jfr's library 2831 articles Export

	Predictive signatures for chemotherapy sensitivity in breast cancer: are they ready for use in the clinic? [My Copy] European journal of cancer (Oxford, England : 1990), Vol. 45, No. 10. (July 2009), pp. 1733-1743. by Hervé Bonnefoi, Craig Underhill, Richard Iggo, David Cameron posted to review gene_expression classification chemotherapy breast_cancer by jfr on 2009-11-20 14:14:30 as
	A HUPO test sample study reveals common problems in mass spectrometry-based proteomics. [My Copy] Nature methods, Vol. 6, No. 6. (17 June 2009), pp. 423-430. by Alexander W. Bell, Eric W. Deutsch, Catherine E. Au, et al.Robert E. Kearney, Ron Beavis, Salvatore Sechi, Tommy Nilsson, John J. Bergeron, HUPO Test Sample Working Group posted to proteomics inter-laboratory comparison by jfr on 2009-11-20 14:03:37 as along with 4 people guhjy fenghezi leliavski brianb
	Validation of gene signatures that predict the response of breast cancer to neoadjuvant chemotherapy: a substudy of the EORTC 10994/BIG 00-01 clinical trial. [My Copy] The lancet oncology, Vol. 8, No. 12. (December 2007), pp. 1071-1078. by Hervé Bonnefoi, Anil Potti, Mauro Delorenzi, et al.Louis Mauriac, Mario Campone, Michèle Tubiana-Hulin, Thierry Petit, Philippe Rouanet, Jacek Jassem, Emmanuel Blot, Véronique Becette, Pierre Farmer, Sylvie André, Chaitanya R. Acharya, Sayan Mukherjee, David Cameron, Jonas Bergh, Joseph R. Nevins, Richard D. Iggo posted to validation gene_expression classification chemotherapy breast_cancer by jfr on 2009-11-20 13:58:47 as along with 1 person frohike
	The functions of animal microRNAs [My Copy] Nature, Vol. 431, No. 7006. (2004), pp. 350-355. by Victor Ambros posted to review mirna by jfr on 2009-11-20 13:25:16 as along with 5 people and 2 groups kmdaily dchughes Fritz skoch erbon microRNA neurolit
	Basal-like breast carcinoma: from expression profiling to routine practice. [My Copy] Archives of pathology & laboratory medicine, Vol. 133, No. 6. (June 2009), pp. 860-868. by Emad Rakha, Jorge S. Reis-Filho posted to review breast_cancer basal_subtype by jfr on 2009-11-20 13:23:50 as
	Evaluation of next generation sequencing platforms for population targeted sequencing studies. [My Copy] Genome biology, Vol. 10, No. 3. (2009), R32. by Olivier Harismendy, Pauline C. Ng, Robert L. Strausberg, et al.Xiaoyun Wang, Timothy B. Stockwell, Karen Y. Beeson, Nicholas J. Schork, Sarah S. Murray, Eric J. Topol, Samuel Levy, Kelly A. Frazer posted to platform_comparison ngs by jfr on 2009-11-20 13:06:18 as along with 24 people and 2 groups hzoltan dbensasson GustavoLacerda adijr agbiotec jgill darian jandot n00c jonilaserson maren inesdesantiago mlog ppgardne kiekyon michaelbarton idoerg stajich skembel giovanni druvus lwaldron djkt natstreet Journal picks Mycology
	Predicting microRNA targets and functions: traps for the unwary. [My Copy] Nature methods, Vol. 6, No. 6. (June 2009), pp. 397-398. by William Ritchie, Stephane Flamant, John E. Rasko posted to mirna_target mirna comment by jfr on 2009-11-20 12:54:42 as along with 5 people and 1 group gdb giovenko guhjy tibbitts daforerog microRNA
	Inter-observer reproducibility of HER2 immunohistochemical assessment and concordance with fluorescent in situ hybridization (FISH): pathologist assessment compared to quantitative image analysis. [My Copy] BMC cancer, Vol. 9 (29 May 2009), 165. by Gulisa Turashvili, Samuel Leung, Dmitry Turbin, et al.Kelli Montgomery, Blake Gilks, Rob West, Melinda Carrier, David Huntsman, Samuel Aparicio posted to immunohistochemistry her2 fish concordance breast_cancer by jfr on 2009-11-19 13:36:57 as along with 1 person gturashvili
	Ultrafast and memory-efficient alignment of short DNA sequences to the human genome [My Copy] Genome Biology, Vol. 10, No. 3. (2009), R25. by Ben Langmead, Cole Trapnell, Mihai Pop, Steven Salzberg posted to software read_mapping deep_sequencing by jfr on 2009-11-19 11:28:31 as along with 36 people and 4 groups hzoltan cthachuk darshan fstrozzi adijr debasis bozdagd polivares torfinnnome n00c talponer jmcq rschulz ghattem operon humburg idonaldson mmartin skembel dquest heliopais djkt GeeSharpMinor bertelsen darian semrich dakelley idoerg vmsr hpaces admash pdexheimer mhamada fpattyn natstreet druvus BergmanLab SIMR bioinformatics iSEEM Notre Dame Bioinformatics
	ABySS: a parallel assembler for short read sequence data. [My Copy] Genome research, Vol. 19, No. 6. (1 June 2009), pp. 1117-1123. by Jared T. Simpson, Kim Wong, Shaun D. Jackman, Jacqueline E. Schein, Steven J. Jones, Inanç Birol posted to software read_mapping deep_sequencing by jfr on 2009-11-19 11:26:57 as along with 26 people and 2 groups cthachuk hzoltan ramonvidal orzenil pachorip GustavoLacerda jonilaserson operon polivares reyez jasontsai n00c humburg dakelley jessopher idonaldson robsyme neils natstreet AaronDarling druvus rpatward dswan stajich jbhiatt erikarner BergmanLab Mycology
	Exploring the human genome with functional maps [My Copy] Genome Research, Vol. 19, No. 6. (1 June 2009), pp. 1093-1106. by Curtis Huttenhower, Erin M. Haley, Matthew A. Hibbs, et al.Vanessa Dumeaux, Daniel R. Barrett, Hilary A. Coller, Olga G. Troyanskaya posted to visualization software integration functional_genomics by jfr on 2009-11-19 11:25:00 as along with 9 people ptrobajo daforerog fenghezi shikin idoerg guhjy pinney grahamc pkonings
	Getting started in computational mass spectrometry-based proteomics. [My Copy] PLoS computational biology, Vol. 5, No. 5. (29 May 2009), e1000366. by Olga Vitek posted to review proteomics plos_start by jfr on 2009-11-19 10:30:36 as along with 8 people eliasman ptrobajo nuin kiekyon sjcockell renatomilani danmaclean fgibson
	A Classifier-based approach to identify genetic similarities between diseases [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i21-29. by Marc A. Schaub, Irene M. Kaplow, Marina Sirota, Chuong B. Do, Atul J. Butte, Serafim Batzoglou posted to disease_genes classification by jfr on 2009-11-18 14:51:05 as along with 4 people zufar rdiaz ddunbar djkt
	Model-based clustering of array CGH data [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i30-38. by Sohrab P. Shah, K-John Cheung, Nathalie A. Johnson, et al.Guillaume Alain, Randy D. Gascoyne, Douglas E. Horsman, Raymond T. Ng, Kevin P. Murphy posted to model-based copy-number clustering array-cgh by jfr on 2009-11-18 14:50:01 as along with 5 people jonilaserson dolchan rdiaz kdpreter nuin
	From disease ontology to disease-ontology lite: statistical methods to adapt a general-purpose ontology for the test of gene-ontology associations [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i63-68. by Pan Du, Gang Feng, Jared Flatow, et al.Jie Song, Michelle Holko, Warren A. Kibbe, Simon M. Lin posted to ontology gene_ontology by jfr on 2009-11-18 14:49:05 as along with 9 people and 1 group bertelsen kaarsinogen ruichu guhjy sobolevnrm mikel_egana allysonlister fgibson dullhunk baker-group
	Probabilistic retrieval and visualization of biologically relevant microarray experiments [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i145-153. by Jose Caldas, Nils Gehlenborg, Ali Faisal, Alvis Brazma, Samuel Kaski posted to meta-analysis gene_expression database by jfr on 2009-11-18 14:48:03 as along with 6 people ngehlenborg greg ptrobajo bertelsen guhjy shikin
	Fewer permutations, more accurate P-values [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i161-168. by Theo A. Knijnenburg, Lodewyk F. A. Wessels, Marcel J. T. Reinders, Ilya Shmulevich posted to permutations by jfr on 2009-11-18 14:45:58 as along with 10 people and 1 group heliopais rdiaz Ayest farhat AlexBateman bmajoros idonaldson TRHvidsten djkt sameersoi Journal picks
	Cross species analysis of microarray expression data [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. 1476-1483. by Yong Lu, Peter Huggins, Ziv Bar-Joseph posted to meta-analysis gene_expression cross-species by jfr on 2009-11-18 14:43:13 as along with 12 people and 1 group roys daveGerrard ptrobajo guhjy yaredo shikin dswan renatomilani rdiaz thomaskelder natstreet druvus Bioinformatics
	Application and evaluation of automated semantic annotation of gene expression experiments. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 12. (15 June 2009), pp. 1543-1549. by Leon French, Suzanne Lane, Tamryn Law, Lydia Xu, Paul Pavlidis posted to semantic_web gene_expression annotation by jfr on 2009-11-18 14:42:06 as along with 3 people mitko shikin guhjy
	PTEN Expression and KRAS Mutations on Primary Tumors and Metastases in the Prediction of Benefit From Cetuximab Plus Irinotecan for Patients With Metastatic Colorectal Cancer [My Copy] J Clin Oncol, Vol. 27, No. 16. (1 June 2009), pp. 2622-2629. by Fotios Loupakis, Luca Pollina, Irene Stasi, et al.Annamaria Ruzzo, Mario Scartozzi, Daniele Santini, Gianluca Masi, Francesco Graziano, Chiara Cremolini, Eliana Rulli, Emanuele Canestrari, Niccola Funel, Gaia Schiavon, Iacopo Petrini, Mauro Magnani, Giuseppe Tonini, Daniela Campani, Irene Floriani, Stefano Cascinu, Alfredo Falcone posted to pten kras colon_cancer cetuximab by jfr on 2009-11-18 14:26:48 as
	Genetic analysis of radiation-induced changes in human gene expression [My Copy] Nature (06 April 2009) by Denis A. Smirnov, Michael Morley, Eunice Shin, Richard S. Spielman, Vivian G. Cheung posted to radiation gene_expression by jfr on 2009-11-18 14:25:14 as along with 3 people Yoko leliavski renatomilani
	Chromosomal instability determines taxane response. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 21. (26 May 2009), pp. 8671-8676. by Charles Swanton, Barbara Nicke, Marion Schuett, et al.Aron C. Eklund, Charlotte Ng, Qiyuan Li, Thomas Hardcastle, Alvin Lee, Rajat Roy, Philip East, Maik Kschischo, David Endesfelder, Paul Wylie, Se Nyun N. Kim, Jie-Guang G. Chen, Michael Howell, Thomas Ried, Jens K. Habermann, Gert Auer, James D. Brenton, Zoltan Szallasi, Julian Downward posted to taxane classification cin breast_cancer by jfr on 2009-11-18 14:23:36 as
	Automated high-dimensional flow cytometric data analysis [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 21. (26 May 2009), pp. 8519-8524. by Saumyadipta Pyne, Xinli Hu, Kui Wang, et al.Elizabeth Rossin, Tsung-I Lin, Lisa M. Maier, Clare Baecher-Allan, Geoffrey J. Mclachlan, Pablo Tamayo, David A. Hafler, Philip L. De Jager, Jill P. Mesirov posted to flow_cytometry by jfr on 2009-11-18 14:21:01 as along with 5 people rdiaz guhjy vplagnol aheilbut surajitray
	Constrained mixture estimation for analysis and robust classification of clinical time series [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), pp. i6-14. by Ivan G. Costa, Alexander Schonhuth, Christoph Hafemeister, Alexander Schliep posted to treatment time-course classification by jfr on 2009-11-18 14:20:06 as along with 2 people rdiaz sotacam
	Local recurrence after breast-conserving therapy in relation to gene expression patterns in a large series of patients. [My Copy] Clinical cancer research : an official journal of the American Association for Cancer Research, Vol. 15, No. 12. (15 June 2009), pp. 4181-4190. by Bas Kreike, Hans Halfwerk, Nicola Armstrong, et al.Peter Bult, John A. Foekens, Sanne C. Veltkamp, Dimitry S. Nuyten, Harry Bartelink, Marc J. van de Vijver posted to proliferation gene_expression early-stage breast_cancer by jfr on 2009-11-18 14:09:07 as
	Choosing the right path: enhancement of biologically relevant sets of genes or proteins using pathway structure [My Copy] Genome Biology, Vol. 10, No. 4. (24 April 2009), R44. by Reuben Thomas, Julia Gohlke, Geffrey Stopper, Frederick Parham, Christopher Portier posted to pathway_analysis gene_set_analysis by jfr on 2009-11-18 13:26:59 as along with 4 people greg thomaskelder guhjy Thaverkamp
	Evaluation of microarray preprocessing algorithms based on concordance with RT-PCR in clinical samples. [My Copy] PloS one, Vol. 4, No. 5. (21 May 2009), e5645. by Balazs Gyorffy, Bela Molnar, Hermann Lage, Zoltan Szallasi, Aron C. Eklund posted to rt-pcr low_level affy by jfr on 2009-11-18 13:21:23 as along with 2 people rdiaz bertelsen
	Data driven derivation of cutoffs from a pool of 3,030 Affymetrix arrays to stratify distinct clinical types of breast cancer. [My Copy] Breast cancer research and treatment (20 May 2009) by Thomas Karn, Dirk Metzler, Eugen Ruckhäberle, et al.Lars Hanker, Regine Gätje, Christine Solbach, Andre Ahr, Marcus Schmidt, Uwe Holtrich, Manfred Kaufmann, Achim Rody posted to subtypes proliferation pr meta-analysis her2 er breast_cancer by jfr on 2009-11-18 13:14:00 as
	MicroRNA-92a controls angiogenesis and functional recovery of ischemic tissues in mice. [My Copy] Science (New York, N.Y.), Vol. 324, No. 5935. (26 June 2009), pp. 1710-1713. by A. Bonauer, G. Carmona, M. Iwasaki, et al.M. Mione, M. Koyanagi, A. Fischer, J. Burchfield, H. Fox, C. Doebele, K. Ohtani, E. Chavakis, M. Potente, M. Tjwa, C. Urbich, A. M. Zeiher, S. Dimmeler posted to mirna mir17-92 by jfr on 2009-11-18 13:10:02 as along with 6 people and 2 groups tonamswish guhjy galka8_diploma ppgardne lymxz valeriehilgers microRNA Journal picks
	SHRiMP: Accurate Mapping of Short Color-space Reads [My Copy] PLoS Comput Biol, Vol. 5, No. 5. (22 May 2009), e1000386. by Stephen M. Rumble, Phil Lacroute, Adrian V. Dalca, Marc Fiume, Arend Sidow, Michael Brudno posted to software read_mapping deep_sequencing by jfr on 2009-11-18 13:06:08 as along with 22 people and 4 groups heliopais cthachuk hzoltan bozdagd ilanc burak guhjy djkt trfield n00c natstreet adijr druvus Stew farhat humburg kshameer operon stajich GeeSharpMinor AlexBateman barry Bioinformatics - CRUK Mycology Journal picks Bioinformatics
	MicroRNAs: Novel regulators in the hallmarks of human cancer [My Copy] Cancer Letters (22 May 2009) by Kai Ruan, Xiaoguang Fang, Gaoliang Ouyang posted to review mirna cancer_hallmarks by jfr on 2009-11-17 14:42:12 as along with 2 people and 1 group zufar guhjy microRNA
	Gradient lasso for Cox proportional hazards model [My Copy] Bioinformatics, Vol. 25, No. 14. (15 July 2009), pp. 1775-1781. by Insuk Sohn, Jinseog Kim, Sin-Ho Jung, Changyi Park posted to survival_analysis statistics by jfr on 2009-11-16 13:43:32 as along with 3 people rdiaz reconnie neils
	Reverse transcription-quantitative polymerase chain reaction: description of a RIN-based algorithm for accurate data normalization. [My Copy] BMC molecular biology, Vol. 10 (15 April 2009), 31. by Alexandre Ho-Pun-Cheung, Caroline Bascoul-Mollevi, Eric Assenat, et al.Florence Boissière-Michot, Frédéric Bibeau, Dominic Cellier, Marc Ychou, Evelyne Lopez-Crapez posted to rt-pcr rna_quality rin normalization control_genes by jfr on 2009-11-16 13:34:56 as along with 1 person guhjy
	The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. [My Copy] Clinical chemistry, Vol. 55, No. 4. (1 April 2009), pp. 611-622. by Stephen A. Bustin, Vladimir Benes, Jeremy A. Garson, et al.Jan Hellemans, Jim Huggett, Mikael Kubista, Reinhold Mueller, Tania Nolan, Michael W. Pfaffl, Gregory L. Shipley, Jo Vandesompele, Carl T. Wittwer posted to standards rt-pcr by jfr on 2009-11-16 13:18:45 as along with 9 people mfgreen daforerog GeeSharpMinor yagyav mlog Vincent_Rouilly guhjy cchand booker
	DIANA-mirPath: Integrating human and mouse microRNAs in pathways. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 15. (1 August 2009), pp. 1991-1993. by G. L. Papadopoulos, P. Alexiou, M. Maragkakis, M. Reczko, A. G. Hatzigeorgiou posted to pathway mirna_target mirna database by jfr on 2009-11-16 13:15:44 as along with 8 people and 3 groups ealloza megraw Stew dswan daforerog tmmurali guhjy pengchy microRNA Bioinformatics - CRUK Bioinformatics
	Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 14. (15 July 2009), pp. 1715-1721. by Hyungwon Choi, Alexey I. Nesvizhskii, Debashis Ghosh, Zhaohui S. Qin posted to integration chip-seq chip-chip by jfr on 2009-11-16 13:14:33 as along with 12 people and 1 group tonamswish rdiaz fpattyn jcbarret guhjy hendrik85 inesdesantiago nklee polivares ewilban1 idonaldson humburg Journal picks
	A global meta-analysis of microarray expression data to predict unknown gene functions and estimate the literature-data divide. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 13. (1 July 2009), pp. 1694-1701. by Jonathan D. Wren posted to text-mining meta-analysis gene_expression functional_genomics by jfr on 2009-11-16 13:11:58 as along with 10 people and 2 groups jperkins fenghezi guhjy renatomilani VGreiff mitko dswan TRHvidsten daforerog shikin Orengo Group Journal Picks Bioinformatics
	Prediction of qualitative outcome of oligonucleotide microarray hybridization by measurement of RNA integrity using the 2100 Bioanalyzer capillary electrophoresis system. [My Copy] Annals of hematology, Vol. 88, No. 12. (8 December 2009), pp. 1177-1183. by Philipp Kiewe, Saskia Gueller, Martina Komor, Andrea Stroux, Eckhard Thiel, Wolf-Karsten K. Hofmann posted to rna_quality rin quality_control by jfr on 2009-11-15 16:26:57 as along with 1 person guhjy
	KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1470-1471. by Jitao David D. Zhang, Stefan Wiemann posted to software pathway graph_approach bioconductor by jfr on 2009-11-15 16:22:00 as along with 16 people Thaverkamp daforerog Vincent_Rouilly kiara coela guhjy dolchan neils VGreiff nuin chrisamiller renatomilani jmeppley natstreet phoenixzxl druvus
	ViaComplex: software for landscape analysis of gene expression networks in genomic context [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1468-1469. by Mauro A. A. Castro, Jose L. Filho, Rodrigo J. S. Dalmolin, et al.Marialva Sinigaglia, Jose C. F. Moreira, Jose C. M. Mombach, Rita M. C. de Almeida posted to visualization software network gene_expression by jfr on 2009-11-15 16:20:51 as along with 3 people guhjy renatomilani rdiaz
	FDR made easy in differential feature discovery and correlation analyses [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1461-1462. by Xuefeng B. Ling, Harvey Cohen, Joseph Jin, Irwin Lau, James Schilling posted to web_server multiple_testing fdr by jfr on 2009-11-15 16:18:50 as along with 7 people heliopais rdiaz fishtank brianb nuin idonaldson guhjy
	SBML2L(A)T(E)X: conversion of SBML files into human-readable reports. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1455-1456. by Andreas Dräger, Hannes Planatscher, Dieudonné Motsou Wouamba, et al.Adrian Schröder, Michael Hucka, Lukas Endler, Martin Golebiewski, Wolfgang Müller, Andreas Zell posted to systems_biology software markup latex by jfr on 2009-11-15 16:16:54 as along with 6 people and 1 group tonamswish sobolevnrm dullhunk guhjy nuin renatomilani baker-group
	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 gene_expression bioconductor by jfr on 2009-11-15 16:09:51 as along with 6 people guhjy druvus nuin rdiaz djkt giovanni
	BioconductorBuntu - A Linux Distribution that Implements a Web-Based DNA Microarray Analysis Server [My Copy] Bioinformatics (23 March 2009), btp165. by Paul Geeleher, Dermot Morris, John P. Hinde, Aaron Golden posted to web_services software microarray_analysis bioconductor by jfr on 2009-11-15 15:57:23 as along with 8 people and 1 group guhjy dswan djkt chrisamiller renatomilani phoenixzxl natstreet druvus Bioinformatics
	ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1424-1425. by You Jung J. Kim, Nikhil Teletia, Victor Ruotti, et al.Christopher A. Maher, Arul M. Chinnaiyan, Ron Stewart, James A. Thomson, Jignesh M. Patel posted to software read_mapping deep_sequencing by jfr on 2009-11-15 15:51:50 as along with 12 people and 2 groups mmartin n00c guhjy nuin idonaldson AlexBateman bmajoros humburg Thaverkamp druvus svenrahmann djkt Bioinformatics Journal picks
	Biopython: freely available Python tools for computational molecular biology and bioinformatics [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1422-1423. by Peter J. A. Cock, Tiago Antao, Jeffrey T. Chang, et al.Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski, Michiel J. L. de Hoon posted to software python by jfr on 2009-11-15 15:50:40 as along with 37 people and 9 groups Geknitics pekrau Sergey_gerbek hwright karinaecomp applebyb klexa rdiaz FabienneGranier thegoose oteri cmzmasek jwm guhjy AlexBateman daforerog ltitodem Thaverkamp sobolevnrm psique dswan neils dullhunk bertelsen Vincent_Rouilly gwallau brianb jorisslob svenrahmann jmeppley VGreiff sjcockell druvus jago kshameer operon svozil Systems_Biology Computational_Systems_Biology Structural Biology Group TorVergata Journal picks baker-group Bioinformatics Software-Architecture OER_Open_Educational_Resources Method_Engineering_Services
	Variable slope normalization of reverse phase protein arrays [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1384-1389. by E. Shannon Neeley, Steven M. Kornblau, Kevin R. Coombes, Keith A. Baggerly posted to proteomics normalization by jfr on 2009-11-15 15:01:37 as
	Multicenter validation of a 1,550-gene expression profile for identification of tumor tissue of origin. [My Copy] Journal of clinical oncology : official journal of the American Society of Clinical Oncology, Vol. 27, No. 15. (20 May 2009), pp. 2503-2508. by Federico A. Monzon, Maureen Lyons-Weiler, Ljubomir J. Buturovic, et al.C. Ted Rigl, W. David Henner, Christin Sciulli, Catherine I. Dumur, Fabiola Medeiros, Glenda G. Anderson posted to tissue_origin gene_expression classification by jfr on 2009-11-15 14:57:40 as
	Correlation of expression profiles between microRNAs and mRNA targets using NCI-60 data [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 218. by Yu P. Wang, Kuo B. Li posted to nci60 mirna_target mirna by jfr on 2009-11-15 14:54:36 as along with 12 people and 2 groups frohike guhjy giovenko marti lwaldron daforerog samgj shikin ealloza dswan natstreet Stew microRNA Bioinformatics - CRUK
	Ki67 index, HER2 status, and prognosis of patients with luminal B breast cancer. [My Copy] Journal of the National Cancer Institute, Vol. 101, No. 10. (20 May 2009), pp. 736-750. by Maggie C. Cheang, Stephen K. Chia, David Voduc, et al.Dongxia Gao, Samuel Leung, Jacqueline Snider, Mark Watson, Sherri Davies, Philip S. Bernard, Joel S. Parker, Charles M. Perou, Matthew J. Ellis, Torsten O. Nielsen posted to subtypes rt-pcr proliferation pr luminal_subtype immunohistochemistry her2 er breast_cancer by jfr on 2009-11-15 14:43:06 as along with 1 person zufar

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breast_cancer	468
review	336
mirna	333
classification	268
software	268
colon_cancer	227
gene_expression	169
methodology	168
copy-number	153
network	148
microarray_technology	133
integration	132
bioinformatics	121
clustering	119
feature_selection	105
meta-analysis	94
affy	83
database	81
therapy	80
mirna_target	74
array-cgh	69
crc_bib	69
gene_set_analysis	67
low_level	66
regulation	63
systems_biology	62
pathway_analysis	60
rt-pcr	60
genomics	58
subtypes	57
annotation	56
snp-arrays	56
comment	51
quality_control	48
normalization	44
mutations	43
metastasis	42
ffpe	41
prognosis	41
deep_sequencing	40
estrogen	40
microarray_analysis	40
proteomics	38
bioconductor	37
cancer	37
statistics	36
alternative_splicing	35
progression	35
protein_interaction	35
fdr	34
markers	34
methylation	32
snp	32
class_discovery	28
r	28
tamoxifen	28
mutation	27
standards	26
exon_arrays	25
jfrbib	24
microarray_protocol	23
mir17-92	23
two-color	23
experiment_design	22
pathway	22
brca	21
co-expression	21
comparison	21
ovarian_cancer	21
model	20
survival_analysis	20
tfbs	20
treatment	19
functional_analysis	18
kras	18
p53	18
platform_comparison	18
chip-chip	16
evaluation	16
illumina	16
jfrbib04-09	16
multiple_testing	16
stem_cell	16
technology	16
antisense	15
biomarker	15
module_detection	15
nmf	15
text-mining	15
basal_subtype	14
erbb	14
sequencing	14
bio_signature	13
reproducible_research	13
rna_quality	13
stageii	13
staging	13
tma	13
cnv	12
egfr	12
gene_ontology	12
genotyping	12
lung_cancer	12
maqc	12
marker	12
cell_line	11
drug_discovery	11
missing_values	11
proliferation	11
protocol	11
control_genes	10
disease_genes	10
gene_lists	10
genome_browser	10
loh	10
pten	10
semantic_web	10
tissue_specificity	10
visualization	10
immunohistochemistry	9
msi	9
probe_design	9
segmentation	9
boutique_arrays	8
can_genes	8
chip-seq	8
consensus_clustering	8
e2f1	8
inter-laboratory	8
mirna_regulation	8
personalized_medicine	8
sample_size	8
tgfb	8
time-course	8
18q_loh	7
lymphoma	7
myc	7
tiling_array	7
validation	7
community	6
editorial	6
gene_interaction	6
graphs	6
hpc	6
leukemia	6
motif	6
nci60	6
non-coding	6
ontology	6
plos_rules	6
promoters	6
read_mapping	6
serum	6
stem	6
chemotherapy	5
cin	5
correlation	5
cross-platform	5
gene_pairs	5
grid_computing	5
gwas	5
her2	5
machine_learning	5
mir21	5
plos_primer	5
plos_start	5
radiation	5
trial	5
biobank	4
data_curation	4
er	4
go	4
grading	4
image_analysis	4
lims	4
mir34	4
mirna_cluster	4
pooling	4
prioritization	4
prostate_cancer	4
public_data	4
resource	4
web_services	4
agilent	3
apc	3
bim	3
biomarkers	3
chromatin	3
confounders	3
copa	3
evolution	3
functional_classification	3
functional_genomics	3
hapmap	3
interaction	3
loops	3
mass_spec	3
micro_environment	3
mir192	3
ontologies	3
open-source	3
outlier	3
pca	3
pik3ca	3
pr	3
primer	3
roc	3
sage	3
small_molecule	3
sop	3
stability	3
stroma	3
survival	3
triple_negative	3
tutorial	3
wnt	3
20q	2
8q24	2
alignment	2
batch-effect	2
bcatenin	2
caching	2
cdk8	2
cetuximab	2
chemo	2
diagnostic	2
dna_damage	2
ephb	2
epigenetics	2
er-positive	2
filtering	2
flow_cytometry	2
gene_fusion	2
glioblastoma	2
guidelines	2
in-situ	2
letter	2
local_recurrence	2
luminal_subtype	2
lymphocytes	2
mage	2
meeting_report	2
mir20a	2
mir215	2
mutual_information	2
oncomine	2
permutations	2
priors	2
projection	2
protein_microarray	2
protein_networks	2
qtl	2
recommendation	2
rin	2
semi-supervised	2
serm	2
smad	2
snp_arrays	2
svm	2
sweave	2
target	2
tbfs	2
thyroid	2
translational	2
upd	2
web_server	2
3utr	1
454	1
aging	1
akt	1
apoptosis	1
aroma	1
asco	1
association_studies	1
au-rich	1
aurora_kinase	1
bayesian	1
beads	1
biclustering	1
bmp	1
braf	1
brain_cancer	1
cables1	1
cancer_hallmarks	1
cell_cycle	1
cervical_cancer	1
circulating_tumor_cells	1
cloud_computing	1
clusterin	1
compression	1
concordance	1
cross-species	1
cross-study	1
dasl	1
dcc	1
dimension_reduction	1
disease	1
distance	1
driver_genes	1
dye_bias	1
early-stage	1
ecm	1
eno1	1
ensemble	1
ependymoma	1
erg	1
er-negative	1
est_analysis	1
estradiol	1
fgfr2	1
fish	1
formalization	1
formats	1
funding	1
gastric_cancer	1
gene_clusters	1
gene_function_prediction	1
genetics	1
genoty	1
graph_approach	1
hypoxia	1
il8	1
in_situ_hybridization	1
invasion	1
latent	1
latex	1
markup	1
mcm7	1
melanoma	1
met	1
meta_analysis	1
metagene	1
microrna	1
mir101	1
mir-106b-25	1
mir126	1
mir135	1
mir143	1
mir145	1
mir155	1
mir15a	1
mir16-1	1
mir199	1
mir203	1
mir449	1
mirna221	1
mirna222	1
mirna_discovery	1
mixture_models	1
model-based	1
modules	1
mrna-seq	1
myb	1
neural_networks	1
news	1
ngs	1
nomogram	1
oncogene	1
oncogene_addiction	1
p21	1
pancreatic_cancer	1
passenger_genes	1
pbc	1
perturbation	1
pilot_study	1
plasma	1
power_analysis	1
prb	1
pre-post	1
python	1
randomization	1
ranked_lists	1
rb	1
ret	1
rnai	1
rna-interference	1
sampling	1
selection_bias	1
shrna	1
signaling	1
simulation	1
single_cell	1
smad7	1
stageiii	1
stem_cells	1
study_design	1
target_discovery	1
taxane	1
tissue_origin	1
translocation	1
ucs	1
wiki	1

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