Publication list on hydroshear use (to 11 January 2017) 2017


Potential mechanisms of attenuation for rifampicin-passaged strains of Flavobacterium psychrophilum



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Potential mechanisms of attenuation for rifampicin-passaged strains of Flavobacterium psychrophilum


Karol Gliniewicz, Mark Wildung, Lisa H. Orfe, Gregory D. Wiens, Kenneth D. Cain, Kevin K. Lahmers, Kevin R. Snekvik, and Douglas R. Call

BMC Microbiology, 16 September 2015; 15: 179, 15 pp. (HS+)

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4571129/
High-throughput dynamic reagent delivery system.

Inventors: Andrew D. Griffiths, Marie Leman, Robert Nicol, Scott Steelman, and Patrick Tabeling.

US Patent Application: 2015/0258520 A1, Publication Date: 17 September 2015.

http://www.freepatentsonline.com/y2015/0258520.html
Compositions and methods for long insert, paired end libraries of nucleic acids in emulsion droplets.

Inventors: Scott Steelman, Robert Nicol, and Robert Lintner.

US Patent Application: 2015/0259674 A1, Publication Date: 17 September 2015.

http://www.freepatentsonline.com/y2015/0259674.html
Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks.

Adler R. Dillman, Marissa Macchietto, Camille F. Porter, Alicia Rogers, Brian Williams, Igor Antoshechkin, Ming-Min Lee et al. Zane Goodwin,Xiaojun Lu, Edwin E. Lewis, Heidi Goodrich-Blair, S. Patricia Stock, Byron J. Adams, Paul W. Sternberg , Ali Mortazavi

Genome Biology, 21 September 2015; 16(1): 200, 21 pp.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4578762/
Unveiling novel aspects of D-amino acid metabolism in the model bacterium Pseudomonas putida KT2440.

Atanas D. Radkov

PhD Theses, 21 September 2015; University of Kentucky, Lexington, 114 pp.

http://uknowledge.uky.edu/cgi/viewcontent.cgi?article=1069&context=pss_etds
Loss of Karma transposon methylation underlies the mantled somaclonal variant of oil palm.

Meilina Ong-Abdullah, Jared M. Ordway, Nan Jiang, Siew-Eng Ooi, Sau-Yee Kok, Norashikin Sarpan, Nuraziyan Azimi et al. Ahmad Tarmizi Hashim, Zamzuri Ishak, Samsul Kamal Rosli, Fadila Ahmad Malike, Nor Azwani Abu Bakar, Marhalil Marjuni, Norziha Abdullah, Zulkifli Yaakub, Mohd Din Amiruddin, Rajanaidu Nookiah, Rajinder Singh, Eng-Ti Leslie Low, Kuang-Lim Chan, Norazah Azizi, Steven W. Smith, Blaire Bacher, Muhammad A. Budiman, Andrew Van Brunt, Corey Wischmeyer, Melissa Beil, Michael Hogan, Nathan Lakey, Chin-Ching Lim, Xaviar Arulandoo, Choo-Kien Wong, Chin-Nee Choo, Wei-Chee Wong, Yen-Yen Kwan, Sharifah Shahrul Rabiah Syed Alwee, Ravigadevi Sambanthamurthi & Robert A. Martienssen

Nature, 24 September 2015; 525(7570): 533-537.

http://www.nature.com/nature/journal/v525/n7570/pdf/nature15365.pdf
Methods of sample preparation.

Inventors: Steven Robert Head, Phillip T. Ordoukhanian, and Daniel R. Salomon.



US Patent Application: 2015/0265995 A1, Publication Date: 24 September 2015;

http://www.freepatentsonline.com/y2015/0265995.html
Sequence composition of BAC clones and SSR markers mapped to Upland cotton chromosomes 11 and 21 targeting resistance to soil-borne pathogens.

Congli Wang, Mauricio Ulloa, Xinyi Shi, Xiaohui Yuan, Christopher Saski, John Z. Yu, and Philip A. Roberts.

Frontiers in Plant Science, 2 October 2015; 6: 791, 17 pp.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4591483/
A novel retroviral mutagenesis screen identifies prognostic genes in RUNX1 mediated myeloid leukemogenesis.

Dustin T. Rae, Jonah D. Hocum, Victor Bii, H. Joachim Deeg, and Grant D. Trobridge.



Oncotarget, 13 October 2015; 6(31): 30664-30674.

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4741560/
A Novel Bacteriophage targeting Cronobacter sakazakii is a potential biocontrol agent in foods.

Ju-Hoon Lee, Jaewoo Bai, Hakdong Shin, Yeran Kim, Bookyung Park, Sunggi Heu, Sangryeol Ryu.

Applied and Environmental Microbiology, 23 October 2015; 82(1): 192-201.

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702651/
Use of in vivo Expression Technology for the Identification of Putative Host Adaptation Factors of the Lyme Disease Spirochete.

Timothy Casselli, and Troy Bankhead.

Journal of Molecular Microbiology and Biotechnology, October 2015; 25(5): 349-361.
Methods and systems for genomic analysis.

Inventors: Jason Harris, Mark R. Pratt, John West, Richard Chen, and Ming Li.



United States Patent: US 9183496 B2, Publication Date: 10 November 2015;

https://www.google.com/patents/US9183496
Methods for detecting Aneuploidy.

Inventor: Athurva Gore



US Patent Application: 2015/0322524 A1, Publication Date: 12 November 2015;

http://www.freepatentsonline.com/y2015/0322524.html
A novel gammaretroviral shuttle vector insertional mutagenesis screen identifies SHARPIN as a breast cancer metastasis gene and prognostic biomarker.

Victor M. Bii, Dustin T. Rae, and Grant D. Trobridge.



Oncotarget, 24 November 2015; 6(37): 39507-39520.

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4741842/
Methods and Apparatuses for Nucleic Acid Shearing by Sonication.

Inventors: Vladimir I. Bashkirov, Umberto Ulmanella, Robert G. Eason, and Bradford J. Taft.



US Patent Application: 2015/0337299 A1, Publication Date: 26 November 2015;

https://www.google.com/patents/US20150337299
Methods and Apparatuses for Nucleic Acid Shearing by Sonication.

Inventors: Vladimir I. Bashkirov, Umberto Ulmanella, Robert G. Eason, and Bradford J. Taft.



US Patent Application: 2015/0337300 A1, Publication Date: 26 November 2015;

https://www.google.com/patents/US20150337300
The lifestyles of viruses in the sunlit ocean revealed through isolation, genomics, and infection dynamics.

Michael Curtis Grier Carlson

PhD Theses, November 2015; University of Washington, 144 pp.

https://digital.lib.washington.edu/researchworks/bitstream/handle/1773/35288/Carlson_washington_0250E_15362.pdf?sequence=1&isAllowed=y
Genomic integration of lambda EG10 transgene in gpt delta transgenic rodents.

Kenichi Masumura, Yasuteru Sakamoto, Wakako Kumita, Masamitsu Honma, Akiyoshi Nishikawa, and Takehiko Nohmi.

Genes and Environment, 1 December 2015; 37(1): 24, 13 pp.

http://genesenvironment.biomedcentral.com/articles/10.1186/s41021-015-0024-6
Methods for analyzing nucleic acids.

Inventor: Mark Umbarger



US Patent Application: 2015/0354003 A1, Publication Date: 10 December 2015;

http://www.freepatentsonline.com/y2015/0354003.html
Methods for genome assembly and haplotype phasing.

Inventors: Richard E. Green Jr, and Liana F. Lareau.

US Patent Application: 2015/0363550 A1, Publication Date: 17 December 2015;

http://www.freepatentsonline.com/y2015/0363550.html
Methods and systems for storing sequence read data.

Inventors: Caleb J. Kennedy, and Niru Chennagiri.



United States Patent: US 9218352 B2, Publication Date: 22 December 2015;

https://www.google.com/patents/US9218352
Identification and Characterization of Microsatellite Markers Derived from the Whole Genome Analysis of Taenia solium.

Pajuelo Mónica J., María Eguiluz, Eric Dahlstrom, David Requena, Frank Guzmán, Manuel Ramirez, Patricia Sheen, Michael FraceScott SammonsVitaliano CamaSarah AnzickDan Bruno, Siddhartha MahantyPatricia WilkinsTheodore NashArmando GonzalezHéctor H. GarcíaRobert H. GilmanSteve PorcellaMirko Zimic

PLoS Neglected Tropical Diseases, 23 December 2015; 9(12): e0004316, 15 pp.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4689449/
Methods for closed chromatin mapping and DNA methylation analysis for single cells.

Inventors: Xinghua Pan, and Sherman M. Weissman



US Patent Application: 2015/0368694 A1, Publication Date: 24 December 2015;

http://www.freepatentsonline.com/y2015/0368694.html
Modified Genomic Sequencing PCR Using the MiSeq Platform to Identify Retroviral Integration Sites.

Dustin T. Rae, Casey P. Collins, Jonah D. Hocum, Diana L. Browning, and Grant D. Trobridge.

Human Gene Therapy Methods, December 2015; 26(6): 221-227.
Lentiviral vector-mediated insertional mutagenesis screen identifies genes that influence androgen independent prostate cancer progression and predict clinical outcome.

Arun K. Nalla, Theodore F. Williams, Casey P. Collins, Dustin T. Rae, and Grant D. Trobridge.

Molecular Carcinogenesis, 29 October 2015; e-pub ahead of the print
Insulated Foamy Viral Vectors.

Diana L. Browning, Casey P. Collins, Jonah D. Hocum, David Leap, Dustin T. Rae, and Grant D. Trobridge.

Human Gene Therapy, 30 December 2015; e-pub ahead of the print.
The Pyrosequencing Protocol for Bacterial Genomes.

Ermanno Rizzi

Methods in Molecular Biology, 2015; 1231(Bacterial Pangenomics): 49-75
Genetic Enzyme Screening System: A Method for High-Throughput Functional Screening of Novel Enzymes from Metagenomic Libraries.

Haseong Kim, Kil Koang Kwon, Eugene Rha, and Seung-Goo Lee.

In: Hydrocarbon and Lipid Microbiology Protocols, 2015; Springer Protocols Handbooks, Springer-Verlag, Berlin-Heidelberg, 4-2, 10 pp.
Use of Bacterial Artificial Chromosomes in Metagenomics Studies, Overview.

Lingling Wang, Shamima Nasrin, Mark Liles, and Zhongtang Yu.

In: Encyclopedia of Metagenomics, 2015; Karen E. Nelson ed., Springer NY, pp. 671-680.
Use of Viral Metagenomes from Yellowstone Hot Springs to Study Phylogenetic Relationships and Evolution.

Thomas W. Schoenfeld, and David Mead.

In: Encyclopedia of Metagenomics, 2015; Karen E. Nelson ed., Springer NY, pp. 681-700.
Research on DNA Matching and Classification.

Priti C. Golar, and U.N. Shravankar.

Online Publication, 2015; 15 pp.

https://www.researchgate.net/profile/Urmila_Shrawankar/publication/275947728_Research_on_DNA_Matching_and_Classification/links/554b12040cf29752ee7c395d.pdf
Population Declines and Genetic Variation: Effects of Serial Bottlenecks.

Taylor Eilers Callicrate

PhD Theses, 2015; University of Maryland, College Park, 181 pp.

http://drum.lib.umd.edu/bitstream/handle/1903/17228/Callicrate_umd_0117E_16623.pdf?sequence=1
Rapport d’Activite 2014.

Pierre-Edouard Fournier, Didier Raoult, and Hervé Richet.



Communications, 2015; 116 pp.

http://www.mediterranee-infection.com/arkotheque/client/ihumed/_depot_arko/articles/614/rapport-d-activites-cnr-rickettsia-coxiella-bartonella-2014_doc.pdf


2014.
Genes of an otitis media isolate of nontypeable Haemophilus influenzae.

Inventors: Lauren O. Bakaletz, Robert S. Munson Jr, and David W. Dyer



United States Patent: 8628917 B2, Publication Date: 14 January 2014

https://www.google.com/patents/US8628917
Intermittent detection during analytical reactions.

Inventors: Jon Sorenson, Ali Bashir, Fred Christians, Stephen Turner, Eric C. Olivares, Jason Underwood


United States Patent: 8628940 B2, Publication Date: 14 January 2014

http://www.google.com/patents/US8628940
Methods and systems for determining haplotypes and phasing of haplotypes.

Inventors: Roberto Rigatti, Jonathan Mark Boutell


US Patent Application: 2014/0024537 A1, Publication Date: 23 January 2014

http://www.google.com/patents/US20140024537
Biomarkers and methods of use thereof.

Inventors: David Craig, Daniel Von Hoff, and John Carpten.



US Patent Application: 2014/0024539 A1, Publication Date: 23 January 2014

https://www.google.com/patents/US20140024539
Method of sequencing.

Inventor: Jarle Kotsbak



US Patent Application: 20140031239 A1, Publication Date: 30 January 2014.

https://www.google.com/patents/US20140031239
Evolution of Bacteriophage Host Attachment Using Det7 as a Model.

Robert H. Edgar

MS Theses, 4 February 2014; University of Pittsburgh, 58 pp.

http://d-scholarship.pitt.edu/20360/
Detecting and classifying copy number variation.

Inventors: Anupama Srinivasan, Richard P. Rava



US Patent Application: 2014/0038830 A1, Publication Date: 6 February 2014

http://www.google.com/patents/US20140038830
Genome-guided analysis of transformation efficiency and carbon dioxide assimilation by Moorella thermoacetica Y72.

Kenichiro Tsukahara, Akihisa Kita, Yutaka Nakashimada, Tamotsu Hoshino, and Katsuji Murakami.



Gene, 10 February 2014; 535(2): 150-155.
Metagenome-derived alkaline phosphatase

Inventors: Seung Goo Lee, Su Lim Choi, Eugene Rha, Jae Jun Song


United States Patent: 8647854 B2, Publication Date: 11 February 2014;

http://www.google.com/patents/US8647854



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