APRegier's short-read [21 articles] Export

Recent papers added to APRegier's library classified by the tag short-read. You can also see everyone's short-read.

	A Fast Hybrid Short Read Fragment Assembly Algorithm [My Copy] Bioinformatics In Bioinformatics, Vol. 25, No. 17. (17 June 2009), pp. btp374-2280. by Bertil Schmidt, Ranjan Sinha, Bryan Beresford-Smith, Simon J. Puglisi posted to short-read assembly by APRegier on 2009-09-02 16:46:27 as along with 17 people and 2 groups darian torfinnnome hzoltan cthachuk orzenil GustavoLacerda dakelley katholt GeeSharpMinor dayjm djkt dswan pachorip natstreet druvus n00c jmeppley Bioinformatics Journal picks
	Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding [My Copy] Genome Research, Vol. 19, No. 9. (22 September 2009), pp. 1527-1541. by Kevin J. McKernan, Heather E. Peckham, Gina L. Costa, et al.Stephen F. McLaughlin, Yutao Fu, Eric F. Tsung, Christopher R. Clouser, Cisyla Duncan, Jeffrey K. Ichikawa, Clarence C. Lee, Zheng Zhang, Swati S. Ranade, Eileen T. Dimalanta, Fiona C. Hyland, Tanya D. Sokolsky, Lei Zhang, Andrew Sheridan, Haoning Fu, Cynthia L. Hendrickson, Bin Li, Lev Kotler, Jeremy R. Stuart, Joel A. Malek, Jonathan M. Manning, Alena A. Antipova, Damon S. Perez, Michael P. Moore, Kathleen C. Hayashibara, Michael R. Lyons, Robert E. Beaudoin, Brittany E. Coleman, Michael W. Laptewicz, Adam E. Sannicandro, Michael D. Rhodes, Rajesh K. Gottimukkala, Shan Yang, Vineet Bafna, Ali Bashir, Andrew MacBride, Can Alkan, Jeffrey M. Kidd, Evan E. Eichler, Martin G. Reese, Francisco M. De La Vega, Alan P. Blanchard posted to structural solid short-read resequencing human by APRegier on 2009-09-02 16:44:15 as along with 17 people hzoltan gbenson adijr chrisamiller heliopais daforerog druvus djkt psique sameersoi fenghezi jmanning2k xingxu pkonings n00c jandot natstreet
	Parametric Complexity of Sequence Assembly: Theory and Applications to Next Generation Sequencing [My Copy] J Comput Biol., Vol. 16, No. 7. (July 2009), pp. 897-908. by N. Nagarajan, M. Pop posted to short-read repeats assembly by APRegier on 2009-08-20 16:25:51 as
	ALLPATHS: De novo assembly of whole-genome shotgun microreads [My Copy] Genome Research, Vol. 18, No. 5. (13 May 2008), pp. 810-820. by Jonathan Butler, Iain MacCallum, Michael Kleber, et al.Ilya A. Shlyakhter, Matthew K. Belmonte, Eric S. Lander, Chad Nusbaum, David B. Jaffe posted to short-read illumina assembly by APRegier on 2009-08-20 15:43:42 as along with 23 people and 1 group ajsferreira n00c carlk jmanning2k pachorip jonilaserson operon thegoose2 natstreet AaronDarling mhz dakelley druvus stajich azazello hpaces tharris jwhitney iris42 Neeperando sharpton GustavoLacerda GeeSharpMinor Mycology
	High-throughput genotyping by whole-genome resequencing. [My Copy] Genome research, Vol. 19, No. 6. (6 June 2009), pp. 1068-1076. by Xuehui Huang, Qi Feng, Qian Qian, et al.Qiang Zhao, Lu Wang, Ahong Wang, Jianping Guan, Danlin Fan, Qijun Weng, Tao Huang, Guojun Dong, Tao Sang, Bin Han posted to pf454-paper plants resequencing short-read snps by APRegier on 2009-08-10 16:27:17 as along with 9 people jandot n00c reyez sandfire djkt natstreet jbhiatt GeeSharpMinor langmead
	Velvet: Algorithms for de novo short read assembly using de Bruijn graphs [My Copy] Genome Research In Genome Research, Vol. 18, No. 5. (18 May 2008), pp. 821-829. by Daniel R. Zerbino, Ewan Birney posted to assembly illumina short-read by APRegier on 2009-08-07 22:03:46 as along with 43 people and 3 groups humburg ajsferreira vplagnol bedo jwhitney cthachuk hzoltan azazello ajbattle jmanning2k n00c carlk pachorip jbhiatt jonilaserson operon jahwa jsatkosk sandfire thegoose2 katholt robsyme djkt hpaces AaronDarling mhz idoerg jmcq dswan dakelley jasontsai acn druvus natstreet nmohelli stajich farhat iris42 tharris Neeperando sharpton GustavoLacerda gdb Bioinformatics DeNovoAssembly-SIMR Mycology
	A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 30. (25 July 2006), pp. 11240-11245. by Susanne M. D. Goldberg, Justin Johnson, Dana Busam, et al.Tamara Feldblyum, Steve Ferriera, Robert Friedman, Aaron Halpern, Hoda Khouri, Saul A. Kravitz, Federico M. Lauro, Kelvin Li, Yu-Hui Rogers, Robert Strausberg, Granger Sutton, Luke Tallon, Torsten Thomas, Eli Venter, Marvin Frazier, J. Craig Venter posted to 454 assembly pf454-paper short-read by APRegier on 2009-08-07 21:32:53 as along with 8 people and 5 groups justinhjohnson bjorns balicea dchughes azazello beatrizfernandez GustavoLacerda xingxu DeNovoAssembly-SIMR G4ID Microbial-Ecology Genetics-of-Gambling MBLAB
	Genome assembly reborn: recent computational challenges [My Copy] Brief Bioinform, Vol. 10, No. 4. (1 July 2009), pp. 354-366. by Mihai Pop posted to assembly pf454-paper short-read by APRegier on 2009-08-07 20:37:40 as along with 30 people and 1 group jfr hzoltan cthachuk GustavoLacerda n00c agbiotec shabhonam pachorip jmcq stevebs jonilaserson michaelbarton inesdesantiago GeeSharpMinor bertelsen aprasad ananta_samudra sandfire jmeppley mlangill fgibson ppgardne TRHvidsten pengchy robsyme nuin kiekyon natstreet druvus idoerg Journal picks
	Bioinformatics challenges of new sequencing technology [My Copy] Trends in Genetics, Vol. 24, No. 3. (11 February 2008), pp. 142-149. by M. Pop, S. Salzberg posted to assembly pf454-paper review short-read by APRegier on 2009-08-07 20:35:24 as along with 36 people Jporci cthachuk hzoltan hpaces heliopais imaginatio operon daforerog n00c ptrobajo orzenil katholt michaelbarton kiekyon thegoose2 xingxu floatingpoint polivares yupu treangen jmcq delenickphd giovenko jmeppley dchughes djkt GustavoLacerda niallhaslam urgi Neeperando jfr tharris mariakmejia caseybrown yoonk druvus
	Whole-Genome Sequencing and Assembly with High-Throughput, Short-Read Technologies [My Copy] PLoS ONE In PLoS ONE, Vol. 2, No. 5. (2007), e484. by Andreas Sundquist, Mostafa Ronaghi, Haixu Tang, Pavel Pevzner, Serafim Batzoglou posted to assembly short-read shrap by APRegier on 2009-08-07 20:31:25 as along with 12 people and 1 group n00c jessopher natstreet druvus idoerg dakelley GustavoLacerda orzenil guhjy azazello nedwards iris42 gatech-compgenomics
	Sequencing of natural strains of Arabidopsis thaliana with short reads. [My Copy] Genome research, Vol. 18, No. 12. (29 December 2008), pp. 2024-2033. by Stephan Ossowski, Korbinian Schneeberger, Richard M. Clark, Christa Lanz, Norman Warthmann, Detlef Weigel posted to illumina resequencing short-read by APRegier on 2009-08-07 20:29:36 as along with 11 people and 2 groups seninp n00c sameersoi dandaman jasontsai stajich xwbcn natstreet druvus GustavoLacerda semrich Mycology Notre Dame Bioinformatics
	Mapping short DNA sequencing reads and calling variants using mapping quality scores. [My Copy] Genome research, Vol. 18, No. 11. (19 November 2008), pp. 1851-1858. by Heng Li, Jue Ruan, Richard Durbin posted to maq resequencing short-read by APRegier on 2009-08-07 20:27:48 as along with 38 people and 2 groups seninp heliopais hzoltan cthachuk darshan adijr darian bozdagd jmanning2k stubrown ghattem jbhiatt mmartin michaelbarton polivares jonilaserson humburg n00c jessopher maren GeeSharpMinor vmsr vplagnol natstreet poschm jfr druvus dandaman xingxu rschulz jmcq inesdesantiago Neeperando nmohelli matthewsuderman bpb gdb farhat SIMR bioinformatics BergmanLab
	SSAHA: a fast search method for large DNA databases. [My Copy] Genome research, Vol. 11, No. 10. (1 October 2001), pp. 1725-1729. by Z. Ning, A. J. Cox, J. C. Mullikin posted to alignment pf454-paper short-read by APRegier on 2009-07-22 20:26:02 as along with 17 people torfinnnome stharward adthrasher mattwa jmanning2k n00c jmcq natstreet druvus treangen umit mmartin timflutre bpb j3xucite lp2 dmc
	Whole-genome sequencing and variant discovery in C. elegans. [My Copy] Nature methods, Vol. 5, No. 2. (20 February 2008), pp. 183-188. by LaDeana W. Hillier, Gabor T. Marth, Aaron R. Quinlan, et al.David Dooling, Ginger Fewell, Derek Barnett, Paul Fox, Jarret I. Glasscock, Matthew Hickenbotham, Weichun Huang, Vincent J. Magrini, Ryan J. Richt, Sacha N. Sander, Donald A. Stewart, Michael Stromberg, Eric F. Tsung, Todd Wylie, Tim Schedl, Richard K. Wilson, Elaine R. Mardis posted to alignment pf454-paper short-read snps by APRegier on 2009-06-03 20:53:19 as along with 14 people seninp Annab n00c thegoose2 druvus semrich AaronDarling usagi-kirin matthewsuderman inesdesantiago orzenil mdimon farhat tharris
	A consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads [My Copy] Bioinformatics, Vol. 25, No. 9. (1 May 2009), pp. 1118-1124. by Tobias Rausch, Sergey Koren, Gennady Denisov, et al.David Weese, Anne-Katrin Emde, Andreas Doring, Knut Reinert posted to assembly short-read snps by APRegier on 2009-04-23 18:49:46 as along with 20 people and 2 groups humburg jfr azazello hzoltan cthachuk GustavoLacerda jasontsai n00c nuin dakelley skembel Thaverkamp reyez TRHvidsten djkt hpaces pengchy natstreet druvus darian iSEEM Bioinformatics
	Mapping translocation breakpoints by next-generation sequencing -- Chen et al. 18 (7): 1143 -- Genome Res. [My Copy] posted to short-read structural variation by APRegier on 2008-10-31 14:44:50 as
	Rapid whole-genome mutational profiling using next-generation sequencing technologies -- Smith et al. 18 (10): 1638 -- Genome Res. [My Copy] posted to polymorphism short-read by APRegier on 2008-10-31 14:32:00 as
	ZOOM! Zillions of oligos mapped [My Copy] Bioinformatics, Vol. 24, No. 21. (1 November 2008), pp. 2431-2437. by Hao Lin, Zefeng Zhang, Michael Q. Zhang, Bin Ma, Ming Li posted to alignment short-read by APRegier on 2008-10-31 14:30:12 as along with 20 people hzoltan gbenson bozdagd adijr gdb n00c GeeSharpMinor inesdesantiago GustavoLacerda cthachuk guhjy abizar natstreet druvus caseybrown djkt wisdom_love umit Neeperando Stew
	Sequencing of natural strains of Arabidopsis thaliana with short reads -- Ossowski et al. 0 (2008): gr.080200.108v1 -- Genome Res. [My Copy] posted to assembly short-read by APRegier on 2008-10-29 20:20:12 as along with 1 person GustavoLacerda
	Mapping translocation breakpoints by next-generation sequencing [My Copy] Genome Research, Vol. 18, No. 7. (7 July 2008), pp. 1143-1149. by Wei Chen, Vera Kalscheu, Andreas Tzschach, et al.Corinna Menzel, Reinhard Ullmann, Marcel Schulz, Fikret Erdogan, Na Li, Zofia Kijas, Ger Arkesteijn, Isidora, Margret Goetz-Sothmann, Uwe Heinrich, Imma Rost, Andreas Dufke, Ute Grasshoff, Birgitta, Martin Vingron, Hans posted to breakpoints short-read structural by APRegier on 2008-07-01 19:18:19 as along with 8 people n00c darian stubrown sameersoi nuin usagi-kirin caseybrown Neeperando
	EagleView: A genome assembly viewer for next-generation sequencing technologies [My Copy] Genome Research, Vol. 18, No. 9. (11 September 2008), pp. 1538-1543. by Weichun Huang, Gabor Marth posted to sequencing short-read visualization by APRegier on 2008-06-19 15:33:40 as along with 15 people Thaverkamp imaginatio hpaces darian n00c xingxu natstreet abizar druvus balicea bcondon fpattyn Neeperando GustavoLacerda guhjy

Note: You may cite this page as: http://www.citeulike.org/user/APRegier/tag/short-read

inversion-paper	35
structural	25
short-read	21
pf454-paper	18
human	16
assembly	16
inversions	15
anopheles	14
alignment	12
comparative	8
drosophila	8
polymorphism	8
plasmodium	7
variation	7
resequencing	7
population	6
evolution	6
snps	6
gene-family	5
copy-number	5
selection	5
genetics	4
network	4
speciation	4
2la	4
inference	4
multiple	4
recombination	3
454	3
quality	3
networks	3
hapmap	3
regulatory	3
tool	3
gaps	3
illumina	3
duplications	3
conserved	2
statistics	2
synteny	2
inversion	2
repeats	2
keepin-it-real	2
assembly-quality	2
structure	2
cancer	2
haplotype	2
plants	1
maq	1
transposons	1
lagan	1
review	1
scaffolding	1
multimodal	1
phylogenetics	1
visualization	1
identifiers	1
service	1
chromosomal	1
shotgun	1
coverage	1
expression	1
sequencing	1
mechanism	1
solid	1
mcmc	1
number	1
cgh	1
machine-learning	1
breakpoints	1
proteins	1
shrap	1
java	1
draft	1
copy	1
transcription	1
eqtl	1
mammals	1
celera	1
birds	1
short-reads	1
microarrays	1
web	1
disease	1

APRegier's short-read [21 articles] Export

APRegier's tags