rdiaz's integration [50 articles] Export

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

	Detailing regulatory networks through large scale data integration [My Copy] Bioinformatics (13 October 2009), btp588. by Curtis Huttenhower, K. Tsheko Mutungu, Natasha Indik, et al.Woongcheol Yang, Mark Schroeder, Joshua J. Forman, Olga G. Troyanskaya, Hilary A. Coller posted to software network integration expression biclustering by rdiaz on 2009-10-15 18:37:28 as along with 4 people aaron_webber zufar ptrobajo frohike
	STARNET 2: a web-based tool for accelerating discovery of gene regulatory networks using microarray co-expression data. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 332. by Daniel Jupiter, Hailin Chen, Vincent VanBuren posted to visualization software network integration coexpression by rdiaz on 2009-10-15 18:34:42 as along with 5 people and 1 group sillitoe rcr1991 trogdor druvus torfinnnome Orengo Group Journal Picks
	Oncogene Mutations, Copy Number Gains and Mutant Allele Specific Imbalance (MASI) Frequently Occur Together in Tumor Cells [My Copy] PLoS ONE, Vol. 4, No. 10. (14 October 2009), e7464. by Junichi Soh, Naoki Okumura, William W. Lockwood, et al.Hiromasa Yamamoto, Hisayuki Shigematsu, Wei Zhang, Raj Chari, David S. Shames, Ximing Tang, Calum MacAulay, Marileila Varella-Garcia, Tõnu Vooder, Ignacio I. Wistuba, Stephen Lam, Rolf Brekken, Shinichi Toyooka, John D. Minna, Wan L. Lam, Adi F. Gazdar posted to tumor metastasis integration cnv by rdiaz on 2009-10-15 18:29:34 as
	Integrated Analysis of Copy Number Alterations and Gene Expression: A Bivariate Assessment of Equally Directed Abnormalities [My Copy] Bioinformatics (14 October 2009), btp592. by Martin Schafer, Holger Schwender, Sylvia Merk, Claudia Haferlach, Katja Ickstadt, Martin Dugas posted to integration expression cnv cgh by rdiaz on 2009-10-15 16:56:24 as
	Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms. [My Copy] Proc Natl Acad Sci U S A, Vol. 100, No. 6. (18 March 2003), pp. 3351-3356. by Orly Alter, Patrick O. Brown, David Botstein posted to svd matrix integration expression by rdiaz on 2009-10-01 16:25:10 as along with 3 people lptolik opheliav wnpx
	Integration of heterogeneous expression data sets extends the role of the retinol pathway in diabetes and insulin resistance. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 23. (1 December 2009), pp. 3121-3127. by Peter J. Park, Sek Won W. Kong, Toma Tebaldi, Weil R. Lai, Simon Kasif, Isaac S. Kohane posted to meta-analysis integration expression by rdiaz on 2009-10-01 09:52:49 as along with 4 people guhjy kshameer ptrobajo thomaskelder
	Identification of interactive networks of gene expression associated with osteosarcoma oncogenesis by integrated molecular profiling [My Copy] Hum. Mol. Genet., Vol. 18, No. 11. (1 June 2009), pp. 1962-1975. by Bekim Sadikovic, Maisa Yoshimoto, Susan Chilton-MacNeill, Paul Thorner, Jeremy A. Squire, Maria Zielenska posted to network methylation integration expression epigenomics cnv by rdiaz on 2009-09-28 16:48:08 as
	High-resolution analysis of copy number alterations and associated expression changes in ovarian tumors. [My Copy] BMC medical genomics, Vol. 2 (2009) by Peter M. Haverty, Lawrence S. Hon, Joshua S. Kaminker, John Chant, Zemin Zhang posted to region recurrent integration expression common cnv by rdiaz on 2009-09-28 16:05:00 as along with 2 people jfr daed
	Identification of differentially expressed subnetworks based on multivariate ANOVA [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (30 April 2009), 128. by Taeyoung Hwang, Taesung Park posted to protein network interaction integration expression anova by rdiaz on 2009-09-28 15:35:33 as along with 6 people and 1 group guhjy lwaldron TRHvidsten grahamc renatomilani erexhepa Bioinformatics
	A multi-dimensional evidence-based candidate gene prioritization approach for complex diseases-schizophrenia as a case [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2595-6602. by Jingchun Sun, Peilin Jia, Ayman H. Fanous, et al.Bradley T. Webb, Edwin J. C. G. van den Oord, Xiangning Chen, Jozsef Bukszar, Kenneth S. Kendler, Zhongming Zhao posted to selection priorization integration gene expression by rdiaz on 2009-09-28 11:06:52 as along with 4 people jlike natstreet daforerog guhjy
	Patterns of Gene Expression and Copy-Number Alterations in von-Hippel Lindau Disease-Associated and Sporadic Clear Cell Carcinoma of the Kidney [My Copy] Cancer Res, Vol. 69, No. 11. (1 June 2009), pp. 4674-4681. by Rameen Beroukhim, Jean-Philippe Brunet, Arianna Di Napoli, et al.Kirsten D. Mertz, Apryle Seeley, Maira M. Pires, David Linhart, Robert A. Worrell, Holger Moch, Mark A. Rubin, William R. Sellers, Matthew Meyerson, W. Marston Linehan, William G. Kaelin, Sabina Signoretti posted to integration expression example cnv by rdiaz on 2009-09-23 17:38:34 as
	Integrative clustering of multiple genomic data types using a joint latent variable model with application to breast and lung cancer subtype analysis [My Copy] Bioinformatics, Vol. 25, No. 22. (15 November 2009), pp. 2906-2912. by Ronglai Shen, Adam B. Olshen, Marc Ladanyi posted to integrative integration expression cnv cluster cgh by rdiaz on 2009-09-17 11:19:37 as along with 1 person dswan
	Extensions of sparse canonical correlation analysis with applications to genomic data. [My Copy] Statistical applications in genetics and molecular biology, Vol. 8, No. 1. (2009) by Daniela M. Witten, Robert J. Tibshirani posted to snp integration expression coexpression cnv by rdiaz on 2009-09-15 16:55:10 as
	Integrated study of copy number states and genotype calls using high-density SNP arrays [My Copy] Nucl. Acids Res., Vol. 37, No. 16. (1 September 2009), pp. 5365-5377. by Wei Sun, Fred A. Wright, Zhengzheng Tang, et al.Silje H. Nordgard, Peter V. Loo, Tianwei Yu, Vessela N. Kristensen, Charles M. Perou posted to snp integration cnv by rdiaz on 2009-09-09 16:28:41 as along with 1 person and 1 group daed Journal picks
	A Systems Biology-Based Gene Expression Classifier of Glioblastoma Predicts Survival with Solid Tumors [My Copy] PLoS ONE, Vol. 4, No. 7. (17 July 2009), e6274. by Jing Zhang, Bing Liu, Xingpeng Jiang, et al.Huizhi Zhao, Ming Fan, Zhenjie Fan, Jack J. Lee, Tao Jiang, Tianzi Jiang, Sonya W. Song posted to network integration expression classification by rdiaz on 2009-09-08 17:28:42 as along with 2 people aezrin VGreiff
	integrOmics: an R package to unravel relationships between two omics datasets [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2855-2856. by Kim-Anh Le Cao, Ignacio Gonzalez, Sebastien Dejean posted to software integration expression by rdiaz on 2009-09-08 10:55:11 as along with 17 people and 1 group molnet-mna jperkins tonamswish dswan mayercd operon kshameer heliopais dolchan nuin ptrobajo sebastien_vigneau cassj brianb neils natstreet druvus Orengo Group Journal Picks
	Correlating gene and protein expression data using Correlated Factor Analysis [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (01 September 2009), 272. by Chuen S. Tan, Agus Salim, Alexander Ploner, Janne Lehtio, Kee S. Chia, Yudi Pawitan posted to proteomics integration expression cnv by rdiaz on 2009-09-07 11:48:59 as along with 4 people mayercd ptrobajo coffeerv phoenixzxl
	Copy number variation influences gene expression and metabolic traits in mice. [My Copy] Human molecular genetics (31 July 2009), ddp360. by Luz D. Orozco, Shawn J. Cokus, Anatole Ghazalpour, et al.Leslie Ingram-Drake, Susanna Wang, Atila van Nas, Nam Che, Jesus A. Araujo, Matteo Pellegrini, Aldons J. Lusis posted to integration expression cnv causality by rdiaz on 2009-08-18 16:57:59 as along with 2 people memerman pkonings
	Acquired copy number alterations in adult acute myeloid leukemia genomes [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 31. (4 August 2009), pp. 12950-12955. by Matthew J. Walter, Jacqueline E. Payton, Rhonda E. Ries, et al.William D. Shannon, Hrishikesh Deshmukh, Yu Zhao, Jack Baty, Sharon Heath, Peter Westervelt, Mark A. Watson, Michael H. Tomasson, Rakesh Nagarajan, Brian P. O'Gara, Clara D. Bloomfield, Krzysztof Mrózek, Rebecca R. Selzer, Todd A. Richmond, Jacob Kitzman, Joel Geoghegan, Peggy S. Eis, Rachel Maupin, Robert S. Fulton, Michael Mclellan, Richard K. Wilson, Elaine R. Mardis, Daniel C. Link, Timothy A. Graubert, John F. Dipersio, Timothy J. Ley posted to region recurrent integration expression cnv by rdiaz on 2009-08-18 16:17:34 as along with 1 person frohike
	GWAS meets microarray: are the results of genome-wide association studies and gene-expression profiling consistent? Prostate cancer as an example. [My Copy] PloS one, Vol. 4, No. 8. (4 August 2009), e6511. by Ivan P. Gorlov, Gary E. Gallick, Olga Y. Gorlova, Christopher Amos, Christopher J. Logothetis posted to integration gwas gene expression example by rdiaz on 2009-08-18 15:43:41 as along with 8 people and 1 group Zephyrus daforerog pkonings frohike kimorley brianb kshameer neils Journal picks
	Jointly analyzing gene expression and copy number data in breast cancer using data reduction models. [My Copy] IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM, Vol. 3, No. 1. (January 2006), pp. 2-16. by John A. Berger, Sampsa Hautaniemi, Sanjit K. Mitra, Jaakko Astola posted to cnv expression integration by rdiaz on 2009-07-30 16:49:54 as along with 1 person aviad_work
	Integrated analysis of DNA copy number and gene expression microarray data using gene sets [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (29 June 2009), 203. by Renee Menezes, Marten Boetzer, Melle Sieswerda, Gert J. van Ommen, Judith Boer posted to cgh cnv expression integration by rdiaz on 2009-07-20 14:30:54 as along with 8 people and 1 group daed zufar ptrobajo dswan guhjy lwaldron shikin barriot Bioinformatics
	A computational procedure to identify significant overlap of differentially expressed and genomic imbalanced regions in cancer datasets. [My Copy] Nucleic acids research, Vol. 37, No. 15. (1 August 2009), pp. 5057-5070. by Silvio Bicciato, Roberta Spinelli, Mattia Zampieri, et al.Eleonora Mangano, Francesco Ferrari, Luca Beltrame, Ingrid Cifola, Clelia Peano, Aldo Solari, Cristina Battaglia posted to acgh cnv expression integration by rdiaz on 2009-06-29 15:17:30 as along with 1 person frohike
	Data integration from two microarray platforms identifies bi-allelic genetic inactivation of RIC8A in a breast cancer cell line. [My Copy] BMC medical genomics, Vol. 2 (2009) by Aslaug Aamodt A. Muggerud, Henrik Edgren, Maija Wolf, et al.Kristine Kleivi, Emelyne Dejeux, Jörg Tost, Therese Sørlie, Olli Kallioniemi posted to acgh cnv expression integration methylation mutation by rdiaz on 2009-05-26 12:23:36 as along with 1 person giovenko
	Joint Analysis of DNA Copy Numbers and Gene Expression Levels [My Copy] Algorithms in Bioinformatics (2004), pp. 135-146. by Doron Lipson, Amir Ben-Dor, Elinor Dehan, Zohar Yakhini posted to acgh cnv expression integration by rdiaz on 2009-04-28 15:02:11 as
	The impact of copy number variation on local gene expression in mouse hematopoietic stem and progenitor cells. [My Copy] Nature genetics (8 March 2009) by Patrick Cahan, Yedda Li, Masayo Izumi, Timothy A A. Graubert posted to cgh cnv expression integration by rdiaz on 2009-04-23 15:09:10 as along with 5 people psique shikin fenghezi djkt jdbowes
	Regional copy number–independent deregulation of transcription in cancer [My Copy] Nature Genetics, Vol. 38, No. 12. (12 November 2006), pp. 1386-1396. by Nicolas Stransky, Céline Vallot, Fabien Reyal, et al.Isabelle Bernard-Pierrot, Sixtina, Rick Segraves, Yann de Rycke, Paul Elvin, Andrew Cassidy, Carolyn Spraggon, Alexander Graham, Jennifer Southgate, Bernard Asselain, Yves Allory, Claude C. Abbou, Donna G. Albertson, Jean P. Thiery, Dominique K. Chopin, Daniel Pinkel, François Radvanyi posted to acgh cnv expression integration by rdiaz on 2009-04-22 16:32:32 as along with 3 people jfr shigepong bioyang
	Identification of potential driver genes in human liver carcinoma by genomewide screening. [My Copy] Cancer research, Vol. 69, No. 9. (1 May 2009), pp. 4059-4066. by Hyun Goo G. Woo, Eun Sung S. Park, Ju-Seog S. Lee, et al.Yun-Han H. Lee, Tsuyoshi Ishikawa, Yoon Jun J. Kim, Snorri S. Thorgeirsson posted to cgh cnv expression integration by rdiaz on 2009-04-17 17:30:18 as
	Exploring Clinical Associations Using ‘-Omics’ Based Enrichment Analyses [My Copy] PLoS ONE, Vol. 4, No. 4. (13 April 2009), e5203. by David A. Hanauer, Daniel R. Rhodes, Arul M. Chinnaiyan posted to clinical gsea integration omics by rdiaz on 2009-04-17 16:57:05 as
	Data structures and algorithms for analysis of genetics of gene expression with Bioconductor: GGtools 3.x [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1447-1448. by Vincent J. Carey, Adam R. Davis, Michael F. Lawrence, Robert Gentleman, Benjamin A. Raby posted to software snp integration expression bioconductor by rdiaz on 2009-04-14 12:47:32 as along with 6 people jfr guhjy druvus nuin djkt giovanni
	Association of survival and disease progression with chromosomal instability: A genomic exploration of colorectal cancer [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 17. (28 April 2009), pp. 7131-7136. by Michal Sheffer, Manny D. Bacolod, Or Zuk, et al.Sarah F. Giardina, Hanna Pincas, Francis Barany, Philip B. Paty, William L. Gerald, Daniel A. Notterman, Eytan Domany posted to survival snp integration instability expression cnv chromosomal by rdiaz on 2009-04-14 11:32:37 as along with 2 people jfr kdpreter
	Integrating chromosomal aberrations and gene expression profiles to dissect rectal tumorigenesis [My Copy] BMC Cancer, Vol. 8, No. 1. (2008), 314. by Esther Lips, Ronald van Eijk, Eelco de Graaf, et al.Jan Oosting, Noel de Miranda, Tom Karsten, Cornelis van de Velde, Paul Eilers, Rob Tollenaar, Tom van Wezel, Hans Morreau posted to acgh classification cnv expression integration by rdiaz on 2009-04-02 14:29:21 as along with 7 people dolchan zufar tvanwezel jfr imina ealloza frohike
	Genetic regulators of large-scale transcriptional signatures in cancer. [My Copy] Nature genetics, Vol. 38, No. 4. (05 April 2006), pp. 421-430. by Adam S. Adler, Meihong Lin, Hugo Horlings, Dimitry S. Nuyten, Marc J. van de Vijver, Howard Y. Chang posted to acgh cgh expression integration by rdiaz on 2009-04-02 14:26:05 as along with 6 people huiminC jfr tuck ccots Ao_Li2007 oelemento
	Copy number alterations that predict metastatic capability of human breast cancer. [My Copy] Cancer research, Vol. 69, No. 9. (1 May 2009), pp. 3795-3801. by Yi Zhang, John W. Martens, Jack X. Yu, et al.John Jiang, Anieta M. Sieuwerts, Marcel Smid, Jan G. Klijn, Yixin Wang, John A. Foekens posted to acgh classification cnv expression integration prediction by rdiaz on 2009-04-02 14:25:45 as along with 4 people jfr giovenko frohike kdpreter
	Gene expression modulation is associated with gene amplification, supernumerary chromosomes and chromosome loss in antimony-resistant Leishmania infantum [My Copy] Nucl. Acids Res. (7 January 2009), gkn1069. by Philippe Leprohon, Danielle Legare, Frederic Raymond, et al.Eric Madore, Gary Hardiman, Jacques Corbeil, Marc Ouellette posted to cgh expression gene integration by rdiaz on 2009-03-23 17:36:25 as
	Gene-Disease Relationship Discovery based on Model-driven Data Integration and Database View Definition [My Copy] Bioinformatics (27 November 2008), btn612. by S. Yilmaz, P. Jonveaux, C. Bicep, L. Pierron, M. Smail-Tabbone, M. D. Devignes posted to disease expression go integration by rdiaz on 2009-03-23 16:52:23 as along with 5 people jfr imina mitko guhjy pkonings
	Integration of gene expression and gene copy number variations with independent component analysis. [My Copy] Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, Vol. 2008 (2008), pp. 5700-5703. by Y. P. Wang posted to cnv expression integration by rdiaz on 2009-03-23 15:37:34 as
	Simultaneous analysis of distinct Omics data sets with integration of biological knowledge: Multiple Factor Analysis approach [My Copy] BMC Genomics, Vol. 10, No. 1. (20 January 2009), 32. by Marie de Tayrac, Sebastien Le, Marc Aubry, Jean Mosser, Francois Husson posted to cnv expression genomic go integration by rdiaz on 2009-03-23 15:08:44 as along with 4 people mayercd sotacam guhjy lptolik
	A Primer on Regression Methods for Decoding cis-Regulatory Logic [My Copy] PLoS Comput Biol, Vol. 5, No. 1. (30 January 2009), e1000269. by Debopriya Das, Matteo Pellegrini, Joe W. Gray posted to cgh cis cnv expression integration regulation review by rdiaz on 2009-03-23 12:05:52 as along with 12 people Zephyrus orzenil daforerog TRHvidsten jfr natstreet druvus Borelli rdowell dolchan xinhe2 WanderingAengus
	Using Network Component Analysis to Dissect Regulatory Networks Mediated by Transcription Factors in Yeast [My Copy] PLoS Comput Biol, Vol. 5, No. 3. (20 March 2009), e1000311. by Chun Ye, Simon J. Galbraith, James C. Liao, Eleazar Eskin posted to cnv expression integration network by rdiaz on 2009-03-23 09:36:27 as along with 5 people TRHvidsten svenrahmann dolchan idonaldson roys
	Human genetic variation and its contribution to complex traits. [My Copy] Nature reviews. Genetics, Vol. 10, No. 4. (01 April 2009), pp. 241-251. by Kelly A. Frazer, Sarah S. Murray, Nicholas J. Schork, Eric J. Topol posted to cnv genetic heterogeneity integration review snp variation by rdiaz on 2009-03-18 13:57:41 as along with 18 people and 1 group ongenetics PabloMarin songpku guhjy ilyashl roys JoeSabatini pkonings Zephyrus jbhiatt daforerog welliegirl dbk psique zufar misonneh fenghezi dchughes Roswell Cancer Crosstalk
	Segmental copy number variation shapes tissue transcriptomes. [My Copy] Nature genetics (8 March 2009) by Charlotte N N. Henrichsen, Nicolas Vinckenbosch, Sebastian Zöllner, et al.Evelyne Chaignat, Sylvain Pradervand, Frédéric Schütz, Manuel Ruedi, Henrik Kaessmann, Alexandre Reymond posted to cnv expression integration by rdiaz on 2009-03-17 16:17:38 as along with 11 people leemachado stubrown absterga lwaldron psique bertrandservin fenghezi megraw djkt daforerog buyske
	Allegro: Analyzing expression and sequence in concert to discover regulatory programs [My Copy] Nucl. Acids Res., Vol. 37, No. 5. (1 April 2009), pp. 1566-1579. by Yonit Halperin, Chaim Linhart, Igor Ulitsky, Ron Shamir posted to coexpression coregulation integration mirna network rnai by rdiaz on 2009-03-17 14:17:55 as along with 3 people roys akshayk nuin
	Query large scale microarray compendium datasets using a model-based bayesian approach with variable selection. [My Copy] PloS one, Vol. 4, No. 2. (13 February 2009), e4495. by Ming Hu, Zhaohui S. Qin posted to coexpression correlation integration by rdiaz on 2009-02-19 12:18:45 as along with 2 people guhjy vmedina09
	Perceiving molecular evolution processes in Escherichia coli by comprehensive metabolite and gene expression profiling [My Copy] Genome Biology, Vol. 9, No. 4. (2008) by Chandran Vijayendran, Aiko Barsch, Karl Friehs, Karsten Niehaus, Anke Becker, Erwin Flaschel posted to cnv expression integration integrative by rdiaz on 2009-02-19 09:31:53 as along with 2 people biomcgary tonia_schwartz
	Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data [My Copy] The Plant Journal, Vol. 0, No. 0. (0), pp. ???-???. by Max Bylesjo, Daniel Eriksson, Miyako Kusano, Thomas Moritz, Johan Trygg posted to classification cnv expression integration by rdiaz on 2009-02-19 09:30:58 as along with 1 person natstreet
	Sparse canonical methods for biological data integration: application to a cross-platform study. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009) by Kim-Anh A. Lê Cao, Pascal G. Martin, Christèle Robert-Granié, Philippe Besse posted to cgh integration integrative by rdiaz on 2009-02-18 15:32:27 as along with 7 people mayercd jlorent ptrobajo jfr guhjy jmeppley druvus
	A sparse PLS for variable selection when integrating omics data. [My Copy] Statistical applications in genetics and molecular biology, Vol. 7 (2008) by K. A. Lê Cao, D. Rossouw, C. Robert-Granié, P. Besse posted to classification cnv expression integration pls by rdiaz on 2009-02-18 15:29:53 as along with 1 person guhjy
	Investigating the correspondence between transcriptomic and proteomic expression profiles using coupled cluster models [My Copy] Bioinformatics, Vol. 24, No. 24. (15 December 2008), pp. 2894-2900. by Simon Rogers, Mark Girolami, Walter Kolch, et al.Katrina M. Waters, Tao Liu, Brian Thrall, H. Steven Wiley posted to cgh cnv expression integration integrative by rdiaz on 2008-11-21 12:18:24 as along with 9 people donalddunbar TRHvidsten jfr mpitman dswan ptrobajo allysonlister sjcockell guhjy
	Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel. [My Copy] Mol Cancer Ther, Vol. 5, No. 4. (April 2006), pp. 853-867. by K. J. Bussey, K. Chin, S. Lababidi, et al.M. Reimers, W. C. Reinhold, W. L. Kuo, F. Gwadry, Ajay, H. Kouros-Mehr, J. Fridlyand, A. Jain, C. Collins, S. Nishizuka, G. Tonon, A. Roschke, K. Gehlhaus, I. Kirsch, D. A. Scudiero, J. W. Gray, J. N. Weinstein posted to acgh cnv expression integration nci60 by rdiaz on 2007-03-02 16:08:06 as along with 2 people jfr bioguru2000

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