seb1's alignment [47 articles] Export Sort

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	Reproducing the manual annotation of multiple sequence alignments using a SVM classifier [My Copy] Bioinformatics, Vol. 25, No. 23. (1 December 2009), pp. 3093-3098. by Christian Blouin, Scott Perry, Allan Lavell, Edward Susko, Andrew J. Roger posted to svm alignment by seb1 on 2009-11-18 20:04:07 as along with 1 person druvus
	Fast Statistical Alignment [My Copy] PLoS Comput Biol, Vol. 5, No. 5. (29 May 2009), e1000392. by Robert K. Bradley, Adam Roberts, Michael Smoot, et al.Sudeep Juvekar, Jaeyoung Do, Colin Dewey, Ian Holmes, Lior Pachter posted to pachter good-stuff fsa berkeley alignment by seb1 on 2009-11-07 22:26:02 as along with 18 people and 1 group rdowell timflutre natstreet n00c yylin aprasad Gorzomagnificent guhjy dakelley reyez rec3141 farhat operon bmduggan nuin AlexBateman djkt druvus Journal picks
	Computation of Rank and Select Functions on Hierarchical Binary String and Its Application to Genome Mapping Problems for Short-Read DNA Sequences [My Copy] Journal of Computational Biology (22 September 2009), 090922085727012. by Kouichi Kimura, Yutaka Suzuki, Sumio Sugano, Asako Koike posted to solexa short_read jcb illumina alignment by seb1 on 2009-10-23 19:25:10 as along with 3 people justinhjohnson n00c druvus
	An Eulerian path approach to local multiple alignment for DNA sequences. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 5. (Feb 2005), pp. 1285-1290. by Yu Zhang, Michael S. Waterman posted to sequences sequence repetitive nucleic molecular models homology genetic file-import-09-10-21 dna data base alignment acid by seb1 on 2009-10-21 17:13:50 as
	MicroRNA prediction with a novel ranking algorithm based on random walks. [My Copy] Bioinformatics, Vol. 24, No. 13. (Jul 2008), pp. i50-i58. by Yunpen Xu, Xuefeng Zhou, Weixiong Zhang posted to statistical simulation sequence rna molecular models micrornas mapping interpretation genetic file-import-09-10-21 data computer chromosome base analysis alignment algorithms by seb1 on 2009-10-21 17:13:34 as
	Minimus: a fast, lightweight genome assembler. [My Copy] BMC Bioinformatics, Vol. 8 (2007) by Daniel D. Sommer, Arthur L. Delcher, Steven L. Salzberg, Mihai Pop posted to user-computer software sequence molecular mapping interface file-import-09-10-21 dna design data chromosome base analysis alignment algorithms by seb1 on 2009-10-21 17:13:09 as
	On distance and similarity in fold space. [My Copy] Bioinformatics, Vol. 24, No. 6. (Mar 2008), pp. 872-873. by Manfred J. Sippl posted to user-computer storage software simulation sequence retrieval proteins protein molecular models interface information folding file-import-09-10-21 databases data computer chemical and analysis amino alignment algorithms acid by seb1 on 2009-10-21 17:13:09 as
	Human-mouse alignments with BLASTZ. [My Copy] Genome Res, Vol. 13, No. 1. (Jan 2003), pp. 103-107. by Scott Schwartz, W. James Kent, Arian Smit, et al.Zheng Zhang, Robert Baertsch, Ross C. Hardison, David Haussler, Webb Miller posted to validation systems software sequence mice management humans human genome file-import-09-10-21 design database animals alignment by seb1 on 2009-10-21 17:12:56 as
	Structural descriptors of gp120 V3 loop for the prediction of HIV-1 coreceptor usage. [My Copy] PLoS Comput Biol, Vol. 3, No. 3. (Mar 2007) by Oliver Sander, Tobias Sing, Ingolf Sommer, et al.Andrew J. Low, Peter K. Cheung, P. Richard Harrigan, Thomas Lengauer, Francisco S. Domingues posted to virus structure-activity sequence relationship receptors protein molecular internalization hiv-1 file-import-09-10-21 data cxcr4 ccr5 attachment analysis amino alignment acid by seb1 on 2009-10-21 17:12:40 as
	Interpolated Markov models for eukaryotic gene finding. [My Copy] Genomics, Vol. 59, No. 1. (Jul 1999), pp. 24-31. by S. L. Salzberg, M. Pertea, A. L. Delcher, M. J. Gardner, H. Tettelin posted to transcriptase splicing sequence reverse results reproducibility reaction protozoan polymerase plasmodium of markov internet genome genes gene file-import-09-10-21 falciparum factual expression databases chromosomes chains chain animals alternative alignment algorithms by seb1 on 2009-10-21 17:12:40 as
	Microbial gene identification using interpolated Markov models. [My Copy] Nucleic Acids Res, Vol. 26, No. 2. (Jan 1998), pp. 544-548. by S. L. Salzberg, A. L. Delcher, S. Kasif, O. White posted to specificity software sequence sensitivity reading pylori open markov influenzae helicobacter haemophilus frames file-import-09-10-21 dna chains base bacterial and alignment algorithms by seb1 on 2009-10-21 17:12:40 as
	Improved success of phenotype prediction of the human immunodeficiency virus type 1 from envelope variable loop 3 sequence using neural networks. [My Copy] Virology, Vol. 288, No. 1. (Sep 2001), pp. 51-62. by W. Resch, N. Hoffman, R. Swanstrom posted to sequence results reproducibility products phenotype of neural networks molecular line humans homology hiv-1 gene file-import-09-10-21 env entropy data consensus computer cell amino alignment algorithms acid by seb1 on 2009-10-21 17:12:26 as
	Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks. [My Copy] BMC Bioinformatics, Vol. 7 (2006) by David J. Reiss, Nitin S. Baliga, Richard Bonneau posted to specificity species sequence saccharomyces regulation regions recognition pylori promoter pattern oligonucleotide molecular helicobacter halobacterium genomics genome genetics gene file-import-09-10-21 expression escherichia data computational coli cluster cerevisiae biology base automated array analysis alignment algorithms by seb1 on 2009-10-21 17:12:26 as
	Classification of arrayCGH data using fused SVM. [My Copy] Bioinformatics, Vol. 24, No. 13. (Jul 2008), pp. i375-i382. by Franck Rapaport, Emmanuel Barillot, Jean P. Vert posted to sequence recognition pattern oligonucleotide mapping intelligence gene file-import-09-10-21 dosage dna chromosome automated artificial array analysis alignment algorithms by seb1 on 2009-10-21 17:12:26 as
	An efficient method to identify differentially expressed genes in microarray experiments. [My Copy] Bioinformatics, Vol. 24, No. 14. (Jul 2008), pp. 1583-1589. by Huaizhen Qin, Tao Feng, Scott A. Harding, Chung J. Tsai, Shuanglin Zhang posted to theoretical software sequence regulation recognition programming profiling principal plant pattern oligonucleotide neoplastic neoplasms models languages humans genes gene file-import-09-10-21 expression computational component cluster biology automated array analysis alignment algorithms by seb1 on 2009-10-21 17:12:26 as
	An Eulerian path approach to DNA fragment assembly. [My Copy] Proc Natl Acad Sci U S A, Vol. 98, No. 17. (Aug 2001), pp. 9748-9753. by P. A. Pevzner, H. Tang, M. S. Waterman posted to theoretical software sequence neisseria models meningitidis mapping lactococcus lactis jejuni genome file-import-09-10-21 dna contig campylobacter bacterial analysis alignment algorithms by seb1 on 2009-10-21 17:12:26 as
	De novo repeat classification and fragment assembly. [My Copy] Genome Res, Vol. 14, No. 9. (Sep 2004), pp. 1786-1796. by Pavel A. Pevzner, Paul A. Pevzner, Haixu Tang, Glenn Tesler posted to sequences sequence repetitive nucleic multigene mapping linkage humans human genome genetics file-import-09-10-21 family contig computational cluster chromosomes biology bacterial artificial analysis alignment algorithms acid by seb1 on 2009-10-21 17:12:26 as
	SSAHA: a fast search method for large DNA databases. [My Copy] Genome Res, Vol. 11, No. 10. (Oct 2001), pp. 1725-1729. by Z. Ning, A. J. Cox, J. C. Mullikin posted to systems specificity software sequence sensitivity management file-import-09-10-21 factual dna databases database composition base and alignment algorithms by seb1 on 2009-10-21 17:12:25 as
	Scaffolding and validation of bacterial genome assemblies using optical restriction maps. [My Copy] Bioinformatics, Vol. 24, No. 10. (May 2008), pp. 1229-1235. by Niranjan Nagarajan, Timothy D. Read, Mihai Pop posted to sequence restriction optics molecular mapping genome file-import-09-10-21 dna data chromosome base bacterial analysis alignment algorithms by seb1 on 2009-10-21 17:12:25 as
	Oligo kernels for datamining on biological sequences: a case study on prokaryotic translation initiation sites. [My Copy] BMC Bioinformatics, Vol. 5 (Oct 2004) by Peter Meinicke, Maike Tech, Burkhard Morgenstern, Rainer Merkl posted to sequence prokaryotic models k12 intelligence initiator initiation graphics genetic genes file-import-09-10-21 factors escherichia databases computer computational coli codon biology bacterial artificial alignment algorithms by seb1 on 2009-10-21 17:11:55 as
	Bioinformatic prediction programs underestimate the frequency of CXCR4 usage by R5X4 HIV type 1 in brain and other tissues. [My Copy] AIDS Res Hum Retroviruses, Vol. 24, No. 9. (Sep 2008), pp. 1215-1220. by Megan E. Mefford, Paul R. Gorry, Kevin Kunstman, Steven M. Wolinsky, Dana Gabuzda posted to virus spleen sequence receptors protein phylogeny molecular male internalization infections humans hiv-1 hiv gp120 file-import-09-10-21 envelope dna dementia data cxcr4 computational complex brain biology analysis amino alignment algorithms aids acid by seb1 on 2009-10-21 17:11:55 as
	A graph based algorithm for generating EST consensus sequences. [My Copy] Bioinformatics, Vol. 21, No. 8. (Apr 2005), pp. 1371-1375. by Ketil Malde, Eivind Coward, Inge Jonassen posted to user-computer tags sequence numerical mapping interface graphics file-import-09-10-21 expressed dna contig conserved consensus computer-assisted computer analysis alignment algorithms by seb1 on 2009-10-21 17:11:55 as
	Reconstructing contiguous regions of an ancestral genome. [My Copy] Genome Res, Vol. 16, No. 12. (Dec 2006), pp. 1557-1565. by Jian Ma, Louxin Zhang, Bernard B. Suh, et al.Brian J. Raney, Richard C. Burhans, W. James Kent, Mathieu Blanchette, David Haussler, Webb Miller posted to simulation sequence rearrangement rats pairing painting nucleic molecular models mice mapping inversion humans human homology genome genetic gene file-import-09-10-21 evolution dogs deletion computer composition chromosomes chromosome breakage base animals alignment algorithms acid by seb1 on 2009-10-21 17:11:55 as
	A statistical framework for genomic data fusion. [My Copy] Bioinformatics, Vol. 20, No. 16. (Nov 2004), pp. 2626-2635. by Gert R. G. Lanckriet, Tijl De Bie, Nello Cristianini, Michael I. Jordan, William S. Noble posted to systems storage statistical sequence ribosomal retrieval recognition proteins protein profiling pattern models membrane mapping intelligence integration information homology genomics genetic gene fungal file-import-09-10-21 expression databases chromosome automated artificial and analysis amino alignment algorithms acid by seb1 on 2009-10-21 17:11:54 as
	Compressed indexing and local alignment of DNA. [My Copy] Bioinformatics, Vol. 24, No. 6. (Mar 2008), pp. 791-797. by T. W. Lam, W. K. Sung, S. L. Tam, C. K. Wong, S. M. Yiu posted to sequence molecular mapping humans human genome file-import-09-10-21 dna data compression chromosome base analysis alignment algorithms by seb1 on 2009-10-21 17:11:54 as
	Versatile and open software for comparing large genomes. [My Copy] Genome Biol, Vol. 5, No. 2. (2004) by Stefan Kurtz, Adam Phillippy, Arthur L. Delcher, et al.Michael Smoot, Martin Shumway, Corina Antonescu, Steven L. Salzberg posted to software sequence humans human graphics genomics genome fungal file-import-09-10-21 drosophila computer anopheles animals alignment by seb1 on 2009-10-21 17:11:54 as
	MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. [My Copy] Brief Bioinform, Vol. 9, No. 4. (Jul 2008), pp. 299-306. by Sudhir Kumar, Masatoshi Nei, Joel Dudley, Koichiro Tamura posted to variation software sequence proteins mutational molecular mapping genetics file-import-09-10-21 evolution dna data chromosome biology base analysis alignment algorithms by seb1 on 2009-10-21 17:11:54 as
	BLAT--the BLAST-like alignment tool. [My Copy] Genome Res, Vol. 12, No. 4. (Apr 2002), pp. 656-664. by W. James Kent posted to software sequence rna proteins protein mice messenger humans file-import-09-10-21 dna computational biosynthesis biology animals alignment by seb1 on 2009-10-21 17:11:54 as
	CLUSS: clustering of protein sequences based on a new similarity measure. [My Copy] BMC Bioinformatics, Vol. 8 (2007) by Abdellali Kelil, Shengrui Wang, Ryszard Brzezinski, Alain Fleury posted to software sequence proteins multigene molecular homology file-import-09-10-21 family evolution dna data cluster analysis amino alignment algorithms acid by seb1 on 2009-10-21 17:11:54 as
	Extending assembly of short DNA sequences to handle error. [My Copy] Bioinformatics, Vol. 23, No. 21. (Nov 2007), pp. 2942-2944. by William R. Jeck, Josephine A. Reinhardt, David A. Baltrus, et al.Matthew T. Hickenbotham, Vincent Magrini, Elaine R. Mardis, Jeffery L. Dangl, Corbin D. Jones posted to specificity sequence sensitivity results reproducibility of molecular mapping file-import-09-10-21 dna data consensus chromosome base artifacts and analysis alignment algorithms by seb1 on 2009-10-21 17:11:54 as
	How repetitive are genomes? [My Copy] BMC Bioinformatics, Vol. 7 (2006) by Bernhard Haubold, Thomas Wiehe posted to simulation sequences sequence repetitive nucleic models mapping genome genetic file-import-09-10-21 dna computer chromosome animals analysis alignment algorithms acid by seb1 on 2009-10-21 17:11:52 as
	Single-molecule DNA sequencing of a viral genome. [My Copy] Science, Vol. 320, No. 5872. (Apr 2008), pp. 106-109. by Timothy D. Harris, Phillip R. Buzby, Hazen Babcock, et al.Eric Beer, Jayson Bowers, Ido Braslavsky, Marie Causey, Jennifer Colonell, James Dimeo, J. William Efcavitch, Eldar Giladi, Jaime Gill, John Healy, Mirna Jarosz, Dan Lapen, Keith Moulton, Stephen R. Quake, Kathleen Steinmann, Edward Thayer, Anastasia Tyurina, Rebecca Ward, Howard Weiss, Zheng Xie posted to viral templates software sequence primers mutation m13 genome genetic file-import-09-10-21 dna computational biology bacteriophage analysis alignment algorithms by seb1 on 2009-10-21 17:11:52 as
	Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies. [My Copy] Bioinformatics, Vol. 24, No. 13. (Jul 2008), pp. i32-i40. by Iman Hajirasouliha, Fereydoun Hormozdiari, S. Cenk Sahinalp, Inanc Birol posted to sequence molecular mapping file-import-09-10-21 dna data chromosomes chromosome base bacterial artificial analysis alignment algorithms by seb1 on 2009-10-21 17:11:52 as
	CONTRAST: a discriminative, phylogeny-free approach to multiple informant de novo gene prediction. [My Copy] Genome Biol, Vol. 8, No. 12. (2007) by Samuel S. Gross, Chuong B. Do, Marina Sirota, Serafim Batzoglou posted to tags software sequence proteins intelligence humans human genomics genome file-import-09-10-21 expressed exons base artificial animals alignment algorithms by seb1 on 2009-10-21 17:11:52 as
	Automatic registration of microarray images. I. Rectangular grid. [My Copy] Bioinformatics, Vol. 19, No. 14. (Sep 2003), pp. 1824-1831. by Vitaly L. Galinsky posted to specificity simulation sequence sensitivity results reproducibility recognition profiling pattern oligonucleotide of microscopy interpretation image gene fluorescence file-import-09-10-21 expression dna computer-assisted computer automated array and analysis alignment algorithms by seb1 on 2009-10-21 17:11:36 as
	Automatic registration of microarray images. II. Hexagonal grid. [My Copy] Bioinformatics, Vol. 19, No. 14. (Sep 2003), pp. 1832-1836. by Vitaly L. Galinsky posted to specificity simulation sequence sensitivity results reproducibility recognition profiling pattern oligonucleotide of microscopy interpretation image gene fluorescence file-import-09-10-21 expression dna computer-assisted computer automated array and analysis alignment algorithms by seb1 on 2009-10-21 17:11:36 as
	Where did the BLOSUM62 alignment score matrix come from? [My Copy] Nat Biotechnol, Vol. 22, No. 8. (Aug 2004), pp. 1035-1036. by Sean R. Eddy posted to sequence proteins protein homology file-import-09-10-21 analysis amino alignment algorithms acid by seb1 on 2009-10-21 17:11:35 as
	Quantification of rare allelic variants from pooled genomic DNA. [My Copy] Nat Methods, Vol. 6, No. 4. (Apr 2009), pp. 263-265. by Todd E. Druley, Francesco L. M. Vallania, Daniel J. Wegner, et al.Katherine E. Varley, Olivia L. Knowles, Jacqueline A. Bonds, Sarah W. Robison, Scott W. Doniger, Aaron Hamvas, F. Sessions Cole, Justin C. Fay, Robi D. Mitra posted to variation specificity software single sequence sensitivity results reproducibility polymorphism of nucleotide molecular mapping genetic gene frequency file-import-09-10-21 dna data chromosome base and analysis alignment algorithms by seb1 on 2009-10-21 17:11:35 as
	Oligonucleotide microarray identification of Bacillus anthracis strains using support vector machines. [My Copy] Bioinformatics, Vol. 23, No. 4. (Feb 2007), pp. 487-492. by M. Doran, D. S. Raicu, J. D. Furst, R. Settimi, M. Schipma, D. P. Chandler posted to sequence recognition pattern oligonucleotide mapping intelligence fingerprinting file-import-09-10-21 dna chromosome bacterial bacillus automated artificial array anthracis analysis alignment algorithms by seb1 on 2009-10-21 17:11:35 as
	Fast algorithms for large-scale genome alignment and comparison. [My Copy] Nucleic Acids Res, Vol. 30, No. 11. (Jun 2002), pp. 2478-2483. by Arthur L. Delcher, Adam Phillippy, Jane Carlton, Steven L. Salzberg posted to time software sequence protozoan plasmodium mapping humans human genomics genome file-import-09-10-21 factors contig computers computational biology bacterial animals alignment algorithms by seb1 on 2009-10-21 17:11:17 as
	The difficulty of identifying genes in anonymous vertebrate sequences. [My Copy] Comput Chem, Vol. 21, No. 4. (1997), pp. 203-214. by J. M. Claverie, O. Poirot, F. Lopez posted to vertebrates transcription sequence results reproducibility regions reading promoter open of nucleic molecular library humans homology genetic genes gene frames file-import-09-10-21 factual exons dna databases data complementary base animals amino alignment acid by seb1 on 2009-10-21 17:11:16 as
	Finding optimal threshold for correction error reads in DNA assembling. [My Copy] BMC Bioinformatics, Vol. 10 Suppl 1 (2009) by Francis Y. L. Chin, Henry C. M. Leung, Wei L. Li, Siu M. Yiu posted to sequence genome file-import-09-10-21 dna computational biology base analysis alignment algorithms by seb1 on 2009-10-21 17:11:16 as
	De novo fragment assembly with short mate-paired reads: Does the read length matter? [My Copy] Genome Res, Vol. 19, No. 2. (Feb 2009), pp. 336-346. by Mark J. Chaisson, Dumitru Brinza, Pavel A. Pevzner posted to sequence pairing models markers mapping genome genetic file-import-09-10-21 escherichia epidemiology dna computational coli chromosome biology biological bias base bacterial analysis alignment algorithms by seb1 on 2009-10-21 17:11:16 as
	Fragment assembly with short reads. [My Copy] Bioinformatics, Vol. 20, No. 13. (Sep 2004), pp. 2067-2074. by Mark Chaisson, Pavel Pevzner, Haixu Tang posted to studies sequence profiling molecular mapping gene file-import-09-10-21 feasibility expression dna data contig base analysis alignment algorithms by seb1 on 2009-10-21 17:11:16 as
	Aligning multiple genomic sequences with the threaded blockset aligner. [My Copy] Genome Res, Vol. 14, No. 4. (Apr 2004), pp. 708-715. by Mathieu Blanchette, W. James Kent, Cathy Riemer, et al.Laura Elnitski, Arian F. A. Smit, Krishna M. Roskin, Robert Baertsch, Kate Rosenbloom, Hiram Clawson, Eric D. Green, David Haussler, Webb Miller posted to topic studies software simulation sequence ribosomal rats proteins multigene molecular mice humans human homeobox genome genes fos file-import-09-10-21 family evolution evaluation dogs data computer computational cattle cats biology base as animals alignment by seb1 on 2009-10-21 17:11:16 as
	Remote homology detection: a motif based approach. [My Copy] Bioinformatics, Vol. 19 Suppl 1 (2003), pp. i26-i33. by Asa B. Hur, Douglas Brutlag posted to specificity software sequence sensitivity results reproducibility recognition proteins protein pattern of nucleic nuclear motifs methodologies intelligence homology file-import-09-10-21 enzymes databases computing cluster automated artificial and analysis amino alignment algorithms acid by seb1 on 2009-10-21 17:11:15 as
	ARACHNE: a whole-genome shotgun assembler. [My Copy] Genome Res, Vol. 12, No. 1. (Jan 2002), pp. 177-189. by Serafim Batzoglou, David B. Jaffe, Ken Stanley, et al.Jonathan Butler, Sante Gnerre, Evan Mauceli, Bonnie Berger, Jill P. Mesirov, Eric S. Lander posted to software sequence saccharomyces melanogaster mapping influenzae humans human haemophilus genome fungal file-import-09-10-21 drosophila contig consensus cerevisiae bacterial animals alignment algorithms by seb1 on 2009-10-21 17:11:15 as

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donovani	1
rights	1
craigventer	1
intervals	1
virulence	1
multienzyme	1
pricing	1
naming	1
m13	1
adenylyltransferase	1
parvum	1
beta	1
glioblastoma	1
microbial	1
meningitidis	1
agilent	1
parkinson	1
terminal	1
manuscripts	1
decision	1
genomic	1
lipid	1
biopolymers	1
factor	1
protease	1
ratio	1
structures	1
interfering	1
tetrahydrofolate	1
ferrets	1
career	1
haussler	1
over	1
entomology	1
funding	1
prokaryotic	1
env	1
n	1
post-transcriptional	1
post-translational	1
trachea	1
meeting	1
siderophores	1
collagen	1
tacky	1
21st	1
functional-genomics	1
alveolar	1
angiosperms	1
metabolism	1
compression	1
lagrange	1
microspheres	1
pair	1
phrap	1
halobacterium	1
neurology	1
nanostructures	1
clique	1
binary-tree	1
history	1
antigen	1
point	1
primer	1
fighting-bacteria	1
cycle	1
h1n1	1
motifs	1
jcvi	1
putrefaciens	1
primer-dimer	1
silencing	1
tree	1
monocytes	1
sulfate	1
hydrazines	1
denaturation	1
professional	1
neisseria	1
reassembly	1
intergenic	1
apyrase	1
capture	1
brucella	1
fish	1
outcome	1
conjugation	1
g-protein-coupled	1

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