Searching journal content for articles similar to Zhao et al. 11 (10): 1736.

Displaying results 1-10 of 282

For checked items

view abstracts
download to citation manager

Select this article
Method: System-wide analyses of the fission yeast poly(A)⁺ RNA interactome reveal insights into organization and function of RNA–protein complexes
- Cornelia Kilchert,
- Tea Kecman,
- Emily Priest,
- Svenja Hester,
- Ebru Aydin,
- Krzysztof Kus,
- Oliver Rossbach,
- Alfredo Castello,
- Shabaz Mohammed,
- and Lidia Vasiljeva
Genome Res. July 2020 30: 1012-1026; Published in Advance June 18, 2020, doi:10.1101/gr.257006.119
...of the applicability of RIC to the study of RNPs. To this end, we determined the RNA interactome of the fission yeast Schizosaccharomyces pombe and introduced a whole-cell extract (WCE)-normalization procedure to assess relative enrichment of cellular RBPs. To evaluate performance of the method, we validated RNA...
OPEN ACCESS ARTICLE
Select this article
RESOURCE: A Cattle–Human Comparative Map Built with Cattle BAC-Ends and Human Genome Sequence
- Denis M. Larkin,
- Annelie Everts-van der Wind,
- Mark Rebeiz,
- Peter A. Schweitzer,
- Sharon Bachman,
- Cheryl Green,
- Chris L. Wright,
- Edhilvia J. Campos,
- Leslie D. Benson,
- Jennifer Edwards,
- Lei Liu,
- Kazutoyo Osoegawa,
- James E. Womack,
- Pieter J. de Jong,
- and Harris A. Lewin
Genome Res. August 2003 13: 1966-1972; doi:10.1101/gr.1560203
...The BAC-end sequences were trimmed of vector sequences, stored in a local Oracle database, and uploaded to GenBank (accession nos. BZ896445–BZ956676 and CC447354–CC447937) after quality assessment using the Genome Project Management System (GPMS), a local laboratory information management system for large...
Select this article
Method: Genome assembly quality: Assessment and improvement using the neutral indel model
- Stephen Meader,
- LaDeana W. Hillier,
- Devin Locke,
- Chris P. Ponting,
- and Gerton Lunter
Genome Res. May 2010 20: 675-684; Published in Advance March 19, 2010, doi:10.1101/gr.096966.109
...in the . These findings that BAC sequences are indeed of high quality thus present an opportunity to assess the utility of the proposed method for estimating assembly quality. We estimated the gap error rate within Sumatran orangutan finished BAC clones that align to human sequence and lie outside of TEs (7.5 Mb) to be D...
Select this article
Resource: Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly
- Valerie A. Schneider,
- Tina Graves-Lindsay,
- Kerstin Howe,
- Nathan Bouk,
- Hsiu-Chuan Chen,
- Paul A. Kitts,
- Terence D. Murphy,
- Kim D. Pruitt,
- Françoise Thibaud-Nissen,
- Derek Albracht,
- Robert S. Fulton,
- Milinn Kremitzki,
- Vincent Magrini,
- Chris Markovic,
- Sean McGrath,
- Karyn Meltz Steinberg,
- Kate Auger,
- William Chow,
- Joanna Collins,
- Glenn Harden,
- Timothy Hubbard,
- Sarah Pelan,
- Jared T. Simpson,
- Glen Threadgold,
- James Torrance,
- Jonathan M. Wood,
- Laura Clarke,
- Sergey Koren,
- Matthew Boitano,
- Paul Peluso,
- Heng Li,
- Chen-Shan Chin,
- Adam M. Phillippy,
- Richard Durbin,
- Richard K. Wilson,
- Paul Flicek,
- Evan E. Eichler,
- and Deanna M. Church
Genome Res. May 2017 27: 849-864; Published in Advance April 10, 2017, doi:10.1101/gr.213611.116
...analyses and BAC paired-end alignments (Supplemental Notes; Supplemental Tables S9, S10) demonstrating long-range assembly accuracy, these data augur well for their ability to contribute to gap closure curation efforts (Wang et al. 2008; Berlin et al. 2015; Chaisson et al. 2015a; Pendleton et al. 2015). We...
OPEN ACCESS ARTICLE
Select this article
Resource: Assemblathon 1: A competitive assessment of de novo short read assembly methods
- Dent Earl,
- Keith Bradnam,
- John St. John,
- Aaron Darling,
- Dawei Lin,
- Joseph Fass,
- Hung On Ken Yu,
- Vince Buffalo,
- Daniel R. Zerbino,
- Mark Diekhans,
- Ngan Nguyen,
- Pramila Nuwantha Ariyaratne,
- Wing-Kin Sung,
- Zemin Ning,
- Matthias Haimel,
- Jared T. Simpson,
- Nuno A. Fonseca,
- İnanç Birol,
- T. Roderick Docking,
- Isaac Y. Ho,
- Daniel S. Rokhsar,
- Rayan Chikhi,
- Dominique Lavenier,
- Guillaume Chapuis,
- Delphine Naquin,
- Nicolas Maillet,
- Michael C. Schatz,
- David R. Kelley,
- Adam M. Phillippy,
- Sergey Koren,
- Shiaw-Pyng Yang,
- Wei Wu,
- Wen-Chi Chou,
- Anuj Srivastava,
- Timothy I. Shaw,
- J. Graham Ruby,
- Peter Skewes-Cox,
- Miguel Betegon,
- Michelle T. Dimon,
- Victor Solovyev,
- Igor Seledtsov,
- Petr Kosarev,
- Denis Vorobyev,
- Ricardo Ramirez-Gonzalez,
- Richard Leggett,
- Dan MacLean,
- Fangfang Xia,
- Ruibang Luo,
- Zhenyu Li,
- Yinlong Xie,
- Binghang Liu,
- Sante Gnerre,
- Iain MacCallum,
- Dariusz Przybylski,
- Filipe J. Ribeiro,
- Shuangye Yin,
- Ted Sharpe,
- Giles Hall,
- Paul J. Kersey,
- Richard Durbin,
- Shaun D. Jackman,
- Jarrod A. Chapman,
- Xiaoqiu Huang,
- Joseph L. DeRisi,
- Mario Caccamo,
- Yingrui Li,
- David B. Jaffe,
- Richard E. Green,
- David Haussler,
- Ian Korf,
- and Benedict Paten
Genome Res. December 2011 21: 2224-2241; Published in Advance September 16, 2011, doi:10.1101/gr.126599.111
.... 2008), and looking at haplotype inconsistency (Lindblad-Toh et al. 2005). To assess accuracy, assembliesmay be comparedwith finished sequences derived from independent sequencing experiments or to sequences held out of the assembly process. For the dog , nine bacterial artificial chromosomes (BACs...
OPEN ACCESS ARTICLE
Select this article
Dog Special/Resources: Construction of a 2-Mb resolution BAC microarray for CGH analysis of canine tumors
- Rachael Thomas,
- Allyson Scott,
- Cordelia F. Langford,
- Susan P. Fosmire,
- Cristan M. Jubala,
- Travis D. Lorentzen,
- Christophe Hitte,
- Elinor K. Karlsson,
- Ewen Kirkness,
- Elaine A. Ostrander,
- Francis Galibert,
- Kerstin Lindblad-Toh,
- Jaime F. Modiano,
- and Matthew Breen
Genome Res. December 2005 15: 1831-1837; doi:10.1101/gr.3825705
...et al. 1997 ). BAC alignments were defined as either a unique, high-quality alignment of one BAC end or a high-quality alignment of both ends with accurate relative positioning. Clone addresses and their chromosomal locations (as determined by cytogenetic analysis and/or integration into the canine...
Select this article
LETTER: Contribution of Asian mouse subspecies Mus musculus molossinus to genomic constitution of strain C57BL/6J, as defined by BAC-end sequence–SNP analysis
- Kuniya Abe,
- Hideki Noguchi,
- Keiko Tagawa,
- Misako Yuzuriha,
- Atsushi Toyoda,
- Toshio Kojima,
- Kiyoshi Ezawa,
- Naruya Saitou,
- Masahira Hattori,
- Yoshiyuki Sakaki,
- Kazuo Moriwaki,
- and Toshihiko Shiroishi
Genome Res. December 2004 14: 2439-2447; doi:10.1101/gr.2899304
...(although unlikely), some biological constraints could exist on the BAC-end sequences, resulting in deviations from the normal evolutionary rate. To examine these possibilities, we performed comparative analyses of mouse and rat genomic sequences using two kinds of data set: one was the MSM BESs presented...
Select this article
RESOURCE: A Whole-Genome Mouse BAC Microarray With 1-Mb Resolution for Analysis of DNA Copy Number Changes by Array Comparative Genomic Hybridization
- Yeun-Jun Chung,
- Jos Jonkers,
- Hannah Kitson,
- Heike Fiegler,
- Sean Humphray,
- Carol Scott,
- Sarah Hunt,
- Yuejin Yu,
- Ichiko Nishijima,
- Arno Velds,
- Henne Holstege,
- Nigel Carter,
- and Allan Bradley
Genome Res. January 2004 14: 188-196; doi:10.1101/gr.1878804
..., Vol. 4: Mapping s (eds. B. Birren et al.), pp. 303 -413. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York. ↵ Zhao, S., Shatsman, S., Ayodeji, B., Geer, K., Tsegaye, G., Krol, M., Gebregeorgis, E., Shvartsbeyn, A., Russell, D., Overton, L., et al. 2001 . Mouse BAC ends quality...
Select this article
RESOURCE: The Oryza bacterial artificial chromosome library resource: Construction and analysis of 12 deep-coverage large-insert BAC libraries that represent the 10 genome types of the genus Oryza
- Jetty S.S. Ammiraju,
- Meizhong Luo,
- José L. Goicoechea,
- Wenming Wang,
- Dave Kudrna,
- Christopher Mueller,
- Jayson Talag,
- HyeRan Kim,
- Nicholas B. Sisneros,
- Barbara Blackmon,
- Eric Fang,
- Jeffery B. Tomkins,
- Darshan Brar,
- David MacKill,
- Susan McCouch,
- Nori Kurata,
- Georgina Lambert,
- David W. Galbraith,
- K. Arumuganathan,
- Kiran Rao,
- Jason G. Walling,
- Navdeep Gill,
- Yeisoo Yu,
- Phillip SanMiguel,
- Carol Soderlund,
- Scott Jackson,
- and Rod A. Wing
Genome Res. January 2006 16: 140-147; Published in Advance December 12, 2005, doi:10.1101/gr.3766306
.... A preliminary analysis of BAC end sequences of clones from these libraries indicated that LTR retrotransposons are the predominant class of repeat elements in Oryza and a roughly linear relationship of these elements with size was observed. A finished, quality, whole sequence for key model animals and plants...
Select this article
Next-Generation DNA Sequencing/Review: Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses
- Melissa J. Fullwood,
- Chia-Lin Wei,
- Edison T. Liu,
- and Yijun Ruan
Genome Res. April 2009 19: 521-532; doi:10.1101/gr.074906.107
...paired-end sequencing of large genomic DNA inserts in fosmid and bacterial artificial chromosome (BAC) clones using conventional sequencing technique has generated highly valuable information regarding human structural variations ( Tuzun et al. 2005 ; Kidd et al. 2008 ), the cost of such efforts...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Zhao et al. 11 (10): 1736.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: