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jfrs Chen [79 articles]

Senaste artiklarna i jfrs bibliotek av författaren Chen. Du kan också see andras Chen.
  • The complete genome of an individual by massively parallel DNA sequencing
    Nature, Vol. 452, No. 7189. (17 April 2008), pp. 872-876.
    by David A Wheeler, Maithreyan Srinivasan, Michael Egholm, Yufeng Shen, Lei Chen, Amy Mcguire, Wen He, Yi-Ju Chen, Vinod Makhijani, Thomas G Roth, Xavier Gomes, Karrie Tartaro, Faheem Niazi, Cynthia L Turcotte, Gerard P Irzyk, James R Lupski, Craig Chinault, Xing-Zhi Song, Yue Liu, Ye Yuan, Lynne Nazareth, Xiang Qin, Donna M Muzny, Marcel Margulies, George M Weinstock, Richard A Gibbs, Jonathan M Rothberg
  • Finding disease candidate genes by liquid association
    Genome Biology, Vol. 8 (04 October 2007), R205.
    by Ker-Chau Li, Aarno Palotie, Shinsheng Yuan, Denis Bronnikov, Daniel Chen, Xuelian Wei, Oi-Wa Choi, Janna Saarela, Leena Peltonen
    posted to methodology feature_selection by jfr on 2008-09-04 15:04:54 as ** along with 3 people Terkko rdiaz barriot
  • Normalization benefits microarray-based classification.
    EURASIP journal on bioinformatics & systems biology (2006)
    by J Hua, Y Balagurunathan, Y Chen, J Lowey, ML Bittner, Z Xiong, E Suh, ER Dougherty
    posted to two-color normalization comparison classification by jfr on 2008-09-04 14:07:50 as *
  • Gene expression patterns of human colon tops and basal crypts and BMP antagonists as intestinal stem cell niche factors.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 39. (25 September 2007), pp. 15418-15423.
    by C Kosinski, VS Li, AS Chan, J Zhang, C Ho, WY Tsui, TL Chan, RC Mifflin, DW Powell, ST Yuen, SY Leung, X Chen
    posted to stem_cell colon_cancer by jfr on 2008-09-03 16:21:45 as ****
  • Integrated genetic and epigenetic analysis identifies three different subclasses of colon cancer
    Proceedings of the National Academy of Sciences, Vol. 104, No. 47. (20 November 2007), pp. 18654-18659.
    by Lanlan Shen, Minoru Toyota, Yutaka Kondo, E Lin, Li Zhang, Yi Guo, Natalie S Hernandez, Xinli Chen, Saira Ahmed, Kazuo Konishi, Stanley R Hamilton, Jean-Pierre J Issa
  • Biomarker discovery for colon cancer using a 761 gene RT-PCR assay
    BMC Genomics, Vol. 8 (15 August 2007), 279.
    by Kim M Clark-Langone, Jenny Y Wu, Chithra Sangli, Angela Chen, James L Snable, Anhthu Nguyen, James R Hackett, Joffre Baker, Greg Yothers, Chungyeul Kim, Maureen T Cronin
    posted to classification colon_cancer rt-pcr by jfr on 2008-08-05 17:35:59 as **** along with 1 person jyuh
  • Variations in DNA elucidate molecular networks that cause disease
    Nature (16 March 2008)
    by Yanqing Chen, Jun Zhu, Pek Y Lum, Xia Yang, Shirly Pinto, Douglas J Macneil, Chunsheng Zhang, John Lamb, Stephen Edwards, Solveig K Sieberts, Amy Leonardson, Lawrence W Castellini, Susanna Wang, Marie-France Champy, Bin Zhang, Valur Emilsson, Sudheer Doss, Anatole Ghazalpour, Steve Horvath, Thomas A Drake, Aldons J Lusis, Eric E Schadt
  • A support vector machine approach for detecting gene-gene interaction.
    Genet Epidemiol (29 October 2007)
    by Shyh-Huei H Chen, Jielin Sun, Latchezar Dimitrov, Aubrey R R Turner, Tamara S S Adams, Deborah A A Meyers, Bao-Li L Chang, S Lilly L Zheng, Henrik Grönberg, Jianfeng Xu, Fang-Chi C Hsu
    posted to classification gene_interaction by jfr on 2008-08-05 17:29:08 as ** along with 1 person jyuh
  • MicroRNA-encoding long non-coding RNAs
    BMC Genomics, Vol. 9 (21 May 2008), 236.
    by Shunmin He, Hua Su, Changning Liu, Geir Skogerbo, Housheng He, Dandan He, Xiaopeng Zhu, Tao Liu, Yi Zhao, Runsheng Chen
    posted to mirna by jfr on 2008-08-05 14:22:56 as ** along with 3 people ealloza biozy daforerog
  • Convergence of mutation and epigenetic alterations identifies common genes in cancer that predict for poor prognosis.
    PLoS medicine, Vol. 5, No. 5. (27 May 2008)
    by TA Chan, S Glockner, JM Yi, W Chen, L Van Neste, L Cope, JG Herman, V Velculescu, KE Schuebel, N Ahuja, SB Baylin
    posted to can_genes methylation mutations by jfr on 2008-08-04 14:41:19 as ****
  • Cross-generation and cross-laboratory predictions of Affymetrix microarrays by rank-based methods.
    Journal of biomedical informatics, Vol. 41, No. 4. (August 2008), pp. 570-579.
    by HC Liu, CY Chen, YT Liu, CB Chu, DC Liang, LY Shih, CJ Lin
    posted to meta-analysis platform_comparison by jfr on 2008-07-17 14:05:53 as **
  • Real-time quantification of microRNAs by stem-loop RT-PCR.
    Nucleic Acids Res, Vol. 33, No. 20. (2005)
    by C Chen, DA Ridzon, AJ Broomer, Z Zhou, DH Lee, JT Nguyen, M Barbisin, NL Xu, VR Mahuvakar, MR Andersen, KQ Lao, KJ Livak, KJ Guegler
  • Discovering microRNAs from deep sequencing data using miRDeep
    Nature Biotechnology, Vol. 26, No. 4., pp. 407-415.
    by Marc R Friedländer, Wei Chen, Catherine Adamidi, Jonas Maaskola, Ralf Einspanier, Signe Knespel, Nikolaus Rajewsky
  • MPDA: Microarray pooled DNA analyzer
    BMC Bioinformatics, Vol. 9 (15 April 2008), 196.
    by Hsin-Chou Yang, Mei-Chu Huang, Ling-Hui Li, Chien-Hsing Lin, Alice LT Yu, Mitchell B Diccianni, Jer-Yuan Wu, Yuan-Tsong Chen, Cathy SJ Fann
    posted to pooling by jfr on 2008-06-17 17:22:51 as ** along with 1 person jyuh
  • Chromosomal breakpoints in primary colon cancer cluster at sites of structural variants in the genome.
    Cancer research, Vol. 68, No. 5. (1 March 2008), pp. 1284-1295.
    posted to colon_cancer copy-number by jfr on 2008-06-17 16:43:30 as read
  • Genome-wide mapping and characterization of hypomethylated sites in human tissues and breast cancer cell lines.
    Genome research, Vol. 18, No. 5. (May 2008), pp. 791-801.
    by YJ Shann, C Cheng, CH Chiao, DT Chen, PH Li, MT Hsu
    posted to methylation by jfr on 2008-06-17 11:55:48 as ** along with 1 person inesdesantiago
  • A genome-wide approach to identify genetic variants that contribute to etoposide-induced cytotoxicity.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 23. (5 June 2007), pp. 9758-9763.
    by RS Huang, S Duan, WK Bleibel, EO Kistner, W Zhang, TA Clark, TX Chen, AC Schweitzer, JE Blume, NJ Cox, ME Dolan
    posted to cnv exon_arrays snp-arrays treatment by jfr on 2008-06-11 09:23:54 as **
  • Comprehensive MicroRNA Profiling Reveals a Unique Human Embryonic Stem Cell Signature Dominated by a Single Seed Sequence
    Stem Cells (10 April 2008), 2007-1081.
    by Louise C Laurent, Jing Chen, Igor Ulitsky, Franz J Mueller, Christina Lu, Ron Shamir, Jian B Fan, Jeanne F Loring
    posted to mirna stem_cell by jfr on 2008-05-19 11:42:27 as **** along with 1 person and 1 group slevy03 VUMCGenomics
  • Transcriptional recapitulation and subversion of embryonic colon development by mouse colon tumor models and human colon cancer
    Genome Biology, Vol. 8 (05 July 2007), R131.
    by Sergio Kaiser, Young-Kyu Park, Jeffrey L Franklin, Richard B Halberg, Ming Yu, Walter J Jessen, Johannes Freudenberg, Xiaodi Chen, Kevin Haigis, Anil G Jegga, Sue Kong, Bhuvaneswari Sakthivel, Huan Xu, Timothy Reichling, Mohammad Azhar, Gregory P Boivin, Reade B Roberts, Anika Bissahoyo, Fausto Gonzales, Greg L Bloom, Stephen Eschrich, Scott L Carter, Jeremy E Aronow, John Kleimeyer, Michael Kleimeyer, Vivek Ramaswamy, Stephen H Settle, Braden Boone, Shawn Levy, Jonathan M Graff, Thomas Doetschman, Joanna Groden, William F Dove, David W Threadgill, Timothy J Yeatman, Robert J Coffey, Bruce J Aronow
  • Discriminating single-base difference miRNA expressions using microarray Probe Design Guru (ProDeG)
    Nucl. Acids Res., Vol. 36, No. 5. (1 March 2008), e27.
    by Inhan Lee, Subramanian S Ajay, Haiming Chen, Atsushi Maruyama, Nulang Wang, Melvin G Mcinnis, Brian D Athey
    posted to microarray_technology mirna probe_design by jfr on 2008-04-23 13:16:30 as ** along with 1 person jyuh
  • Interlaboratory evaluation of genomic signatures for predicting carcinogenicity in the rat.
    Toxicological sciences : an official journal of the Society of Toxicology, Vol. 103, No. 1. (May 2008), pp. 28-34.
    by MR Fielden, A Nie, M McMillian, CS Elangbam, BA Trela, Y Yang, RT Dunn, Y Dragan, R Fransson-Stehen, M Bogdanffy, SP Adams, WR Foster, SJ Chen, P Rossi, P Kasper, D Jacobson-Kram, KS Tatsuoka, PJ Wier, J Gollub, DN Halbert, A Roter, JK Young, JF Sina, J Marlowe, HJ Martus, J Aubrecht, AJ Olaharski, N Roome, P Nioi, I Pardo, R Snyder, R Perry, P Lord, W Mattes, BD Car, ,
  • Characterization of microRNA expression profiles in normal human tissues
    BMC Genomics, Vol. 8 (12 June 2007), 166.
    by Yu Liang, Dana Ridzon, Linda Wong, Caifu Chen
  • Characterization of microRNA expression levels and their biological correlates in human cancer cell lines.
    Cancer Res, Vol. 67, No. 6. (15 March 2007), pp. 2456-2468.
    by A Gaur, DA Jewell, Y Liang, D Ridzon, JH Moore, C Chen, VR Ambros, MA Israel
    posted to mirna nci60 by jfr on 2008-04-21 09:12:26 as **** along with 2 people and 1 group ealloza elzodw BioinfoCIPF
  • Natural selection on human microRNA binding sites inferred from SNP data.
    Nat Genet (29 October 2006)
    by Kevin Chen, Nikolaus Rajewsky
  • Multiple testing in the genomics era: findings from Genetic Analysis Workshop 15, Group 15.
    Genetic epidemiology, Vol. 31 Suppl 1 (2007)
    by LJ Martin, JG Woo, CL Avery, HS Chen, KE North, K Au, P Broët, C Dalmasso, M Guedj, P Holmans, B Huang, PH Kuo, AC Lam, H Li, A Manning, I Nikolov, R Sinha, J Shi, K Song, M Tabangin, R Tang, R Yamada
    posted to multiple_testing review by jfr on 2008-04-09 14:42:59 as **
  • 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 **
  • A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array
    BMC Bioinformatics, Vol. 8 (03 May 2007), 145.
    by Tianwei Yu, Hui Ye, Wei Sun, Ker-Chau Li, Zugen Chen, Sharoni Jacobs, Dione K Bailey, David T Wong, Xiaofeng Zhou
    posted to copy-number methodology software by jfr on 2008-02-13 13:59:51 as read along with 2 people Ayest rdiaz
  • CARAT: a novel method for allelic detection of DNA copy number changes using high density oligonucleotide arrays.
    BMC Bioinformatics, Vol. 7 (2006)
    by J Huang, W Wei, J Chen, J Zhang, G Liu, X Di, R Mei, S Ishikawa, H Aburatani, KW Jones, MH Shapero
  • An integrated view of copy number and allelic alterations in the cancer genome using single nucleotide polymorphism arrays.
    Cancer Res, Vol. 64, No. 9. (1 May 2004), pp. 3060-3071.
    by X Zhao, C Li, JG Paez, K Chin, PA Jänne, TH Chen, L Girard, J Minna, D Christiani, C Leo, JW Gray, WR Sellers, M Meyerson
    posted to colon_cancer copy-number snp-arrays by jfr on 2008-02-12 16:52:41 as ** along with 2 people pcahan1 rdiaz
  • A Gene Expression Signature of Genetic Instability in Colon Cancer
    Cancer Res, Vol. 65, No. 20. (15 October 2005), pp. 9200-9205.
    by Craig P Giacomini, Suet Y Leung, Xin Chen, Siu T Yuen, Young H Kim, Eric Bair, Jonathan R Pollack
    posted to colon_cancer gene_expression msi by jfr on 2008-02-11 11:59:18 as read along with 2 people jen_drake cpnP
  • Influence of age on adenomatous polyposis coli and p53 mutation frequency in sporadic colorectal cancer-rarity of co-occurrence of mutations in APC, K-ras, and p53 genes.
    Virchows Arch, Vol. 445, No. 5. (November 2004), pp. 465-471.
    by JM Chiang, YH Wu Chou, SC Ma, JR Chen
    posted to colon_cancer mutations progression by jfr on 2008-02-08 14:10:41 as ****
  • Discovery of tissue-specific exons using comprehensive human exon microarrays
    Genome Biology, Vol. 8 (24 April 2007), R64.
    by Tyson A Clark, Anthony C Schweitzer, Tina X Chen, Michelle K Staples, Gang Lu, Hui Wang, Alan Williams, John E Blume
    posted to alternative_splicing exon_arrays by jfr on 2008-02-06 13:05:59 as read along with 2 people jyuh ajgentles
  • Reproducibility of microarray data: a further analysis of microarray quality control (MAQC)data
    BMC Bioinformatics, Vol. 8 (25 October 2007), 412.
    by James Chen, Huey-Miin Hsueh, Robert Delongchamp, Chien-Ju Lin, Chen-An Tsai
  • Model-based Analysis of 2-Color Arrays (MA2C)
    Genome Biology, Vol. 8 (29 August 2007), R178.
    by Jun S Song, Evan W Johnson, Xiaopeng Zhu, Xinmin Zhang, Wei Li, Arjun K Manrai, Jun S Liu, Runsheng Chen, Shirley X Liu
    posted to normalization tiling_array two-color by jfr on 2008-02-04 13:34:47 as * along with 1 person caseybrown
  • A statistical method to incorporate biological knowledge for generating testable novel gene regulatory interactions from microarray experiments
    BMC Bioinformatics, Vol. 8 (29 August 2007), 317.
    by Peter Larsen, Eyad Almasri, Guanrao Chen, Yang Dai
    posted to gene_interaction regulation by jfr on 2008-02-04 13:33:13 as **** along with 2 people jyuh shigepong
  • Integrated analysis of independent gene expression microarray datasets improves the predictability of breast cancer outcome
    BMC Genomics, Vol. 8 (20 September 2007), 331.
    by Zhe Zhang, Dechang Chen, David A Fenstermacher
    posted to breast_cancer classification integration by jfr on 2008-02-04 09:31:53 as read
  • Modular organization of protein interaction networks.
    Bioinformatics (8 November 2006)
    by Feng Luo, Yunfeng Yang, Chin-Fu F Chen, Roger Chang, Jizhong Zhou, Richard H H Scheuermann
  • Detecting functional modules in the yeast proteinprotein interaction network
    Bioinformatics, Vol. 22, No. 18. (15 September 2006), pp. 2283-2290.
  • AILUN: reannotating gene expression data automatically
    Nat Meth, Vol. 4, No. 11. (November 2007), pp. 879-879.
    by Rong Chen, Li Li, Atul J Butte
  • Derivation of stable microarray cancer-differentiating signatures using consensus scoring of multiple random sampling and gene-ranking consistency evaluation.
    Cancer Res, Vol. 67, No. 20. (15 October 2007), pp. 9996-10003.
    by ZQ Tang, LY Han, HH Lin, J Cui, J Jia, BC Low, BW Li, YZ Chen
    posted to classification by jfr on 2007-12-17 12:18:14 as *** along with 1 person ptrobajo
  • Paired-End Mapping Reveals Extensive Structural Variation in the Human Genome.
    Science (27 September 2007)
    by Jan O O Korbel, Alexander Eckehart E Urban, Jason P P Affourtit, Brian Godwin, Fabian Grubert, Jan Fredrik F Simons, Philip M M Kim, Dean Palejev, Nicholas J J Carriero, Lei Du, Bruce E E Taillon, Zhoutao Chen, Andrea Tanzer, A C Eugenia C Saunders, Jianxiang Chi, Fengtang Yang, Nigel P P Carter, Matthew E E Hurles, Sherman M M Weissman, Timothy T T Harkins, Mark B B Gerstein, Michael Egholm, Michael Snyder
  • Comparing the DNA hypermethylome with gene mutations in human colorectal cancer.
    PLoS Genet, Vol. 3, No. 9. (21 September 2007), pp. 1709-1723.
    by KE Schuebel, W Chen, L Cope, SC Glöckner, H Suzuki, JM Yi, TA Chan, L Van Neste, W Van Criekinge, S van den Bosch, M van Engeland, AH Ting, K Jair, W Yu, M Toyota, K Imai, N Ahuja, JG Herman, SB Baylin
    posted to colon_cancer methylation by jfr on 2007-12-07 13:10:48 as ****
  • A multiple kernel support vector machine scheme for feature selection and rule extraction from gene expression data of cancer tissue.
    Artif Intell Med, Vol. 41, No. 2. (October 2007), pp. 161-175.
    by Z Chen, J Li, L Wei
    posted to classification feature_selection by jfr on 2007-12-06 11:54:47 as * along with 1 person jyuh
  • VisANT 3.0: new modules for pathway visualization, editing, prediction and construction.
    Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007)
    by Z Hu, DM Ng, T Yamada, C Chen, S Kawashima, J Mellor, B Linghu, M Kanehisa, JM Stuart, C DeLisi
    posted to database pathway_analysis by jfr on 2007-12-04 12:02:00 as ** along with 1 person AlexanderPico
  • Machine Learning and Its Applications to Biology.
    PLoS Comput Biol, Vol. 3, No. 6. (29 June 2007)
    by Adi L L Tarca, Vincent J J Carey, Xue-Wen W Chen, Roberto Romero, Sorin Drăghici
  • Cross-platform comparability of microarray technology: Intra-platform consistency and appropriate data analysis procedures are essential
    BMC Bioinformatics, Vol. 6, No. Suppl 2. (2005)
    by Leming Shi, Weida Tong, Hong Fang, Uwe Scherf, Jing Han, Raj Puri, Felix Frueh, Federico Goodsaid, Lei Guo, Zhenqiang Su, Tao Han, James Fuscoe, Alex Z Xu, Tucker Patterson, Huixiao Hong, Qian Xie, Roger Perkins, James Chen, Daniel Casciano
    posted to maqc quality_control by jfr on 2007-11-23 15:36:43 as ** along with 1 person cberry
  • Identification of a robust gene signature that predicts breast cancer outcome in independent data sets
    BMC Cancer, Vol. 7 (11 April 2007), 61.
    by James E Korkola, Ekatarina Blaveri, Sandy Devries, Dan H Moore, Shelley, Yunn-Yi Chen, Anne LH Estep, Karen L Chew, Ron Jensen, Frederic M Waldman
    posted to breast_cancer classification by jfr on 2007-10-08 14:55:56 as ****
  • Allelotyping of pooled DNA with 250K SNP microarrays
    BMC Genomics, Vol. 8 (16 March 2007), 77.
    by Stefan Wilkening, Bowang Chen, Michael Wirtenberger, Barbara Burwinkel, Asta Forsti, Kari Hemminki, Federico Canzian
    posted to snp-arrays by jfr on 2007-09-13 11:31:02 as ** along with 2 people jyuh cpnP
  • A search engine to identify pathway genes from expression data on multiple organisms
    BMC Systems Biology, Vol. 1, No. 1. (2007)
    by Chunnuan Chen, Matthew Weirauch, Corey Powell, Alexander Zambon, Joshua Stuart
  • A New Method to Measure the Semantic Similarity of GO Terms.
    Bioinformatics (7 March 2007)
    by James Z Z Wang, Zhidian Du, Rapeeporn Payattakool, Philip S S Yu, Chin-Fu F Chen
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