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Analysis of rare, exonic variation amongst subjects with autism spectrum disorders and population controls., Liu, Li, Sabo Aniko, Neale Benjamin M., Nagaswamy Uma, Stevens Christine, Lim Elaine, Bodea Corneliu A., Muzny Donna, Reid Jeffrey G., Banks Eric, et al. , PLoS genetics, 2013 Apr, Volume 9, Issue 4, p.e1003443, (2013) Abstract
SNPdetector: a software tool for sensitive and accurate SNP detection., Zhang, Jinghui, Wheeler David A., Yakub Imtiaz, Wei Sharon, Sood Raman, Rowe William, Liu Paul P., Gibbs Richard A., and Buetow Kenneth H. , PLoS computational biology, 2005 Oct, Volume 1, Issue 5, p.e53, (2005) Abstract
ReadDepth: a parallel R package for detecting copy number alterations from short sequencing reads., Miller, Christopher A., Hampton Oliver, Coarfa Cristian, and Milosavljevic Aleksandar , PloS one, 2011, Volume 6, Issue 1, p.e16327, (2011) Abstract
Pash: efficient genome-scale sequence anchoring by Positional Hashing., Kalafus, Ken J., Jackson Andrew R., and Milosavljevic Aleksandar , Genome research, 2004 Apr, Volume 14, Issue 4, p.672-8, (2004) Abstract
BEAUTY-X: enhanced BLAST searches for DNA queries., Worley, K. C., Culpepper P., Wiese B. A., and Smith R. F. , Bioinformatics (Oxford, England), 1998, Volume 14, Issue 10, p.890-1, (1998) Abstract
Large-scale concatenation cDNA sequencing., Yu, W., Andersson B., Worley K. C., Muzny D. M., Ding Y., Liu W., Ricafrente J. Y., Wentland M. A., Lennon G., and Gibbs R. A. , Genome research, 1997 Apr, Volume 7, Issue 4, p.353-8, (1997) Abstract
Fine mapping and identification of candidate pulmonary adenoma susceptibility 1 genes using advanced intercross lines., Wang, Min, Lemon William J., Liu Gongjie, Wang Yian, Iraqi Fuad A., Malkinson Alvin M., and You Ming , Cancer research, 2003 Jun 15, Volume 63, Issue 12, p.3317-24, (2003) Abstract
Large-scale concatenation cDNA sequencing., Yu, W., Andersson B., Worley K. C., Muzny D. M., Ding Y., Liu W., Ricafrente J. Y., Wentland M. A., Lennon G., and Gibbs R. A. , Genome research, 1997 Apr, Volume 7, Issue 4, p.353-8, (1997) Abstract
Hares and tortoises in the race to sequence the human genome: expectations and realities., Gibbs, R. A. , Trends in genetics : TIG, 1997 Oct, Volume 13, Issue 10, p.381-3, (1997)
An integrative variant analysis suite for whole exome next-generation sequencing data., Challis, Danny, Yu Jin, Evani Uday S., Jackson Andrew R., Paithankar Sameer, Coarfa Cristian, Milosavljevic Aleksandar, Gibbs Richard A., and Yu Fuli , BMC bioinformatics, 2012, Volume 13, p.8, (2012) Abstract
Collaborative Social and Medical Service System., Petermann, C. A., Bobroff R. B., Moore D. M., Gilson H. S., Li Y., Dargahi R., Classen D. W., Fowler J., Moreau D. R., and Beck J. R. , Proceedings / the ... Annual Symposium on Computer Application [sic] in Medical Care. Symposium on Computer Applications in Medical Care, 1994, p.614-8, (1994) Abstract
cneViewer: a database of conserved non-coding elements for studies of tissue-specific gene regulation., Persampieri, Jason, Ritter Deborah I., Lees Daniel, Lehoczky Jessica, Li Qiang, Guo Su, and Chuang Jeffrey H. , Bioinformatics (Oxford, England), 2008 Oct 15, Volume 24, Issue 20, p.2418-9, (2008) Abstract
PhenoDB: a new web-based tool for the collection, storage, and analysis of phenotypic features., Hamosh, Ada, Sobreira Nara, Hoover-Fong Julie, Sutton Reid V., Boehm Corinne, Schiettecatte François, and Valle David , Human mutation, 2013 Apr, Volume 34, Issue 4, p.566-71, (2013) Abstract
The complete genome of an individual by massively parallel DNA sequencing., Wheeler, David A., Srinivasan Maithreyan, Egholm Michael, Shen Yufeng, Chen Lei, McGuire Amy, He Wen, Chen Yi-Ju, Makhijani Vinod, Roth Thomas G., et al. , Nature, 2008 Apr 17, Volume 452, Issue 7189, p.872-6, (2008) Abstract
Internet Contig Explorer (iCE)--a tool for visualizing clone fingerprint maps., Fjell, Christopher D., Bosdet Ian, Schein Jacqueline E., Jones Steven J. M., and Marra Marco A. , Genome research, 2003 Jun, Volume 13, Issue 6A, p.1244-9, (2003) Abstract
The Atlas genome assembly system., Havlak, Paul, Chen Rui, Durbin James K., Egan Amy, Ren Yanru, Song Xing-Zhi, Weinstock George M., and Gibbs Richard A. , Genome research, 2004 Apr, Volume 14, Issue 4, p.721-32, (2004) Abstract
European admixture on the Micronesian island of Kosrae: lessons from complete genetic information., Bonnen, Penelope E., Lowe Jennifer K., Altshuler David M., Breslow Jan L., Stoffel Markus, Friedman Jeffrey M., and Pe'er Itsik , European journal of human genetics : EJHG, 2010 Mar, Volume 18, Issue 3, p.309-16, (2010) Abstract
A SNP discovery method to assess variant allele probability from next-generation resequencing data., Shen, Yufeng, Wan Zhengzheng, Coarfa Cristian, Drabek Rafal, Chen Lei, Ostrowski Elizabeth A., Liu Yue, Weinstock George M., Wheeler David A., Gibbs Richard A., et al. , Genome research, 2010 Feb, Volume 20, Issue 2, p.273-80, (2010) Abstract
Identification of new members of a carbohydrate kinase-encoding gene family., Worley, K. C., King K. Y., Chua S., McCabe E. R., and Smith R. F. , Journal of computational biology : a journal of computational molecular cell biology, 1995 Fall, Volume 2, Issue 3, p.451-8, (1995) Abstract
dbNSFP: a lightweight database of human nonsynonymous SNPs and their functional predictions., Liu, Xiaoming, Jian Xueqiu, and Boerwinkle Eric , Human mutation, 2011 Aug, Volume 32, Issue 8, p.894-9, (2011) Abstract
nWayComp: a genome-wide sequence comparison tool for multiple strains/species of phylogenetically related microorganisms., Yao, Jiqiang, Lin Hong, Doddapaneni Harshavardhan, and Civerolo Edwin L. , In silico biology, 2007, Volume 7, Issue 2, p.195-200, (2007) Abstract
PipMaker--a web server for aligning two genomic DNA sequences., Schwartz, S., Zhang Z., Frazer K. A., Smit A., Riemer C., Bouck J., Gibbs R., Hardison R., and Miller W. , Genome research, 2000 Apr, Volume 10, Issue 4, p.577-86, (2000) Abstract
Software for automated analysis of DNA fingerprinting gels., Fuhrmann, Daniel R., Krzywinski Martin I., Chiu Readman, Saeedi Parvaneh, Schein Jacqueline E., Bosdet Ian E., Chinwalla Asif, Hillier Ladeana W., Waterston Robert H., McPherson John D., et al. , Genome research, 2003 May, Volume 13, Issue 5, p.940-53, (2003) Abstract
Identification of rat genes by TWINSCAN gene prediction, RT-PCR, and direct sequencing., Wu, Jiaqian, Shteynberg David, Arumugam Manimozhiyan, Gibbs Richard A., and Brent Michael R. , Genome research, 2004 Apr, Volume 14, Issue 4, p.665-71, (2004) Abstract
PBHoney: identifying genomic variants via long-read discordance and interrupted mapping., English, Adam C., Salerno William J., and Reid Jeffrey G. , BMC bioinformatics, 2014, Volume 15, p.180, (2014) Abstract

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