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Items: 1 to 20 of 89

1.

Low escape-rate genome safeguards with minimal molecular perturbation of Saccharomyces cerevisiae.

Agmon N, Tang Z, Yang K, Sutter B, Ikushima S, Cai Y, Caravelli K, Martin JA, Sun X, Choi WJ, Zhang A, Stracquadanio G, Hao H, Tu BP, Fenyo D, Bader JS, Boeke JD.

Proc Natl Acad Sci U S A. 2017 Feb 7. pii: 201621250. doi: 10.1073/pnas.1621250114. [Epub ahead of print]

PMID:
28174266
2.

Hypoxia Sensing and Persistence Genes are Expressed During the Intra-granulomatous Survival of M. tuberculosis.

Hudock TA, Foreman TW, Bandyopadhyay N, Gautam US, Veatch A, LoBato DN, Gentry KM, Golden NA, Cavigli A, Mueller M, Hwang SA, Hunter RL, Alvarez X, Lackner AA, Bader JS, Mehra S, Kaushal D.

Am J Respir Cell Mol Biol. 2017 Jan 30. doi: 10.1165/rcmb.2016-0239OC. [Epub ahead of print]

PMID:
28135421
3.

The NIH Protein Capture Reagents Program (PCRP): a standardized protein affinity reagent toolbox.

Blackshaw S, Venkataraman A, Irizarry J, Yang K, Anderson S, Campbell E, Gatlin CL, Freeman NL, Basavappa R, Stewart R, Loss MA, Pino I, Zhu H, Bader JS.

Nat Methods. 2016 Sep 29;13(10):805-6. doi: 10.1038/nmeth.4013. No abstract available.

PMID:
27684578
4.

BioPartsDB: a synthetic biology workflow web-application for education and research.

Stracquadanio G, Yang K, Boeke JD, Bader JS.

Bioinformatics. 2016 Nov 15;32(22):3519-3521.

5.

Multiscale Model of Mycobacterium tuberculosis Infection Maps Metabolite and Gene Perturbations to Granuloma Sterilization Predictions.

Pienaar E, Matern WM, Linderman JJ, Bader JS, Kirschner DE.

Infect Immun. 2016 Apr 22;84(5):1650-69. doi: 10.1128/IAI.01438-15.

6.

Molecular and systems approaches towards drought-tolerant canola crops.

Zhu M, Monroe JG, Suhail Y, Villiers F, Mullen J, Pater D, Hauser F, Jeon BW, Bader JS, Kwak JM, Schroeder JI, McKay JK, Assmann SM.

New Phytol. 2016 Jun;210(4):1169-89. doi: 10.1111/nph.13866. Review.

PMID:
26879345
7.

Polyclonal breast cancer metastases arise from collective dissemination of keratin 14-expressing tumor cell clusters.

Cheung KJ, Padmanaban V, Silvestri V, Schipper K, Cohen JD, Fairchild AN, Gorin MA, Verdone JE, Pienta KJ, Bader JS, Ewald AJ.

Proc Natl Acad Sci U S A. 2016 Feb 16;113(7):E854-63. doi: 10.1073/pnas.1508541113.

8.

BioPartsBuilder: a synthetic biology tool for combinatorial assembly of biological parts.

Yang K, Stracquadanio G, Luo J, Boeke JD, Bader JS.

Bioinformatics. 2016 Mar 15;32(6):937-9. doi: 10.1093/bioinformatics/btv664.

9.

SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes.

Shen Y, Stracquadanio G, Wang Y, Yang K, Mitchell LA, Xue Y, Cai Y, Chen T, Dymond JS, Kang K, Gong J, Zeng X, Zhang Y, Li Y, Feng Q, Xu X, Wang J, Wang J, Yang H, Boeke JD, Bader JS.

Genome Res. 2016 Jan;26(1):36-49. doi: 10.1101/gr.193433.115.

10.

Tissue matrix arrays for high-throughput screening and systems analysis of cell function.

Beachley VZ, Wolf MT, Sadtler K, Manda SS, Jacobs H, Blatchley MR, Bader JS, Pandey A, Pardoll D, Elisseeff JH.

Nat Methods. 2015 Dec;12(12):1197-204. doi: 10.1038/nmeth.3619.

11.

Lesion-Specific Immune Response in Granulomas of Patients with Pulmonary Tuberculosis: A Pilot Study.

Subbian S, Tsenova L, Kim MJ, Wainwright HC, Visser A, Bandyopadhyay N, Bader JS, Karakousis PC, Murrmann GB, Bekker LG, Russell DG, Kaplan G.

PLoS One. 2015 Jul 2;10(7):e0132249. doi: 10.1371/journal.pone.0132249.

12.

PADPIN: protein-protein interaction networks of angiogenesis, arteriogenesis, and inflammation in peripheral arterial disease.

Chu LH, Vijay CG, Annex BH, Bader JS, Popel AS.

Physiol Genomics. 2015 Aug;47(8):331-43. doi: 10.1152/physiolgenomics.00125.2014.

13.

Deficiency of the novel exopolyphosphatase Rv1026/PPX2 leads to metabolic downshift and altered cell wall permeability in Mycobacterium tuberculosis.

Chuang YM, Bandyopadhyay N, Rifat D, Rubin H, Bader JS, Karakousis PC.

MBio. 2015 Mar 17;6(2):e02428. doi: 10.1128/mBio.02428-14.

14.

Intrinsic biocontainment: multiplex genome safeguards combine transcriptional and recombinational control of essential yeast genes.

Cai Y, Agmon N, Choi WJ, Ubide A, Stracquadanio G, Caravelli K, Hao H, Bader JS, Boeke JD.

Proc Natl Acad Sci U S A. 2015 Feb 10;112(6):1803-8. doi: 10.1073/pnas.1424704112.

15.

Transcriptome analysis reveals dysregulation of innate immune response genes and neuronal activity-dependent genes in autism.

Gupta S, Ellis SE, Ashar FN, Moes A, Bader JS, Zhan J, West AB, Arking DE.

Nat Commun. 2014 Dec 10;5:5748. doi: 10.1038/ncomms6748.

16.

Angiogenesis interactome and time course microarray data reveal the distinct activation patterns in endothelial cells.

Chu LH, Lee E, Bader JS, Popel AS.

PLoS One. 2014 Oct 16;9(10):e110871. doi: 10.1371/journal.pone.0110871.

17.

Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization.

Arking DE, Pulit SL, Crotti L, van der Harst P, Munroe PB, Koopmann TT, Sotoodehnia N, Rossin EJ, Morley M, Wang X, Johnson AD, Lundby A, Gudbjartsson DF, Noseworthy PA, Eijgelsheim M, Bradford Y, Tarasov KV, Dörr M, Müller-Nurasyid M, Lahtinen AM, Nolte IM, Smith AV, Bis JC, Isaacs A, Newhouse SJ, Evans DS, Post WS, Waggott D, Lyytikäinen LP, Hicks AA, Eisele L, Ellinghaus D, Hayward C, Navarro P, Ulivi S, Tanaka T, Tester DJ, Chatel S, Gustafsson S, Kumari M, Morris RW, Naluai ÅT, Padmanabhan S, Kluttig A, Strohmer B, Panayiotou AG, Torres M, Knoflach M, Hubacek JA, Slowikowski K, Raychaudhuri S, Kumar RD, Harris TB, Launer LJ, Shuldiner AR, Alonso A, Bader JS, Ehret G, Huang H, Kao WH, Strait JB, Macfarlane PW, Brown M, Caulfield MJ, Samani NJ, Kronenberg F, Willeit J; CARe Consortium.; COGENT Consortium., Smith JG, Greiser KH, Meyer Zu Schwabedissen H, Werdan K, Carella M, Zelante L, Heckbert SR, Psaty BM, Rotter JI, Kolcic I, Polašek O, Wright AF, Griffin M, Daly MJ; DCCT/EDIC., Arnar DO, Hólm H, Thorsteinsdottir U; eMERGE Consortium., Denny JC, Roden DM, Zuvich RL, Emilsson V, Plump AS, Larson MG, O'Donnell CJ, Yin X, Bobbo M, D'Adamo AP, Iorio A, Sinagra G, Carracedo A, Cummings SR, Nalls MA, Jula A, Kontula KK, Marjamaa A, Oikarinen L, Perola M, Porthan K, Erbel R, Hoffmann P, Jöckel KH, Kälsch H, Nöthen MM; HRGEN Consortium., den Hoed M, Loos RJ, Thelle DS, Gieger C, Meitinger T, Perz S, Peters A, Prucha H, Sinner MF, Waldenberger M, de Boer RA, Franke L, van der Vleuten PA, Beckmann BM, Martens E, Bardai A, Hofman N, Wilde AA, Behr ER, Dalageorgou C, Giudicessi JR, Medeiros-Domingo A, Barc J, Kyndt F, Probst V, Ghidoni A, Insolia R, Hamilton RM, Scherer SW, Brandimarto J, Margulies K, Moravec CE, del Greco M F, Fuchsberger C, O'Connell JR, Lee WK, Watt GC, Campbell H, Wild SH, El Mokhtari NE, Frey N, Asselbergs FW, Mateo Leach I, Navis G, van den Berg MP, van Veldhuisen DJ, Kellis M, Krijthe BP, Franco OH, Hofman A, Kors JA, Uitterlinden AG, Witteman JC, Kedenko L, Lamina C, Oostra BA, Abecasis GR, Lakatta EG, Mulas A, Orrú M, Schlessinger D, Uda M, Markus MR, Völker U, Snieder H, Spector TD, Ärnlöv J, Lind L, Sundström J, Syvänen AC, Kivimaki M, Kähönen M, Mononen N, Raitakari OT, Viikari JS, Adamkova V, Kiechl S, Brion M, Nicolaides AN, Paulweber B, Haerting J, Dominiczak AF, Nyberg F, Whincup PH, Hingorani AD, Schott JJ, Bezzina CR, Ingelsson E, Ferrucci L, Gasparini P, Wilson JF, Rudan I, Franke A, Mühleisen TW, Pramstaller PP, Lehtimäki TJ, Paterson AD, Parsa A, Liu Y, van Duijn CM, Siscovick DS, Gudnason V, Jamshidi Y, Salomaa V, Felix SB, Sanna S, Ritchie MD, Stricker BH, Stefansson K, Boyer LA, Cappola TP, Olsen JV, Lage K, Schwartz PJ, Kääb S, Chakravarti A, Ackerman MJ, Pfeufer A, de Bakker PI, Newton-Cheh C.

Nat Genet. 2014 Aug;46(8):826-36. doi: 10.1038/ng.3014.

18.

RADOM, an efficient in vivo method for assembling designed DNA fragments up to 10 kb long in Saccharomyces cerevisiae.

Lin Q, Jia B, Mitchell LA, Luo J, Yang K, Zeller KI, Zhang W, Xu Z, Stracquadanio G, Bader JS, Boeke JD, Yuan YJ.

ACS Synth Biol. 2015 Mar 20;4(3):213-20. doi: 10.1021/sb500241e.

PMID:
24895839
19.

Total synthesis of a functional designer eukaryotic chromosome.

Annaluru N, Muller H, Mitchell LA, Ramalingam S, Stracquadanio G, Richardson SM, Dymond JS, Kuang Z, Scheifele LZ, Cooper EM, Cai Y, Zeller K, Agmon N, Han JS, Hadjithomas M, Tullman J, Caravelli K, Cirelli K, Guo Z, London V, Yeluru A, Murugan S, Kandavelou K, Agier N, Fischer G, Yang K, Martin JA, Bilgel M, Bohutski P, Boulier KM, Capaldo BJ, Chang J, Charoen K, Choi WJ, Deng P, DiCarlo JE, Doong J, Dunn J, Feinberg JI, Fernandez C, Floria CE, Gladowski D, Hadidi P, Ishizuka I, Jabbari J, Lau CY, Lee PA, Li S, Lin D, Linder ME, Ling J, Liu J, Liu J, London M, Ma H, Mao J, McDade JE, McMillan A, Moore AM, Oh WC, Ouyang Y, Patel R, Paul M, Paulsen LC, Qiu J, Rhee A, Rubashkin MG, Soh IY, Sotuyo NE, Srinivas V, Suarez A, Wong A, Wong R, Xie WR, Xu Y, Yu AT, Koszul R, Bader JS, Boeke JD, Chandrasegaran S.

Science. 2014 Apr 4;344(6179):55-8. doi: 10.1126/science.1249252. Erratum in: Science. 2014 May 23;344(6186):816.

20.

Twist1-induced dissemination preserves epithelial identity and requires E-cadherin.

Shamir ER, Pappalardo E, Jorgens DM, Coutinho K, Tsai WT, Aziz K, Auer M, Tran PT, Bader JS, Ewald AJ.

J Cell Biol. 2014 Mar 3;204(5):839-56. doi: 10.1083/jcb.201306088.

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