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Items: 1 to 50 of 728

1.

CRISPR Guide RNA Cloning for Mammalian Systems.

Nageshwaran S, Chavez A, Cher Yeo N, Guo X, Lance-Byrne A, Tung A, Collins JJ, Church GM.

J Vis Exp. 2018 Oct 2;(140). doi: 10.3791/57998.

PMID:
30346403
2.

Cohort study of workers at a New Zealand agrochemical plant to assess the effect of dioxin exposure on mortality.

McBride DI, Collins JJ, Bender TJ, Bodner KM, Aylward LL.

BMJ Open. 2018 Oct 17;8(10):e019243. doi: 10.1136/bmjopen-2017-019243.

3.

Early Career Members at the ERS Lung Science Conference: cell-matrix interactions in lung disease and regeneration: Early career forum.

Almendros I, Alsafadi HN, Bölükbas D, Collins JJP, Duch P, Garrido-Martin EM, Kahn N, Karampitsakos T, Mahmutovic Persson I, Tzouvelekis A, Uhl FE, Bartel S.

Breathe (Sheff). 2018 Jun;14(2):e78-e83. doi: 10.1183/20734735.016818.

4.

A low-cost paper-based synthetic biology platform for analyzing gut microbiota and host biomarkers.

Takahashi MK, Tan X, Dy AJ, Braff D, Akana RT, Furuta Y, Donghia N, Ananthakrishnan A, Collins JJ.

Nat Commun. 2018 Aug 21;9(1):3347. doi: 10.1038/s41467-018-05864-4.

5.

BioBits™ Bright: A fluorescent synthetic biology education kit.

Stark JC, Huang A, Nguyen PQ, Dubner RS, Hsu KJ, Ferrante TC, Anderson M, Kanapskyte A, Mucha Q, Packett JS, Patel P, Patel R, Qaq D, Zondor T, Burke J, Martinez T, Miller-Berry A, Puppala A, Reichert K, Schmid M, Brand L, Hill LR, Chellaswamy JF, Faheem N, Fetherling S, Gong E, Gonzalzles EM, Granito T, Koritsaris J, Nguyen B, Ottman S, Palffy C, Patel A, Skweres S, Slaton A, Woods T, Donghia N, Pardee K, Collins JJ, Jewett MC.

Sci Adv. 2018 Aug 1;4(8):eaat5107. doi: 10.1126/sciadv.aat5107. eCollection 2018 Aug.

6.

BioBits™ Explorer: A modular synthetic biology education kit.

Huang A, Nguyen PQ, Stark JC, Takahashi MK, Donghia N, Ferrante T, Dy AJ, Hsu KJ, Dubner RS, Pardee K, Jewett MC, Collins JJ.

Sci Adv. 2018 Aug 1;4(8):eaat5105. doi: 10.1126/sciadv.aat5105. eCollection 2018 Aug.

7.

An enhanced CRISPR repressor for targeted mammalian gene regulation.

Yeo NC, Chavez A, Lance-Byrne A, Chan Y, Menn D, Milanova D, Kuo CC, Guo X, Sharma S, Tung A, Cecchi RJ, Tuttle M, Pradhan S, Lim ET, Davidsohn N, Ebrahimkhani MR, Collins JJ, Lewis NE, Kiani S, Church GM.

Nat Methods. 2018 Aug;15(8):611-616. doi: 10.1038/s41592-018-0048-5. Epub 2018 Jul 16.

PMID:
30013045
8.

Impaired Angiogenic Supportive Capacity and Altered Gene Expression Profile of Resident CD146+ Mesenchymal Stromal Cells Isolated from Hyperoxia-Injured Neonatal Rat Lungs.

Collins JJP, Lithopoulos MA, Dos Santos CC, Issa N, Möbius MA, Ito C, Zhong S, Vadivel A, Thébaud B.

Stem Cells Dev. 2018 Aug 15;27(16):1109-1124. doi: 10.1089/scd.2017.0145. Epub 2018 Jun 29.

PMID:
29957134
9.

Designing microbial consortia with defined social interactions.

Kong W, Meldgin DR, Collins JJ, Lu T.

Nat Chem Biol. 2018 Aug;14(8):821-829. doi: 10.1038/s41589-018-0091-7. Epub 2018 Jun 25.

PMID:
29942078
10.

Probiotic strains detect and suppress cholera in mice.

Mao N, Cubillos-Ruiz A, Cameron DE, Collins JJ.

Sci Transl Med. 2018 Jun 13;10(445). pii: eaao2586. doi: 10.1126/scitranslmed.aao2586.

PMID:
29899022
11.

Next-Generation Machine Learning for Biological Networks.

Camacho DM, Collins KM, Powers RK, Costello JC, Collins JJ.

Cell. 2018 Jun 14;173(7):1581-1592. doi: 10.1016/j.cell.2018.05.015. Epub 2018 Jun 7. Review.

PMID:
29887378
12.

Harnessing single-cell genomics to improve the physiological fidelity of organoid-derived cell types.

Mead BE, Ordovas-Montanes J, Braun AP, Levy LE, Bhargava P, Szucs MJ, Ammendolia DA, MacMullan MA, Yin X, Hughes TK, Wadsworth MH 2nd, Ahmad R, Rakoff-Nahoum S, Carr SA, Langer R, Collins JJ, Shalek AK, Karp JM.

BMC Biol. 2018 Jun 5;16(1):62. doi: 10.1186/s12915-018-0527-2.

13.

High-throughput creation and functional profiling of DNA sequence variant libraries using CRISPR-Cas9 in yeast.

Guo X, Chavez A, Tung A, Chan Y, Kaas C, Yin Y, Cecchi R, Garnier SL, Kelsic ED, Schubert M, DiCarlo JE, Collins JJ, Church GM.

Nat Biotechnol. 2018 Jul;36(6):540-546. doi: 10.1038/nbt.4147. Epub 2018 May 21.

14.

Next-generation biocontainment systems for engineered organisms.

Lee JW, Chan CTY, Slomovic S, Collins JJ.

Nat Chem Biol. 2018 Jun;14(6):530-537. doi: 10.1038/s41589-018-0056-x. Epub 2018 May 16. Review.

PMID:
29769737
15.

Universal Chimeric Antigen Receptors for Multiplexed and Logical Control of T Cell Responses.

Cho JH, Collins JJ, Wong WW.

Cell. 2018 May 31;173(6):1426-1438.e11. doi: 10.1016/j.cell.2018.03.038. Epub 2018 Apr 26.

PMID:
29706540
16.

CRISPR-based genomic tools for the manipulation of genetically intractable microorganisms.

Shapiro RS, Chavez A, Collins JJ.

Nat Rev Microbiol. 2018 Jun;16(6):333-339. doi: 10.1038/s41579-018-0002-7. Review.

PMID:
29599458
17.

A systematic review of epidemiologic studies of styrene and cancer.

Collins JJ, Delzell E.

Crit Rev Toxicol. 2018 Jul;48(6):443-470. doi: 10.1080/10408444.2018.1445700. Epub 2018 Mar 28.

PMID:
29589466
18.

Flatworm-specific transcriptional regulators promote the specification of tegumental progenitors in Schistosoma mansoni.

Wendt GR, Collins JN, Pei J, Pearson MS, Bennett HM, Loukas A, Berriman M, Grishin NV, Collins JJ 3rd.

Elife. 2018 Mar 20;7. pii: e33221. doi: 10.7554/eLife.33221.

19.

Precise Cas9 targeting enables genomic mutation prevention.

Chavez A, Pruitt BW, Tuttle M, Shapiro RS, Cecchi RJ, Winston J, Turczyk BM, Tung M, Collins JJ, Church GM.

Proc Natl Acad Sci U S A. 2018 Apr 3;115(14):3669-3673. doi: 10.1073/pnas.1718148115. Epub 2018 Mar 19.

20.

Understanding Biological Regulation Through Synthetic Biology.

Bashor CJ, Collins JJ.

Annu Rev Biophys. 2018 May 20;47:399-423. doi: 10.1146/annurev-biophys-070816-033903. Epub 2018 Mar 16.

PMID:
29547341
21.

Targeting Antibiotic Tolerance, Pathogen by Pathogen.

Meylan S, Andrews IW, Collins JJ.

Cell. 2018 Mar 8;172(6):1228-1238. doi: 10.1016/j.cell.2018.01.037. Review.

PMID:
29522744
22.

Reconstruction of complex single-cell trajectories using CellRouter.

Lummertz da Rocha E, Rowe RG, Lundin V, Malleshaiah M, Jha DK, Rambo CR, Li H, North TE, Collins JJ, Daley GQ.

Nat Commun. 2018 Mar 1;9(1):892. doi: 10.1038/s41467-018-03214-y.

23.

Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6.

Gootenberg JS, Abudayyeh OO, Kellner MJ, Joung J, Collins JJ, Zhang F.

Science. 2018 Apr 27;360(6387):439-444. doi: 10.1126/science.aaq0179. Epub 2018 Feb 15.

24.

Understanding and Sensitizing Density-Dependent Persistence to Quinolone Antibiotics.

Gutierrez A, Jain S, Bhargava P, Hamblin M, Lobritz MA, Collins JJ.

Mol Cell. 2017 Dec 21;68(6):1147-1154.e3. doi: 10.1016/j.molcel.2017.11.012. Epub 2017 Dec 7.

25.

Comprehensive Mapping of Pluripotent Stem Cell Metabolism Using Dynamic Genome-Scale Network Modeling.

Chandrasekaran S, Zhang J, Sun Z, Zhang L, Ross CA, Huang YC, Asara JM, Li H, Daley GQ, Collins JJ.

Cell Rep. 2017 Dec 5;21(10):2965-2977. doi: 10.1016/j.celrep.2017.07.048.

26.

Longitudinal and Cross-sectional Analyses of Lung Function in Toluene Diisocyanate Production Workers.

Wang ML, Storey E, Cassidy LD, Doney B, Conner PR, Collins JJ, Carson M, Molenaar D.

J Occup Environ Med. 2017 Dec;59 Suppl 12:S28-S35. doi: 10.1097/JOM.0000000000001124.

27.

Incidence of Occupational Asthma and Exposure to Toluene Diisocyanate in the United States Toluene Diisocyanate Production Industry.

Collins JJ, Anteau S, Conner PR, Cassidy LD, Doney B, Wang ML, Kurth L, Carson M, Molenaar D, Redlich CA, Storey E.

J Occup Environ Med. 2017 Dec;59 Suppl 12:S22-S27. doi: 10.1097/JOM.0000000000000890.

28.

Medical Monitoring for Occupational Asthma Among Toluene Diisocyanate Production Workers in the United States.

Cassidy LD, Doney B, Wang ML, Kurth L, Conner PR, Collins JJ, Carson M, Molenaar D, Redlich CA, Storey E.

J Occup Environ Med. 2017 Dec;59 Suppl 12:S13-S21. doi: 10.1097/JOM.0000000000001197.

29.

Antibiotic-Induced Changes to the Host Metabolic Environment Inhibit Drug Efficacy and Alter Immune Function.

Yang JH, Bhargava P, McCloskey D, Mao N, Palsson BO, Collins JJ.

Cell Host Microbe. 2017 Dec 13;22(6):757-765.e3. doi: 10.1016/j.chom.2017.10.020. Epub 2017 Nov 30.

30.

A CRISPR-Cas9-based gene drive platform for genetic interaction analysis in Candida albicans.

Shapiro RS, Chavez A, Porter CBM, Hamblin M, Kaas CS, DiCarlo JE, Zeng G, Xu X, Revtovich AV, Kirienko NV, Wang Y, Church GM, Collins JJ.

Nat Microbiol. 2018 Jan;3(1):73-82. doi: 10.1038/s41564-017-0043-0. Epub 2017 Oct 23.

31.

Human induced pluripotent stem cell-derived lung progenitor and alveolar epithelial cells attenuate hyperoxia-induced lung injury.

Shafa M, Ionescu LI, Vadivel A, Collins JJP, Xu L, Zhong S, Kang M, de Caen G, Daneshmand M, Shi J, Fu KZ, Qi A, Wang Y, Ellis J, Stanford WL, Thébaud B.

Cytotherapy. 2018 Jan;20(1):108-125. doi: 10.1016/j.jcyt.2017.09.003. Epub 2017 Oct 20.

PMID:
29056548
32.

Antibiotic efficacy-context matters.

Yang JH, Bening SC, Collins JJ.

Curr Opin Microbiol. 2017 Oct;39:73-80. doi: 10.1016/j.mib.2017.09.002. Epub 2017 Oct 16. Review.

33.

Using Engineered Bacteria to Characterize Infection Dynamics and Antibiotic Effects In Vivo.

Certain LK, Way JC, Pezone MJ, Collins JJ.

Cell Host Microbe. 2017 Sep 13;22(3):263-268.e4. doi: 10.1016/j.chom.2017.08.001. Epub 2017 Aug 31.

34.

ZSCAN10 expression corrects the genomic instability of iPSCs from aged donors.

Skamagki M, Correia C, Yeung P, Baslan T, Beck S, Zhang C, Ross CA, Dang L, Liu Z, Giunta S, Chang TP, Wang J, Ananthanarayanan A, Bohndorf M, Bosbach B, Adjaye J, Funabiki H, Kim J, Lowe S, Collins JJ, Lu CW, Li H, Zhao R, Kim K.

Nat Cell Biol. 2017 Sep;19(9):1037-1048. doi: 10.1038/ncb3598. Epub 2017 Aug 28.

35.

Challenges and Opportunities for Occupational Epidemiology in the Twenty-first Century.

Stayner LT, Collins JJ, Guo YL, Heederik D, Kogevinas M, Steenland K, Wesseling C, Demers PA.

Curr Environ Health Rep. 2017 Sep;4(3):319-324. doi: 10.1007/s40572-017-0154-z. Review.

PMID:
28803393
36.

Lethality of MalE-LacZ hybrid protein shares mechanistic attributes with oxidative component of antibiotic lethality.

Takahashi N, Gruber CC, Yang JH, Liu X, Braff D, Yashaswini CN, Bhubhanil S, Furuta Y, Andreescu S, Collins JJ, Walker GC.

Proc Natl Acad Sci U S A. 2017 Aug 9. pii: 201707466. doi: 10.1073/pnas.1707466114. [Epub ahead of print]

37.

Profile of children with developmental disabilities attending a complex pain clinic of a children's hospital in Australia.

Garg P, Haynes N, De Lima J, Collins JJ.

J Paediatr Child Health. 2017 Dec;53(12):1186-1191. doi: 10.1111/jpc.13633. Epub 2017 Aug 8.

PMID:
28786141
38.

Complex cellular logic computation using ribocomputing devices.

Green AA, Kim J, Ma D, Silver PA, Collins JJ, Yin P.

Nature. 2017 Aug 3;548(7665):117-121. doi: 10.1038/nature23271. Epub 2017 Jul 26.

39.

Biophysical Constraints Arising from Compositional Context in Synthetic Gene Networks.

Yeung E, Dy AJ, Martin KB, Ng AH, Del Vecchio D, Beck JL, Collins JJ, Murray RM.

Cell Syst. 2017 Jul 26;5(1):11-24.e12. doi: 10.1016/j.cels.2017.06.001. Epub 2017 Jul 19.

40.

The Future of Bronchopulmonary Dysplasia: Emerging Pathophysiological Concepts and Potential New Avenues of Treatment.

Collins JJP, Tibboel D, de Kleer IM, Reiss IKM, Rottier RJ.

Front Med (Lausanne). 2017 May 22;4:61. doi: 10.3389/fmed.2017.00061. eCollection 2017. Review.

41.

MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni.

Protasio AV, van Dongen S, Collins J, Quintais L, Ribeiro DM, Sessler F, Hunt M, Rinaldi G, Collins JJ, Enright AJ, Berriman M.

PLoS Negl Trop Dis. 2017 May 23;11(5):e0005559. doi: 10.1371/journal.pntd.0005559. eCollection 2017 May.

42.

Nucleic acid detection with CRISPR-Cas13a/C2c2.

Gootenberg JS, Abudayyeh OO, Lee JW, Essletzbichler P, Dy AJ, Joung J, Verdine V, Donghia N, Daringer NM, Freije CA, Myhrvold C, Bhattacharyya RP, Livny J, Regev A, Koonin EV, Hung DT, Sabeti PC, Collins JJ, Zhang F.

Science. 2017 Apr 28;356(6336):438-442. doi: 10.1126/science.aam9321. Epub 2017 Apr 13.

43.

Human Umbilical Cord Mesenchymal Stromal Cells Improve Survival and Bacterial Clearance in Neonatal Sepsis in Rats.

Zhu Y, Xu L, Collins JJP, Vadivel A, Cyr-Depauw C, Zhong S, Mense L, Möbius MA, Thébaud B.

Stem Cells Dev. 2017 Jul 15;26(14):1054-1064. doi: 10.1089/scd.2016.0329. Epub 2017 May 17.

PMID:
28401804
44.

Platyhelminthes.

Collins JJ 3rd.

Curr Biol. 2017 Apr 3;27(7):R252-R256. doi: 10.1016/j.cub.2017.02.016.

45.

Carbon Sources Tune Antibiotic Susceptibility in Pseudomonas aeruginosa via Tricarboxylic Acid Cycle Control.

Meylan S, Porter CBM, Yang JH, Belenky P, Gutierrez A, Lobritz MA, Park J, Kim SH, Moskowitz SM, Collins JJ.

Cell Chem Biol. 2017 Feb 16;24(2):195-206. doi: 10.1016/j.chembiol.2016.12.015. Epub 2017 Jan 19.

46.

A Blueprint for a Synthetic Genetic Feedback Controller to Reprogram Cell Fate.

Del Vecchio D, Abdallah H, Qian Y, Collins JJ.

Cell Syst. 2017 Jan 25;4(1):109-120.e11. doi: 10.1016/j.cels.2016.12.001. Epub 2017 Jan 5.

47.

Mortality risk among workers with exposure to dioxins.

Collins JJ, Bodner KM, Aylward LL, Bender TJ, Anteau S, Wilken M, Bodnar CM.

Occup Med (Lond). 2016 Dec;66(9):706-712. Epub 2016 Dec 7.

PMID:
27932487
48.

Tissue Degeneration following Loss of Schistosoma mansoni cbp1 Is Associated with Increased Stem Cell Proliferation and Parasite Death In Vivo.

Collins JN, Collins JJ 3rd.

PLoS Pathog. 2016 Nov 3;12(11):e1005963. doi: 10.1371/journal.ppat.1005963. eCollection 2016 Nov.

49.

Methods for Studying the Germline of the Human Parasite Schistosoma mansoni.

Collins JN, Collins JJ 3rd.

Methods Mol Biol. 2017;1463:35-47.

PMID:
27734345
50.

Portable, On-Demand Biomolecular Manufacturing.

Pardee K, Slomovic S, Nguyen PQ, Lee JW, Donghia N, Burrill D, Ferrante T, McSorley FR, Furuta Y, Vernet A, Lewandowski M, Boddy CN, Joshi NS, Collins JJ.

Cell. 2016 Sep 22;167(1):248-259.e12. doi: 10.1016/j.cell.2016.09.013.

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