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


Genomic and proteomic features of mycobacteriophage SWU1 isolated from China soil



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Genomic and proteomic features of mycobacteriophage SWU1 isolated from China soil.


Xiangyu Fan Jianlong YanLongxiang XieLanying ZengRyland F. Young III, Jianping Xie

Gene, 25 April 2015; 561(1): 45-53.
Method for retaining even coverage of short insert libraries.

Inventors: Niall Anthony Gormley, and Melanie Anne Smith.

U.S. Patent Application: 2015/0119292 A1, Publication Date: 30 April 2015;

https://www.google.com/patents/US20150119292
Long insert-based whole genome sequencing.

Inventors: Winnie Liang, John Carpten, and David Craig.

U.S. Patent Application: 2015/0126379 A1, Publication Date: 7 May 2015;

https://www.google.com/patents/US20150126379
Linear vectors, host cells and cloning methods.

Inventors: Ronald Godiska, David A. Mead, and Nikolai V. Ravin.

United States Patent: 9029134 B2, Publication Date: 12 May 2015;

https://www.google.com/patents/US9029134
Methods and Systems for Storing Sequence Read Data.

Inventors: Caleb J. Kennedy, and Niru Chennagiri.

US Patent Application: 2015/0149510 A1, Publication Date: 28 May 2015.

http://www.freepatentsonline.com/y2015/0149510.html
Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement.

Tianzhen Zhang, Yan Hu, Wenkai Jiang, Lei Fang, Xueying Guan, Jiedan Chen, Jinbo Zhang, Christopher A Saski, Brian E Scheffler, David M Stelly, Amanda M Hulse-Kemp, Qun Wan, Bingliang Liu, Chunxiao Liu, Sen Wang, Mengqiao Pan, Yangkun Wang, Dawei Wang, Wenxue Ye, Lijing Chang, Wenpan Zhang, Qingxin Song, Ryan C Kirkbride, Xiaoya Chen, Elizabeth Dennis, Danny J Llewellyn, Daniel G Peterson, Peggy Thaxton, Don C Jones, Qiong Wang, Xiaoyang Xu, Hua Zhang, Huaitong Wu, Lei Zhou, Gaofu Mei, Shuqi Chen, Yue Tian, Dan Xiang, Xinghe Li, Jian Ding, Qiyang Zuo, Linna Tao, Yunchao Liu,Ji Li, Yu Lin, Yuanyuan Hui, Zhisheng Cao, Caiping Cai, Xiefei Zhu, Zhi Jiang, Baoliang Zhou, Wangzhen Guo, Ruiqiang Li & Z Jeffrey Chen

Nature Biotechnology, May 2015; 33(5): 531-537.

http://www.nature.com/nbt/journal/v33/n5/full/nbt.3207.html
Clostridium thermocellum Cel5L–Cloning and Characterization of a New, Thermostable GH5 Cellulase.

Phillip J. Brumm, Spencer Hermanson, Krishne Gowda, Dan Xie, and David A. Mead.

International Journal of Biochemistry Research & Review, May 2015, 6(2): 62-74.

http://www.sdiarticle2.org/journal/IJBCRR_3/prh/2015/02/02/Revised-manuscript_version2_15199.pdf
The Genome of Dendrobium officinale illuminates the Biology of the important Traditional Chinese Orchid Herb.

Liang Yan, Xiao Wang, Hui Liu, Yang Tian, Jinmin Lian, Ruijuan Yang, Shumei Hao, Xuanjun Wang, Shengchao Yang, Qiye Li, Shuai Qi, Ling Kui, Moses Okpekum, Xiao Ma, Jiajin Zhang, Zhaoli Ding, Guojie Zhang, Wen Wang, Yang Dong, Jun Sheng

Molecular Plant, 1 June 2015; 8(6): 922–934
Complete genome sequence of Salmonella enterica subspecies arizonae str. RKS2983.

Chun-Xiao Wang, Song-Ling Zhu, Xiao-Yu Wang, Ye Feng, Bailiang Li, Yong-Guo Li, Randal N. Johnston, Gui-Rong Liu, Jin Zhou, and Shu-Lin Liu.

Standards in Genomic Sciences, 3 June 2015; 10(1): 30, 7 pp.

http://www.biomedcentral.com/content/pdf/s40793-015-0015-z.pdf
Interaction and signalling between a cosmopolitan phytoplankton and associated bacteria.

S. A. Amin, L. R. Hmelo, H. M. van Tol, B. P. Durham, L. T. Carlson, K. R. Heal, R. L. Morales, C. T. Berthiaume, M. S. Parker, B. Djunaedi, A. E. Ingalls, M. R. Parsek, M. A. Moran, E. V. Armbrust



Nature, 4 June 2015; 522(7554): 98-101.

https://www.researchgate.net/profile/Shady_Amin/publication/277411076_Interaction_and_signalling_between_a_cosmopolitan_phytoplankton_and_associated_bacteria/links/562f2a0308ae22b170363c3e.pdf
Biopolymer sequencing by hybridization of probes to form ternary complexes and variable range alignment.

Inventors: John Oliver, Barrett Bready, Peter Goldstein, and Franco Preparata.

United States Patent: US 9051609 B2, Publication Date: 9 June 2015;

https://www.google.com/patents/US9051609
Genome sequencing by random priming methods for viral identification.

Rosseel Toon

PhD Theses, 14 June 2015, Faculty of Veterinary Medicine, Ghent University, Belgium, 288 pp.

https://www.researchgate.net/profile/Hans_Nauwynck/publication/278244335_Genome_sequencing_by_random_priming_methods_for_viral_identification/links/557df58708ae26eada8db982.pdf
Intermittent detection during analytical reactions.

Inventors: Stephen Turner, Jon Sorenson, Kenneth Mark Maxham, and John Eid.

United States Patent: US 9057102 B2, Publication Date: 16 June 2015;

https://www.google.com/patents/US9057102
Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts.

Guillaume Morel, Lieven Sterck, Dominique Swennen, Marina Marcet-Houben, Djamila Onesime, Anthony Levasseur, Noémie Jacques, Sandrine Mallet, Arnaux Couloux, Karine Labadie, Joëlle Amselem, Jean-Marie Beckerich, Bernard Henrissat, Yves Van de Peer, Patrick Wincker, Jean-Luc Souciet, Toni Gabaldón, Colin R. Tinsley & Serge Casaregola

Scientific Reports, 25 June 2015; 5: 11571, 17 pp.

http://www.nature.com/srep/2015/150625/srep11571/pdf/srep11571.pdf
Lucilia cuprina genome unlocks parasitic fly biology to underpin future interventions.

Clare A. Anstead, Pasi K. Korhonen, Neil D. Young, Ross S. Hall, Aaron R. Jex, Shwetha C. Murali, Daniel ST Hughes, Siu F. Lee, Trent Perry, Andreas J. Stroehlein, Brendan R.E. Ansell, Bert Breugelmans, Andreas Hofmann, Jiaxin Qu, Shannon Dugan, Sandra L. Lee, Hsu Chao, Huyen Dinh, Yi Han, Harsha V. Doddapaneni, Kim C. Worley, Donna M. Muzny, Panagiotis Ioannidis, Robert M. Waterhouse, Evgeny M. Zdobnov, Peter J. James, Neil H. Bagnall, Andrew C. Kotze, Richard A. Gibbs, Stephen Richards, Philip Batterham & Robin B. Gasser

Nature Communications, 25 June 2015; 6: 7344, 11 pp.

http://www.nature.com/ncomms/2015/150626/ncomms8344/pdf/ncomms8344.pdf
Characterization of KfrA proteins encoded by a plasmid of Paenibacillus popilliae ATCC 14706T

Kazuhiro Iiyama, Hiroaki Mon, Kazuki Mori, Takumi Mitsudome, Jae Man Lee, Takahiro Kusakabe, Kousuke Tashiro, Shin-ichiro Asano, and Chisa Yasunaga-Aoki.

Meta Gene, June 2015; 4: 29-44.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4372654/
Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella typhi identifies inter-and intracontinental transmission events.

Vanessa K. Wong, Stephen Baker, Derek J. Pickard, Julian Parkhill, Andrew J. Page, Nicholas A. Feasey, Robert A. Kingsley, Nicholas R Thomson, Jacqueline A Keane, François-Xavier Weill, David J Edwards, Jane Hawkey, Simon R Harris, Alison E Mather, Amy K Cain, James Hadfield, Peter J Hart, Nga Tran Vu Thieu, Elizabeth J Klemm, Dafni A Glinos, Robert F Breiman, Conall H Watson,Samuel Kariuki, Melita A Gordon, Robert S Heyderman, Chinyere Okoro, Jan Jacobs, Octavie Lunguya, W John Edmunds, Chisomo Msefula, Jose A Chabalgoity, Mike Kama, Kylie Jenkins, Shanta Dutta, Florian Marks, Josefina Campos, Corinne Thompson, Stephen Obaro, Calman A MacLennan, Christiane Dolecek, Karen H Keddy, Anthony M Smith, Christopher M Parry, Abhilasha Karkey, E Kim Mulholland, James I Campbell, Sabina Dongol, Buddha Basnyat, Muriel Dufour, Don Bandaranayake, Take Toleafoa Naseri, Shalini Pravin Singh, Mochammad Hatta, Paul Newton, Robert S Onsare, Lupeoletalalei Isaia, David Dance, Viengmon Davong, Guy Thwaites, Lalith Wijedoru, John A Crump, Elizabeth De Pinna, Satheesh Nair, Eric J Nilles, Duy Pham Thanh, Paul Turner, Sona Soeng, Mary Valcanis, Joan Powling, Karolina Dimovski, Geoff Hogg, Jeremy Farrar, Kathryn E Holt & Gordon Dougan



Nature Genetics, June 2015, 47(6): 632-639. (HS+)

http://www.nature.com/ng/journal/v47/n6/abs/ng.3281.html
The genome of Dendrobium officinale illuminates the biology of the important traditional Chinese orchid herb.

Liang Yan, Xiao Wang, Hui Liu, Yang Tian, Jinmin Lian, Ruijuan Yang, Shumei Hao, Xuanjun Wang, Shengchao Yang, Qiye Li, Shuai Qi, Ling Kui, Moses Okpekum, Xiao Ma, Jiajin Zhang, Zhaoli Ding, Guojie Zhang, Wen Wang, Yang Dong and Jun Sheng

Molecular Plant, June 2015; 8(6): 922-934.

http://www.cell.com/molecular-plant/pdf/S1674-2052(14)00047-1.pdf
Genome sequencing by random priming methods for viral identification.

Rosseel Toon

PhD Theses, June 2015; Ghent University, Belgium, 293 pp.

http://www.researchgate.net/profile/Hans_Nauwynck/publication/278244335_Genome_sequencing_by_random_priming_methods_for_viral_identification/links/557df58708ae26eada8db982.pdf
End modification to prevent over-representation of fragments.

Inventors: Roberto Rigatti, Niall Anthony Gormley, and Helen Rachel Bignell.

US Patent Application: 2015/0197789 A1, Publication Date: 16 July 2015;

http://www.freepatentsonline.com/y2015/0197789.html
Lucigen Yellow (LucY), a yellow fluorescent protein.

Inventors: Michele E. Auldridge, Laura P. Franz, David Mead, Saurabh Sen, and Eric J. Steinmetz.

US Patent Application: 2015/0198533 A1, Publication Date: 16 July 2015;

https://www.google.com/patents/US20150198533
Method for Sequencing a Polynucelotide Template.

Inventors: Geoffrey Paul Smith, Jonathan Mark Boutell, Colin Lloyd Barnes, Roberto Rigatti, Niall Anthony Gormley, David Bentley, Tobias William Barr Ost, Vincent Peter Smith, Graham John Worsley, and Eric Hans Vermaas.

U.S. Patent Application: 2015/0203910 A1, Publication Date: 23 July 2015;

https://www.google.com/patents/US20150203910
Molecular characterization of ring chromosome 18 by low-coverage next generation sequencing.

Xiuqing Ji, Dong Liang, Ruihong Sun, Cuiyun Liu, Dingyuan Ma, Yan Wang, Ping Hu, and Zhengfeng Xu.

BMC Medical Genetics, 30 July 2015; 16(1): 57, 7 pp.

http://www.biomedcentral.com/1471-2350/16/57
Comparative genomics analysis of pKF3-94 in Klebsiella pneumoniae reveals plasmid compatibility and horizontal gene transfer.

Jianchao Ying, Songquan Wu, Kaibo Zhang, Ziqiang Wang, Wen Zhu, Mei Zhu, Ying Zhang, Cong Cheng, Huifeng Wang, Huifen Tou, Chuanxin Zhu, Peizhen Li, Jun Ying, Teng Xu, Huiguang Yi, Jinsong Li, Liyan Ni, Zuyuan Xu, Qiyu Bao, and Junwan Lu

Frontiers in Microbiology, 18 August 2015; 6: 831, 10 pp.

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4539522/
Multiplex Quantification of 12 European Union Authorized Genetically Modified Maize Lines with Droplet Digital Polymerase Chain Reaction.

David Dobnik, Bjørn Spilsberg, Alexandra Bogožalec Košir, Arne Holst-Jensen, and Jana Žel.

Analytical Chemistry, 18 August 2015; 87(16): 8218-8226.

http://pubs.acs.org/doi/full/10.1021/acs.analchem.5b01208
Methods for analyzing nucleic acids.

Inventor: Mark Umbarger

United States Patent: US 9115387 B2, Publication Date: 25 August 2015;

https://www.google.com/patents/US9115387
Paternal sperm DNA methylation associated with early signs of autism risk in an autism-enriched cohort.

Jason I. Feinberg, Kelly M. Bakulski, Andrew E. Jaffe, Rakel Tryggvadottir, Shannon C. Brown, Lynn R. Goldman, Lisa A. Croen, Irva Hertz-Picciotto, Craig J NewschafferM Daniele Fallin and Andrew P Feinberg

International Journal of Epidemiology, August 2015; 44(4):1199-1210. (HS+)

http://ije.oxfordjournals.org/content/early/2015/04/14/ije.dyv028.full.pdf+html
Acetylcholinesterase 1 in populations of organophosphate-resistant North American strains of the cattle tick, Rhipicephalus microplus (Acari: Ixodidae).

Kylie G. Bendele, Felix D. Guerrero, Robert J. Miller, Andrew Y. Li, Roberto A. Barrero, Paula M. Moolhuijzen, Michael Black, John K McCookeJason MeyerCatherine A. HillMatthew I. Bellgard

Parasitology Research, August 2015; 114(8): 3027-3040.
An all-purpose genome assembler for next-generation sequencing reads.

Luo, Ruibang (罗锐邦)



PhD Theses, August 2015; The University of Hong Kong, 150 pp.

http://hub.hku.hk/bitstream/10722/224657/1/FullText.pdf?accept=1
Xenopus tropicalis Genome Re-Scaffolding and Re-Annotation Reach the Resolution Required for In Vivo ChIA-PET Analysis.

Nicolas Buisine, Xiaoan Ruan, Patrice Bilesimo, Alexis Grimaldi, Gladys Alfama, Pramila Ariyaratne, Fabianus Mulawadi, Jieqi Chen, Wing-Kin Sung, Edison T. Liu, Barbara A. Demeneix, Yijun Ruan, Laurent M. Sachs

PLoS One, 8 September 2015; 10(9): e0137526, 27 pp.

http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0137526
Methods and apparatuses for nucleic acid shearing by sonication.

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

United States Patent: US 9127306 B2, Publication Date: 8 September 2015.

https://www.google.com/patents/US9127306
Isolamento de aptâmeros ligantes à sequência 3'-UTR do RNA do vírus da dengue.

Amanda Gabrielle da Silva

MS Theses, 9 September 2015; Universidade Federal de Goiás, Catalão, Brazil, 66 pp.

http://repositorio.bc.ufg.br/tede/handle/tede/5135



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