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Search Articles for "Tiling"

An approach to compare genome tiling microarray and MPSS sequencing data for transcript mapping

Author(s): Sasidharan Rajkumar | Agarwal Ashish | Rozowsky Joel | Gerstein Mark
An initial map of chromosomal segmental copy number variations in the chicken

Author(s): Wang Xiaofei | Nahashon Samuel | Feaster Tromondae | Bohannon-Stewart Ann | Adefope Nathaniel
Image Tiling to Improve Performance of Image Retrieval Using Color Averaging Techniques

Author(s): Dr. H.B.Kekre | Sudeep D. Thepade | Akshay Maloo
Tiling array data analysis: a multiscale approach using wavelets

Author(s): Karpikov Alexander | Rozowsky Joel | Gerstein Mark
A hidden Markov model approach for determining expression from genomic tiling micro arrays

Author(s): Munch Kasper | Gardner Paul | Arctander Peter | Krogh Anders
ChIP on SNP-chip for genome-wide analysis of human histone H4 hyperacetylation

Author(s): McCann Jennifer | Muro Enrique | Palmer Claire | Palidwor Gareth | Porter Christopher | Andrade-Navarro Miguel | Rudnicki Michael
Use of tiling array data and RNA secondary structure predictions to identify noncoding RNA genes

Author(s): Weile Christian | Gardner Paul | Hedegaard Mads | Vinther Jeppe
Tilings with the neighborhood property

Author(s): Linda S. Fosnaugh | Earl S. Kramer
Tilings in topological spaces

Author(s): F. G. Arenas
Development and evaluation of a high-throughput, low-cost genotyping platform based on oligonucleotide microarrays in rice

Author(s): Edwards Jeremy | Janda Jaroslav | Sweeney Megan | Gaikwad Ambika | Liu Bin | Leung Hei | Galbraith David
Generation of a genomic tiling array of the human Major Histocompatibility Complex (MHC) and its application for DNA methylation analysis

Author(s): Tomazou Eleni | Rakyan Vardhman | Lefebvre Gregory | Andrews Robert | Ellis Peter | Jackson David | Langford Cordelia | Francis Matthew | Bäckdahl Liselotte | Miretti Marcos | Coggill Penny | Ottaviani Diego | Sheer Denise | Murrell Adele | Beck Stephan
On the structure of multipliers of ℤ2

Author(s): Edgar Martínez-Moro | Roberto Canogar-Mckenzie
Focal Conic Stacking in Smectic A Liquid Crystals: Smectic Flower and Apollonius Tiling

Author(s): Claire Meyer | Loic Le Cunff | Malika Belloul | Guillaume Foyart
Tiling a Pyramidal Polycube with Dominoes

Author(s): Olivier Bodini | Damien Jamet
Strategies for analyzing highly enriched IP-chip datasets

Author(s): Knott Simon | Viggiani Christopher | Aparicio Oscar | Tavaré Simon
The Drosophila Fry protein interacts with Trc and is highly mobile in vivo

Author(s): Fang Xiaolan | Lu Qiuheng | Emoto Kazou | Adler Paul
Novel genome polymorphisms in BCG vaccine strains and impact on efficacy

Author(s): Leung Andrea | Tran Vanessa | Wu Zuowei | Yu Xuping | Alexander David | Gao George | Zhu Baoli | Liu Jun
Detection of genome-wide polymorphisms in the AT-rich Plasmodium falciparum genome using a high-density microarray

Author(s): Jiang Hongying | Yi Ming | Mu Jianbing | Zhang Louie | Ivens Al | Klimczak Leszek | Huyen Yentram | Stephens Robert | Su Xin-zhuan
High-resolution array CGH clarifies events occurring on 8p in carcinogenesis

Author(s): Cooke Susanna | Pole Jessica | Chin Suet-Feung | Ellis Ian | Caldas Carlos | Edwards Paul
Computational prediction of novel non-coding RNAs in Arabidopsis thaliana

Author(s): Song Dandan | Yang Yang | Yu Bin | Zheng Binglian | Deng Zhidong | Lu Bao-Liang | Chen Xuemei | Jiang Tao
High-resolution mapping of plasmid transcriptomes in different host bacteria

Author(s): Miyakoshi Masatoshi | Nishida Hiromi | Shintani Masaki | Yamane Hisakazu | Nojiri Hideaki
Mismatch oligonucleotides in human and yeast: guidelines for probe design on tiling microarrays

Author(s): Seringhaus Michael | Rozowsky Joel | Royce Thomas | Nagalakshmi Ugrappa | Jee Justin | Snyder Michael | Gerstein Mark
Genome-scale identification of Caenorhabditis elegans regulatory elements by tiling-array mapping of DNase I hypersensitive sites

Author(s): Shi Baochen | Guo Xiangqian | Wu Tao | Sheng Sitong | Wang Jie | Skogerbø Geir | Zhu Xiaopeng | Chen Runsheng
The chemoreceptor genes of the waterflea Daphnia pulex: many Grs but no Ors

Author(s): Peñalva-Arana D Carolina | Lynch Michael | Robertson Hugh
MIMAS 3.0 is a Multiomics Information Management and Annotation System

Author(s): Gattiker Alexandre | Hermida Leandro | Liechti Robin | Xenarios Ioannis | Collin Olivier | Rougemont Jacques | Primig Michael
Image Sampling with Quasicrystals

Author(s): Mark Grundland | Jirí Patera | Zuzana Masáková | Neil A. Dodgson
On the Tileability of Polygons with Colored Dominoes

Author(s): Chris Mark Worman | Boting Yang
Genomic imbalances in precancerous tissues signal oral cancer risk

Author(s): Garnis Cathie | Chari Raj | Buys Timon | Zhang Lewei | Ng Raymond | Rosin Miriam | Lam Wan
Efficient oligonucleotide probe selection for pan-genomic tiling arrays

Author(s): Phillippy Adam | Deng Xiangyu | Zhang Wei | Salzberg Steven
An approach to comparing tiling array and high throughput sequencing technologies for genomic transcript mapping

Author(s): Sasidharan Rajkumar | Agarwal Ashish | Rozowsky Joel | Gerstein Mark
Discovery of novel human transcript variants by analysis of intronic single-block EST with polyadenylation site

Author(s): Wang Pingzhang | Yu Peng | Gao Peng | Shi Taiping | Ma Dalong
ReseqChip: Automated integration of multiple local context probe data from the MitoChip array in mitochondrial DNA sequence assembly

Author(s): Thieme Marian | Lottaz Claudio | Niederstätter Harald | Parson Walther | Spang Rainer | Oefner Peter
Constitutively overexpressed 21 kDa protein in Hodgkin lymphoma and aggressive non-Hodgkin lymphomas identified as cytochrome B5b (CYB5B)

Author(s): Murphy Derek | Parker Jeremy | Zhou Minglong | Fadlelmola Faisal | Steidl Christian | Karsan Aly | Gascoyne Randy | Chen Hong | Banerjee Diponkar
Decoding pooled RNAi screens by means of barcode tiling arrays

Author(s): Boettcher Michael | Fredebohm Johannes | Gholami Amin | Hachmo Yafit | Dotan Iris | Canaani Dan | Hoheisel Jörg
Genome-wide detection of predicted non-coding RNAs in Rhizobium etli expressed during free-living and host-associated growth using a high-resolution tiling array

Author(s): Vercruysse Maarten | Fauvart Maarten | Cloots Lore | Engelen Kristof | Thijs Inge | Marchal Kathleen | Michiels Jan
G+C content dominates intrinsic nucleosome occupancy

Author(s): Tillo Desiree | Hughes Timothy
Analysis of DNA strand-specific differential expression with high density tiling microarrays

Author(s): Quintales Luis | Sánchez Mar | Antequera Francisco
Single feature polymorphism (SFP)-based selective sweep identification and association mapping of growth-related metabolic traits in Arabidopsis thaliana

Author(s): Childs Liam | Witucka-Wall Hanna | Günther Torsten | Sulpice Ronan | Korff Maria | Stitt Mark | Walther Dirk | Schmid Karl | Altmann Thomas
Identification of novel non-coding small RNAs from Streptococcus pneumoniae TIGR4 using high-resolution genome tiling arrays

Author(s): Kumar Ranjit | Shah Pratik | Swiatlo Edwin | Burgess Shane | Lawrence Mark | Nanduri Bindu
Starr: Simple Tiling ARRay analysis of Affymetrix ChIP-chip data

Author(s): Zacher Benedikt | Kuan Pei | Tresch Achim
Transcriptome analysis of the mobile genome ICEclc in Pseudomonas knackmussii B13

Author(s): Gaillard Muriel | Pradervand Nicolas | Minoia Marco | Sentchilo Vladimir | Johnson David | van der Meer Jan
HAT: Hypergeometric Analysis of Tiling-arrays with application to promoter-GeneChip data

Author(s): Taskesen Erdogan | Beekman Renee | de Ridder Jeroen | Wouters Bas | Peeters Justine | Touw Ivo | Reinders Marcel | Delwel Ruud
ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data

Author(s): Zhu Lihua | Gazin Claude | Lawson Nathan | Pagès Hervé | Lin Simon | Lapointe David | Green Michael
PeakAnalyzer: Genome-wide annotation of chromatin binding and modification loci

Author(s): Salmon-Divon Mali | Dvinge Heidi | Tammoja Kairi | Bertone Paul
LTR retroelements in the genome of Daphnia pulex

Author(s): Rho Mina | Schaack Sarah | Gao Xiang | Kim Sun | Lynch Michael | Tang Haixu
Integration and visualization of systems biology data in context of the genome

Author(s): Bare J Christopher | Koide Tie | Reiss David | Tenenbaum Dan | Baliga Nitin
Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays

Author(s): Agarwal Ashish | Koppstein David | Rozowsky Joel | Sboner Andrea | Habegger Lukas | Hillier LaDeana | Sasidharan Rajkumar | Reinke Valerie | Waterston Robert | Gerstein Mark
Genomic tools development for Aquilegia: construction of a BAC-based physical map

Author(s): Fang Guang-Chen | Blackmon Barbara | Henry David | Staton Margaret | Saski Christopher | Hodges Scott | Tomkins Jeff | Luo Hong
Performance Comparison of Block Truncation Coding based Image Retrieval Techniques using Assorted Color Spaces

Author(s): H.B. Kekre | Sudeep D.Thepade | Varun Lodha | Pooja Luthra | Ajoy Joseph | Chitrangada Nemani
Identification and Regulation of c-Myb Target Genes in MCF-7 Cells

Author(s): Quintana Anita | Liu Fan | O'Rourke John | Ness Scott
Strand-specific transcriptome profiling with directly labeled RNA on genomic tiling microarrays

Author(s): Yu Wen-Han | Høvik Hedda | Olsen Ingar | Chen Tsute
Comprehensive profiling of zebrafish hepatic proximal promoter CpG island methylation and its modification during chemical carcinogenesis

Author(s): Mirbahai Leda | Williams Timothy | Zhan Huiqing | Gong Zhiyuan | Chipman J Kevin
Specific patterns of gene space organisation revealed in wheat by using the combination of barley and wheat genomic resources

Author(s): Rustenholz Camille | Hedley Pete | Morris Jenny | Choulet Frédéric | Feuillet Catherine | Waugh Robbie | Paux Etienne
LTC: a novel algorithm to improve the efficiency of contig assembly for physical mapping in complex genomes

Author(s): Frenkel Zeev | Paux Etienne | Mester David | Feuillet Catherine | Korol Abraham
An initial comparative map of copy number variations in the goat (Capra hircus) genome

Author(s): Fontanesi Luca | Martelli Pier | Beretti Francesca | Riggio Valentina | Dall'Olio Stefania | Colombo Michela | Casadio Rita | Russo Vincenzo | Portolano Baldassare
Decorative collection of listellos

Author(s): Boix, N. | Boix, E.
Comparison of genome-wide array genomic hybridization platforms for the detection of copy number variants in idiopathic mental retardation

Author(s): Tucker Tracy | Montpetit Alexandre | Chai David | Chan Susanna | Chénier Sébastien | Coe Bradley | Delaney Allen | Eydoux Patrice | Lam Wan | Langlois Sylvie | Lemyre Emmanuelle | Marra Marco | Qian Hong | Rouleau Guy | Vincent David | Michaud Jacques | Friedman Jan
Image Retrieval with Image Tile Energy Averaging using Assorted Color Spaces

Author(s): H.B.Kekre | Sudeep D. Thepade | Varun Lodha | Pooja Luthra | Ajoy Joseph | Chitrangada Nemani
Tiling in the geometric model for water

Author(s): Girardi M. | Figueiredo W. | Guisoni N. | Henriques V. B.
A strategy for detection of known and unknown SNP using a minimum number of oligonucleotides applicable in the clinical settings

Author(s): Wang Ena | Adams Sharon | Zhao Yingdong | Panelli Monica | Simon Richard | Klein Harvey | Marincola Francesco
SeeGH – A software tool for visualization of whole genome array comparative genomic hybridization data

Author(s): Chi Bryan | deLeeuw Ronald | Coe Bradley | MacAulay Calum | Lam Wan
A stepwise framework for the normalization of array CGH data

Author(s): Khojasteh Mehrnoush | Lam Wan | Ward Rabab | MacAulay Calum
Variant histone H2A.Z is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning.

Author(s): Guillemette Benoît | Bataille Alain R | Gévry Nicolas | Adam Maryse | Blanchette Mathieu | Robert François | Gaudreau Luc
Proximal genomic localization of STAT1 binding and regulated transcriptional activity

Author(s): Wormald Samuel | Hilton Douglas | Smyth Gordon | Speed Terence
Rank-statistics based enrichment-site prediction algorithm developed for chromatin immunoprecipitation on chip experiments

Author(s): Ghosh Srinka | Hirsch Heather | Sekinger Edward | Struhl Kevin | Gingeras Thomas
SIGMA: A System for Integrative Genomic Microarray Analysis of Cancer Genomes

Author(s): Chari Raj | Lockwood William | Coe Bradley | Chu Anna | Macey Devon | Thomson Andrew | Davies Jonathan | MacAulay Calum | Lam Wan
Using expression arrays for copy number detection: an example from E. coli

Author(s): Skvortsov Dmitriy | Abdueva Diana | Stitzer Michael | Finkel Steven | Tavaré Simon
Comparative analysis of structured RNAs in S. cerevisiae indicates a multitude of different functions

Author(s): Steigele Stephan | Huber Wolfgang | Stocsits Claudia | Stadler Peter | Nieselt Kay
An efficient pseudomedian filter for tiling microrrays

Author(s): Royce Thomas | Carriero Nicholas | Gerstein Mark
Normalization and experimental design for ChIP-chip data

Author(s): Peng Shouyong | Alekseyenko Artyom | Larschan Erica | Kuroda Mitzi | Park Peter
Differential analysis for high density tiling microarray data

Author(s): Ghosh Srinka | Hirsch Heather | Sekinger Edward | Kapranov Philipp | Struhl Kevin | Gingeras Thomas
X-chromosome tiling path array detection of copy number variants in patients with chromosome X-linked mental retardation

Author(s): Madrigal I | Rodríguez-Revenga L | Armengol L | González E | Rodriguez B | Badenas C | Sánchez A | Martínez F | Guitart M | Fernández I | Arranz JA | Tejada MI | Pérez-Jurado LA | Estivill X | Milà M
Sub-megabase resolution tiling (SMRT) array-based comparative genomic hybridization profiling reveals novel gains and losses of chromosomal regions in Hodgkin Lymphoma and Anaplastic Large Cell Lymphoma cell lines

Author(s): Fadlelmola Faisal | Zhou Minglong | de Leeuw Ronald | Dosanjh Nirpjit | Harmer Karynn | Huntsman David | Lam Wan | Banerjee Diponkar
xMAN: extreme MApping of OligoNucleotides

Author(s): Li Wei | Carroll Jason | Brown Myles | Liu X Shirley
Novel computational methods for increasing PCR primer design effectiveness in directed sequencing

Author(s): Li Kelvin | Brownley Anushka | Stockwell Timothy | Beeson Karen | McIntosh Tina | Busam Dana | Ferriera Steve | Murphy Sean | Levy Samuel
CADM1 is a strong neuroblastoma candidate gene that maps within a 3.72 Mb critical region of loss on 11q23

Author(s): Michels Evi | Hoebeeck Jasmien | De Preter Katleen | Schramm Alexander | Brichard Bénédicte | De Paepe Anne | Eggert Angelika | Laureys Geneviève | Vandesompele Jo | Speleman Frank
Tiling array-CGH for the assessment of genomic similarities among synchronous unilateral and bilateral invasive breast cancer tumor pairs

Author(s): Brommesson Sara | Jönsson Göran | Strand Carina | Grabau Dorthe | Malmström Per | Ringnér Markus | Fernö Mårten | Hedenfalk Ingrid
On the Plane Geometry with Generalized Absolute Value Metric

Author(s): A. Bayar | S. Ekmekçi | Z. Akça
The Tomato Sequencing Project, the First Cornerstone of the International Solanaceae Project (SOL)

Author(s): Lukas A. Mueller | Steven D. Tanksley | Jim J. Giovannoni | Joyce van Eck | Stephen Stack | Doil Choi | Byung Dong Kim | Mingsheng Chen | Zhukuan Cheng | Chuanyou Li | Hongqing Ling | Yongbiao Xue | Graham Seymour | Gerard Bishop | Glenn Bryan | Rameshwar Sharma | Jiten Khurana | Akhilesh Tyagi | Debasis Chattopadhyay | Nagendra K. Singh | Willem Stiekema | P. Lindhout | Taco Jesse | Rene Klein Lankhorst | Mondher Bouzayen | Daisuke Shibata | Satoshi Tabata | Antonio Granell | Miguel A. Botella | Giovanni Giuliano | Luigi Frusciante | Mathilde Causse | Dani Zamir
Swine Genome Sequencing Consortium (SGSC): A Strategic Roadmap for Sequencing The Pig Genome

Author(s): Lawrence B. Schook | Jonathan E. Beever | Jane Rogers | Sean Humphray | Alan Archibald | Patrick Chardon | Denis Milan | Gary Rohrer | Kellye Eversole
Genome-wide analysis of alternative promoters of human genes using a custom promoter tiling array

Author(s): Singer Gregory | Wu Jiejun | Yan Pearlly | Plass Christoph | Huang Tim | Davuluri Ramana
Whole genome transcription profiling of Anaplasma phagocytophilum in human and tick host cells by tiling array analysis

Author(s): Nelson Curtis | Herron Michael | Felsheim Roderick | Schloeder Brian | Grindle Suzanne | Chavez Adela | Kurtti Timothy | Munderloh Ulrike
Assessing the feasibility of GS FLX Pyrosequencing for sequencing the Atlantic salmon genome

Author(s): Quinn Nicole | Levenkova Natasha | Chow William | Bouffard Pascal | Boroevich Keith | Knight James | Jarvie Thomas | Lubieniecki Krzysztof | Desany Brian | Koop Ben | Harkins Timothy | Davidson William
A tiling microarray for global analysis of chloroplast genome expression in cucumber and other plants

Author(s): Żmieńko Agnieszka | Guzowska-Nowowiejska Magdalena | Urbaniak Radosław | Pląder Wojciech | Formanowicz Piotr | Figlerowicz Marek
EcoBrowser: a web-based tool for visualizing transcriptome data of Escherichia coli

Author(s): Chang Xiao | Li Yun | Ping Jie | Xing Xiao-Bin | Sun Han | Jia Peng | Wang Chuan | Li Yuan-Yuan | Li Yi-Xue
A Framework of Information Technology for Water Resources Management

Author(s): P.S.V.S. Sridhar | T. N. Jowhar | Anant Bhaskar Garg | U. Kedareswarudu
Wavelet and Blend maps for texture synthesis

Author(s): Du Jin-Lian | Wang Song | Meng Xianhai
Distribución de tensiones en fachadas de azulejos sujetas a dilataciones térmicas

Author(s): Marrero, M. | Ramírez de Arellano, A. | Lucas Ruiz, R.
Sequencing of a QTL-rich region of the Theobroma cacao genome using pooled BACs and the identification of trait specific candidate genes

Author(s): Feltus Frank | Saski Christopher | Mockaitis Keithanne | Haiminen Niina | Parida Laxmi | Smith Zachary | Ford James | Staton Margaret | Ficklin Stephen | Blackmon Barbara | Cheng Chun-Huai | Schnell Raymond | Kuhn David | Motamayor Juan-Carlos
Breakpoint characterization of large deletions in EXT1 or EXT2 in 10 Multiple Osteochondromas families

Author(s): Jennes Ivy | de Jong Danielle | Mees Kirsten | Hogendoorn Pancras | Szuhai Karoly | Wuyts Wim
Analysis of the dynamics of limb transcriptomes during mouse development

Author(s): Gyurján Istvan | Sonderegger Bernhard | Naef Felix | Duboule Denis
Colección de listeles decorativos

Author(s): Boix, N. | Boix, E.
The 2-Transitive Transplantable Isospectral Drums

Author(s): Jeroen Schillewaert | Koen Thas
Identification and Role of Regulatory Non-Coding RNAs in Listeria monocytogenes

Author(s): Benjamin Izar | Mobarak Abu Mraheil | Torsten Hain
Probing genomic diversity and evolution of Streptococcus suis serotype 2 by NimbleGen tiling arrays

Author(s): Wu Zuowei | Li Ming | Wang Changjun | Li Jing | Lu Na | Zhang Ruifen | Jiang Yongqiang | Yang Ruifu | Liu Cuihua | Liao Hui | Gao George | Tang Jiaqi | Zhu Baoli
Transcriptome map of plant mitochondria reveals islands of unexpected transcribed regions

Author(s): Fujii Sota | Toda Takushi | Kikuchi Shunsuke | Suzuki Ryutaro | Yokoyama Koji | Tsuchida Hiroko | Yano Kentaro | Toriyama Kinya
Chromosome-wide mapping of DNA methylation patterns in normal and malignant prostate cells reveals pervasive methylation of gene-associated and conserved intergenic sequences

Author(s): Yegnasubramanian Srinivasan | Wu Zhijin | Haffner Michael | Esopi David | Aryee Martin | Badrinath Raghav | He Tony | Morgan James | Carvalho Benilton | Zheng Qizhi | De Marzo Angelo | Irizarry Rafael | Nelson William
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