Group: BergmanLab - with tag hts [14 articles] Export

Recent papers posted by members of the BergmanLab group with tag hts

	Fast mapping of short sequences with mismatches, insertions and deletions using index structures. [My Copy] PLoS computational biology, Vol. 5, No. 9. (11 September 2009), e1000502. by Steve Hoffmann, Christian Otto, Stefan Kurtz, et al.Cynthia M. Sharma, Philipp Khaitovich, Jörg Vogel, Peter F. Stadler, Jörg Hackermüller posted to hts by polivares to the group BergmanLab on 2009-09-13 13:50:16 as along with 19 people and 3 groups cthachuk hzoltan darian nuin fenghezi behindtherabbit jandot walshtp torfinnnome stubrown dswan orzenil natstreet djkt jmcq n00c heliopais ppgardne druvus Bioinformatics iSEEM Journal picks
	ChIP\|[ndash]\|seq: advantages and challenges of a maturing technology [My Copy] Nature Reviews Genetics, Vol. 10, No. 10. (08 September 2009), pp. 669-680. by Peter J. Park posted to hts chip-seq by polivares to the group BergmanLab on 2009-09-10 13:13:26 as along with 24 people and 5 groups akakak hzoltan dchughes RyuOgawa heliopais giovenko inesdesantiago pradiptaray dakelley clearbluespring akundaje rdiaz kimorley leliavski humburg reyez qayub fenghezi tonamswish robertrentzsch idonaldson rschulz cvaldes danmaclean Journal picks Orengo Group Journal Picks JLab CTCF Chromatin
	SOAP2: an improved ultrafast tool for short read alignment [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1966-1967. by Ruiqiang Li, Chang Yu, Yingrui Li, et al.Tak-Wah Lam, Siu-Ming Yiu, Karsten Kristiansen, Jun Wang posted to hts by polivares to the group BergmanLab on 2009-08-17 16:27:16 as along with 26 people and 5 groups hzoltan agbiotec torfinnnome natstreet cthachuk jforment GustavoLacerda adijr bozdagd stubrown guhjy ollieredfernwork operon cassj adamjamesreid Stew jamselem dswan idonaldson TRHvidsten humburg djkt farhat n00c jmeppley druvus Bioinformatics Core Service Orengo Group Journal Picks Bioinformatics - CRUK Bioinformatics Journal picks
	Ultrafast and memory-efficient alignment of short DNA sequences to the human genome [My Copy] Genome Biology, Vol. 10, No. 3. (2009), R25. by Ben Langmead, Cole Trapnell, Mihai Pop, Steven Salzberg posted to hts by polivares to the group BergmanLab on 2009-08-17 16:16:06 as along with 36 people and 3 groups jfr hzoltan cthachuk darshan fstrozzi adijr debasis bozdagd torfinnnome n00c talponer jmcq rschulz ghattem operon humburg idonaldson mmartin skembel dquest heliopais djkt GeeSharpMinor bertelsen darian semrich dakelley idoerg vmsr hpaces admash pdexheimer mhamada fpattyn natstreet druvus SIMR bioinformatics iSEEM Notre Dame Bioinformatics
	TopHat: discovering splice junctions with RNA-Seq. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 9. (1 May 2009), pp. 1105-1111. by Cole Trapnell, Lior Pachter, Steven L. Salzberg posted to hts by polivares to the group BergmanLab on 2009-08-17 16:15:47 as along with 25 people and 1 group juokcho cthachuk hzoltan jwfoley heliopais dakelley druvus GustavoLacerda stubrown torfinnnome jmcq mtagaya jonilaserson gdb guhjy ThomasDOtto n00c ghattem xingxu djkt vplagnol bertelsen natstreet idoerg vmsr SIMR bioinformatics
	The Sequence Alignment/Map format and SAMtools [My Copy] Bioinformatics, Vol. 25, No. 16. (15 August 2009), pp. 2078-2079. by Heng Li, Bob Handsaker, Alec Wysoker, et al.Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin, 1000 Genome Project Data Processing Subgroup posted to add alignment hts by polivares to the group BergmanLab on 2009-08-10 15:58:00 as along with 27 people and 1 group cthachuk hzoltan seb1 heliopais urgi idonaldson GustavoLacerda stubrown cassj kshameer ciax carlosjavierna jandot katholt jmcq guhjy orzenil jasontsai operon farhat AlexBateman chrisamiller nuin n00c natstreet sandfire druvus Journal picks
	Comparison of next generation sequencing technologies for transcriptome characterization. [My Copy] BMC genomics, Vol. 10, No. 1. (1 August 2009), 347. by P. Kerr Wall, Jim Leebens-Mack, André S. Chanderbali, et al.Abdelali Barakat, Erik Wolcott, Haiying Liang, Lena Landherr, Lynn P. Tomsho, Yi Hu, John E. Carlson, Hong Ma, Stephan C. Schuster, Douglas E. Soltis, Pamela S. Soltis, Naomi Altman, Claude W. dePamphilis posted to hts by polivares to the group BergmanLab on 2009-08-05 09:07:41 as along with 19 people and 3 groups hzoltan daveGerrard daforerog feeldead n00c debasis jgill mqbphcw3 sotacam GustavoLacerda adamjamesreid dswan mlog gwallau ewilban1 ThomasDOtto jasontsai natstreet druvus Journal picks Bioinformatics LabDros
	High-throughput sequence alignment using Graphics Processing Units [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007), 474. by Michael Schatz, Cole Trapnell, Arthur Delcher, Amitabh Varshney posted to cuda hts by polivares to the group BergmanLab on 2009-07-22 16:57:19 as along with 20 people and 2 groups cthachuk aheilbut druvus naoya n00c natstreet rschulz operon orzenil Yanno guhjy sephy lusk laughcry nedwards mdimon cndewey heliopais urgi tpreeprem KCL & UCL Bioinformatics gatech-compgenomics
	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 assembly hts maq quakeatl by polivares to the group BergmanLab on 2009-07-15 09:52:51 as along with 38 people and 1 group seninp heliopais hzoltan cthachuk darshan adijr darian bozdagd jmanning2k stubrown APRegier ghattem jbhiatt mmartin michaelbarton 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
	Fast and accurate short read alignment with Burrows-Wheeler transform. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 14. (15 July 2009), pp. 1754-1760. by Heng Li, Richard Durbin posted to bioinformatics hts quakeatl r by polivares to the group BergmanLab on 2009-07-15 09:09:58 as along with 33 people and 3 groups lianping hzoltan cthachuk maren bozdagd adijr heliopais jmanning2k GustavoLacerda stubrown jessopher guhjy katholt mkiyer jmcq idonaldson michaelbarton darian orzenil cassj inesdesantiago TRHvidsten djkt operon ghattem n00c danmaclean ppgardne nuin rschulz natstreet druvus humburg SIMR bioinformatics Bioinformatics Journal picks
	Managing and Analyzing Next-Generation Sequence Data [My Copy] PLoS Comput Biol, Vol. 5, No. 6. (26 June 2009), e1000369. by Brent G. Richter, David P. Sexton posted to hts r by polivares to the group BergmanLab on 2009-07-14 11:04:42 as along with 42 people and 2 groups idoerg Geknitics cthachuk hzoltan chvlyl sameersoi hpaces gdv GeeSharpMinor idonaldson darian daveGerrard tharris Yanno inesdesantiago jcaddy agbiotec humburg Zephyrus daforerog stubrown GustavoLacerda torfinnnome natstreet orzenil kongl guhjy druvus n00c leemond31 nuin operon jasontsai jmeppley rdiaz michaelbarton dswan reyez kshameer TRHvidsten djkt ppgardne Bioinformatics Journal picks
	Swift: primary data analysis for the Illumina Solexa sequencing platform [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2194-2199. by Nava Whiteford, Tom Skelly, Christina Curtis, et al.Matt E. Ritchie, Andrea Lohr, Alexander W. Zaranek, Irina Abnizova, Clive Brown posted to hts by polivares to the group BergmanLab on 2009-07-11 15:31:20 as along with 21 people and 3 groups heliopais hzoltan dakelley sotacam lh49 djkt rtogawa cassj dswan torfinnnome rschulz natstreet druvus jasontsai jmeppley ghattem nuin n00c aprasad niallhaslam idoerg Bioinformatics SIMR bioinformatics Journal picks
	ABySS: a parallel assembler for short read sequence data. [My Copy] Genome research, Vol. 19, No. 6. (1 June 2009), pp. 1117-1123. by Jared T. Simpson, Kim Wong, Shaun D. Jackman, Jacqueline E. Schein, Steven J. Jones, Inanç Birol posted to assembly hts by polivares to the group BergmanLab on 2009-06-24 11:00:59 as along with 26 people and 1 group jfr cthachuk hzoltan ramonvidal orzenil pachorip GustavoLacerda jonilaserson operon reyez jasontsai n00c humburg dakelley jessopher idonaldson robsyme neils natstreet AaronDarling druvus rpatward dswan stajich jbhiatt erikarner Mycology
	Visualization of genomic data with the Hilbert curve [My Copy] Bioinformatics, Vol. 25, No. 10. (15 May 2009), pp. 1231-1235. by Simon Anders posted to hts solexa by polivares to the group BergmanLab on 2009-06-16 16:42:59 as along with 14 people jfr jandot ewilban1 inesdesantiago djkt behindtherabbit guhjy humburg Thaverkamp svenrahmann jmeppley idonaldson rdiaz paszkows

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pooling	21
review	21
statistics	15
drug	14
screening	13
docking	11
rnai	11
method	10
hcs	7
pharmacology	7
chip-seq	6
kinase	6
assembly	5
bioinformatics	5
cell-microarray	5
alignment	4
cell-based	4
ms	4
bayes	3
cancer	3
dataanalysis	3
diagnostics	3
genomics	3
molecularbiology	3
nmr	3
pcr	3
phenotype	3
solexa	3
yeast	3
2006	2
2009	2
abpp	2
assay	2
aug09	2
bont	2
book	2
chagas	2
cheminformatics	2
computational	2
cruzi	2
cuda	2
datamining	2
drug_discovery	2
drugdiscovery	2
druggability	2
emsa	2
fragment	2
glide	2
herb	2
hts_analysis	2
imaging	2
indels	2
jcamd	2
label-free	2
library	2
maq	2
mnase-seq	2
nature	2
nfkb	2
protein	2
proteomics	2
protocols	2
quakeatl	2
r	2
sequence	2
sequencing	2
snps	2
structural_model	2
structure	2
svs	2
synergism	2
synergy	2
transfection	2
transgenic	2
virtual	2
beta-galactosidase	1
biology	1
botulinum	1
capture	1
chemical_space	1
chemogenomics	1
comparison	1
data	1
enumeration	1
ftir_imaging	1
generation_costs	1
genome	1
gsk	1
history	1
machine_learning	1
morphometry	1
mtorc1	1
notebook	1
quapo	1
reference	1
rescue	1
ressource	1
space	1
zebrafish	1

Group: BergmanLab - with tag hts [14 articles] Export

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