Abu-Bonsrah D, Parish CL, Beccari MS, Cleveland DW, Li E, Rose IVL, Kampmann M, Calatayud Aristoy C, Verstreken P, Heinrich L, Chen MY, Sch?le B, Dou D, Holzbaur ELF, Zanellati MC, Basundra R, Deshmukh M, Cohen S, Khanna R, Raman M, Nevin ZS, Matia M, Van Lent J, Timmerman V, Conklin BR, Johnson Chase K, Zhang K, Funes S, Bosco DA, Erlebach L, Welzer M, Kronenberg-Versteeg D, Lyu G, Arenas E, Coccia E, Sarrafha L, Ahfeldt T, Marioni JC, Skarnes WC, Cookson MR, Ward ME, Merkle FT. A reference human induced pluripotent stem cell line for large-scale collaborative studies. Cell stem cell 2022. PMID: 36459969


  12. Zhu L, Choudhary K, Gonzalez-Teran B, Ang YS, Thomas R, Stone NR, Liu L, Zhou P, Zhu C, Ruan H, Huang Y, Jin S, Pelonero A, Koback F, Padmanabhan A, Sadagopan N, Hsu A, Costa MW, Gifford CA, van Bemmel JG, Hüttenhain R, Vedantham V, Conklin BR, Black BL, Bruneau BG, Steinmetz L, Krogan NJ, Pollard KS, Srivastava D. Transcription Factor GATA4 Regulates Cell Type-Specific Splicing Through Direct Interaction With RNA in Human Induced Pluripotent Stem Cell-Derived Cardiac Progenitors. Circulation 2022. PMID: 35938400


  13. Gonzalez-Teran B, Pittman M, Felix F, Thomas R, Richmond-Buccola D, Hüttenhain R, Choudhary K, Moroni E, Costa MW, Huang Y, Padmanabhan A, Alexanian M, Lee CY, Maven BEJ, Samse-Knapp K, Morton SU, McGregor M, Gifford CA, Seidman JG, Seidman CE, Gelb BD, Colombo G, Conklin BR, Black BL, Bruneau BG, Krogan NJ, Pollard KS, Srivastava D. Transcription factor protein interactomes reveal genetic determinants in heart disease. 2022. PMID: 35182466


  14. Samelson AJ, Tran QD, Robinot R, Carrau L, Rezelj VV, Kain AM, Chen M, Ramadoss GN, Guo X, Lim SA, Lui I, Nuñez JK, Rockwood SJ, Wang J, Liu N, Carlson-Stevermer J, Oki J, Maures T, Holden K, Weissman JS, Wells JA, Conklin BR, TenOever BR, Chakrabarti LA, Vignuzzi M, Tian R, Kampmann M. BRD2 inhibition blocks SARS-CoV-2 infection by reducing transcription of the host cell receptor ACE2. 2022. PMID: 35027731


  15. Barbara Gonzalez Teran, Maureen Pittman, Reuben Thomas, Franco Felix, Desmond Richmond-Buccola, Krishna Choudhary, Elisabetta Moroni, Colombo Giorgio, Arun Padmanabhan, Mauro Costa, Yu Huang, Michael Alexanian, Clara Lee, Bonie Cole, Kaitlen Samse-Knapp, Michael McGregor, Casey Gifford, Ruth Huttenhain, Bruce Gelb, Bruce Conklin, Brian L Black, Benoit Bruneau, Nevan Krogan, Katherine Pollard, Deepak Srivastava. Abstract 11332: Integration of Protein Interactome Networks with Congenital Heart Disease Variants Reveals Candidate Disease Genes. Circulation 2021. PMID:


  16. Fenix AM, Miyaoka Y, Bertero A, Blue SM, Spindler MJ, Tan KKB, Perez-Bermejo JA, Chan AH, Mayerl SJ, Nguyen TD, Russell CR, Lizarraga PP, Truong A, So PL, Kulkarni A, Chetal K, Sathe S, Sniadecki NJ, Yeo GW, Murry CE, Conklin BR, Salomonis N. Gain-of-function cardiomyopathic mutations in RBM20 rewire splicing regulation and re-distribute ribonucleoprotein granules within processing bodies. 2021. PMID: 34732726


  17. Tian R, Samelson AJ, Rezelj VV, Chen M, Ramadoss GN, Guo X, Kain AM, Tran QD, Lim SA, Lui I, Nunez J, Rockwood SJ, Liu N, Carlson-Stevermer J, Oki J, Maures T, Holden K, Weissman JS, Wells JA, Conklin B, Vignuzzi M, Kampmann M. BRD2 inhibition blocks SARS-CoV-2 infection in vitro by reducing transcription of the host cell receptor ACE2. bioRxiv : the preprint server for biology 2021. PMID: 33501440


  18. Feliciano CM, Wu K, Watry HL, Marley CBE, Ramadoss GN, Ghanim HY, Liu AZ, Zholudeva LV, McDevitt TC, Saporta MA, Conklin BR, Judge LM. Allele-Specific Gene Editing Rescues Pathology in a Human Model of Charcot-Marie-Tooth Disease Type 2E. Frontiers in cell and developmental biology 2021. PMID: 34485306


  19. Vila OF, Chavez M, Ma SP, Yeager K, Zholudeva LV, Colón-Mercado JM, Qu Y, Nash TR, Lai C, Feliciano CM, Carter M, Kamm RD, Judge LM, Conklin BR, Ward ME, McDevitt TC, Vunjak-Novakovic G. Bioengineered optogenetic model of human neuromuscular junction. Biomaterials 2021. PMID: 34403849


  20. Dewell TE, Gjoni K, Liu AZ, Libby ARG, Moore AT, So PL, Conklin BR. Transcription factor overexpression drives reliable differentiation of retinal pigment epithelium from human induced pluripotent stem cells. Stem cell research 2021. PMID: 34087997


  21. Perez-Bermejo JA, Kang S, Rockwood SJ, Simoneau CR, Joy DA, Silva AC, Ramadoss GN, Flanigan WR, Fozouni P, Li H, Chen PY, Nakamura K, Whitman JD, Hanson PJ, McManus BM, Ott M, Conklin BR, McDevitt TC. SARS-CoV-2 infection of human iPSC-derived cardiac cells reflects cytopathic features in hearts of patients with COVID-19. Science translational medicine 2021. PMID: 33723017


  22. Georgia L. Gregory, Beeke Wienert, Marisa Schwab, Billie Rachael Lianoglou, Roger P. Hollis, Donald B. Kohn, Bruce R. Conklin, Tippi C. MacKenzie. Investigating Zeta Globin Gene Expression to Develop a Potential Therapy for Alpha Thalassemia Major. Blood 2020. PMID:


  23. Pérez-Bermejo JA, Kang S, Rockwood SJ, Simoneau CR, Joy DA, Ramadoss GN, Silva AC, Flanigan WR, Li H, Nakamura K, Whitman JD, Ott M, Conklin BR, McDevitt TC. SARS-CoV-2 infection of human iPSC-derived cardiac cells predicts novel cytopathic features in hearts of COVID-19 patients. bioRxiv : the preprint server for biology 2020. PMID: 32935097


  24. Watry HL, Feliciano CM, Gjoni K, Takahashi G, Miyaoka Y, Conklin BR, Judge LM. Rapid, precise quantification of large DNA excisions and inversions by ddPCR. Scientific Reports 2020. PMID: 32913194


  25. Takahashi K, Jeong D, Wang S, Narita M, Jin X, Iwasaki M, Perli SD, Conklin BR, Yamanaka S. Critical Roles of Translation Initiation and RNA Uridylation in Endogenous Retroviral Expression and Neural Differentiation in Pluripotent Stem Cells. Cell reports 2020. PMID: 32492424


  26. Wienert B, Nguyen DN, Guenther A, Feng SJ, Locke MN, Wyman SK, Shin J, Kazane KR, Gregory GL, Carter MAM, Wright F, Conklin BR, Marson A, Richardson CD, Corn JE. Timed inhibition of CDC7 increases CRISPR-Cas9 mediated templated repair. Nature communications 2020. PMID: 32355159


  27. Wienert B, Wyman SK, Yeh CD, Conklin BR, Corn JE. CRISPR off-target detection with DISCOVER-seq. Nature protocols 2020. PMID: 32313254


  28. Chenyan Wang, Sangmo Koo, Minok Park, Zacharias Vangelatos, Plansky Hoang, Bruce R. Conklin, Costas P. Grigoropoulos, Kevin E. Healy, Zhen Ma. Cardiac Microtissues: Maladaptive Contractility of 3D Human Cardiac Microtissues to Mechanical Nonuniformity (Adv. Healthcare Mater. 8/2020). Advanced healthcare materials 2020. PMID:


  29. Wang C, Koo S, Park M, Vangelatos Z, Hoang P, Conklin BR, Grigoropoulos CP, Healy KE, Ma Z. Maladaptive Contractility of 3D Human Cardiac Microtissues to Mechanical Nonuniformity. Advanced healthcare materials 2020. PMID: 32090507


  30. Libby ARG, Briers D, Haghighi I, Joy DA, Conklin BR, Belta C, McDevitt TC. Automated Design of Pluripotent Stem Cell Self-Organization. Cell systems 2019. PMID: 31759947


  31. Keough KC, Lyalina S, Olvera MP, Whalen S, Conklin BR, Pollard KS. AlleleAnalyzer: a tool for personalized and allele-specific sgRNA design. Genome biology 2019. PMID: 31416467


  32. Juan A Perez-Bermejo, Luke M Judge, Kenneth Wu, Christina L Jensen, Robyn M Kaake, Danielle Swaney, Po-Lin So, Nevan J Krogan, Bruce R Conklin. Abstract 934: Physical and Genetic Interaction Analyses in Human Pluripotent Stem Cell-Derived Cardiomyocytes to Study Protein Quality Control Disease in the Heart. Circulation research 2019. PMID:


  33. 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. Phenotype-Based High-Throughput Classification of Long QT Syndrome Subtypes Using Human Induced Pluripotent Stem Cells. Stem cell reports 2019. PMID: 31378668


  34. 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. Mapping cis-regulatory chromatin contacts in neural cells links neuropsychiatric disorder risk variants to target genes. Nature genetics 2019. PMID: 31367015


  35. Claire Clelland, J. Iker Etchegaray, Lay Kodama, Faten Sayed, Aradhana Sachdev, Yaqiao Li, David Le, Lihong Zhan, Yungui Zhou, Duc Duong, Nicholas T. Seyfried, Thomas G. Kukar, Li Xuan Tan, Aparna Lakkaraju, Bruce Conklin, Li Gan. A NOVEL ROLE FOR THE FTD-CAUSING PROTEIN PROGRANULIN IN APOPTOSIS SIGNALING. Alzheimer's & Dementia 2019. PMID:


  36. 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. Unbiased detection of CRISPR off-targets in vivo using DISCOVER-Seq. Volume 364 of Issue 6437. Science (New York, N.Y.) 2019. PMID: 31000663


  37. Conklin BR. On the road to a gene drive in mammals. Volume 566 of Issue 7742. Nature 2019. PMID: 30710124


  38. Eskildsen TV, Ayoubi S, Thomassen M, Burton M, Mandegar MA, Conklin BR, Jensen CH, Andersen DC, Sheikh SP. MESP1 knock-down in human iPSC attenuates early vascular progenitor cell differentiation after completed primitive streak specification. Volume 445 of Issue 1. Developmental biology 2018. PMID: 30389344


  39. Libby AR, Joy DA, So PL, Mandegar MA, Muncie JM, Mendoza-Camacho FN, Weaver VM, Conklin BR, McDevitt TC. Spatiotemporal mosaic self-patterning of pluripotent stem cells using CRISPR interference. Volume 7. eLife 2018. PMID: 30298816


  40. Ma Z, Huebsch N, Koo S, Mandegar MA, Siemons B, Boggess S, Conklin BR, Grigoropoulos CP, Healy KE. Contractile deficits in engineered cardiac microtissues as a result of MYBPC3 deficiency and mechanical overload. Nature biomedical engineering 2018. PMID: 31015724


  41. Hoang P, Huebsch N, Bang SH, Siemons BA, Conklin BR, Healy KE, Ma Z, Jacquir S. Quantitatively characterizing drug-induced arrhythmic contractile motions of human stem cell-derived cardiomyocytes. Volume 115 of Issue 8. Biotechnology and bioengineering 2018. PMID: 29663322


  42. Plansky Hoang, Nathaniel Huebsch, Shin Hyuk Bang, Brian A. Siemons, Bruce R. Conklin, Kevin E. Healy, Zhen Ma, Sabir Jacquir. Quantitatively Characterizing Drug-Induced Arrhythmic Contractile Motions of Human Stem Cell-Derived Cardiomyocytes. Biotechnology and bioengineering 2018. PMID:


  43. Hoang P, Wang J, Conklin BR, Healy KE, Ma Z. Generation of spatial-patterned early-developing cardiac organoids using human pluripotent stem cells. Volume 13 of Issue 4. Nature protocols 2018. PMID: 29543795


  44. Miyaoka Y, Mayerl SJ, Chan AH, Conklin BR. Detection and Quantification of HDR and NHEJ Induced by Genome Editing at Endogenous Gene Loci Using Droplet Digital PCR. Volume 1768. Methods in molecular biology (Clifton, N.J.) 2018. PMID: 29717453


  45. Miller Huang, Tina Zheng, Jeffrey Guo, Colin Sperring, Matthew Miller, Lauren McHenry, Qiqi Zhen, Branden Moriarity, Marianne Bronner, Bruce Conklin, David Largaespada, John Maris, Katherine Matthay, William Weiss. TMOD-09. HUMAN PLURIPOTENT STEM CELL-BASED MODELS OF NEUROBLASTOMA. Neuro-oncology 2017. PMID:


  46. 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. A BAG3 chaperone complex maintains cardiomyocyte function during proteotoxic stress. Volume 2 of Issue 14. JCI insight 2017. PMID: 28724793


  47. Ribeiro AJS, Schwab O, Mandegar MA, Ang YS, Conklin BR, Srivastava D, Pruitt BL. Multi-Imaging Method to Assay the Contractile Mechanical Output of Micropatterned Human iPSC-Derived Cardiac Myocytes. Volume 120 of Issue 10. Circulation research 2017. PMID: 28400398


  48. 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. CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Volume 355 of Issue 6320. Science (New York, N.Y.) 2016. PMID: 27980086


  49. 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. Engineered human pluripotent-stem-cell-derived intestinal tissues with a functional enteric nervous system. Volume 23 of Issue 1. Nature medicine 2016. PMID: 27869805


  50. Siyuan Liu, Max Horlbeck, Seung Woo Cho, Harjus Birk, Martina Malatesta, Daniel He, Jacqueline Villalta, Min Cho, Yuwen Chen, Mohammad Mandegar, Michael Olvera, Bruce Conklin, Howard Chang, Jonathan Weissman, Daniel Lim. GENT-49. SYSTEMATIC IDENTIFICATION OF ESSENTIAL LONG NON-CODING RNA GENES IN GLIOBLASTOMA. Neuro-oncology 2016. PMID:


  51. 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. BMP-SMAD-ID promotes reprogramming to pluripotency by inhibiting p16/INK4A-dependent senescence. Volume 113 of Issue 46. Proceedings of the National Academy of Sciences of the United States of America 2016. PMID: 27794120


  52. P. Loskill, A. Mathur, B.R. Conklin, A. Stahl, L.P. Lee, K.E. Healy. Organs-on-a-chip – Microphysiological platforms as in vitro models of cardiac and adipose tissue. Toxicology Letters 2016. PMID:


  53. Miyaoka Y, Chan AH, Conklin BR. Detecting Single-Nucleotide Substitutions Induced by Genome Editing. Volume 2016 of Issue 8. Cold Spring Harbor protocols 2016. PMID: 27250209


  54. Miyaoka Y, Chan AH, Conklin BR. Using Digital Polymerase Chain Reaction to Detect Single-Nucleotide Substitutions Induced by Genome Editing. Volume 2016 of Issue 8. Cold Spring Harbor protocols 2016. PMID: 27250210


  55. Nguyen DP, Miyaoka Y, Gilbert LA, Mayerl SJ, Lee BH, Weissman JS, Conklin BR, Wells JA. Ligand-binding domains of nuclear receptors facilitate tight control of split CRISPR activity. Volume 7. Nature communications 2016. PMID: 27363581


  56. 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. Miniaturized iPS-Cell-Derived Cardiac Muscles for Physiologically Relevant Drug Response Analyses. Volume 6. Scientific Reports 2016. PMID: 27095412


  57. Miyaoka Y, Berman JR, Cooper SB, Mayerl SJ, Chan AH, Zhang B, Karlin-Neumann GA, Conklin BR. Systematic quantification of HDR and NHEJ reveals effects of locus, nuclease, and cell type on genome-editing. Volume 6. Scientific Reports 2016. PMID: 27030102


  58. 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. CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs. Volume 18 of Issue 4. Cell stem cell 2016. PMID: 26971820


  59. Huang M, Miller ML, McHenry LK, Zheng T, Zhen Q, Ilkhanizadeh S, Conklin BR, Bronner ME, Weiss WA. Generating trunk neural crest from human pluripotent stem cells. Volume 6. Scientific Reports 2016. PMID: 26812940


  60. Kime C, Mandegar MA, Srivastava D, Yamanaka S, Conklin BR, Rand TA. Efficient CRISPR/Cas9-Based Genome Engineering in Human Pluripotent Stem Cells. Volume 88. Current protocols in human genetics 2016. PMID: 26724721


  61. Ma Z, Wang J, Loskill P, Huebsch N, Koo S, Svedlund FL, Marks NC, Hua EW, Grigoropoulos CP, Conklin BR, Healy KE. Self-organizing human cardiac microchambers mediated by geometric confinement. Volume 6. Nature communications 2015. PMID: 26172574


  62. 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. Volume 130 of Issue 2. Acta neuropathologica 2015. PMID: 25975378


  63. Wang L, Hsiao EC, Lieu S, Scott M, O'Carroll D, Urrutia A, Conklin BR, Colnot C, Nissenson RA. Loss of Gi G-Protein-Coupled Receptor Signaling in Osteoblasts Accelerates Bone Fracture Healing. Volume 30 of Issue 10. Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2015. PMID: 25917236


  64. 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. Structure-based discovery of NANOG variant with enhanced properties to promote self-renewal and reprogramming of pluripotent stem cells. Volume 112 of Issue 15. Proceedings of the National Academy of Sciences of the United States of America 2015. PMID: 25825768


  65. Maddah M, Heidmann JD, Mandegar MA, Walker CD, Bolouki S, Conklin BR, Loewke KE. A non-invasive platform for functional characterization of stem-cell-derived cardiomyocytes with applications in cardiotoxicity testing. Volume 4 of Issue 4. Stem cell reports 2015. PMID: 25801505


  66. Mathur A, Loskill P, Shao K, Huebsch N, Hong S, Marcus SG, Marks N, Mandegar M, Conklin BR, Lee LP, Healy KE. Human iPSC-based cardiac microphysiological system for drug screening applications. Volume 5. Scientific Reports 2015. PMID: 25748532


  67. Wattanachanya L, Wang L, Millard SM, Lu WD, O'Carroll D, Hsiao EC, Conklin BR, Nissenson RA. Assessing the osteoblast transcriptome in a model of enhanced bone formation due to constitutive Gs-G protein signaling in osteoblasts. Volume 333 of Issue 2. Experimental cell research 2015. PMID: 25704759


  68. 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. Gai/o-coupled receptor signaling restricts pancreatic ß-cell expansion. Volume 112 of Issue 9. Proceedings of the National Academy of Sciences of the United States of America 2015. PMID: 25695968


  69. 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. Astrocytic adenosine receptor A2A and Gs-coupled signaling regulate memory. Volume 18 of Issue 3. Nature neuroscience 2015. PMID: 25622143


  70. 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. Automated Video-Based Analysis of Contractility and Calcium Flux in Human-Induced Pluripotent Stem Cell-Derived Cardiomyocytes Cultured over Different Spatial Scales. Volume 21 of Issue 5. Tissue engineering. Part C, Methods 2015. PMID: 25333967


  71. Christopher M. Heylman, Rupsa Datta, Bruce R. Conklin, Steven C. George, Enrico Gratton. Classifying the Electrophysiological Effects of Chronotropic Drugs on Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes using Voltage Sensitive Dyes and Supervised Machine Learning. Biophysical journal 2015. PMID:


  72. 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. Calcium transients closely reflect prolonged action potentials in iPSC models of inherited cardiac arrhythmia. Volume 3 of Issue 2. Stem cell reports 2014. PMID: 25254341


  73. Park JS, Rhau B, Hermann A, McNally KA, Zhou C, Gong D, Weiner OD, Conklin BR, Onuffer J, Lim WA. Synthetic control of mammalian-cell motility by engineering chemotaxis to an orthogonal bioinert chemical signal. Volume 111 of Issue 16. Proceedings of the National Academy of Sciences of the United States of America 2014. PMID: 24711398


  74. Miyaoka Y, Chan AH, Judge LM, Yoo J, Huang M, Nguyen TD, Lizarraga PP, So PL, Conklin BR. Isolation of single-base genome-edited human iPS cells without antibiotic selection. Volume 11 of Issue 3. Nature methods 2014. PMID: 24509632


  75. Mathur A, Loskill P, Hong S, Lee J, Marcus SG, Dumont L, Conklin BR, Willenbring H, Lee LP, Healy KE. Human induced pluripotent stem cell-based microphysiological tissue models of myocardium and liver for drug development. Volume 4 Suppl 1. Stem cell research & therapy 2013. PMID: 24565415


  76. 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. Induced pluripotent stem cells from patients with human fibrodysplasia ossificans progressiva show increased mineralization and cartilage formation. Volume 8. Orphanet journal of rare diseases 2013. PMID: 24321451


  77. Ma Z, Koo S, Finnegan MA, Loskill P, Huebsch N, Marks NC, Conklin BR, Grigoropoulos CP, Healy KE. Three-dimensional filamentous human diseased cardiac tissue model. Volume 35 of Issue 5. Biomaterials 2013. PMID: 24268663


  78. Taglieri DM, Johnson KR, Burmeister BT, Monasky MM, Spindler MJ, DeSantiago J, Banach K, Conklin BR, Carnegie GK. The C-terminus of the long AKAP13 isoform (AKAP-Lbc) is critical for development of compensatory cardiac hypertrophy. Volume 66. Journal of molecular and cellular cardiology 2013. PMID: 24161911


  79. Conklin BR. Sculpting genomes with a hammer and chisel. Volume 10 of Issue 9. Nature methods 2013. PMID: 23985729


  80. Kreitzer FR, Salomonis N, Sheehan A, Huang M, Park JS, Spindler MJ, Lizarraga P, Weiss WA, So PL, Conklin BR. A robust method to derive functional neural crest cells from human pluripotent stem cells. Volume 2 of Issue 2. American journal of stem cells 2013. PMID: 23862100


  81. Spindler MJ, Burmeister BT, Huang Y, Hsiao EC, Salomonis N, Scott MJ, Srivastava D, Carnegie GK, Conklin BR. AKAP13 Rho-GEF and PKD-binding domain deficient mice develop normally but have an abnormal response to ß-adrenergic-induced cardiac hypertrophy. Volume 8 of Issue 4. PloS one 2013. PMID: 23658642


  82. 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. Structure of a novel winged-helix like domain from human NFRKB protein. Volume 7 of Issue 9. PloS one 2012. PMID: 22984442


  83. 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. Derivation conditions impact X-inactivation status in female human induced pluripotent stem cells. Volume 11 of Issue 1. Cell stem cell 2012. PMID: 22770243


  84. Zambon AC, Gaj S, Ho I, Hanspers K, Vranizan K, Evelo CT, Conklin BR, Pico AR, Salomonis N. GO-Elite: a flexible solution for pathway and ontology over-representation. Volume 28 of Issue 16. Bioinformatics (Oxford, England) 2012. PMID: 22743224


  85. Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin BR, Evelo CT, Pico AR. WikiPathways: building research communities on biological pathways. Volume 40 of Issue Database issue. Nucleic acids research 2011. PMID: 22096230


  86. 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. Model for long QT syndrome type 2 using human iPS cells demonstrates arrhythmogenic characteristics in cell culture. Volume 5 of Issue 2. Disease models & mechanisms 2011. PMID: 22052944


  87. Kazakia GJ, Speer D, Shanbhag S, Majumdar S, Conklin BR, Nissenson RA, Hsiao EC. Mineral composition is altered by osteoblast expression of an engineered G(s)-coupled receptor. Volume 89 of Issue 1. Calcified tissue international 2011. PMID: 21526395


  88. Millard SM, Louie AM, Wattanachanya L, Wronski TJ, Conklin BR, Nissenson RA. Blockade of receptor-activated G(i) signaling in osteoblasts in vivo leads to site-specific increases in cortical and cancellous bone formation. Volume 26 of Issue 4. Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2011. PMID: 20939063


  89. Hsiao EC, Nguyen TD, Ng JK, Scott MJ, Chang WC, Zahed H, Conklin BR. Constitutive Gs activation using a single-construct tetracycline-inducible expression system in embryonic stem cells and mice. Volume 2 of Issue 2. Stem cell research & therapy 2011. PMID: 21375737


  90. Kelder T, Conklin BR, Evelo CT, Pico AR. Finding the right questions: exploratory pathway analysis to enhance biological discovery in large datasets. Volume 8 of Issue 8. PLoS biology 2010. PMID: 20824171


  91. Salomonis N, Conklin BR. Stem cell pluripotency: alternative modes of transcription regulation. Volume 9 of Issue 16. Cell cycle (Georgetown, Tex.) 2010. PMID: 20814242


  92. van Laake LW, Qian L, Cheng P, Huang Y, Hsiao EC, Conklin BR, Srivastava D. Reporter-based isolation of induced pluripotent stem cell- and embryonic stem cell-derived cardiac progenitors reveals limited gene expression variance. Volume 107 of Issue 3. Circulation research 2010. PMID: 20558827


  93. Emig D, Salomonis N, Baumbach J, Lengauer T, Conklin BR, Albrecht M. AltAnalyze and DomainGraph: analyzing and visualizing exon expression data. Volume 38 of Issue Web Server issue. Nucleic acids research 2010. PMID: 20513647


  94. 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 BR. Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation. Volume 107 of Issue 23. Proceedings of the National Academy of Sciences of the United States of America 2010. PMID: 20498046


  95. Hsiao EC, Boudignon BM, Halloran BP, Nissenson RA, Conklin BR. Gs G protein-coupled receptor signaling in osteoblasts elicits age-dependent effects on bone formation. Volume 25 of Issue 3. Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2010. PMID: 20200944


  96. Hsiao EC, Millard SM, Louie A, Huang Y, Conklin BR, Nissenson RA. Ligand-mediated activation of an engineered gs g protein-coupled receptor in osteoblasts increases trabecular bone formation. Volume 24 of Issue 3. Molecular endocrinology (Baltimore, Md.) 2010. PMID: 20150184


  97. 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. Volume 6 of Issue 1. Cell stem cell 2010. PMID: 20085739


  98. van Iersel MP, Pico AR, Kelder T, Gao J, Ho I, Hanspers K, Conklin BR, Evelo CT. The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. Volume 11. BMC bioinformatics 2010. PMID: 20047655


  99. Nakamura K, Salomonis N, Tomoda K, Yamanaka S, Conklin BR. G(i)-coupled GPCR signaling controls the formation and organization of human pluripotent colonies. Volume 4 of Issue 11. PloS one 2009. PMID: 19936228


  100. Salomonis N, Nelson B, Vranizan K, Pico AR, Hanspers K, Kuchinsky A, Ta L, Mercola M, Conklin BR. Alternative splicing in the differentiation of human embryonic stem cells into cardiac precursors. Volume 5 of Issue 11. PLoS computational biology 2009. PMID: 19893621


  101. Lo B, Conklin BR. Consent: criteria should be drawn up for tissue donors. Volume 461 of Issue 7264. Nature 2009. PMID: 19794473


  102. Conklin BR. Journal club. A geneticist wonders why we need to sleep. Volume 461 of Issue 7264. Nature 2009. PMID: 19794457


  103. Kelder T, Pico AR, Hanspers K, van Iersel MP, Evelo C, Conklin BR. Mining biological pathways using WikiPathways web services. Volume 4 of Issue 7. PloS one 2009. PMID: 19649250


  104. Neumann SA, Tingley WG, Conklin BR, 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. Volume 46 of Issue 3. Psychophysiology 2009. PMID: 19496216


  105. S. Millard, A. Louie, C. Manalac, W. Lu, N. Cotte, T.J. Wronski, B. Conklin, R.A. Nissenson. Endogenous Gi signaling in osteoblasts participates in sexually dimorphic regulation of cancellous bone structure. Bone 2009. PMID:


  106. 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 BR, Chen HS, Mercola M. Lentiviral vectors and protocols for creation of stable hESC lines for fluorescent tracking and drug resistance selection of cardiomyocytes. Volume 4 of Issue 4. PloS one 2009. PMID: 19352491


  107. Aalto-Setälä K, Conklin BR, Lo B. Obtaining consent for future research with induced pluripotent cells: opportunities and challenges. Volume 7 of Issue 2. PLoS biology 2009. PMID: 19243222


  108. Pico AR, Smirnov IV, Chang JS, Yeh RF, Wiemels JL, Wiencke JK, Tihan T, Conklin BR, Wrensch M. SNPLogic: an interactive single nucleotide polymorphism selection, annotation, and prioritization system. Volume 37 of Issue Database issue. Nucleic acids research 2008. PMID: 18984625


  109. van Iersel MP, Kelder T, Pico AR, Hanspers K, Coort S, Conklin BR, Evelo C. Presenting and exploring biological pathways with PathVisio. Volume 9. BMC bioinformatics 2008. PMID: 18817533


  110. Conklin BR, Hsiao EC, Claeysen S, Dumuis A, Srinivasan S, Forsayeth JR, Guettier JM, Chang WC, Pei Y, McCarthy KD, Nissenson RA, Wess J, Bockaert J, Roth BL. Engineering GPCR signaling pathways with RASSLs. Volume 5 of Issue 8. Nature methods 2008. PMID: 18668035


  111. Pico AR, Kelder T, van Iersel MP, Hanspers K, Conklin BR, Evelo C. WikiPathways: pathway editing for the people. Volume 6 of Issue 7. PLoS biology 2008. PMID: 18651794


  112. Hsiao EC, Yoshinaga Y, Nguyen TD, Musone SL, Kim JE, Swinton P, Espineda I, Manalac C, deJong PJ, Conklin BR. Marking embryonic stem cells with a 2A self-cleaving peptide: a NKX2-5 emerald GFP BAC reporter. Volume 3 of Issue 7. PloS one 2008. PMID: 18596956


  113. Kristina Hanspers, Alexander R. Pico, Nathan Salomonis, Alexander C. Zambon, Karen Vranizan, Steven C. Lawlor, Kam D. Dahlquist, Scott W. Doniger, Bruce R. Conklin. An Introduction to Pathway Analysis with GenMAPP. NCI Nature Pathway Interaction Database 2008. PMID:


  114. Ivey KN, Muth A, Arnold J, King FW, Yeh RF, Fish JE, Hsiao EC, Schwartz RJ, Conklin BR, Bernstein HS, Srivastava D. MicroRNA regulation of cell lineages in mouse and human embryonic stem cells. Volume 2 of Issue 3. Cell stem cell 2008. PMID: 18371447


  115. Lingzhi Zhang, Alexander C Zambon, Karen Vranizan, Kanishka Pothula, Bruce R Conklin, Paul A Insel. Comparative analysis of wild-type and cAMP-deathless S49 lymphoma cells identifies genes and pathways of cAMP/PKA-promoted apoptosis. The FASEB Journal 2008. PMID:


  116. Hsiao EC, Boudignon BM, Chang WC, Bencsik M, Peng J, Nguyen TD, Manalac C, Halloran BP, Conklin BR, Nissenson RA. Osteoblast expression of an engineered Gs-coupled receptor dramatically increases bone mass. Volume 105 of Issue 4. Proceedings of the National Academy of Sciences of the United States of America 2008. PMID: 18212126


  117. Chang WC, Ng JK, Nguyen T, Pellissier L, Claeysen S, Hsiao EC, Conklin BR. Modifying ligand-induced and constitutive signaling of the human 5-HT4 receptor. Volume 2 of Issue 12. PloS one 2007. PMID: 18338032


  118. Peng J, Bencsik M, Louie A, Lu W, Millard S, Nguyen P, Burghardt A, Majumdar S, Wronski TJ, Halloran B, Conklin BR, Nissenson RA. Conditional expression of a Gi-coupled receptor in osteoblasts results in trabecular osteopenia. Volume 149 of Issue 3. Endocrinology 2007. PMID: 18048501


  119. Zhang L, Zambon AC, Vranizan K, Pothula K, Conklin BR, Insel PA. Gene expression signatures of cAMP/protein kinase A (PKA)-promoted, mitochondrial-dependent apoptosis. Comparative analysis of wild-type and cAMP-deathless S49 lymphoma cells. Volume 283 of Issue 7. The Journal of biological chemistry 2007. PMID: 18048352


  120. Srinivasan S, Santiago P, Lubrano C, Vaisse C, Conklin BR. Engineering the melanocortin-4 receptor to control constitutive and ligand-mediated G(S) signaling in vivo. Volume 2 of Issue 7. PloS one 2007. PMID: 17668051


  121. Nord AS, Vranizan K, Tingley W, Zambon AC, Hanspers K, Fong LG, Hu Y, Bacchetti P, Ferrin TE, Babbitt PC, Doniger SW, Skarnes WC, Young SG, Conklin BR. Modeling insertional mutagenesis using gene length and expression in murine embryonic stem cells. Volume 2 of Issue 7. PloS one 2007. PMID: 17637833


  122. Salomonis N, Hanspers K, Zambon AC, Vranizan K, Lawlor SC, Dahlquist KD, Doniger SW, Stuart J, Conklin BR, Pico AR. GenMAPP 2: new features and resources for pathway analysis. Volume 8. BMC bioinformatics 2007. PMID: 17588266


  123. Kwon C, Arnold J, Hsiao EC, Taketo MM, Conklin BR, Srivastava D. Canonical Wnt signaling is a positive regulator of mammalian cardiac progenitors. Volume 104 of Issue 26. Proceedings of the National Academy of Sciences of the United States of America 2007. PMID: 17576928


  124. Kim W, Ng JK, Kunitake ME, Conklin BR, Yang P. Interfacing silicon nanowires with mammalian cells. Volume 129 of Issue 23. Journal of the American Chemical Society 2007. PMID: 17516647


  125. Tingley WG, Pawlikowska L, Zaroff JG, Kim T, Nguyen T, Young SG, Vranizan K, Kwok PY, Whooley MA, Conklin BR. Gene-trapped mouse embryonic stem cell-derived cardiac myocytes and human genetics implicate AKAP10 in heart rhythm regulation. Volume 104 of Issue 20. Proceedings of the National Academy of Sciences of the United States of America 2007. PMID: 17485678


  126. Conklin BR. New tools to build synthetic hormonal pathways. Volume 104 of Issue 12. Proceedings of the National Academy of Sciences of the United States of America 2007. PMID: 17360323


  127. Sweger EJ, Casper KB, Scearce-Levie K, Conklin BR, McCarthy KD. Development of hydrocephalus in mice expressing the G(i)-coupled GPCR Ro1 RASSL receptor in astrocytes. Volume 27 of Issue 9. The Journal of neuroscience : the official journal of the Society for Neuroscience 2007. PMID: 17329428


  128. Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, Workman C, Christmas R, Avila-Campilo I, Creech M, Gross B, Hanspers K, Isserlin R, Kelley R, Killcoyne S, Lotia S, Maere S, Morris J, Ono K, Pavlovic V, Pico AR, Vailaya A, Wang PL, Adler A, Conklin BR, Hood L, Kuiper M, Sander C, Schmulevich I, Schwikowski B, Warner GJ, Ideker T, Bader GD. Integration of biological networks and gene expression data using Cytoscape. Volume 2 of Issue 10. Nature protocols 2007. PMID: 17947979


  129. Nicholls RE, Zhang XL, Bailey CP, Conklin BR, Kandel ER, Stanton PK. mGluR2 acts through inhibitory Galpha subunits to regulate transmission and long-term plasticity at hippocampal mossy fiber-CA3 synapses. Volume 103 of Issue 16. Proceedings of the National Academy of Sciences of the United States of America 2006. PMID: 16606834


  130. Peter Chang, Edward Hsiao, Alex C Zambon, Bruce R Conklin. A Series of RASSLs Activated by a Single Agonist. The FASEB Journal 2006. PMID:


  131. Nord AS, Chang PJ, Conklin BR, Cox AV, Harper CA, Hicks GG, Huang CC, Johns SJ, Kawamoto M, Liu S, Meng EC, Morris JH, Rossant J, Ruiz P, Skarnes WC, Soriano P, Stanford WL, Stryke D, von Melchner H, Wurst W, Yamamura K, Young SG, Babbitt PC, Ferrin TE. The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse. Volume 34 of Issue Database issue. Nucleic acids research 2006. PMID: 16381950


  132. Turnbull L, Zhou HZ, Swigart PM, Turcato S, Karliner JS, Conklin BR, Simpson PC, Baker AJ. Sustained preconditioning induced by cardiac transgenesis with the tetracycline transactivator. Volume 290 of Issue 3. American journal of physiology. Heart and circulatory physiology 2005. PMID: 16243914


  133. Zambon AC, Zhang L, Minovitsky S, Kanter JR, Prabhakar S, Salomonis N, Vranizan K, Dubchak I, Conklin BR, Insel PA. Gene expression patterns define key transcriptional events in cell-cycle regulation by cAMP and protein kinase A. Volume 102 of Issue 24. Proceedings of the National Academy of Sciences of the United States of America 2005. PMID: 15939874


  134. McCloskey DT, Turnbull L, Swigart PM, Zambon AC, Turcato S, Joho S, Grossman W, Conklin BR, Simpson PC, Baker AJ. Cardiac transgenesis with the tetracycline transactivator changes myocardial function and gene expression. Volume 22 of Issue 1. Physiological genomics 2005. PMID: 15797971


  135. Scearce-Levie K, Lieberman MD, Elliott HH, Conklin BR. Engineered G protein coupled receptors reveal independent regulation of internalization, desensitization and acute signaling. Volume 3. BMC biology 2005. PMID: 15707483


  136. Salomonis N, Cotte N, Zambon AC, Pollard KS, Vranizan K, Doniger SW, Dolganov G, Conklin BR. Identifying genetic networks underlying myometrial transition to labor. Volume 6 of Issue 2. Genome biology 2005. PMID: 15693941


  137. Srinivasan S, Lubrano-Berthelier C, Govaerts C, Picard F, Santiago P, Conklin BR, Vaisse C. Constitutive activity of the melanocortin-4 receptor is maintained by its N-terminal domain and plays a role in energy homeostasis in humans. Volume 114 of Issue 8. The Journal of clinical investigation 2004. PMID: 15489963


  138. Skarnes WC, von Melchner H, Wurst W, Hicks G, Nord AS, Cox T, Young SG, Ruiz P, Soriano P, Tessier-Lavigne M, Conklin BR, Stanford WL, Rossant J. A public gene trap resource for mouse functional genomics. Volume 36 of Issue 6. Nature genetics 2004. PMID: 15167922


  139. Zambon AC, McDearmon EL, Salomonis N, Vranizan KM, Johansen KL, Adey D, Takahashi JS, Schambelan M, Conklin BR. Time- and exercise-dependent gene regulation in human skeletal muscle. Volume 4 of Issue 10. Genome biology 2003. PMID: 14519196


  140. Srinivasan S, Vaisse C, Conklin BR. Engineering the melanocortin-4 receptor to control G(s) signaling in vivo. Volume 994. Annals of the New York Academy of Sciences 2003. PMID: 12851320


  141. Doniger SW, Salomonis N, Dahlquist KD, Vranizan K, Lawlor SC, Conklin BR. MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data. Volume 4 of Issue 1. Genome biology 2003. PMID: 12540299


  142. Segal MR, Dahlquist KD, Conklin BR. Regression approaches for microarray data analysis. Volume 10 of Issue 6. Journal of computational biology : a journal of computational molecular cell biology 2003. PMID: 14980020


  143. Dahlquist KD, Salomonis N, Vranizan K, Lawlor SC, Conklin BR. GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways. Volume 31 of Issue 1. Nature genetics 2002. PMID: 11984561


  144. Scearce-Levie K, Coward P, Redfern CH, Conklin BR. Tools for dissecting signaling pathways in vivo: receptors activated solely by synthetic ligands. Volume 343. Methods in enzymology 2002. PMID: 11665570


  145. Scearce-Levie K, Coward P, Redfern CH, Conklin BR. Engineering receptors activated solely by synthetic ligands (RASSLs). Volume 22 of Issue 8. Trends in pharmacological sciences 2001. PMID: 11479004


  146. Baker AJ, Redfern CH, Harwood MD, Simpson PC, Conklin BR. Abnormal contraction caused by expression of G(i)-coupled receptor in transgenic model of dilated cardiomyopathy. Volume 280 of Issue 4. American journal of physiology. Heart and circulatory physiology 2001. PMID: 11247776


  147. Chang MA, Horner JW, Conklin BR, DePinho RA, Bok D, Zack DJ. Tetracycline-inducible system for photoreceptor-specific gene expression. Volume 41 of Issue 13. Investigative ophthalmology & visual science 2000. PMID: 11095627


  148. Redfern CH, Degtyarev MY, Kwa AT, Salomonis N, Cotte N, Nanevicz T, Fidelman N, Desai K, Vranizan K, Lee EK, Coward P, Shah N, Warrington JA, Fishman GI, Bernstein D, Baker AJ, Conklin BR. Conditional expression of a Gi-coupled receptor causes ventricular conduction delay and a lethal cardiomyopathy. Volume 97 of Issue 9. Proceedings of the National Academy of Sciences of the United States of America 2000. PMID: 10781088


  149. Nathalie Cotte, Charles H. Redfern, Peter Mikus, Nathan Salomonis, Michael Y. Degtyarev, Peter S. Coward, Andrew Kwa, Tetsuo Shioi, Nila Shah, Tim McKinsey, Eric Olson, Seigo Izumo, Janet Warrington, Anthony J. Baker, Bruce R. Conklin. A critical period of vulnerability to hyperactive Gq signaling revealed by inducible and heart-specific expression of Gq* in transgenic mice. Journal of cardiac failure 1999. PMID:


  150. Charles H. Redfern, Michael Y. Degtyarev, Kavin Desai, Andrew Kwa, Glenn I. Fishman, Daniel Bernstein, Anthony J. Baker, Bruce R. Conklin. Genomic analysis of an inducible and reversible model of dilated cardiomyopathy. Journal of cardiac failure 1999. PMID:


  151. Coward P, Chan SD, Wada HG, Humphries GM, Conklin BR. Chimeric G proteins allow a high-throughput signaling assay of Gi-coupled receptors. Volume 270 of Issue 2. Analytical biochemistry 1999. PMID: 10334841


  152. Redfern CH, Coward P, Degtyarev MY, Lee EK, Kwa AT, Hennighausen L, Bujard H, Fishman GI, Conklin BR. Conditional expression and signaling of a specifically designed Gi-coupled receptor in transgenic mice. Volume 17 of Issue 2. Nature biotechnology 1999. PMID: 10052353


  153. Coward P, Wada HG, Falk MS, Chan SD, Meng F, Akil H, Conklin BR. Controlling signaling with a specifically designed Gi-coupled receptor. Volume 95 of Issue 1. Proceedings of the National Academy of Sciences of the United States of America 1998. PMID: 9419379


  154. Kostenis E, Degtyarev MY, Conklin BR, Wess J. The N-terminal extension of Galphaq is critical for constraining the selectivity of receptor coupling. Volume 272 of Issue 31. The Journal of biological chemistry 1997. PMID: 9235898


  155. Kostenis E, Conklin BR, Wess J. Molecular basis of receptor/G protein coupling selectivity studied by coexpression of wild type and mutant m2 muscarinic receptors with mutant G alpha(q) subunits. Volume 36 of Issue 6. Biochemistry 1997. PMID: 9063897


  156. Burstein ES, Bräuner-Osborne H, Spalding TA, Conklin BR, Brann MR. Interactions of muscarinic receptors with the heterotrimeric G proteins Gq and G12: transduction of proliferative signals. Volume 68 of Issue 2. Journal of neurochemistry 1997. PMID: 9003037


  157. Conklin BR, Herzmark P, Ishida S, Voyno-Yasenetskaya TA, Sun Y, Farfel Z, Bourne HR. Carboxyl-terminal mutations of Gq alpha and Gs alpha that alter the fidelity of receptor activation. Volume 50 of Issue 4. Molecular pharmacology 1996. PMID: 8863834


  158. Liu J, Blin N, Conklin BR, Wess J. Molecular mechanisms involved in muscarinic acetylcholine receptor-mediated G protein activation studied by insertion mutagenesis. Volume 271 of Issue 11. The Journal of biological chemistry 1996. PMID: 8626406


  159. Liu J, Conklin BR, Blin N, Yun J, Wess J. Identification of a receptor/G-protein contact site critical for signaling specificity and G-protein activation. Volume 92 of Issue 25. Proceedings of the National Academy of Sciences of the United States of America 1995. PMID: 8524820


  160. Chabre O, Conklin BR, Brandon S, Bourne HR, Limbird LE. Coupling of the alpha 2A-adrenergic receptor to multiple G-proteins. A simple approach for estimating receptor-G-protein coupling efficiency in a transient expression system. Volume 269 of Issue 8. The Journal of biological chemistry 1994. PMID: 7907086


  161. Voyno-Yasenetskaya T, Conklin BR, Gilbert RL, Hooley R, Bourne HR, Barber DL. G alpha 13 stimulates Na-H exchange. Volume 269 of Issue 7. The Journal of biological chemistry 1994. PMID: 8106440


  162. Conklin BR, Bourne HR. Homeostatic signals. Marriage of the flytrap and the serpent. Volume 367 of Issue 6458. Nature 1994. PMID: 8107768


  163. Conklin BR, Bourne HR. Mouse coat colour reconsidered. Volume 364 of Issue 6433. Nature 1993. PMID: 8321283


  164. Lustig KD, Conklin BR, Herzmark P, Taussig R, Bourne HR. Type II adenylylcyclase integrates coincident signals from Gs, Gi, and Gq. Volume 268 of Issue 19. The Journal of biological chemistry 1993. PMID: 8390980


  165. Conklin BR, Bourne HR. Structural elements of G alpha subunits that interact with G beta gamma, receptors, and effectors. Volume 73 of Issue 4. Cell 1993. PMID: 8388779


  166. Conklin BR, Farfel Z, Lustig KD, Julius D, Bourne HR. Substitution of three amino acids switches receptor specificity of Gq alpha to that of Gi alpha. Volume 363 of Issue 6426. Nature 1993. PMID: 8387644


  167. Chabre O, Conklin BR, Lin HY, Lodish HF, Wilson E, Ives HE, Catanzariti L, Hemmings BA, Bourne HR. A recombinant calcitonin receptor independently stimulates 3',5'-cyclic adenosine monophosphate and Ca2+/inositol phosphate signaling pathways. Volume 6 of Issue 4. Molecular endocrinology (Baltimore, Md.) 1992. PMID: 1316547


  168. Federman AD, Conklin BR, Schrader KA, Reed RR, Bourne HR. Hormonal stimulation of adenylyl cyclase through Gi-protein beta gamma subunits. Volume 356 of Issue 6365. Nature 1992. PMID: 1312225


  169. Wong YH, Conklin BR, Bourne HR. Gz-mediated hormonal inhibition of cyclic AMP accumulation. Volume 255 of Issue 5042. Science (New York, N.Y.) 1992. PMID: 1347957


  170. Conklin BR, Chabre O, Wong YH, Federman AD, Bourne HR. Recombinant Gq alpha. Mutational activation and coupling to receptors and phospholipase C. Volume 267 of Issue 1. The Journal of biological chemistry 1992. PMID: 1309740


  171. Bourne HR, Lustig KD, Wong YH, Conklin BR. Detection of coincident signals by G proteins and adenylyl cyclase. Volume 57. Cold Spring Harbor symposia on quantitative biology 1992. PMID: 1339653


  172. Felder CC, Ma AL, Conklin BR. Carbachol-induced reverse transformation of Chinese hamster ovary cells transfected with and expressing the m5 muscarinic acetylcholine receptor. Volume 245 of Issue 1-2. FEBS letters 1989. PMID: 2466702


  173. Conklin BR, Brann MR, Buckley NJ, Ma AL, Bonner TI, Axelrod J. Stimulation of arachidonic acid release and inhibition of mitogenesis by cloned genes for muscarinic receptor subtypes stably expressed in A9 L cells. Volume 85 of Issue 22. Proceedings of the National Academy of Sciences of the United States of America 1988. PMID: 2847172


  174. Conklin BR, Burch RM, Steranka LR, Axelrod J. Distinct bradykinin receptors mediate stimulation of prostaglandin synthesis by endothelial cells and fibroblasts. The Journal of pharmacology and experimental therapeutics 1988. PMID: 2894457