rschulz's bioinformatics [27 articles] Export

Recent papers added to rschulz's library classified by the tag bioinformatics. You can also see everyone's bioinformatics.

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	Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources [My Copy] Nature Protocols, Vol. 4, No. 1. (18 December 2008), pp. 44-57. by Da W. Huang, Brad T. Sherman, Richard A. Lempicki posted to web-tool microarray david bioinformatics analysis-tool by rschulz on 2009-10-09 13:57:10 as along with 16 people and 2 groups darian jperkins tonamswish operon VGreiff jfr Stew bertelsen Sonix dswan guhjy wimufi brianb idonaldson mrochman daforerog Bioinformatics - CRUK Bioinformatics
	ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 19. (1 October 2009), pp. 2607-2608. by Martin Morgan, Simon Anders, Michael Lawrence, Patrick Aboyoun, Hervé Pagès, Robert Gentleman posted to shortread r next-gen-seq bioinformatics bioconductor analysis-tool by rschulz on 2009-10-05 08:36:54 as along with 13 people and 1 group darian jforment fstrozzi djkt jmeppley dswan torfinnnome walshtp jamesmorris joaocarrico natstreet n00c druvus Bioinformatics Core Service
	Construction and use of gene expression covariation matrix [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 214. by Jerome Hennetin, Petri Pehkonen, Michel Bellis posted to affymetrix bioinformatics coexpression covariation microarray single-channel by rschulz on 2009-07-15 14:17:44 as along with 2 people dipenps jmeppley
	A pipeline for the quantitative analysis of CG dinucleotide methylation using mass spectrometry. [My Copy] Bioinformatics (Oxford, England) (26 June 2009) by Reid F. Thompson, Masako Suzuki, Kevin W. Lau, John M. Greally posted to analysis-tool bioinformatics dna-methylation maldi-tof r sequenom by rschulz on 2009-07-15 09:17:47 as along with 1 person nuin
	NTAP: for NimbleGen tiling array ChIP-chip data analysis [My Copy] Bioinformatics, Vol. 25, No. 14. (15 July 2009), pp. 1838-1840. by Kun He, Xueyong Li, Junli Zhou, Xing-Wang Deng, Hongyu Zhao, Jingchu Luo posted to analysis-tool bioinformatics chip-chip nimblegen ntap by rschulz on 2009-05-26 10:32:48 as along with 3 people and 1 group ashishanand dswan idonaldson Bioinformatics
	CloudBurst: highly sensitive read mapping with MapReduce [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1363-1369. by Michael C. Schatz posted to amazon bioinformatics cloud-computing cloudburst google hadoop mapreduce sequence-alignment by rschulz on 2009-05-15 11:30:43 as along with 33 people and 2 groups joshdsullivan cthachuk hzoltan jfr walshtp idonaldson orzenil heliopais dakelley bozdagd agbiotec jandot guhjy n00c cymacs semrich nuin operon AlexBateman fgibson dswan mitko djkt humburg jmeppley coela vagoskar svenrahmann natstreet brianb Neeperando druvus neils KCL & UCL Bioinformatics Bioinformatics
	PASS: a program to align short sequences [My Copy] Bioinformatics, Vol. 25, No. 7. (1 April 2009), pp. 967-968. by Davide Campagna, Alessandro Albiero, Alessandra Bilardi, et al.Elisa Caniato, Claudio Forcato, Svetlin Manavski, Nicola Vitulo, Giorgio Valle posted to alignment analysis-tool bioinformatics pass solexa by rschulz on 2009-03-26 09:35:15 as along with 19 people and 1 group cthachuk hzoltan seb1 bozdagd adijr heliopais darian maren n00c nuin skembel cassj Neeperando helminth_lab guhjy natstreet druvus renatomilani WanderingAengus iSEEM
	MOM: maximum oligonucleotide mapping [My Copy] Bioinformatics, Vol. 25, No. 7. (1 April 2009), pp. 969-970. by Hugh L. Eaves, Yuan Gao posted to alignment analysis-tool bioinformatics mom next-gen-seq solexa by rschulz on 2009-03-26 09:31:50 as along with 7 people seb1 jfr n00c cassj mmartin guhjy druvus
	Statistical inferences for isoform expression in RNA-Seq [My Copy] Bioinformatics, Vol. 25, No. 8. (15 April 2009), pp. 1026-1032. by Hui Jiang, Wing H. Wong posted to alt-splicing bioinformatics computational-model isoform mrna rna-seq splicing by rschulz on 2009-03-26 09:27:38 as along with 16 people and 2 groups jwfoley hzoltan heliopais stubrown GustavoLacerda woodson8 ThomasDOtto stajich guhjy ghattem djkt shikin pengchy vplagnol jmcq GeeSharpMinor Mycology SIMR bioinformatics
	BioconductorBuntu - A Linux Distribution that Implements a Web-Based DNA Microarray Analysis Server. [My Copy] Bioinformatics (Oxford, England) (23 March 2009) by Paul Geeleher, Dermot Morris, John P P. Hinde, Aaron Golden posted to analysis-tool bioconductorbuntu bioinformatics microarray by rschulz on 2009-03-25 13:17:56 as along with 3 people druvus nuin sjcockell
	Machine Learning for Genomic Sequence Analysis [My Copy] by Soeren Sonnenburg posted to bioinformatics kernel machine-learning svm by rschulz on 2009-01-29 14:56:32 as
	Power enhancement via multivariate outlier testing with gene expression arrays. [My Copy] Bioinformatics (Oxford, England) (16 November 2008) by Adam Asare, Zhong Gao, Vincent J J. Carey, Richard Wang, Vicki Seyfert-Margolis posted to analysis-tool bioconductor bioinformatics microarray quality-control by rschulz on 2009-01-12 10:50:57 as along with 3 people jfr lptolik guhjy
	Sequence progressive alignment, a framework for practical large-scale probabilistic consistency alignment [My Copy] Bioinformatics (4 December 2008), btn630. by Benedict Paten, Javier Herrero, Kathryn Beal, Ewan Birney posted to analysis-tool bayes bioinformatics multiple-alignment pecan by rschulz on 2009-01-12 10:26:24 as along with 9 people BioNica guhjy dakelley semrich gjuggler djkt birney operon druvus
	arrayQualityMetrics--a bioconductor package for quality assessment of microarray data [My Copy] Bioinformatics, Vol. 25, No. 3. (1 February 2009), pp. 415-416. by Audrey Kauffmann, Robert Gentleman, Wolfgang Huber posted to analysis-tool arrayqualitymetrics bioconductor bioinformatics microarray quality-control by rschulz on 2009-01-12 10:11:46 as along with 16 people and 1 group jperkins VGreiff Zephyrus daforerog shikin lwaldron jfr ptrobajo rdiaz siebert bertelsen pkonings dswan renatomilani nuin guhjy Bioinformatics
	Multiperm: shuffling multiple sequence alignments while approximately preserving dinucleotide frequencies [My Copy] Bioinformatics (9 January 2009), btp006. by Parvez Anandam, Elfar Torarinsson, Walter L. Ruzzo posted to analysis-tool bioinformatics dinucleotide multiple-alignment permutation by rschulz on 2009-01-12 10:01:51 as along with 2 people idonaldson djkt
	Galaxy: a platform for interactive large-scale genome analysis. [My Copy] Genome research, Vol. 15, No. 10. (October 2005), pp. 1451-1455. by B. Giardine, C. Riemer, R. C. Hardison, et al.R. Burhans, L. Elnitski, P. Shah, Y. Zhang, D. Blankenberg, I. Albert, J. Taylor, W. Miller, W. J. Kent, A. Nekrutenko posted to analysis-tool bioinformatics galaxy by rschulz on 2008-12-12 16:56:01 as along with 8 people vijyendra antonkratz Thaverkamp ilyashl urgi daforerog guhjy aprasad
	28-Way vertebrate alignment and conservation track in the UCSC Genome Browser [My Copy] Genome Res. (5 November 2007), gr.6761107. by Webb Miller, Kate Rosenbloom, Ross C. Hardison, et al.Minmei Hou, James Taylor, Brian Raney, Richard Burhans, David C. King, Robert Baertsch, Daniel Blankenberg, Kosakovsky, Anton Nekrutenko, Belinda Giardine, Robert S. Harris, Svitlana Tyekucheva, Mark Diekhans, Thomas H. Pringle, William J. Murphy, Arthur Lesk, George M. Weinstock, Kerstin Lindblad-Toh, Richard A. Gibbs, Eric S. Lander, Adam Siepel, David Haussler, James W. Kent posted to 28way bioinformatics evolution galaxy multiple-alignment ucsc by rschulz on 2008-12-12 16:50:50 as along with 11 people aprasad dchughes nklee maximilianh idonaldson fpattyn gjuggler clearbluespring joavah AaronDarling guhjy
	WAMIDEX: a web atlas of murine genomic imprinting and differential expression. [My Copy] Epigenetics : official journal of the DNA Methylation Society, Vol. 3, No. 2. (r 2008), pp. 89-96. by R. Schulz, K. Woodfine, T. R. Menheniott, D. Bourc'his, T. Bestor, R. J. Oakey posted to bioinformatics epigenetics imprinting mouse ucsc-browser wamidex by rschulz on 2008-12-08 12:36:31 as
	Design and analysis of ChIP-seq experiments for DNA-binding proteins. [My Copy] Nature biotechnology, Vol. 26, No. 12. (16 December 2008), pp. 1351-1359. by Peter V. Kharchenko, Michael Y. Tolstorukov, Peter J. Park posted to analysis-tool background benchmark bioinformatics chip-seq csp ctcf deep-seq experiment-planning msp mtc pipeline read-coverage wtd xset by rschulz on 2008-12-06 11:14:57 as along with 19 people and 2 groups hzoltan stubrown guhjy gdb tonamswish ewilban1 coela ekotelnikova jfr floatingpoint idonaldson inesdesantiago WanderingAengus vplagnol xwbcn fpattyn mutagenic kengg ghattem KCL & UCL Bioinformatics SIMR 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 alignment analysis-tool bayes bioinformatics deep-seq genotype maq read-quality stats-model by rschulz on 2008-12-06 11:06:30 as along with 39 people and 2 groups Julien_Fayolle seninp heliopais hzoltan cthachuk darshan adijr darian bozdagd jmanning2k stubrown APRegier ghattem jbhiatt mmartin michaelbarton polivares jonilaserson humburg n00c jessopher maren GeeSharpMinor vmsr vplagnol natstreet poschm jfr druvus dandaman xingxu jmcq inesdesantiago Neeperando nmohelli matthewsuderman bpb gdb farhat SIMR bioinformatics BergmanLab
	An HMM approach to genome-wide identification of differential histone modification sites from ChIP-seq data [My Copy] Bioinformatics, Vol. 24, No. 20. (15 October 2008), pp. 2344-2349. by Han Xu, Chia-Lin Wei, Feng Lin, Wing-Kin Sung posted to analysis-tool bioinformatics chip-seq chipdiff deep-seq histone hmm stats-model by rschulz on 2008-12-06 10:55:11 as along with 8 people darian mkiyer tonamswish ewilban1 polivares caseybrown djkt epigenetics
	Model-based Analysis of ChIP-Seq (MACS) [My Copy] Genome Biology, Vol. 9, No. 9. (2008), R137. by Yong Zhang, Tao Liu, Clifford Meyer, et al.Jerome Eeckhoute, David Johnson, Bradley Bernstein, Chad Nussbaum, Richard Myers, Myles Brown, Wei Li, X. Shirley Liu posted to analysis-tool bioinformatics chip-seq deep-seq macs poisson stats-model by rschulz on 2008-12-06 10:51:20 as along with 24 people and 2 groups hzoltan Vincent_Rouilly darian stubrown mkiyer humburg cassj floatingpoint WanderingAengus bryankr jfr mcm polivares gdb ghattem yadadi djkt stajich mdperry fpattyn bcondon idonaldson caseybrown kengg SIMR bioinformatics Mycology
	F-Seq: a feature density estimator for high-throughput sequence tags [My Copy] Bioinformatics, Vol. 24, No. 21. (1 November 2008), pp. 2537-2538. by Alan P. Boyle, Justin Guinney, Gregory E. Crawford, Terrence S. Furey posted to analysis-tool bioinformatics chip-seq deep-seq f-seq java ucsc-browser by rschulz on 2008-12-06 10:48:41 as along with 18 people and 2 groups hzoltan n00c darian idonaldson michaelbarton inesdesantiago gdb ewilban1 tonamswish guhjy kmdaily cassj fhalbrit jfr polivares cthachuk zhouyu aprasad JLab BergmanLab
	An integrated software system for analyzing ChIP-chip and ChIP-seq data. [My Copy] Nature biotechnology, Vol. 26, No. 11. (02 November 2008), pp. 1293-1300. by Hongkai Ji, Hui Jiang, Wenxiu Ma, David S. Johnson, Richard M. Myers, Wing H. Wong posted to analysis-tool bioinformatics chip-chip chip-seq cisgenome deep-seq by rschulz on 2008-12-06 10:44:45 as along with 24 people and 3 groups hzoltan fpattyn stubrown isimpson huali tonamswish ewilban1 sebastien_vigneau jfr kmdaily cassj bryankr malcook mcm behindtherabbit psique renatomilani polivares guhjy inesdesantiago pengchy kengg bais idonaldson Neuroblastoma SIMR bioinformatics BenosLab
	FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology [My Copy] Bioinformatics, Vol. 24, No. 15. (1 August 2008), pp. 1729-1730. by Anthony P. Fejes, Gordon Robertson, Mikhail Bilenky, Richard Varhol, Matthew Bainbridge, Steven J. M. Jones posted to analysis-tool bioinformatics chip-seq deep-seq java ucsc-browser wiggle-track by rschulz on 2008-12-06 10:40:14 as along with 19 people and 2 groups hzoltan darian n00c polivares idonaldson tonamswish ewilban1 humburg Thaverkamp natstreet druvus stajich cassj WanderingAengus jfr sconlan reyez guhjy vega Bioinformatics Mycology
	CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets [My Copy] Bioinformatics, Vol. 25, No. 1. (1 January 2009), pp. 130-131. by Charles Addo-Quaye, Webb Miller, Michael J. Axtell posted to bioinformatics cleaveland degradome mir-target mirna-target sequencing by rschulz on 2008-11-21 10:46:38 as along with 4 people guhjy natstreet druvus pengchy
	Inferring causal relationships among different histone modifications and gene expression [My Copy] Genome Research, Vol. 18, No. 8. (18 August 2008), pp. 1314-1324. by Hong Yu, Shanshan Zhu, Bing Zhou, Huiling Xue, Jing-Dong J. Han posted to bioinformatics epigenetics histone histone-code network by rschulz on 2008-06-21 11:24:15 as along with 10 people daveGerrard mingzhi suizifish felsani fpattyn ptrobajo bootsy bcondon sharmapank klo

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epigenetics	197
imprinting	134
dna-methylation	89
human	72
review	65
microarray	55
mouse	49
transcription	47
som	41
cancer	37
expression	36
methylation	36
dna	32
blcap	31
brain	31
nnat	29
evolution	28
analysis-tool	27
bioinformatics	27
gene	27
cpg	26
gene-expression	23
gpu	21
deep-seq	20
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ctcf	18
dnmt3l	18
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chip-seq	16
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cgi	15
bc10	14
histone	14
neuronatin	14
retrotransposition	14
development	13
germline	13
periodicity	13
affymetrix	12
ann	12
repeat	12
alternative	11
dnmt1	11
next-gen-seq	11
promoter	11
rna-seq	11
sequence	11
solexa	11
chrx	10
dnmt3a	10
embryo	10
plant	10
sperm	10
cell	9
dinucleotide	9
xci	9
arabidopsis	8
bioconductor	8
genome-wide	8
network	8
nucleosome	8
protein	8
rna-repair	8
sequence-alignment	8
snp	8
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stemcell	8
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antisense	7
dmr	7
grb10	7
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intron	7
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chromosome	6
commd1	6
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germ	6
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medip	6
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retrogene	6
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silencing	6
bayes	5
chip-chip	5
cortex	5
cuda	5
function	5
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line	5
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nimblegen	5
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chr15	4
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dnmt3b	4
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gnas	4
h19	4
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iap	4
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pcr	4
polymerase	4
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snrpn	4
stats-model	4
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upd	4
web-tool	4
xist	4
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air	3
alkb	3
alu	3
androgenote	3
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chry	3
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copper	3
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es	3
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pcdh11xy	3
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primer	3
probe	3
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r	3
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rnai	3
sex	3
sine	3
stalling	3
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agent	2
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ambiore	2
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argonaute	2
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chr20	2
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cnv	2
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dicer	2
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dog	2
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eed	2
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ensembl	2
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exon-microarray	2
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google-scholar	2
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hela	2
hmc	2
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igf2	2
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inpp5f_v2	2
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kernel	2
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l1	2
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model	2
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nanopore	2
neuron	2
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oct4	2
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pecan	2
peg3	2
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rat	2
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rotation	2
rtl1	2
sanger	2
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simulation	2
speech	2
structure	2
svm	2
t1d	2
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trd	2
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uniparental	2
walking	2
world	2
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454	1
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ability	1
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est	1
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fuzzy	1
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hmm	1
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iceland	1
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igf2r	1
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ips	1
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john-mcgrath	1
jurkat	1
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klf4	1
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memory	1
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mir-target	1
mitochondrium	1
mitosis	1
modification	1
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mom	1
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monotreme	1
morpholino	1
mother	1
mouse-strain	1
mrfast	1
mrna	1
msci	1
msp	1
mtc	1
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multiz	1
mummer	1
mummergpu	1
mutant	1
nanotube	1
nap1l2	1
nap1l5	1
ndn	1
necdin	1
neural-progenitor	1
neuroblast	1
neuroblastoma	1
neuroendocrine	1
neurology	1
nlp	1
noise	1
non-coding	1
non-cpg	1
nondisjunction	1
non-synonymous	1
no-replicate	1
np95	1
npl3	1
nrd1	1
ntap	1
nuclease	1
nucleotide	1
nucleotide-distance	1
nucleus	1
obesity	1
object	1
oct3	1
olin	1
online	1
oocyte-culture	1
openid	1
openmp	1
open-source	1
optimization	1
organisation	1
organization	1
ortheus	1
orthopaedic	1
otago	1
p21	1
p53	1
pabc	1
paired-ends	1
pairing	1
panel-of-experts	1
pangea	1
parent-of-origin	1
particle	1
pass	1
patdmr	1
pattern-matching	1
paxgene	1
pca	1
peak-call	1
peg13	1
peg3as	1
permutation	1
perspective	1
phenotype	1
phenylalanine	1
phenylketonuria	1
phoneme	1
photoactive	1
phylofit	1
phylogenetic-tree	1
phylopattern	1
physics	1
pinc	1
pipeline	1
pirna	1
platelet	1
platypus	1
plier	1
plsom	1
point-correspondence	1
poisson	1
polyploidy	1
popres	1
population	1
potato	1
prdm9	1
preimplantation	1
probability	1
processing	1
programming	1
prokaryote	1
proliferation	1
prostate	1
protocol	1
psychology	1
pubmed	1
purification	1
purkinje	1
pyrosequencing	1
qtl	1
quantitative	1
radiation	1
radio	1
random	1
rapamycin	1
rasgrf1	1
rbf	1
r_bhc	1
read-coverage	1
reading	1
read-quality	1
real-time	1
rearrangement	1
recognition	1
recombination	1
reconstruction	1
regular-expression	1
regulation	1
replication	1
reproduction	1
researcherid	1
resource	1
restriction	1
retrotranscription	1
retrovirus	1
rhesus	1
rice	1
right	1
riken	1
ringo	1
rma	1
rna-degradation	1
rna-methylation	1
rna-stabilization	1
robertsonian	1
robotics	1
rpb4	1
rtanalyzer	1
ruby	1
sam	1
sangamo	1
satellite	1
scale-free	1
scf	1
science-publishing	1
search-engine	1
sediment	1
seed	1
selection	1
self-assembly	1
sense-antisense	1
sequence-polymorphism	1
sequenom	1
serotonin	1
sex-dependence	1
sfmbt2	1
sheep	1
shortread	1
short-reads	1
signal-processing	1
singapore	1
single	1
single-channel	1
sirna-design	1
snp-genotyping	1
snprn	1
somatic	1
sommer	1
som-of-soms	1
sox2	1
speciation	1
spectrum	1
spermatogenesis	1
spiking	1
srp20	1
srs	1
stamp	1
stella	1
sterility	1
stimulation	1
strand	1
substitution	1
substitution-rate	1
sulfide	1
superovulation	1
survey	1
swift	1
synapse	1
synonymous	1
synthetic-biology	1
t65h	1
tagdust	1
t-cell	1
temporal	1
test	1
tet1	1
text-mining	1
tfpi2	1
theory	1
tho	1
tiling-array	1
tlr9	1
tndm	1
tolvon	1
tongue	1
topography	1
topology	1
traffic	1
trans	1
transcription-factor	1
transgene	1
translation	1
transport	1
treat	1
trna	1
tsd	1
tsix	1
tutorial	1
ubc	1
umd	1
upd12	1
upd14	1
upd20	1
vaccine	1
variability	1
variation	1
virus	1
visual	1
visualization	1
vortex	1
wamidex	1
water	1
web20	1
webarraydb	1
wetland	1
wheat	1
wiggle-track	1
wilms	1
worm	1
wtd	1
xite	1
xset	1
zac1	1
zfp57	1
zim	1
zygote	1

rschulz's bioinformatics [27 articles] Export

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