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jfr affy [67 articles]

最近 jfr さんのライブラリに追加された論文の中から タグ affy. You can also see everyone's affy.
  • A probe-treatment-reference (PTR) model for the analysis of oligonucleotide expression microarrays
    BMC Bioinformatics, Vol. 9 (14 April 2008), 194.
    by Huanying Ge, Chao Cheng, Lei M Li
    posted to normalization low_level affy by jfr on 2008-06-17 17:25:42 as **
  • Empirical Bayes models for multiple probe type microarrays at the probe level
    BMC Bioinformatics, Vol. 9 (20 March 2008), 156.
    by Magnus Astrand, Petter Mostad, Mats Rudemo
    posted to microarray_analysis feature_selection affy by jfr on 2008-06-17 17:00:07 as ** along with 3 people jyuh heliopais ptrobajo
  • A comparison of Affymetrix gene expression arrays
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Mark Robinson, Terence Speed
    posted to exon_arrays affy by jfr on 2008-06-17 16:52:18 as read along with 2 people hpaces waszak
  • affyGG: Computational protocols for genetical genomics with Affymetrix arrays
    Bioinformatics (16 December 2007), btm614.
    by Rudi Alberts, Gonzalo Vera, Ritsert C Jansen
    posted to software qtl affy by jfr on 2008-06-13 16:44:49 as ** along with 2 people djkt giovanni
  • Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata
    Nucl. Acids Res. (11 October 2007), gkm815.
    by Jeremiah J Faith, Michael E Driscoll, Vincent A Fusaro, Elissa J Cosgrove, Boris Hayete, Frank S Juhn, Stephen J Schneider, Timothy S Gardner
    posted to gene_expression database bioinformatics affy by jfr on 2008-06-13 14:42:32 as read along with 1 person tvdbulck
  • Acquisition of biologically relevant gene expression data by Affymetrix microarray analysis of archival formalin-fixed paraffin-embedded tumours
    British Journal of Cancer, Vol. aop, No. current. (01 April 2008)
    by KM Linton, Y Hey, E Saunders, M Jeziorska, J Denton, CL Wilson, R Swindell, S Dibben, CJ Miller, SD Pepper, JA Radford, AJ Freemont
    posted to ffpe affy by jfr on 2008-05-21 13:24:50 as ** along with 1 person kmegq
  • Understanding the physics of oligonucleotide microarrays: the Affymetrix spike-in data reanalysed.
    Physical biology, Vol. 5, No. 1. (2008)
    by CJ Burden
    posted to low_level affy by jfr on 2008-05-16 10:27:30 as **
  • Normalization of oligonucleotide arrays based on the least-variant set of genes
    BMC Bioinformatics, Vol. 9 (05 March 2008), 140.
    by Stefano Calza, Davide Valentini, Yudi Pawitan
    posted to software normalization low_level gene_expression affy by jfr on 2008-05-05 10:58:52 as ** along with 3 people jyuh giovenko waszak
  • EzArray: a web-based highly automated Affymetrix expression array data management and analysis system
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Yuerong Zhu, Yuelin Zhu, Wei Xu
    posted to software database affy by jfr on 2008-04-28 15:32:03 as ** along with 4 people zhouyu jyuh cannin heliopais
  • Revisiting adverse effects of cross-hybridization in Affymetrix gene expression data: do they matter for correlation analysis?
    Biology Direct, Vol. 2 (07 November 2007), 28.
    by Lev Klebanov, Linlin Chen, Andrei Yakovlev
    posted to affy by jfr on 2008-03-17 16:11:29 as **
  • Novel definition files for human GeneChips based on GeneAnnot
    BMC Bioinformatics, Vol. 8 (15 November 2007), 446.
    by Francesco Ferrari, Stefania Bortoluzzi, Alessandro Coppe, Alexandra Sirota, Marilyn Safran, Michael Shmoish, Sergio Ferrari, Doron Lancet, Gian A Danieli, Silvio Bicciato
    posted to affy annotation software by jfr on 2008-03-17 15:20:14 as ** along with 1 person ghattem
  • BGX: a Bioconductor package for the Bayesian integrated analysis of Affymetrix GeneChips
    BMC Bioinformatics, Vol. 8 (12 November 2007), 439.
    by Ernest Turro, Natalia Bochkina, Anne-Mette K Hein, Sylvia Richardson
    posted to affy bioconductor software by jfr on 2008-03-17 15:18:56 as ** along with 2 people shigepong waszak
  • A multi-array multi-SNP genotyping algorithm for Affymetrix SNP microarrays.
    Bioinformatics (25 April 2007)
    by Yuanyuan Xiao, Mark R R Segal, Y H H Yang, Ru-Fang F Yeh
    posted to snp-arrays affy genotyping methodology by jfr on 2008-02-29 11:55:01 as *** along with 2 people jyuh shigepong
  • A detailed transcript-level probe annotation reveals alternative splicing based microarray platform differences
    BMC Genomics, Vol. 8 (20 August 2007), 284.
    by Joseph C Lee, David Stiles, Jun Lu, Margaret C Cam
    posted to affy alternative_splicing annotation by jfr on 2008-02-19 16:28:14 as ***
  • High correspondence between Affymetrix exon and standard expression arrays.
    Biotechniques, Vol. 42, No. 2. (February 2007), pp. 181-185.
    by MJ Okoniewski, Y Hey, SD Pepper, CJ Miller
    posted to affy exon_arrays gene_expression by jfr on 2008-02-15 16:01:31 as read
  • AffyMAPSDetector: a software tool to characterize Affymetrix GeneChip(TM) expression arrays with respect to SNPs
    BMC Bioinformatics, Vol. 8 (30 July 2007), 276.
    by Sunita Kumari, Lalit K Verma, Jennifer W Weller
    posted to affy low_level methodology software by jfr on 2008-02-13 13:45:39 as **
  • Allele-specific amplification in cancer revealed by SNP array analysis.
    PLoS Comput Biol, Vol. 1, No. 6. (November 2005)
    by T LaFramboise, BA Weir, X Zhao, R Beroukhim, C Li, D Harrington, WR Sellers, M Meyerson
    posted to snp-arrays affy genoty by jfr on 2008-02-12 11:30:59 as ** along with 2 people and 1 group rebeccastojak jackjackjjj G4ID
  • Genotyping and annotation of Affymetrix SNP arrays.
    Nucleic Acids Res, Vol. 34, No. 14. (2006)
    by P Lamy, CL Andersen, FP Wikman, C Wiuf
    posted to snp-arrays affy genotyping by jfr on 2008-02-12 11:21:14 as read
  • SNiPer-HD: improved genotype calling accuracy by an expectation-maximization algorithm for high-density SNP arrays
    Bioinformatics, Vol. 23, No. 1. (1 January 2007), pp. 57-63.
    by Jianping Hua, David W Craig, Marcel Brun, Jennifer Webster, Victoria Zismann, Waibhav Tembe, Keta Joshipura, Matthew J Huentelman, Edward R Dougherty, Dietrich A Stephan
    posted to snp-arrays affy genotyping software by jfr on 2008-02-12 10:57:43 as ** along with 1 person Ayest
  • Genome-wide, high-resolution detection of copy number, loss of heterozygosity, and genotypes from formalin-fixed, paraffin-embedded tumor tissue using microarrays.
    Cancer Res, Vol. 67, No. 6. (15 March 2007), pp. 2544-2551.
    by S Jacobs, ER Thompson, Y Nannya, G Yamamoto, R Pillai, S Ogawa, DK Bailey, IG Campbell
    posted to snp-arrays affy ffpe by jfr on 2008-02-11 16:54:39 as ****
  • An overview of image-processing methods for Affymetrix GeneChips.
    Brief Bioinform (5 December 2007)
    by Jose M M Arteaga-Salas, Harry Zuzan, William B B Langdon, Graham J G J Upton, Andrew P P Harrison
    posted to affy image_analysis review by jfr on 2008-02-06 11:35:19 as * along with 2 people aswin yevishere
  • AffyProbeMiner: a web resource for computing or retrieving accurately redefined Affymetrix probe sets.
    Bioinformatics (27 July 2007)
    by Hongfang Liu, Barry R R Zeeberg, Qu Gang, A Gunes G Koru, Alessandro Ferrucci, Ari Kahn, Michael C C Ryan, Antej Nuhanovic, Peter J J Munson, William C C Reinhold, David W W Kane, John N N Weinstein
    posted to affy annotation by jfr on 2008-02-04 11:58:07 as read along with 6 people bertelsen jyuh ghattem ryanraaum heliopais Montrachet
  • Short oligonucleotide probes containing G-stacks display abnormal binding affinity on Affymetrix microarrays
    Bioinformatics, Vol. 23, No. 19. (1 October 2007), pp. 2566-2572.
    by Chunlei Wu, Haitao Zhao, Keith Baggerly, Roberto Carta, Li Zhang
    posted to affy low_level by jfr on 2008-02-04 11:50:29 as * along with 1 person niallhaslam
  • Analysis of probe level patterns in Affymetrix microarray data
    BMC Bioinformatics, Vol. 8 (04 May 2007), 146.
    by Alexander C Cambon, Abdelnaby Khalyfa, Nigel GF Cooper, Caryn M Thompson
    posted to affy annotation low_level by jfr on 2008-01-24 17:16:35 as ** along with 3 people bertelsen ghattem niallhaslam
  • Estimation and correction of non-specific binding in a large-scale spike-in experiment
    Genome Biology, Vol. 8 (26 June 2007), R126.
    by Eugene F Schuster, Eric Blanc, Linda Partridge, Janet Thornton
    posted to affy low_level by jfr on 2007-12-05 10:24:09 as **
  • Correcting for sequence biases in present/absent calls
    Genome Biology, Vol. 8 (26 June 2007), R125.
    by Eugene F Schuster, Eric Blanc, Linda Partridge, Janet Thornton
    posted to affy low_level by jfr on 2007-12-05 10:21:45 as **
  • The utility of MAS5 expression summary and detection call algorithms
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Stuart Pepper, Emma Saunders, Laura Edwards, Claire Wilson, Crispin Miller
    posted to affy low_level normalization by jfr on 2007-12-04 15:22:25 as ** along with 3 people ryanraaum wirawan waszak
  • A sequence-based identification of the genes detected by probesets on the Affymetrix U133 plus 2.0 array
    Nucleic Acids Research, Vol. 33, No. 3. (2005), pp. e31-e31.
    by Jeremy Harbig, Robert Sprinkle, Steven A Enkemann
    posted to affy annotation by jfr on 2007-12-03 11:04:09 as read along with 3 people bertelsen incovoma heliopais
  • Establishing a major cause of discrepancy in the calibration of Affymetrix GeneChips
    BMC Bioinformatics, Vol. 8 (11 June 2007), 195.
    by Andrew P Harrison, Caroline E Johnston, Christine A Orengo
    posted to affy low_level by jfr on 2007-11-28 13:21:17 as ** along with 1 person heliopais
  • Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data
    BMC Bioinformatics, Vol. 8 (11 June 2007), 194.
    by Hui Yu, Feng Wang, Kang Tu, Lu Xie, Yuan-Yuan Li, Yi-Xue Li
    posted to affy annotation by jfr on 2007-11-28 13:13:39 as * along with 3 people bertelsen jyuh heliopais
  • The effect of oligonucleotide microarray data pre-processing on the analysis of patient-cohort studies.
    BMC Bioinformatics, Vol. 7 (2006)
    by RG Verhaak, FJ Staal, PJ Valk, B Lowenberg, MJ Reinders, D de Ridder
    posted to affy evaluation low_level by jfr on 2007-11-23 15:31:50 as * along with 3 people frohike RMGraze ghattem
  • chip artifact CORRECTion (caCORRECT): a bioinformatics system for quality assurance of genomics and proteomics array data.
    Ann Biomed Eng, Vol. 35, No. 6. (June 2007), pp. 1068-1080.
    by TH Stokes, RA Moffitt, JH Phan, MD Wang
    posted to affy low_level quality_control by jfr on 2007-09-13 14:46:42 as ****
  • Transcript-based redefinition of grouped oligonucleotide probe sets using AceView: High-resolution annotation for microarrays
    BMC Bioinformatics, Vol. 8 (29 March 2007), 108.
    by Jun Lu, Joseph C Lee, Marc L Salit, Margaret C Cam
    posted to affy annotation by jfr on 2007-09-12 17:54:41 as **** along with 4 people and 1 group bertelsen jyuh frohike ghattem Bioinformatics
  • Exploratory methods for checking quality of microarray data.
    Bioinformation, Vol. 1, No. 10. (2007), pp. 423-428.
    by EK Lee, T Park
    posted to affy quality_control by jfr on 2007-09-05 11:43:20 as **
  • An application for assessing quality of RNA hybridized to Affymetrix GeneChips.
    Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2699-2701.
    by KJ Archer, T Guennel
    posted to affy microarray_technology quality_control by jfr on 2007-09-04 17:05:33 as ** along with 2 people ghattem waszak
  • Explaining differences in saturation levels for Affymetrix GeneChip(R) arrays.
    Nucleic Acids Res (12 June 2007)
    by Dmitriy Skvortsov, Diana Abdueva, Christina Curtis, Betty Schaub, Simon Tavaré
    posted to affy microarray_technology by jfr on 2007-07-31 17:48:25 as * along with 6 people bertelsen gpalidwor sebastien_vigneau ghattem waszak ptrobajo
  • Microarray Blob-Defect Removal Improves Array Analysis.
    Bioinformatics (1 March 2007)
    by Jun S S Song, Kaveh Maghsoudi, Wei Li, Edward Fox, John Quackenbush, X Shirley Liu
    posted to affy low_level microarray_technology by jfr on 2007-07-31 17:12:32 as ** along with 5 people and 1 group kengg shigepong ghattem caseybrown waszak Plantandetc
  • Probe selection for high-density oligonucleotide arrays.
    Proc Natl Acad Sci U S A, Vol. 100, No. 20. (30 September 2003), pp. 11237-11242.
    by R Mei, E Hubbell, S Bekiranov, M Mittmann, FC Christians, MM Shen, G Lu, J Fang, WM Liu, T Ryder, P Kaplan, D Kulp, TA Webster
    posted to affy annotation probe_design by jfr on 2007-07-20 17:17:06 as **
  • A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat
    BMC Bioinformatics, Vol. 8 (20 April 2007), 132.
    by Rudi Alberts, Peter Terpstra, Menno Hardonk, Leonid V Bystrykh, Gerald de Haan, Rainer Breitling, Jan-Peter Nap, Ritsert C Jansen
    posted to affy annotation by jfr on 2007-07-19 14:37:31 as ** along with 2 people jyuh ghattem
  • Fisher's combined p-value for detecting differentially expressed genes using Affymetrix expression arrays
    BMC Genomics, Vol. 8 (09 April 2007), 96.
    by Ann M Hess, Hari K Iyer
    posted to affy fdr feature_selection by jfr on 2007-07-10 17:01:57 as ** along with 1 person ugengma
  • How high is the level of technical noise in microarray data?
    Biology Direct, Vol. 2 (11 April 2007), 9.
    by Lev Klebanov, Andrei Yakovlev
    posted to affy low_level by jfr on 2007-07-10 11:36:56 as * along with 2 people ghattem heliopais
  • Quality assessment of Affymetrix GeneChip data.
    OMICS, Vol. 10, No. 3. (2006), pp. 358-368.
    by S Heber, B Sick
    posted to affy quality_control review by jfr on 2007-06-12 18:52:51 as ** along with 3 people bertelsen maldi yevishere
  • Improved precision and accuracy for microarrays using updated probe set definitions
    BMC Bioinformatics, Vol. 8 (08 February 2007), 48.
    by Rickard Sandberg, Ola Larsson
    posted to affy annotation by jfr on 2007-06-08 16:06:37 as ** along with 5 people bertelsen gpalidwor shigepong ghattem heliopais
  • Interpretation of multiple probe sets mapping to the same gene in Affymetrix GeneChips
    BMC Bioinformatics, Vol. 8 (15 January 2007), 13.
    by Maria A Stalteri, Andrew P Harrison
    posted to affy annotation by jfr on 2007-05-11 14:51:16 as * along with 7 people jyuh gpalidwor hpiwowar frohike ghattem bertelsen heliopais
  • PQN and DQN: algorithms for expression microarrays.
    J Theor Biol, Vol. 243, No. 2. (21 November 2006), pp. 273-278.
    by WM Liu, R Li, JZ Sun, J Wang, J Tsai, W Wen, A Kohlmann, PM Williams
    posted to affy low_level methodology by jfr on 2007-05-11 14:43:09 as *
  • Combining Affymetrix microarray results.
    BMC Bioinformatics, Vol. 6 (2005)
    by JR Stevens, RW Doerge
    posted to meta-analysis affy methodology by jfr on 2007-02-20 17:03:23 as read
  • Assessment of the relationship between pre-chip and post-chip quality measures for Affymetrix GeneChip expression data.
    BMC Bioinformatics, Vol. 7 (2006)
    by L Jones, DR Goldstein, G Hughes, AD Strand, F Collin, SB Dunnett, C Kooperberg, A Aragaki, JM Olson, SJ Augood, RL Faull, R Luthi-Carter, V Moskvina, AK Hodges
    posted to quality_control affy by jfr on 2007-01-12 16:15:13 as *** along with 3 people ghattem bertelsen nicholso
  • Robust estimators for expression analysis.
    Bioinformatics, Vol. 18, No. 12. (December 2002), pp. 1585-1592.
    by E Hubbell, WM Liu, R Mei
    posted to methodology low_level affy by jfr on 2007-01-11 13:55:03 as * along with 1 person wirawan
  • Feature-level exploration of a published Affymetrix GeneChip control dataset
    Genome Biology, Vol. 7 (01 September 2006), 404.
    by Rafael A Irizarry, Leslie M Cope, Zhijin Wu
    posted to normalization low_level affy by jfr on 2007-01-10 15:46:49 as ** along with 1 person ghattem
  • Probe set algorithms: Is there a rational best bet?
    BMC Bioinformatics, Vol. 7 (30 August 2006), 395.
    by Jinwook Seo, Eric P Hoffman
    posted to low_level evaluation affy by jfr on 2007-01-10 15:41:02 as * along with 4 people shikin bertelsen ghattem rschulz
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