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Items: 1 to 50 of 414

1.

Author Correction: A systems biology pipeline identifies regulatory networks for stem cell engineering.

Kinney MA, Vo LT, Frame JM, Barragan J, Conway AJ, Li S, Wong KK, Collins JJ, Cahan P, North TE, Lauffenburger DA, Daley GQ.

Nat Biotechnol. 2019 Jul 16. doi: 10.1038/s41587-019-0212-1. [Epub ahead of print]

PMID:
31312048
2.

VISAGE Reveals a Targetable Mitotic Spindle Vulnerability in Cancer Cells.

Patterson JC, Joughin BA, Prota AE, Mühlethaler T, Jonas OH, Whitman MA, Varmeh S, Chen S, Balk SP, Steinmetz MO, Lauffenburger DA, Yaffe MB.

Cell Syst. 2019 Jun 26. pii: S2405-4712(19)30190-5. doi: 10.1016/j.cels.2019.05.009. [Epub ahead of print]

3.

A systems biology pipeline identifies regulatory networks for stem cell engineering.

Kinney MA, Vo LT, Frame JM, Barragan J, Conway AJ, Li S, Wong KK, Collins JJ, Cahan P, North TE, Lauffenburger DA, Daley GQ.

Nat Biotechnol. 2019 Jul;37(7):810-818. doi: 10.1038/s41587-019-0159-2. Epub 2019 Jul 1. Erratum in: Nat Biotechnol. 2019 Jul 16;:.

PMID:
31267104
4.

Small-molecule control of antibody N-glycosylation in engineered mammalian cells.

Chang MM, Gaidukov L, Jung G, Tseng WA, Scarcelli JJ, Cornell R, Marshall JK, Lyles JL, Sakorafas P, Chu AA, Cote K, Tzvetkova B, Dolatshahi S, Sumit M, Mulukutla BC, Lauffenburger DA, Figueroa B Jr, Summers NM, Lu TK, Weiss R.

Nat Chem Biol. 2019 Jul;15(7):730-736. doi: 10.1038/s41589-019-0288-4. Epub 2019 May 20.

PMID:
31110306
5.

Tissue-Specific Oncogenic Activity of KRASA146T.

Poulin EJ, Bera AK, Lu J, Lin YJ, Strasser SD, Paulo JA, Huang TQ, Morales C, Yan W, Cook J, Nowak JA, Brubaker DK, Joughin BA, Johnson CW, DeStefanis RA, Ghazi PC, Gondi S, Wales TE, Iacob RE, Bogdanova L, Gierut JJ, Li Y, Engen JR, Perez-Mancera PA, Braun BS, Gygi SP, Lauffenburger DA, Westover KD, Haigis KM.

Cancer Discov. 2019 Jun;9(6):738-755. doi: 10.1158/2159-8290.CD-18-1220. Epub 2019 Apr 5.

PMID:
30952657
6.

ROS and Oxidative Stress Are Elevated in Mitosis during Asynchronous Cell Cycle Progression and Are Exacerbated by Mitotic Arrest.

Patterson JC, Joughin BA, van de Kooij B, Lim DC, Lauffenburger DA, Yaffe MB.

Cell Syst. 2019 Feb 27;8(2):163-167.e2. doi: 10.1016/j.cels.2019.01.005. Epub 2019 Feb 20.

PMID:
30797774
7.

Acidification of Tumor at Stromal Boundaries Drives Transcriptome Alterations Associated with Aggressive Phenotypes.

Rohani N, Hao L, Alexis MS, Joughin BA, Krismer K, Moufarrej MN, Soltis AR, Lauffenburger DA, Yaffe MB, Burge CB, Bhatia SN, Gertler FB.

Cancer Res. 2019 Apr 15;79(8):1952-1966. doi: 10.1158/0008-5472.CAN-18-1604. Epub 2019 Feb 12.

PMID:
30755444
8.

Dissecting N-Glycosylation Dynamics in Chinese Hamster Ovary Cells Fed-batch Cultures using Time Course Omics Analyses.

Sumit M, Dolatshahi S, Chu AA, Cote K, Scarcelli JJ, Marshall JK, Cornell RJ, Weiss R, Lauffenburger DA, Mulukutla BC, Figueroa B Jr.

iScience. 2019 Feb 22;12:102-120. doi: 10.1016/j.isci.2019.01.006. Epub 2019 Jan 7.

9.

Computational translation of genomic responses from experimental model systems to humans.

Brubaker DK, Proctor EA, Haigis KM, Lauffenburger DA.

PLoS Comput Biol. 2019 Jan 10;15(1):e1006286. doi: 10.1371/journal.pcbi.1006286. eCollection 2019 Jan.

10.

Multivariate Computational Analysis of Gamma Delta T Cell Inhibitory Receptor Signatures Reveals the Divergence of Healthy and ART-Suppressed HIV+ Aging.

Belkina AC, Starchenko A, Drake KA, Proctor EA, Pihl RMF, Olson A, Lauffenburger DA, Lin N, Snyder-Cappione JE.

Front Immunol. 2018 Dec 5;9:2783. doi: 10.3389/fimmu.2018.02783. eCollection 2018.

11.

Systems Modeling Identifies Divergent Receptor Tyrosine Kinase Reprogramming to MAPK Pathway Inhibition.

Claas AM, Atta L, Gordonov S, Meyer AS, Lauffenburger DA.

Cell Mol Bioeng. 2018;11(6):451-469. doi: 10.1007/s12195-018-0542-y. Epub 2018 Jul 26.

12.

Reply to Slogrove et al.

Goetghebuer T, Smolen KK, Adler C, Das J, McBride T, Smits G, Lecomte S, Haelterman E, Barlow P, Piedra PA, Van der Klis F, Kollmann TR, Lauffenburger DA, Alter G, Levy J, Marchant A.

Clin Infect Dis. 2019 May 30;68(12):2158. doi: 10.1093/cid/ciy1058. No abstract available.

PMID:
30535371
13.

Integrated mapping of pharmacokinetics and pharmacodynamics in a patient-derived xenograft model of glioblastoma.

Randall EC, Emdal KB, Laramy JK, Kim M, Roos A, Calligaris D, Regan MS, Gupta SK, Mladek AC, Carlson BL, Johnson AJ, Lu FK, Xie XS, Joughin BA, Reddy RJ, Peng S, Abdelmoula WM, Jackson PR, Kolluri A, Kellersberger KA, Agar JN, Lauffenburger DA, Swanson KR, Tran NL, Elmquist WF, White FM, Sarkaria JN, Agar NYR.

Nat Commun. 2018 Nov 21;9(1):4904. doi: 10.1038/s41467-018-07334-3.

14.

Analysis of Single-Cell RNA-Seq Identifies Cell-Cell Communication Associated with Tumor Characteristics.

Kumar MP, Du J, Lagoudas G, Jiao Y, Sawyer A, Drummond DC, Lauffenburger DA, Raue A.

Cell Rep. 2018 Nov 6;25(6):1458-1468.e4. doi: 10.1016/j.celrep.2018.10.047.

15.

Initiation of Antiretroviral Therapy Before Pregnancy Reduces the Risk of Infection-related Hospitalization in Human Immunodeficiency Virus-exposed Uninfected Infants Born in a High-income Country.

Goetghebuer T, Smolen KK, Adler C, Das J, McBride T, Smits G, Lecomte S, Haelterman E, Barlow P, Piedra PA, van der Klis F, Kollmann TR, Lauffenburger DA, Alter G, Levy J, Marchant A.

Clin Infect Dis. 2019 Mar 19;68(7):1193-1203. doi: 10.1093/cid/ciy673.

PMID:
30215689
16.

Route of immunization defines multiple mechanisms of vaccine-mediated protection against SIV.

Ackerman ME, Das J, Pittala S, Broge T, Linde C, Suscovich TJ, Brown EP, Bradley T, Natarajan H, Lin S, Sassic JK, O'Keefe S, Mehta N, Goodman D, Sips M, Weiner JA, Tomaras GD, Haynes BF, Lauffenburger DA, Bailey-Kellogg C, Roederer M, Alter G.

Nat Med. 2018 Oct;24(10):1590-1598. doi: 10.1038/s41591-018-0161-0. Epub 2018 Sep 3.

PMID:
30177821
17.

ADAM10 Sheddase Activity is a Potential Lung-Cancer Biomarker.

Yoneyama T, Gorry M, Sobo-Vujanovic A, Lin Y, Vujanovic L, Gaither-Davis A, Moss ML, Miller MA, Griffith LG, Lauffenburger DA, Stabile LP, Herman J, Vujanovic NL.

J Cancer. 2018 Jun 23;9(14):2559-2570. doi: 10.7150/jca.24601. eCollection 2018.

18.

Exploiting glycan topography for computational design of Env glycoprotein antigenicity.

Yu WH, Zhao P, Draghi M, Arevalo C, Karsten CB, Suscovich TJ, Gunn B, Streeck H, Brass AL, Tiemeyer M, Seaman M, Mascola JR, Wells L, Lauffenburger DA, Alter G.

PLoS Comput Biol. 2018 Apr 20;14(4):e1006093. doi: 10.1371/journal.pcbi.1006093. eCollection 2018 Apr.

19.

The colonic epithelium plays an active role in promoting colitis by shaping the tissue cytokine profile.

Lyons J, Ghazi PC, Starchenko A, Tovaglieri A, Baldwin KR, Poulin EJ, Gierut JJ, Genetti C, Yajnik V, Breault DT, Lauffenburger DA, Haigis KM.

PLoS Biol. 2018 Mar 29;16(3):e2002417. doi: 10.1371/journal.pbio.2002417. eCollection 2018 Mar.

20.

Interconnected Microphysiological Systems for Quantitative Biology and Pharmacology Studies.

Edington CD, Chen WLK, Geishecker E, Kassis T, Soenksen LR, Bhushan BM, Freake D, Kirschner J, Maass C, Tsamandouras N, Valdez J, Cook CD, Parent T, Snyder S, Yu J, Suter E, Shockley M, Velazquez J, Velazquez JJ, Stockdale L, Papps JP, Lee I, Vann N, Gamboa M, LaBarge ME, Zhong Z, Wang X, Boyer LA, Lauffenburger DA, Carrier RL, Communal C, Tannenbaum SR, Stokes CL, Hughes DJ, Rohatgi G, Trumper DL, Cirit M, Griffith LG.

Sci Rep. 2018 Mar 14;8(1):4530. doi: 10.1038/s41598-018-22749-0.

21.

Inflammatory but not mitogenic contexts prime synovial fibroblasts for compensatory signaling responses to p38 inhibition.

Jones DS, Jenney AP, Joughin BA, Sorger PK, Lauffenburger DA.

Sci Signal. 2018 Mar 6;11(520). pii: eaal1601. doi: 10.1126/scisignal.aal1601.

22.

In vivo systems biology approaches to chronic immune/inflammatory pathophysiology.

Starchenko A, Lauffenburger DA.

Curr Opin Biotechnol. 2018 Aug;52:9-16. doi: 10.1016/j.copbio.2018.02.006. Epub 2018 Feb 27. Review.

23.

Integrated in vivo multiomics analysis identifies p21-activated kinase signaling as a driver of colitis.

Lyons J, Brubaker DK, Ghazi PC, Baldwin KR, Edwards A, Boukhali M, Strasser SD, Suarez-Lopez L, Lin YJ, Yajnik V, Kissil JL, Haas W, Lauffenburger DA, Haigis KM.

Sci Signal. 2018 Feb 27;11(519). pii: eaan3580. doi: 10.1126/scisignal.aan3580.

PMID:
29487189
24.

A Model of Dormant-Emergent Metastatic Breast Cancer Progression Enabling Exploration of Biomarker Signatures.

Clark AM, Kumar MP, Wheeler SE, Young CL, Venkataramanan R, Stolz DB, Griffith LG, Lauffenburger DA, Wells A.

Mol Cell Proteomics. 2018 Apr;17(4):619-630. doi: 10.1074/mcp.RA117.000370. Epub 2018 Jan 20.

25.

Increased Expression and Modulated Regulatory Activity of Coinhibitory Receptors PD-1, TIGIT, and TIM-3 in Lymphocytes From Patients With Systemic Sclerosis.

Fleury M, Belkina AC, Proctor EA, Zammitti C, Simms RW, Lauffenburger DA, Snyder-Cappione JE, Lafyatis R, Dooms H.

Arthritis Rheumatol. 2018 Apr;70(4):566-577. doi: 10.1002/art.40399. Epub 2018 Mar 7.

26.

Hepatic Dysfunction Caused by Consumption of a High-Fat Diet.

Soltis AR, Kennedy NJ, Xin X, Zhou F, Ficarro SB, Yap YS, Matthews BJ, Lauffenburger DA, White FM, Marto JA, Davis RJ, Fraenkel E.

Cell Rep. 2017 Dec 12;21(11):3317-3328. doi: 10.1016/j.celrep.2017.11.059.

27.

Temporal variation in HIV-specific IgG subclass antibodies during acute infection differentiates spontaneous controllers from chronic progressors.

Sadanand S, Das J, Chung AW, Schoen MK, Lane S, Suscovich TJ, Streeck H, Smith DM, Little SJ, Lauffenburger DA, Richman DD, Alter G.

AIDS. 2018 Feb 20;32(4):443-450. doi: 10.1097/QAD.0000000000001716.

28.

Modification of proteolytic activity matrix analysis (PrAMA) to measure ADAM10 and ADAM17 sheddase activities in cell and tissue lysates.

Yoneyama T, Gorry M, Miller MA, Gaither-Davis A, Lin Y, Moss ML, Griffith LG, Lauffenburger DA, Stabile LP, Herman JG, Vujanovic NL.

J Cancer. 2017 Oct 23;8(19):3916-3932. doi: 10.7150/jca.20779. eCollection 2017.

29.

Functional Genomics Approach Identifies Novel Signaling Regulators of TGFα Ectodomain Shedding.

Wilson JL, Kefaloyianni E, Stopfer L, Harrison C, Sabbisetti VS, Fraenkel E, Lauffenburger DA, Herrlich A.

Mol Cancer Res. 2018 Jan;16(1):147-161. doi: 10.1158/1541-7786.MCR-17-0140. Epub 2017 Oct 10.

30.

Apoptotic Bodies Elicit Gas6-Mediated Migration of AXL-Expressing Tumor Cells.

Zweemer AJM, French CB, Mesfin J, Gordonov S, Meyer AS, Lauffenburger DA.

Mol Cancer Res. 2017 Dec;15(12):1656-1666. doi: 10.1158/1541-7786.MCR-17-0012. Epub 2017 Sep 18.

31.

Profiling of metalloprotease activities in cerebrospinal fluids of patients with neoplastic meningitis.

Conrad C, Dorzweiler K, Miller MA, Lauffenburger DA, Strik H, Bartsch JW.

Fluids Barriers CNS. 2017 Aug 14;14(1):22. doi: 10.1186/s12987-017-0070-5.

32.

Integrated gut/liver microphysiological systems elucidates inflammatory inter-tissue crosstalk.

Chen WLK, Edington C, Suter E, Yu J, Velazquez JJ, Velazquez JG, Shockley M, Large EM, Venkataramanan R, Hughes DJ, Stokes CL, Trumper DL, Carrier RL, Cirit M, Griffith LG, Lauffenburger DA.

Biotechnol Bioeng. 2017 Nov;114(11):2648-2659. doi: 10.1002/bit.26370. Epub 2017 Jul 27.

33.

An engineering design approach to systems biology.

Janes KA, Chandran PL, Ford RM, Lazzara MJ, Papin JA, Peirce SM, Saucerman JJ, Lauffenburger DA.

Integr Biol (Camb). 2017 Jul 17;9(7):574-583. doi: 10.1039/c7ib00014f. Review.

34.

Integrated Assessment of Diclofenac Biotransformation, Pharmacokinetics, and Omics-Based Toxicity in a Three-Dimensional Human Liver-Immunocompetent Coculture System.

Sarkar U, Ravindra KC, Large E, Young CL, Rivera-Burgos D, Yu J, Cirit M, Hughes DJ, Wishnok JS, Lauffenburger DA, Griffith LG, Tannenbaum SR.

Drug Metab Dispos. 2017 Jul;45(7):855-866. doi: 10.1124/dmd.116.074005. Epub 2017 Apr 27.

35.

Modeling Tumor Clonal Evolution for Drug Combinations Design.

Zhao B, Hemann MT, Lauffenburger DA.

Trends Cancer. 2016 Mar;2(3):144-158. doi: 10.1016/j.trecan.2016.02.001. Review.

36.

Peritoneal fluid cytokines related to endometriosis in patients evaluated for infertility.

Jørgensen H, Hill AS, Beste MT, Kumar MP, Chiswick E, Fedorcsak P, Isaacson KB, Lauffenburger DA, Griffith LG, Qvigstad E.

Fertil Steril. 2017 May;107(5):1191-1199.e2. doi: 10.1016/j.fertnstert.2017.03.013. Epub 2017 Apr 19.

PMID:
28433374
37.

Local remodeling of synthetic extracellular matrix microenvironments by co-cultured endometrial epithelial and stromal cells enables long-term dynamic physiological function.

Cook CD, Hill AS, Guo M, Stockdale L, Papps JP, Isaacson KB, Lauffenburger DA, Griffith LG.

Integr Biol (Camb). 2017 Apr 18;9(4):271-289. doi: 10.1039/c6ib00245e.

38.

Simultaneous Detection of Metalloprotease Activities in Complex Biological Samples Using the PrAMA (Proteolytic Activity Matrix Assay) Method.

Conrad C, Miller MA, Bartsch JW, Schlomann U, Lauffenburger DA.

Methods Mol Biol. 2017;1574:243-253. doi: 10.1007/978-1-4939-6850-3_18.

PMID:
28315256
39.

Genital-Systemic Chemokine Gradients and the Risk of HIV Acquisition in Women.

Liebenberg LJ, Masson L, Arnold KB, Mckinnon LR, Werner L, Proctor E, Archary D, Mansoor LE, Lauffenburger DA, Abdool Karim Q, Abdool Karim SS, Passmore JS.

J Acquir Immune Defic Syndr. 2017 Mar 1;74(3):318-325. doi: 10.1097/QAI.0000000000001218.

40.

Advances in the quantification of mitochondrial function in primary human immune cells through extracellular flux analysis.

Nicholas D, Proctor EA, Raval FM, Ip BC, Habib C, Ritou E, Grammatopoulos TN, Steenkamp D, Dooms H, Apovian CM, Lauffenburger DA, Nikolajczyk BS.

PLoS One. 2017 Feb 8;12(2):e0170975. doi: 10.1371/journal.pone.0170975. eCollection 2017.

41.

Studies of TAK1-centered polypharmacology with novel covalent TAK1 inhibitors.

Tan L, Gurbani D, Weisberg EL, Jones DS, Rao S, Singer WD, Bernard FM, Mowafy S, Jenney A, Du G, Nonami A, Griffin JD, Lauffenburger DA, Westover KD, Sorger PK, Gray NS.

Bioorg Med Chem. 2017 Feb 15;25(4):1320-1328. doi: 10.1016/j.bmc.2016.11.034. Epub 2016 Dec 7.

42.

Molecular Pathways: Receptor Ectodomain Shedding in Treatment, Resistance, and Monitoring of Cancer.

Miller MA, Sullivan RJ, Lauffenburger DA.

Clin Cancer Res. 2017 Feb 1;23(3):623-629. doi: 10.1158/1078-0432.CCR-16-0869. Epub 2016 Nov 28. Review.

43.

Macrophage-Secreted TNFα and TGFβ1 Influence Migration Speed and Persistence of Cancer Cells in 3D Tissue Culture via Independent Pathways.

Li R, Hebert JD, Lee TA, Xing H, Boussommier-Calleja A, Hynes RO, Lauffenburger DA, Kamm RD.

Cancer Res. 2017 Jan 15;77(2):279-290. doi: 10.1158/0008-5472.CAN-16-0442. Epub 2016 Nov 21.

44.

Profiling drugs for rheumatoid arthritis that inhibit synovial fibroblast activation.

Jones DS, Jenney AP, Swantek JL, Burke JM, Lauffenburger DA, Sorger PK.

Nat Chem Biol. 2017 Jan;13(1):38-45. doi: 10.1038/nchembio.2211. Epub 2016 Oct 31.

45.

Differential selective pressure alters rate of drug resistance acquisition in heterogeneous tumor populations.

Sun D, Dalin S, Hemann MT, Lauffenburger DA, Zhao B.

Sci Rep. 2016 Nov 7;6:36198. doi: 10.1038/srep36198.

46.

MENA Confers Resistance to Paclitaxel in Triple-Negative Breast Cancer.

Oudin MJ, Barbier L, Schäfer C, Kosciuk T, Miller MA, Han S, Jonas O, Lauffenburger DA, Gertler FB.

Mol Cancer Ther. 2017 Jan;16(1):143-155. doi: 10.1158/1535-7163.MCT-16-0413. Epub 2016 Nov 3.

47.

Eradication of large established tumors in mice by combination immunotherapy that engages innate and adaptive immune responses.

Moynihan KD, Opel CF, Szeto GL, Tzeng A, Zhu EF, Engreitz JM, Williams RT, Rakhra K, Zhang MH, Rothschilds AM, Kumari S, Kelly RL, Kwan BH, Abraham W, Hu K, Mehta NK, Kauke MJ, Suh H, Cochran JR, Lauffenburger DA, Wittrup KD, Irvine DJ.

Nat Med. 2016 Dec;22(12):1402-1410. doi: 10.1038/nm.4200. Epub 2016 Oct 24.

48.

DNA Repair Capacity in Multiple Pathways Predicts Chemoresistance in Glioblastoma Multiforme.

Nagel ZD, Kitange GJ, Gupta SK, Joughin BA, Chaim IA, Mazzucato P, Lauffenburger DA, Sarkaria JN, Samson LD.

Cancer Res. 2017 Jan 1;77(1):198-206. doi: 10.1158/0008-5472.CAN-16-1151. Epub 2016 Oct 28.

49.

Systematic Analysis of Quantitative Logic Model Ensembles Predicts Drug Combination Effects on Cell Signaling Networks.

Morris MK, Clarke DC, Osimiri LC, Lauffenburger DA.

CPT Pharmacometrics Syst Pharmacol. 2016 Oct;5(10):544-553. doi: 10.1002/psp4.12104. Epub 2016 Aug 27.

50.

The alternatively-included 11a sequence modifies the effects of Mena on actin cytoskeletal organization and cell behavior.

Balsamo M, Mondal C, Carmona G, McClain LM, Riquelme DN, Tadros J, Ma D, Vasile E, Condeelis JS, Lauffenburger DA, Gertler FB.

Sci Rep. 2016 Oct 17;6:35298. doi: 10.1038/srep35298.

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