Jan Pačes's Top Recommendations

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	COILCHECK: An Interactive Server for the Analysis of Interface Regions in Coiled Coils [My Copy] Protein and Peptide Letters, Vol. 15, No. 1. (January 2008), pp. 33-38. by Sowdhamini, R., Alva, V., Syamala Devi, D. P. posted by 1 person skhadar
	miRNomics—The bioinformatics of microRNA genes [My Copy] Biochemical and Biophysical Research Communications, Vol. 363, No. 1. (09 November 2007), pp. 6-11. by Z. Ghosh, J. Chakrabarti, B. Mallick posted by 14 people guhjy giovenko druvus jfr skhadar andersbj dchughes microRNA G4ID Genetics-of-Gambling heliopais delenca maralena natstreet
	Using bioinformatics and genome analysis for new therapeutic interventions. [My Copy] Mol Cancer Ther, Vol. 4, No. 10. (October 2005), pp. 1636-1643. by D. W. Mount, R. Pandey posted by 2 people skhadar Isabel
	CARGO: a web portal to integrate customized biological information. [My Copy] Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007) by I. Cases, D. G. Pisano, E. Andres, et al.A. Carro, J. M. Fernández, G. Gómez-López, J. M. Rodriguez, J. F. Vera, A. Valencia, A. M. Rojas posted by 4 people guhjy jfr skhadar moborg
	Machine Learning and Its Applications to Biology [My Copy] PLoS Comput Biol, Vol. 3, No. 6. (29 June 2007), e116. by Adi L. Tarca, Vincent J. Carey, Xue-wen Chen, Roberto Romero, Sorin Drăghici posted by 19 people vingron colm rwst winterschlaefer Bioinformatics svozil aviad_work druvus giovenko Borelli skhadar julius cjeans asddd ciga nklee kmdaily SysbioMPI-TCells Computational_Information_Geometry
	Systematic discovery of in vivo phosphorylation networks. [My Copy] Cell, Vol. 129, No. 7. (29 June 2007), pp. 1415-1426. by Rune Linding, Lars Juhl J. Jensen, Gerard J. Ostheimer, et al.Marcel A. van Vugt, Claus Jørgensen, Ioana M. Miron, Francesca Diella, Karen Colwill, Lorne Taylor, Kelly Elder, Pavel Metalnikov, Vivian Nguyen, Adrian Pasculescu, Jing Jin, Jin Gyoon G. Park, Leona D. Samson, James R. Woodgett, Robert B. Russell, Peer Bork, Michael B. Yaffe, Tony Pawson posted by 24 people rsaito jaimie nzm nedwards MatthiasReimann ptrobajo guhjy skhadar julius zwang cdppublications lp2 SysbioMPI-TCells psique robrussell Durbin group snowcrash larsjuhljensen Evangelia renatomilani carlk daed chad_davis bouncingbudha
	A more complete, complexed and structured interactome. [My Copy] Curr Opin Struct Biol (14 June 2007) by Damien Devos, Robert B B. Russell posted by 5 people chad_davis balicea skhadar choonpeng ruvido
	The developmental genetics of homology [My Copy] Nature Reviews Genetics, Vol. 8, No. 6. (08 May 2007), pp. 473-479. by Günter P. Wagner posted by 8 people biomcgary jbsaltz balicea skhadar dchughes zwang G4ID Genetics-of-Gambling
	Automated Querying of Genome Databases [My Copy] PLoS Computational Biology, Vol. 3, No. 1. (1 January 2007), e1. by Peter Schattner posted by 4 people skhadar mikaelhuss olympos kmdaily
	ACE2: A New Target for Prevention of Diabetic Nephropathy? [My Copy] J Am Soc Nephrol, Vol. 17, No. 11. (November 2006), pp. 2957-2959. by J. R. Ingelfinger posted by 3 people guhjy skhadar brainsman2000
	Discovering disease-genes by topological features in human proteinprotein interaction network [My Copy] Bioinformatics, Vol. 22, No. 22. (15 November 2006), pp. 2800-2805. by Xu, Jianzhen, Li, Yongjin posted by 7 people saket diamantis marcius skhadar ealloza BioinfoCIPF SGU-CIPF
	KemaDom: a web server for domain prediction using kernel machine with local context. [My Copy] Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006) by L. Chen, W. Wang, S. Ling, C. Jia, F. Wang posted by 5 people marcius skhadar BioinfoCIPF SGU-CIPF gulkur
	Protein–Protein Interactions More Conserved within Species than across Species [My Copy] PLoS Comput Biol, Vol. 2, No. 7. (21 July 2006), e79. by Sven Mika, Burkhard Rost posted by 11 people karthikraman chica RebeccaHamer robfsouza jeremymiller chad_davis marcius skhadar dquest BioinfoCIPF SGU-CIPF
	HARMONY: a server for the assessment of protein structures. [My Copy] Nucleic acids research, Vol. 34, No. Web Server issue. (1 July 2006) by G. Pugalenthi, K. Shameer, N. Srinivasan, R. Sowdhamini posted by 5 people viktor21614 bicko wouterboomsma skhadar wilbur
	PROVAT: a tool for Voronoi tessellation analysis of protein structures and complexes. [My Copy] Bioinformatics, Vol. 21, No. 15. (1 August 2005), pp. 3316-3317. by S. P. Gore, D. F. Burke, T. L. Blundell posted by 6 people bicko Einat skhadar massivemayhem medic0747 structural_bioinformatics
	An automatic method involving cluster analysis of secondary structures for the identification of domains in proteins. [My Copy] Protein Sci, Vol. 4, No. 3. (March 1995), pp. 506-520. by R. Sowdhamini, T. L. Blundell posted by 4 people RebeccaHamer dimka skhadar medic0747
	RAMEDIS: The Rare Metabolic Diseases Database [My Copy] Applied Bioinformatics, Vol. 5, No. 2. (2006), pp. 115-118. by Topel, Thoralf, Hofestadt, et al. Ralf, Scheible, Dagmar, Trefz, Friedrich posted by 2 people Scis0000002 skhadar
	3D domain swapping: As domains continue to swap [My Copy] Protein Sci, Vol. 11, No. 6. (1 June 2002), pp. 1285-1299. by Yanshun Liu, David Eisenberg posted by 5 people jdoconnell zdai tny skhadar dgront
	Operating Systems Design and Implementation (3rd Edition) (Prentice Hall Software Series) [My Copy] (04 January 2006) by Andrew S. Tanenbaum, Albert S. Woodhull posted by 6 people lmorel skhadar sensorweb TUCS-ES_Lab TUCS-KITARA_project nmpountou
	Comparative protein modelling by satisfaction of spatial restraints. [My Copy] Journal of molecular biology, Vol. 234, No. 3. (5 December 1993), pp. 779-815. by A. Sali, T. L. Blundell posted by 18 people krapnik bmduggan pjcite newton1234 viktor21614 mijam dimka vavi bicko chad_davis ttjoseph skhadar dgront rabio massivemayhem medic0747 sebk granujilla
	Prediction of functional sites by analysis of sequence and structure conservation. [My Copy] Protein Sci, Vol. 13, No. 4. (April 2004), pp. 884-892. by A. R. Panchenko, F. Kondrashov, S. Bryant posted by 6 people ramiro2k chrn skhadar sriram_s tanuja_rastogi Jporci
	On ontologies for biologists: the Gene Ontology--untangling the web. [My Copy] Novartis Found Symp, Vol. 247 (2002) by M. Ashburner, S. Lewis posted by 3 people kshameer ziquje skhadar
	Genome sequencing in microfabricated high-density picolitre reactors. [My Copy] Nature In Nature, Vol. 437, No. 7057. (15 September 2005), pp. 376-380. by Marcel Margulies, Michael Egholm, William E. Altman, et al.Said Attiya, Joel S. Bader, Lisa A. Bemben, Jan Berka, Michael S. Braverman, Yi-Ju J. Chen, Zhoutao Chen, Scott B. Dewell, Lei Du, Joseph M. Fierro, Xavier V. Gomes, Brian C. Godwin, Wen He, Scott Helgesen, Chun Heen H. Ho, Chun He H. Ho, Gerard P. Irzyk, Szilveszter C. Jando, Maria L. Alenquer, Thomas P. Jarvie, Kshama B. Jirage, Jong-Bum B. Kim, James R. Knight, Janna R. Lanza, John H. Leamon, Steven M. Lefkowitz, Ming Lei, Jing Li, Kenton L. Lohman, Hong Lu, Vinod B. Makhijani, Keith E. McDade, Michael P. McKenna, Eugene W. Myers, Elizabeth Nickerson, John R. Nobile, Ramona Plant, Bernard P. Puc, Michael T. Ronan, George T. Roth, Gary J. Sarkis, Jan Fredrik F. Simons, John W. Simpson, Maithreyan Srinivasan, Karrie R. Tartaro, Alexander Tomasz, Kari A. Vogt, Greg A. Volkmer, Shally H. Wang, Yong Wang, Michael P. Weiner, Pengguang Yu, Richard F. Begley, Jonathan M. Rothberg posted by 45 people Dbarker06 n00c rshe seb1 pachorip katiehumphry jonilaserson michaelbarton sandfire natstreet daforerog idoerg mmartin azazello jbhiatt alessandrobrozzi leechuck bjorns dayjm jmeppley arve RMGraze JAShapiro balajis cdawson AaronDarling treangen usagi-kirin beatrizfernandez wenhan xingxu erbon Microbial-Ecology GIG gatech-compgenomics tpreeprem farhat carpi bpb mcox GustavoLacerda jlgreen Green Lab iSEEM kieran101
	The complete genome of an individual by massively parallel DNA sequencing [My Copy] Nature, Vol. 452, No. 7189. (17 April 2008), pp. 872-876. by David A. Wheeler, Maithreyan Srinivasan, Michael Egholm, et al.Yufeng Shen, Lei Chen, Amy McGuire, Wen He, Yi-Ju Chen, Vinod Makhijani, G. Thomas 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 posted by 26 people rshe n00c jonilaserson jessopher daforerog behindtherabbit frohike reyez pengchy adijr jo_davies jfr orzenil dullhunk djkt ramensky psique caseybrown melting dbensasson parkinson's disease references bpb Neeperando Huub_odc microbiology_nijmegen guhjy
	Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing [My Copy] Molecular Ecology, Vol. 17, No. 7. (April 2008), pp. 1636-1647. by J. Cristobal Vera, Christopher W. Wheat, Howard W. Fescemyer, et al.Mikko J. Frilander, Douglas L. Crawford, I. Ilkka Hansk, James H. Marden posted by 6 people n00c sujaikumar oneilsh semrich orzenil guhjy
	Gene expression profiling by massively parallel sequencing [My Copy] Genome research In Genome Research, Vol. 18, No. 1. (21 January 2008), pp. 172-177. by Tatiana T. Torres, Muralidhar Metta, Birgit OttenwÃ¤lder, Christian SchlÃ¶tterer posted by 21 people chriscole oannes hzoltan manduca n00c druvus daed floatingpoint inesdesantiago orzenil guhjy jfr dchughes stsaft echinotrix giovanni caseybrown ghattem idonaldson ohara gracio
	SNP discovery via 454 transcriptome sequencing [My Copy] The Plant Journal, Vol. 51, No. 5. (September 2007), pp. 910-918. by W. Brad Barbazuk, Scott J. Emrich, Hsin D. Chen, Li Li, Patrick S. Schnable posted by 6 people stubrown n00c jlin orzenil guhjy natstreet
	Accuracy and quality of massively parallel DNA pyrosequencing [My Copy] Genome Biology, Vol. 8, No. 7. (20 July 2007), R143. by Susan Huse, Julie Huber, Hilary Morrison, Mitchell Sogin, David Welch posted by 22 people darian nfparrish druvus n00c iSEEM jlgreen Thaverkamp orzenil mmartin floatingpoint Huub_odc gpappas jmeppley mblwhoi grahamc azazello GustavoLacerda Bioinformatics blobbybirdman gatech-compgenomics Olaf_Ilzins bozdagd
	Global repeat discovery and estimation of genomic copy number in a large, complex genome using a high-throughput 454 sequence survey [My Copy] BMC Genomics, Vol. 8, No. 1. (24 May 2007), 132. by Kankshita Swaminathan, Kranthi Varala, Matthew Hudson posted by 9 people n00c orzenil floatingpoint ghattem GustavoLacerda BergmanLab gatech-compgenomics tpreeprem bozdagd
	454 sequencing put to the test using the complex genome of barley [My Copy] BMC Genomics, Vol. 7, No. 1. (26 October 2006), 275. by Thomas Wicker, Edith Schlagenhauf, Andreas Graner, Timothy Close, Beat Keller, Nils Stein posted by 12 people n00c orzenil GustavoLacerda jmeppley balicea ghattem azazello MBLAB cisevol BergmanLab gatech-compgenomics tpreeprem
	A Fast Hybrid Short Read Fragment Assembly Algorithm [My Copy] Bioinformatics In Bioinformatics, Vol. 25, No. 17. (17 June 2009), pp. btp374-2280. by Bertil Schmidt, Ranjan Sinha, Bryan Beresford-Smith, Simon J. Puglisi posted by 20 people darian torfinnnome hzoltan cthachuk orzenil GustavoLacerda APRegier dakelley katholt GeeSharpMinor dayjm djkt Bioinformatics dswan Journal picks pachorip natstreet druvus n00c jmeppley
	Genome assembly reborn: recent computational challenges [My Copy] Brief Bioinform, Vol. 10, No. 4. (1 July 2009), pp. 354-366. by Mihai Pop posted by 32 people jfr hzoltan cthachuk GustavoLacerda n00c agbiotec shabhonam pachorip APRegier jmcq stevebs jonilaserson michaelbarton inesdesantiago GeeSharpMinor bertelsen aprasad ananta_samudra sandfire jmeppley mlangill fgibson Journal picks ppgardne TRHvidsten pengchy robsyme nuin kiekyon natstreet druvus idoerg
	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 by 30 people darian jfr cthachuk hzoltan ramonvidal orzenil pachorip GustavoLacerda jonilaserson operon BergmanLab polivares reyez jasontsai n00c humburg dakelley jessopher idonaldson robsyme neils natstreet AaronDarling druvus rpatward dswan Mycology stajich jbhiatt erikarner
	De novo assembly of the Pseudomonas syringae pv. syringae B728a genome using Illumina/Solexa short sequence reads. [My Copy] FEMS microbiology letters (9 December 2008) by Rhys A A. Farrer, Eric Kemen, Jonathan D G D. Jones, David J J. Studholme posted by 12 people shabhonam pachorip sandfire natstreet microbiology_nijmegen Huub_odc usagi-kirin abizar GustavoLacerda SIMR bioinformatics malcook druvus
	Single-Molecule DNA Sequencing of a Viral Genome [My Copy] Science, Vol. 320, No. 5872. (4 April 2008), pp. 106-109. by Timothy D. Harris, Phillip R. Buzby, Hazen Babcock, et al.Eric Beer, Jayson Bowers, Ido Braslavsky, Marie Causey, Jennifer Colonell, James Dimeo, J. William Efcavitch, Eldar Giladi, Jaime Gill, John Healy, Mirna Jarosz, Dan Lapen, Keith Moulton, Stephen R. Quake, Kathleen Steinmann, Edward Thayer, Anastasia Tyurina, Rebecca Ward, Howard Weiss, Zheng Xie posted by 28 people haisent pachorip katholt alexknight jbhiatt JonD lisa1 mkikkawa frohike katiehumphry operon dchughes samjlord neils zwang cabbagezs kinestetika moernerlab Microbial-Ecology microbiology_nijmegen benlin caseybrown kjglennie melting austin ilyaf vmarshal guhjy
	De novo bacterial genome sequencing: Millions of very short reads assembled on a desktop computer [My Copy] Genome Research, Vol. 18, No. 5. (10 May 2008), pp. 802-809. by David Hernandez, Patrice FranÃ§ois, Laurent Farinelli, Magne Ãsterã¥s, Jacques Schrenzel posted by 20 people n00c GeeSharpMinor pachorip operon druvus dakelley DeNovoAssembly-SIMR acn nmohelli GustavoLacerda jmeppley stajich azazello microbiology_nijmegen Katje Mycology gatech-compgenomics iris42 balicea Neeperando
	Versatile and open software for comparing large genomes. [My Copy] Genome Biol, Vol. 5, No. 2. (2004) by S. Kurtz, A. Phillippy, A. L. Delcher, et al.M. Smoot, M. Shumway, C. Antonescu, S. L. Salzberg posted by 10 people pachorip APRegier treangen natstreet druvus adelcher AaronDarling michC yoanjacquemin Neeperando
	Improved tools for biological sequence comparison. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 85, No. 8. (April 1988), pp. 2444-2448. by W. R. Pearson, D. J. Lipman posted by 18 people rshe maria_hauser pachorip parnell carlosviana cawelsh9 arcticrasta ffranca gurkanbebek bsmagic CitoJam lusk cjeans sujaikumar Bioinformatics bioinplant Ema bozdagd
	Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 31. (2 August 2005), pp. 11064-11069. by H. Feil, W. S. Feil, P. Chain, et al.F. Larimer, G. DiBartolo, A. Copeland, A. Lykidis, S. Trong, M. Nolan, E. Goltsman, J. Thiel, S. Malfatti, J. E. Loper, A. Lapidus, J. C. Detter, M. Land, P. M. Richardson, N. C. Kyrpides, N. Ivanova, S. E. Lindow posted by 3 people shabhonam pachorip LeightonP
	Alignment of whole genomes. [My Copy] Nucleic acids research, Vol. 27, No. 11. (1 June 1999), pp. 2369-2376. by A. L. Delcher, S. Kasif, R. D. Fleischmann, J. Peterson, O. White, S. L. Salzberg posted by 7 people maria_hauser pachorip dragonrez yoanjacquemin bozdagd wenhan MBLAB
	DNA sequencing with chain-terminating inhibitors [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 74, No. 12. (December 1977), pp. 5463-5467. by F. Sanger, S. Nicklen, A. R. Coulson posted by 13 people tomd66 pachorip mqbphcw3 daforerog idoerg jbhiatt yupu Khavkin's lab ArtemPankin reyez whrandom jwm bozdagd
	Basic local alignment search tool. [My Copy] Journal of molecular biology, Vol. 215, No. 3. (5 October 1990), pp. 403-410. by S. F. Altschul, W. Gish, W. Miller, E. W. Myers, D. J. Lipman posted by 87 people claire_jubin danbolser PolymeraseI VGreiff richter80 krapnik azazello rshe mtaschuk sjcockell niallhaslam djohnson thegoose humburg timhubbard pachorip n00c maria_hauser rpetrenko parnell yylin esyoun APRegier idoerg Neeperando robert85 thegoose2 daforerog mcbla coela alessandroparini bertelsen Blackbeard florisbuijzen laurabailey treangen pwais mmartin C. elegans / WormBase tharris dmp camster davidng evaf dragonrez jwm jmeppley Ayest RMGraze ea yas balajis alexg indigoviolet moborg arcticrasta dullhunk dgront caporaso michC myui BioNica CitoJam rabio timflutre lusk cjeans incovoma beatrizfernandez wenhan jtomasch GustavoLacerda sgoetz siebertm ichbins81 jofiel dbk-lab EisenLab T_lab biomedical-nlp Microbial-Ecology Thaverkamp shung marti ashaytan benwei granujilla
	De Novo Repeat Classification and Fragment Assembly [My Copy] Genome Research In Genome Research, Vol. 14, No. 9. (September 2004), pp. 1786-1796. by Paul A. Pevzner, Haixu Tang, Glenn Tesler posted by 18 people claire_jubin n00c pachorip natstreet dakelley druvus brl briann operon timflutre azazello prajlondhe nedwards urgi yoanjacquemin dmc Ema Neeperando
	A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing. [My Copy] Nucleic acids research, Vol. 35, No. 19. (2007) by Poornima Parameswaran, Roxana Jalili, Li Tao, et al.Shadi Shokralla, Baback Gharizadeh, Mostafa Ronaghi, Andrew Z. Fire posted by 11 people michaelbarton manduca heliopais stubrown iSEEM jlgreen mikheyev jbhiatt pdexheimer alexisfjdufresne slevy03
	Deep Sequencing of Chicken microRNAs [My Copy] BMC Genomics, Vol. 9 (22 April 2008), 185. by Joan Burnside, Ming Ouyang, Amy Anderson, et al.Erin Bernberg, Cheng Lu, Blake C. Meyers, Pamela J. Green, Milos Markis, Grace K. Isaacs, Emily Huang, Robin W. Morgan posted by 2 people heliopais microRNA
	Non-random retention of protein-coding overlapping genes in Metazoa [My Copy] BMC Genomics, Vol. 9, No. 1. (16 April 2008), 174. by Giulia Solda, Mikita Suyama, Paride Pelucchi, et al.Silvia Boi, Alessandro Guffanti, Ermanno Rizzi, Peer Bork, Maria Tenchini, Francesca Ciccarelli posted by 4 people daveGerrard cisevol BergmanLab maximilianh
	Nucleosome organization in the Drosophila genome [My Copy] Nature, Vol. 453, No. 7193. (13 April 2008), pp. 358-362. by Travis N. Mavrich, Cizhong Jiang, Ilya P. Ioshikhes, et al.Xiaoyong Li, Bryan J. Venters, Sara J. Zanton, Lynn P. Tomsho, Ji Qi, Robert L. Glaser, Stephan C. Schuster, David S. Gilmour, Istvan Albert, B. Franklin Pugh posted by 8 people bpcusack tonamswish taroleo nklee djkt megraw emptyhb yoonk
	A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. [My Copy] PLoS ONE, Vol. 2, No. 12. (2007) by R. Velasco, A. Zharkikh, M. Troggio, et al.D. A. Cartwright, A. Cestaro, D. Pruss, M. Pindo, L. M. Fitzgerald, S. Vezzulli, J. Reid, G. Malacarne, D. Iliev, G. Coppola, B. Wardell, D. Micheletti, T. Macalma, M. Facci, J. T. Mitchell, M. Perazzolli, G. Eldredge, P. Gatto, R. Oyzerski, M. Moretto, N. Gutin, M. Stefanini, Y. Chen, C. Segala, C. Davenport, L. Demattè, A. Mraz, J. Battilana, K. Stormo, F. Costa, Q. Tao, A. Si-Ammour, T. Harkins, A. Lackey, C. Perbost, B. Taillon, A. Stella, V. Solovyev, J. A. Fawcett, L. Sterck, K. Vandepoele, S. M. Grando, S. Toppo, C. Moser, J. Lanchbury, R. Bogden, M. Skolnick, V. Sgaramella, S. K. Bhatnagar, P. Fontana, A. Gutin, Y. Van de Peer, F. Salamini, R. Viola posted by 3 people druvus semrich natstreet
	Rapid comparative genomic analysis for clinical microbiology: The Francisella tularensis paradigm [My Copy] Genome Res. (11 April 2008), gr.071266.107. by Bernard La Scola, Khalid Elkarkouri, Wenjun Li, et al.Tara Wahab, Ghislain Fournous, Jean-Marc Rolain, Silpak Biswas, Michel Drancourt, Catherine Robert, Stephane Audic, Sven Lofdahl, Didier Raoult posted by 2 people druvus tmmurali
	Novel and nodulation-regulated microRNAs in soybean roots [My Copy] BMC Genomics, Vol. 9, No. 1. (10 April 2008), 160. by Senthil Subramanian, Yan Fu, Ramanjulu Sunkar, W. Brad Barbazuk, Jian K. Zhu, Oliver Yu posted by 1 person maren
	Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. [My Copy] Nature, Vol. 453, No. 7194. (22 May 2008), pp. 534-538. by Oliver H. Tam, Alexei A. Aravin, Paula Stein, et al.Angelique Girard, Elizabeth P. Murchison, Sihem Cheloufi, Emily Hodges, Martin Anger, Ravi Sachidanandam, Richard M. Schultz, Gregory J. Hannon posted by 7 people sebastien_vigneau galka8_diploma natstreet gjuggler rschulz eskay inesdesantiago
	Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa [My Copy] Genome Res., Vol. 18, No. 4. (1 April 2008), pp. 571-584. by Ryan D. Morin, Gozde Aksay, Elena Dolgosheina, et al.Alexander H. Ebhardt, Vincent Magrini, Elaine R. Mardis, Cenk S. Sahinalp, Peter J. Unrau
	Comparative genomic analyses of seventeen Streptococcus pneumoniae strains: insights into the pneumococcal supragenome. [My Copy] Journal of bacteriology, Vol. 189, No. 22. (15 November 2007), pp. 8186-8195. by N. Luisa Hiller, Benjamin Janto, Justin S. Hogg, et al.Robert Boissy, Susan Yu, Evan Powell, Randy Keefe, Nathan E. Ehrlich, Kai Shen, Jay Hayes, Karen Barbadora, William Klimke, Dmitry Dernovoy, Tatiana Tatusova, Julian Parkhill, Stephen D. Bentley, J. Christopher Post, Garth D. Ehrlich, Fen Z. Hu posted by 4 people BartonLab michaelbarton katholt operon
	Comparative genomic analysis of Mycobacterium avium subspecies obtained from multiple host species [My Copy] BMC Genomics, Vol. 9 (20 March 2008), 135. by Michael L. Paustian, Xiaochun Zhu, Srinand Sreevatsan, Suelee Robbe-Austerman, Vivek Kapur, John P. Bannantine
	Functional metagenomic profiling of nine biomes [My Copy] Nature, Vol. 452, No. 7187. (12 March 2008), pp. 629-632. by Elizabeth A. Dinsdale, Robert A. Edwards, Dana Hall, et al.Florent Angly, Mya Breitbart, Jennifer M. Brulc, Mike Furlan, Christelle Desnues, Matthew Haynes, Linlin Li, Lauren McDaniel, Mary A. Moran, Karen E. Nelson, Christina Nilsson, Robert Olson, John Paul, Beltran R. Brito, Yijun Ruan, Brandon K. Swan, Rick Stevens, David L. Valentine, Rebecca V. Thurber, Linda Wegley, Bryan A. White, Forest Rohwer posted by 24 people idoerg Thaverkamp shuzhens Savage Lab, UCLA anphony michaelbarton azazello skembel guhjy djkt neils kinestetika microbiology_nijmegen bluto oelemento alexisfjdufresne vaulot Microbial-Ecology Papers recommended by the Roscoff Plankton Group jmeppley vrich jlgreen Green Lab iSEEM
	Sense from sequence reads: methods for alignment and assembly [My Copy] Nature Methods, Vol. 6, No. 11s. (15 October 2009), pp. S6-S12. by Paul Flicek, Ewan Birney posted by 18 people claire_jubin n00c idoerg ajsferreira pst owenlancaster Orengo Group Journal Picks robertrentzsch oannes74 Thaverkamp jasontsai natstreet seb1 druvus chvlyl GeeSharpMinor venancio desany
	Computational methods for discovering structural variation with next-generation sequencing [My Copy] Nature Methods, Vol. 6, No. 11s. (15 October 2009), pp. S13-S20. by Paul Medvedev, Monica Stanciu, Michael Brudno posted by 20 people seb1 pst owenlancaster Orengo Group Journal Picks robertrentzsch oannes74 toszko kiekyon michaelbarton jasontsai sameersoi heliopais druvus GeeSharpMinor Peiyong n00c gdv desany Journal picks qayub
	Cancer genome sequencing: a review [My Copy] Hum. Mol. Genet., Vol. 18, No. R2. (15 October 2009), pp. R163-168. by Elaine R. Mardis, Richard K. Wilson posted by 4 people n00c dakelley desany jmanning2k
	Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome. [My Copy] Cell host & microbe, Vol. 3, No. 4. (17 April 2008), pp. 213-223. by P. J. Turnbaugh, F. Bäckhed, L. Fulton, J. I. Gordon posted by 1 person Zephyrus
	Altered utilization of N-acetyl-D-galactosamine by Escherichia coli O157:H7 from the 2006 spinach outbreak. [My Copy] Journal of bacteriology, Vol. 190, No. 5. (March 2008), pp. 1710-1717. by A. Mukherjee, M. K. Mammel, J. E. LeClerc, T. A. Cebula
	RNA-directed RNA polymerase (RdR) 3 from Nicotiana attenuata is required for competitive growth in natural environments. [My Copy] Plant physiology (14 May 2008) by Shree P P. Pandey, Emmanuel Gaquerel, Klaus Gase, Ian T T. Baldwin
	Genome sequence of Brucella abortus vaccine strain S19 compared to virulent strains yields candidate virulence genes. [My Copy] PLoS ONE, Vol. 3, No. 5. (2008) by O. R. Crasta, O. Folkerts, Z. Fei, et al.S. P. Mane, C. Evans, S. Martino-Catt, B. Bricker, G. Yu, L. Du, B. W. Sobral
	Genome analysis of a Glossina pallidipes salivary gland hypertrophy virus reveals a novel, large, double-stranded circular DNA virus. [My Copy] Journal of virology, Vol. 82, No. 9. (May 2008), pp. 4595-4611. by A. M. Abd-Alla, F. Cousserans, A. G. Parker, et al.J. A. Jehle, N. J. Parker, J. M. Vlak, A. S. Robinson, M. Bergoin
	DNA bar coding and pyrosequencing to analyze adverse events in therapeutic gene transfer. [My Copy] Nucleic acids research, Vol. 36, No. 9. (May 2008) by G. P. Wang, A. Garrigue, A. Ciuffi, et al.K. Ronen, J. Leipzig, C. Berry, C. Lagresle-Peyrou, F. Benjelloun, S. Hacein-Bey-Abina, A. Fischer, M. Cavazzana-Calvo, F. D. Bushman
	Low-coverage massively parallel pyrosequencing of cDNAs enables proteomics in non-model species: Comparison of a species-specific database generated by pyrosequencing with databases from related species for proteome analysis of pea chloroplast envelopes. [My Copy] Journal of biotechnology (17 February 2008) by Andrea Bräutigam, Roshan P P. Shrestha, Doug Whitten, et al.Curtis G G. Wilkerson, Kevin M M. Carr, John E E. Froehlich, Andreas P M P. Weber
	Direct resequencing of the complete ERBB2 coding sequence reveals an absence of activating mutations in ERBB2 amplified breast cancer. [My Copy] Genes, chromosomes & cancer, Vol. 47, No. 7. (July 2008), pp. 633-638. by C. I. Zito, D. Riches, J. Kolmakova, J. Simons, M. Egholm, D. F. Stern
	Species detection using environmental DNA from water samples. [My Copy] Biology letters (9 April 2008) by Gentile Francesco F. Ficetola, Claude Miaud, François Pompanon, Pierre Taberlet posted by 1 person orzenil
	Whole genome pyrosequencing of an epidemic multidrug resistant Acinetobacter baumannii of the European clone II. [My Copy] Antimicrobial agents and chemotherapy (14 April 2008) by Michele Iacono, Laura Villa, Daniela Fortini, et al.Roberta Bordoni, Francesco Imperi, Raoul J P J. Bonnal, Thomas Sicheritz-Ponten, Gianluca De Bellis, Paolo Visca, Antonio Cassone, Alessandra Carattoli
	Using RNase sequence specificity to refine the identification of RNA-protein binding regions. [My Copy] BMC genomics, Vol. 9 Suppl 1 (2008) by X. Wang, G. Wang, C. Shen, et al.L. Li, X. Wang, S. D. Mooney, H. J. Edenberg, J. R. Sanford, Y. Liu
	Ultrafast pyrosequencing of Corynebacterium kroppenstedtii DSM44385 revealed insights into the physiology of a lipophilic corynebacterium that lacks mycolic acids. [My Copy] Journal of biotechnology (20 March 2008) by Andreas Tauch, Jessica Schneider, Rafael Szczepanowski, et al.Alexandra Tilker, Prisca Viehoever, Karl-Heinz H. Gartemann, Walter Arnold, Jochen Blom, Karina Brinkrolf, Iris Brune, Susanne Götker, Bernd Weisshaar, Alexander Goesmann, Marcus Dröge, Alfred Pühler posted by 1 person sconlan
	The lifestyle of Corynebacterium urealyticum derived from its complete genome sequence established by pyrosequencing. [My Copy] Journal of biotechnology (10 March 2008) by Andreas Tauch, Eva Trost, Alexandra Tilker, et al.Ulrike Ludewig, Susanne Schneiker, Alexander Goesmann, Walter Arnold, Thomas Bekel, Karina Brinkrolf, Iris Brune, Susanne Götker, Jörn Kalinowski, Paul-Bertram B. Kamp, Francisco Pereira P. Lobo, Prisca Viehoever, Bernd Weisshaar, Francisco Soriano, Marcus Dröge, Alfred Pühler
	Helicobacter pylori evolution during progression from chronic atrophic gastritis to gastric cancer and its impact on gastric stem cells. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 11. (18 March 2008), pp. 4358-4363. by M. Giannakis, S. L. Chen, S. M. Karam, L. Engstrand, J. I. Gordon
	Sequence determination of a mildly virulent strain (CU-2) of Gallid herpesvirus type 2 using 454 pyrosequencing. [My Copy] Virus genes, Vol. 36, No. 3. (June 2008), pp. 479-489. by S. J. Spatz, C. A. Rue
	Mutation in the transcriptional regulator PhoP contributes to avirulence of Mycobacterium tuberculosis H37Ra strain. [My Copy] Cell host & microbe, Vol. 3, No. 2. (14 February 2008), pp. 97-103. by J. S. Lee, R. Krause, J. Schreiber, et al.H. J. Mollenkopf, J. Kowall, R. Stein, B. Y. Jeon, J. Y. Kwak, M. K. Song, J. P. Patron, S. Jorg, K. Roh, S. N. Cho, S. H. Kaufmann
	A probabilistic method for small RNA flowgram matching. [My Copy] Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2008), pp. 75-86. by Vladimir Vacic, Hailing Jin, Jian-Kang K. Zhu, Stefano Lonardi posted by 2 people n00c mmartin
	PolIVb influences RNA-directed DNA methylation independently of its role in siRNA biogenesis [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 8. (26 February 2008), pp. 3145-3150. by Rebecca A. Mosher, Frank Schwach, David Studholme, David C. Baulcombe posted by 2 people natstreet micromassive
	Herbivory-induced changes in the small-RNA transcriptome and phytohormone signaling in Nicotiana attenuata. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 12. (25 March 2008), pp. 4559-4564. by S. P. Pandey, P. Shahi, K. Gase, I. T. Baldwin posted by 2 people kathrynmrobinson natstreet
	Argonaute loading improves the 5' precision of both MicroRNAs and their miRNA strands in flies. [My Copy] Current biology : CB, Vol. 18, No. 2. (22 January 2008), pp. 147-151. by H. Seitz, M. Ghildiyal, P. D. Zamore posted by 3 people microRNA heliopais valeriehilgers
	Transcriptome sequencing of malignant pleural mesothelioma tumors. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 9. (4 March 2008), pp. 3521-3526. by D. J. Sugarbaker, W. G. Richards, G. J. Gordon, et al.L. Dong, A. De Rienzo, G. Maulik, J. N. Glickman, L. R. Chirieac, M. L. Hartman, B. E. Taillon, L. Du, P. Bouffard, S. F. Kingsmore, N. A. Miller, A. D. Farmer, R. V. Jensen, S. R. Gullans, R. Bueno posted by 1 person daed
	Parallel tagged sequencing on the 454 platform [My Copy] Nature Protocols, Vol. 3, No. 2. (31 January 2008), pp. 267-278. by Matthias Meyer, Udo Stenzel, Michael Hofreiter posted by 7 people heliopais n00c jandot GeeSharpMinor maren slevy03 guhjy
	Systematic Identification of C. elegans miRISC Proteins, miRNAs, and mRNA Targets by Their Interactions with GW182 Proteins AIN-1 and AIN-2 [My Copy] Molecular Cell, Vol. 28, No. 4. (30 November 2007), pp. 598-613. by L. Zhang, L. Ding, T. Cheung, et al.M. Dong, J. Chen, A. Sewell, X. Liu, J. Yatesiii, M. Han posted by 3 people thegoose2 C. elegans / WormBase tharris
	A novel class of bacteria-induced small RNAs in Arabidopsis. [My Copy] Genes & development, Vol. 21, No. 23. (1 December 2007), pp. 3123-3134. by S. Katiyar-Agarwal, S. Gao, A. Vivian-Smith, H. Jin posted by 1 person ozyjul
	Variable-number tandem repeats as molecular markers for biotypes of Pasteuria ramosa in Daphnia spp. [My Copy] Applied and environmental microbiology, Vol. 73, No. 11. (June 2007), pp. 3715-3718. by L. Mouton, G. Nong, J. F. Preston, D. Ebert
	A novel linear plasmid mediates flagellar variation in Salmonella Typhi. [My Copy] PLoS pathogens, Vol. 3, No. 5. (11 May 2007) by S. Baker, J. Hardy, K. E. Sanderson, et al.M. Quail, I. Goodhead, R. A. Kingsley, J. Parkhill, B. Stocker, G. Dougan
	Identification of novel high-frequency DNA methylation changes in breast cancer. [My Copy] PLoS ONE, Vol. 2, No. 12. (2007) by J. M. Ordway, M. A. Budiman, Y. Korshunova, et al.R. K. Maloney, J. A. Bedell, R. W. Citek, B. Bacher, S. Peterson, T. Rohlfing, J. Hall, R. Brown, N. Lakey, R. W. Doerge, R. A. Martienssen, J. Leon, J. D. McPherson, J. A. Jeddeloh posted by 2 people mdperry misonneh
	Role of PSIP1/LEDGF/p75 in lentiviral infectivity and integration targeting. [My Copy] PLoS ONE, Vol. 2, No. 12. (2007) by H. M. Marshall, K. Ronen, C. Berry, et al.M. Llano, H. Sutherland, D. Saenz, W. Bickmore, E. Poeschla, F. D. Bushman
	Allelotyping by massively parallel pyrosequencing of SNP-carrying trinucleotide threads. [My Copy] Human mutation, Vol. 29, No. 2. (February 2008), pp. 323-329. by E. Pettersson, P. Zajac, P. L. Ståhl, et al.J. A. Jacobsson, R. Fredriksson, C. Marcus, H. B. Schiöth, J. Lundeberg, A. Ahmadian
	Chlamydia trachomatis: genome sequence analysis of lymphogranuloma venereum isolates. [My Copy] Genome research, Vol. 18, No. 1. (January 2008), pp. 161-171. by N. R. Thomson, M. T. Holden, C. Carder, et al.N. Lennard, S. J. Lockey, P. Marsh, P. Skipp, C. D. O'Connor, I. Goodhead, H. Norbertzcak, B. Harris, D. Ormond, R. Rance, M. A. Quail, J. Parkhill, R. S. Stephens, I. N. Clarke
	RNA sequence analysis defines Dicer's role in mouse embryonic stem cells. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 46. (13 November 2007), pp. 18097-18102. by J. M. Calabrese, A. C. Seila, G. W. Yeo, P. A. Sharp posted by 3 people microRNA tonamswish valeriehilgers
	Complexity reduction of polymorphic sequences (CRoPS): a novel approach for large-scale polymorphism discovery in complex genomes. [My Copy] PLoS ONE, Vol. 2, No. 11. (2007) by N. J. van Orsouw, R. C. Hogers, A. Janssen, et al.F. Yalcin, S. Snoeijers, E. Verstege, H. Schneiders, H. van der Poel, J. van Oeveren, H. Verstegen, M. J. van Eijk
	Genomic and biochemical studies demonstrating the absence of an alkane-producing phenotype in Vibrio furnissii M1. [My Copy] Applied and environmental microbiology, Vol. 73, No. 22. (November 2007), pp. 7192-7198. by L. P. Wackett, J. A. Frias, J. L. Seffernick, D. J. Sukovich, S. M. Cameron
	Identification of novel antipoxviral agents: mitoxantrone inhibits vaccinia virus replication by blocking virion assembly. [My Copy] Journal of virology, Vol. 81, No. 24. (December 2007), pp. 13392-13402. by L. Deng, P. Dai, A. Ciro, D. F. Smee, H. Djaballah, S. Shuman
	SmedGD: the Schmidtea mediterranea genome database. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (January 2008) by S. M. Robb, E. Ross, A. Sánchez Alvarado posted by 2 people ajaymalik orzenil
	Genome analysis of phage JS98 defines a fourth major subgroup of T4-like phages in Escherichia coli. [My Copy] Journal of bacteriology, Vol. 189, No. 22. (November 2007), pp. 8206-8214. by S. Zuber, C. Ngom-Bru, C. Barretto, A. Bruttin, H. Brüssow, E. Denou posted by 1 person kieran101
	Complete genomic sequence and mass spectrometric analysis of highly diverse, atypical Bacillus thuringiensis phage 0305phi8-36. [My Copy] Virology, Vol. 368, No. 2. (25 November 2007), pp. 405-421. by J. A. Thomas, S. C. Hardies, M. Rolando, et al.S. J. Hayes, K. Lieman, C. A. Carroll, S. T. Weintraub, P. Serwer posted by 1 person kieran101
	MamuSNP: a resource for Rhesus Macaque (Macaca mulatta) genomics. [My Copy] PLoS ONE, Vol. 2, No. 5. (2007) by R. S. Malhi, B. Sickler, D. Lin, et al.J. Satkoski, R. Y. Tito, D. George, S. Kanthaswamy, D. G. Smith
	Genome sequence of a clinical isolate of Campylobacter jejuni from Thailand. [My Copy] Infection and immunity, Vol. 75, No. 7. (July 2007), pp. 3425-3433. by F. Poly, T. Read, D. R. Tribble, S. Baqar, M. Lorenzo, P. Guerry
	Activation of TLX3 and NKX2-5 in t(5;14)(q35;q32) T-cell acute lymphoblastic leukemia by remote 3'-BCL11B enhancers and coregulation by PU.1 and HMGA1. [My Copy] Cancer research, Vol. 67, No. 4. (15 February 2007), pp. 1461-1471. by S. Nagel, M. Scherr, A. Kel, et al.K. Hornischer, G. E. Crawford, M. Kaufmann, C. Meyer, H. G. Drexler, R. A. MacLeod
	A role for Piwi and piRNAs in germ cell maintenance and transposon silencing in Zebrafish. [My Copy] Cell, Vol. 129, No. 1. (6 April 2007), pp. 69-82. by Saskia Houwing, Leonie M. Kamminga, Eugene Berezikov, et al.Daniela Cronembold, Angélique Girard, Hans van den Elst, Dmitri V. Filippov, Heiko Blaser, Erez Raz, Cecilia B. Moens, Ronald H. Plasterk, Gregory J. Hannon, Bruce W. Draper, René F. Ketting posted by 1 person altotor
	Role of RNA polymerase IV in plant small RNA metabolism. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 11. (13 March 2007), pp. 4536-4541. by X. Zhang, I. R. Henderson, C. Lu, P. J. Green, S. E. Jacobsen posted by 1 person micromassive