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xingxu's library [264 articles]

Recent papers added to xingxu's library ordered by importance.
  • Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation
    Science, Vol. 319, No. 5866. (22 February 2008), pp. 1100-1104.
    by Jun Z Li, Devin M Absher, Hua Tang, Audrey M Southwick, Amanda M Casto, Sohini Ramachandran, Howard M Cann, Gregory S Barsh, Marcus Feldman, Luigi L Cavalli-Sforza, Richard M Myers
    posted to genomics history human_diversity human_genetics population by xingxu on 2008-02-24 02:57:08 as ***** along with 9 people adacier cgravlee echinotrix EsepBib ramensky zwang qwermish mailund Dorkins
  • Toward a malaria haplotype map
    Nature Genetics, Vol. 39, No. 1., pp. 5-6.
    by Jane M Carlton
    posted to malaria summary by xingxu on 2007-08-17 16:48:37 as *****
  • Common genetic variants account for differences in gene expression among ethnic groups.
    Nat Genet (7 January 2007)
    by Richard S S Spielman, Laurel A A Bastone, Joshua T T Burdick, Michael Morley, Warren J J Ewens, Vivian G G Cheung
    posted to decode hapmap by xingxu on 2007-08-17 16:46:27 as ***** along with 6 people and 4 groups aprasad balicea dchughes adepace vplagnol mgaldzic EisenLab G4ID CHIP Genetics-of-Gambling
  • Germ-line DNA copy number variation frequencies in a large North American population.
    Hum Genet (19 July 2007)
    by George Zogopoulos, Kevin C Ha, Faisal Naqib, Sara Moore, Hyeja Kim, Alexandre Montpetit, Frederick Robidoux, Philippe Laflamme, Michelle Cotterchio, Celia Greenwood, Stephen W Scherer, Brent Zanke, Thomas J Hudson, Gary D Bader, Steven Gallinger
    posted to cnv by xingxu on 2007-08-01 22:26:18 as ***** along with 1 person bpb
  • M. tuberculosis and M. leprae Translocate from the Phagolysosome to the Cytosol in Myeloid Cells
    Cell, Vol. 129, No. 7. (29 June 2007), pp. 1287-1298.
    by Nicole van der Wel, David Hava, Diane Houben, Donna Fluitsma, Maaike van Zon, Jason Pierson, Michael Brenner, Peter J Peters
    posted to microbiology mycobacteria by xingxu on 2007-08-20 17:33:00 as ****
  • Comparative genomic analysis of three Leishmania species that cause diverse human disease
    Nature Genetics, Vol. 39, No. 7. (17 June 2007), pp. 839-847.
    by Christopher S Peacock, Kathy Seeger, David Harris, Lee Murphy, Jeronimo C Ruiz, Michael A Quail, Nick Peters, Ellen Adlem, Adrian Tivey, Martin Aslett, Arnaud Kerhornou, Alasdair Ivens, Audrey Fraser, Marie-Adele Rajandream, Tim Carver, Halina Norbertczak, Tracey Chillingworth, Zahra Hance, Kay Jagels, Sharon Moule, Doug Ormond, Simon Rutter, Rob Squares, Sally Whitehead, Ester Rabbinowitsch, Claire Arrowsmith, Brian White, Scott Thurston, Frédéric Bringaud, Sandra L Baldauf, Adam Faulconbridge, Daniel Jeffares, Daniel P Depledge, Samuel O Oyola, James D Hilley, Loislene O Brito, Luiz RO Tosi, Barclay Barrell, Angela K Cruz, Jeremy C Mottram, Deborah F Smith, Matthew Berriman
    posted to genomics kinetoplastid leishmania parasitology by xingxu on 2007-08-07 16:58:46 as ****
  • Reconstructing the ancestor of Mycobacterium leprae: The dynamics of gene loss and genome reduction
    Genome Res., Vol. 17, No. 8. (1 August 2007), pp. 1178-1185.
    by Laura Gomez-Valero, Eduardo P Rocha, Amparo Latorre, Francisco J Silva
    posted to evolution microbiology mycobacteria by xingxu on 2007-08-07 16:39:09 as **** along with 1 person operon
  • Effect of the androgen receptor CAG repeat polymorphism on transcriptional activity: specificity in prostate and non-prostate cell lines.
    J Mol Endocrinol, Vol. 25, No. 1. (August 2000), pp. 85-96.
    by J Beilin, EM Ball, JM Favaloro, JD Zajac
    posted to prostate by xingxu on 2007-08-02 16:44:17 as **** along with 1 person inbetweener
  • The Mirtron Pathway Generates microRNA-Class Regulatory RNAs in Drosophila.
    Cell (26 June 2007)
    by Katsutomo Okamura, Joshua W W Hagen, Hong Duan, David M M Tyler, Eric C C Lai
    posted to drosophila ncrna by xingxu on 2007-08-02 15:58:11 as **** along with 2 people and 1 group andersbj lp2 microRNA
  • Metagenomic Analysis of the Human Distal Gut Microbiome
    Science, Vol. 312, No. 5778. (2 June 2006), pp. 1355-1359.
    by Steven R Gill, Mihai Pop, Robert T Deboy, Paul B Eckburg, Peter J Turnbaugh, Buck S Samuel, Jeffrey I Gordon, David A Relman, Claire M Fraser-Liggett, Karen E Nelson
    posted to metagenomics microbiology by xingxu on 2007-08-01 22:07:03 as **** along with 15 people and 9 groups Yanno ana dayjm jmeppley dchughes cmm neveaire hcmorton michC bluto azazello beatrizfernandez wenhan host-bacteria melissa_wos structural_bioinformatics Biostatistics Computational-Genomics Bioinformatics Neuroscience FAB-lab G4ID Microbial-Ecology Genetics-of-Gambling
  • Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes
    PLoS Biology, Vol. 5, No. 3. (1 March 2007), e82.
    by Jonathan A Eisen
    posted to essay metagenomics microbiology by xingxu on 2007-08-01 21:48:10 as **** along with 4 people and 1 group jmeppley jdelcampo azazello beatrizfernandez Microbial-Ecology
  • Non-transcriptional control of DNA replication by c-Myc
    Nature (27 June 2007)
    by David Dominguez-Sola, Carol Y Ying, Carla Grandori, Luca Ruggiero, Brenden Chen, Muyang Li, Denise A Galloway, Wei Gu, Jean Gautier, Riccardo Dalla-Favera
    posted to myc by xingxu on 2007-08-20 17:28:41 as *** along with 1 person tibbitts
  • Proteomics and electron microscopic characterization of the unusual mitochondrial ribosome-related 45S complex in Leishmania tarentolae
    Molecular and Biochemical Parasitology, Vol. 152, No. 2. (April 2007), pp. 203-212.
    by Dmitri A Maslov, Linda L Spremulli, Manjuli R Sharma, Kalpana Bhargava, Domenick Grasso, Arnold M Falick, Rajendra K Agrawal, Carol E Parker, Larry Simpson
    posted to kinetoplastid leishmania parasitology personal-interest by xingxu on 2007-08-07 17:10:23 as ***
  • Evolution of RNA editing in kinetoplastid protozoa
    Nature, Vol. 368, No. 6469. (24 March 1994), pp. 345-348.
    by Dmitri A Maslov, Herbert A Avila, James A Lake, Larry Simpson
    posted to evolution kinetoplastid parasitology personal-interest rna-editing by xingxu on 2007-08-07 17:08:08 as ***
  • Small dsRNAs induce transcriptional activation in human cells.
    Proc Natl Acad Sci U S A (3 November 2006)
    by Long-Cheng C Li, Steven T T Okino, Hong Zhao, Deepa Pookot, Robert F F Place, Shinji Urakami, Hideki Enokida, Rajvir Dahiya
    posted to ncrna by xingxu on 2007-08-02 16:46:32 as *** along with 6 people jyuh tardigrade mtagaya alwinpremanand ishak maralena
  • Genetic Association Mapping via Evolution-Based Clustering of Haplotypes
    PLoS Genetics, Vol. 3, No. 7. (1 July 2007), e111.
    by Ioanna Tachmazidou, Claudio J Verzilli, Maria D Iorio
    posted to bioinformatics gwa by xingxu on 2007-08-02 16:30:53 as *** along with 2 people zwang dmc
  • Morphological evolution through multiple cis-regulatory mutations at a single gene
    Nature (15 July 2007)
    by Alistair P Mcgregor, Virginie Orgogozo, Isabelle Delon, Jennifer Zanet, Dayalan G Srinivasan, François Payre, David L Stern
    posted to drosophila evolution by xingxu on 2007-08-02 16:03:39 as *** along with 6 people and 2 groups dpollard djkt zwang Stew cisevol emptyhb EisenLab cis-regulatory-evolution
  • A common genetic risk factor for colorectal and prostate cancer
    Nature Genetics, Vol. 39, No. 8. (08 July 2007), pp. 954-956.
    by Christopher A Haiman, Loïc Le Marchand, Jennifer Yamamato, Daniel O Stram, Xin Sheng, Laurence N Kolonel, Anna H Wu, David Reich, Brian E Henderson
    posted to 8q24 colon prostate by xingxu on 2007-08-01 22:28:13 as ***
  • Contribution of the BOP1 gene, located on 8q24, to colorectal tumorigenesis
    Genes, Chromosomes and Cancer, Vol. 45, No. 9. (2006), pp. 874-881.
    by Audrey Killian, Nasrin Sarafan-Vasseur, Richard Sesboüé, Florence Le Pessot, France Blanchard, Aude Lamy, Michelle Laurent, Jean-Michel Flaman, Thierry Frébourg
    posted to 8q24 colon by xingxu on 2007-08-01 22:16:06 as ***
  • A high-resolution map of transcription in the yeast genome
    PNAS, Vol. 103, No. 14. (4 April 2006), pp. 5320-5325.
    by Lior David, Wolfgang Huber, Marina Granovskaia, Joern Toedling, Curtis J Palm, Lee Bofkin, Ted Jones, Ronald W Davis, Lars M Steinmetz
    posted to genomics yeast by xingxu on 2007-08-01 22:03:57 as *** along with 6 people and 2 groups tuck alexg eckart_bindewald dpollard entropy raiyar EisenLab steinmetzlab
  • Distinct classes of chromosomal rearrangements create oncogenic ETS gene fusions in prostate cancer
    Nature, Vol. 448, No. 7153. (2007), pp. 595-599.
    by Scott A Tomlins, Bharathi Laxman, Saravana M Dhanasekaran, Beth E Helgeson, Xuhong Cao, David S Morris, Anjana Menon, Xiaojun Jing, Qi Cao, Bo Han, Jindan Yu, Lei Wang, James E Montie, Mark A Rubin, Kenneth J Pienta, Diane Roulston, Rajal B Shah, Sooryanarayana Varambally, Rohit Mehra, Arul M Chinnaiyan
    posted to prostate by xingxu on 2007-08-01 21:38:21 as *** along with 1 person sbranco
  • A genome-wide association study identifies KIAA0350 as a type 1 diabetes gene
    Nature (15 July 2007)
    by Hakon Hakonarson, Struan FA Grant, Jonathan P Bradfield, Luc Marchand, Cecilia E Kim, Joseph T Glessner, Rosemarie Grabs, Tracy Casalunovo, Shayne P Taback, Edward C Frackelton, Margaret L Lawson, Luke J Robinson, Robert Skraban, Yang Lu, Rosetta M Chiavacci, Charles A Stanley, Susan E Kirsch, Eric F Rappaport, Jordan S Orange, Dimitri S Monos, Marcella Devoto, Hui-Qi Qu, Constantin Polychronakos
    posted to diabetes gwa by xingxu on 2007-08-01 21:38:05 as ***
  • What is principal component analysis?
    Nature Biotechnology, Vol. 26, No. 3., pp. 303-304.
    by Markus Ringnér
    posted to population pca gwa by xingxu on 2008-05-14 14:48:16 as ** along with 44 people and 3 groups dekay23 rvosa i-stevenson dimka dayjm markusd ashko craigwilson06 abbie_riner quianominorleo bibay2004 jfr kristgy pavanghatty rchauhan waghsk hpaces adacier fryanpan sobolevnrm Yanno jyuh operon barry baaic laharrin dullhunk Bevan_Weir zeji gareth massivemayhem zwang GustavoLacerda GeeSharpMinor bmaust zambujo mingzhi starz1010101 maralena wchannels sunhwan jennifermbui kdelavega zhouyu FAB-lab Bioinformatics baker-group
  • Constructing the landscape of the mammalian transcriptome.
    J Exp Biol, Vol. 210, No. Pt 9. (May 2007), pp. 1497-1506.
    by P Carninci
    posted to transcriptome review by xingxu on 2008-05-06 20:13:19 as ** along with 1 person jyuh
  • A supervised hidden Markov model framework for efficiently segmenting tiling array data in transcriptional and ChIP-chip experiments: systematically incorporating validated biological knowledge.
    Bioinformatics (12 October 2006)
    by Jiang Du, Joel S S Rozowsky, Jan O O Korbel, Zhengdong D D Zhang, Thomas E E Royce, Martin H H Schultz, Michael Snyder, Mark Gerstein
    posted to transcriptome tiling methods bioinformatics by xingxu on 2008-05-06 20:13:09 as ** along with 7 people and 2 groups miguel tuck eckart_bindewald djkt SeungjoonOh blobbybirdman inesdesantiago Bioinformatics UH - Computational Biology
  • A practical guide to the art of RNA gene prediction
    Brief Bioinform (4 May 2007), bbm011.
    by Irmtraud M Meyer
    posted to transcriptome bioinformatics by xingxu on 2008-05-06 20:12:16 as ** along with 4 people penka wenhan GustavoLacerda xili03
  • RNA Maps Reveal New RNA Classes and a Possible Function for Pervasive Transcription
    Science (17 May 2007), 1138341.
    by Philipp Kapranov, Jill Cheng, Sujit Dike, David A Nix, Radharani Duttagupta, Aarron T Willingham, Peter F Stadler, Jana Hertel, Joerg Hackermueller, Ivo L Hofacker, Ian Bell, Evelyn Cheung, Jorg Drenkow, Erica Dumais, Sandeep Patel, Gregg Helt, Madhavan Ganesh, Srinka Ghosh, Antonio Piccolboni, Victor Sementchenko, Hari Tammana, Thomas R Gingeras
    posted to transcriptome methods breakthrough by xingxu on 2008-05-06 14:39:02 as ** along with 11 people and 4 groups marcius alexg dpollard xico mtagaya rdiaz djkt stajich mathijsv asddd elfar EisenLab WetBiology BioinfoCIPF SGU-CIPF
  • Chapter 4 beta-Globin Regulation and Long-Range Interactions.
    Advances in genetics, Vol. 61 (2008), pp. 107-142.
    by RJ Palstra, W de Laat, F Grosveld
    posted to review regulation long_range beta_globin by xingxu on 2008-05-05 20:49:03 as **
  • How to perform meaningful estimates of genetic effects.
    PLoS genetics, Vol. 4, No. 5. (2008)
    by JM Alvarez-Castro, A Le Rouzic, O Carlborg
    posted to statistics epistasis by xingxu on 2008-05-05 20:46:30 as **
  • Blurring cis and trans in Gene Regulation
    Cell, Vol. 126, No. 2. (28 July 2006), pp. 248-250.
    by Fabio Savarese, Rudolf Grosschedl
    posted to review regulation neuroscience long_range breakthrough by xingxu on 2008-05-05 20:43:42 as **
  • REPLICATION AND TRANSCRIPTION: SHAPING THE LANDSCAPE OF THE GENOME
    Nat Rev Genet, Vol. 6, No. 9. (2005), pp. 669-677.
    by Lyubomira Chakalova, Emmanuel Debrand, Jennifer A Mitchell, Cameron S Osborne, Peter Fraser
    posted to transcriptome long_range genomics by xingxu on 2008-05-05 20:42:02 as ** along with 4 people and 2 groups bala xico gloria margaritis WetBiology DictyosteliumGroup
  • Single-cell c-myc gene expression in relationship to nuclear domains
    Chromosome Research, Vol. 16, No. 2. (2008), pp. 325-343.
    by E Ba?rtova?, A Harnic?arova?, J Krejc?i?, L Stras?a?k, S Kozubek
    posted to nuclear_localization myc by xingxu on 2008-05-05 20:38:50 as **
  • The neuA/flmD gene cluster of Helicobacter pylori is involved in flagellar biosynthesis and flagellin glycosylation
    FEMS Microbiology Letters, Vol. 210, No. 2. (2002), pp. 165-172.
    by Christine Josenhans, Lutz Vossebein, Susanne Friedrich, Sebastian Suerbaum
    posted to pylori glycosylation flagella by xingxu on 2008-04-29 10:32:28 as **
  • Campylobacter - a tale of two protein glycosylation systems
    Trends in Microbiology, Vol. 11, No. 5. (May 2003), pp. 233-238.
    by Christine M Szymanski, Susan M Logan, Dennis Linton, Brendan W Wren
    posted to glycosylation campylobacter by xingxu on 2008-04-29 10:25:26 as **
  • The genetics of glycosylation in Gram-negative bacteria
    FEMS Microbiology Letters, Vol. 218, No. 2. (2003), pp. 211-222.
    by Power, Jennings
    posted to review microbiology glycosylation by xingxu on 2008-04-29 10:25:14 as **
  • Darwinian Evolution on a Chip
    PLoS Biology, Vol. 6, No. 4. (1 April 2008), e85.
    by Brian M Paegel, Gerald F Joyce
    posted to evolution methods by xingxu on 2008-04-17 13:28:44 as ** along with 11 people and 2 groups barry fdsayre cfleet stevanspringer operon Minty renatomilani TomQ phoenixzxl melting dlobo Bioinformatics GEB
  • Genomics and Biology Come Together to Fight HIV
    PLoS Biology, Vol. 6, No. 3. (1 March 2008), e76.
    by David B Goldstein
    posted to genomics gwa hiv review by xingxu on 2008-04-17 13:28:01 as **
  • Research Ethics Recommendations for Whole-Genome Research: Consensus Statement
    PLoS Biology, Vol. 6, No. 3. (1 March 2008), e73.
    by Timothy Caulfield, Amy L Mcguire, Mildred Cho, Janet A Buchanan, Michael M Burgess, Ursula Danilczyk, Christina M Diaz, Kelly Fryer-Edwards, Shane K Green, Marc A Hodosh, Eric T Juengst, Jane Kaye, Laurence Kedes, Bartha M Knoppers, Trudo Lemmens, Eric M Meslin, Juli Murphy, Robert L Nussbaum, Margaret Otlowski, Daryl Pullman, Peter N Ray, Jeremy Sugarman, Michael Timmons
    posted to ethics gwa statement by xingxu on 2008-04-17 13:27:31 as **
  • Cell-to-Cell Stochastic Variation in Gene Expression Is a Complex Genetic Trait.
    PLoS genetics, Vol. 4, No. 4. (April 2008)
    by J Ansel, H Bottin, C Rodriguez-Beltran, C Damon, M Nagarajan, S Fehrmann, J François, G Yvert
    posted to cancer expression variability by xingxu on 2008-04-17 13:20:31 as **
  • Statistical epistasis is a generic feature of gene regulatory networks.
    Genetics (8 October 2006)
    by Arne B B Gjuvsland, Ben J J Hayes, Stig W W Omholt, Orjan Carlborg
    posted to epistasis network regulation statistics by xingxu on 2008-04-17 13:16:33 as ** along with 3 people aswin zwang natstreet
  • Adaptations to Climate in Candidate Genes for Common Metabolic Disorders.
    PLoS Genet, Vol. 4, No. 2. (15 February 2008)
    by Angela M M Hancock, David B B Witonsky, Adam S S Gordon, Gidon Eshel, Jonathan K K Pritchard, Graham Coop, Anna Di Rienzo
    posted to assocation climate evolution metabolism by xingxu on 2008-04-17 13:15:43 as ** along with 1 group Fasting, food and evolution
  • Genome-Wide Association Identifies a Common Variant in the Reelin Gene That Increases the Risk of Schizophrenia Only in Women
    PLoS Genetics, Vol. 4, No. 2. (1 February 2008), e28.
    by Sagiv Shifman, Martina Johannesson, Michal Bronstein, Sam X Chen, David A Collier, Nicholas J Craddock, Kenneth S Kendler, Tao Li, Michael O'donovan, Anthony F O'neill, Michael J Owen, Dermot Walsh, Daniel R Weinberger, Cuie Sun, Jonathan Flint, Ariel Darvasi
    posted to gender gwa schizophrenia by xingxu on 2008-04-17 13:13:41 as ** along with 2 people djkt swemartina
  • From classical genetics to quantitative genetics to systems biology: modeling epistasis.
    PLoS genetics, Vol. 4, No. 3. (March 2008)
    by DL Aylor, ZB Zeng
    posted to epistasis modeling quantitative_genetics systems by xingxu on 2008-04-17 12:57:40 as **
  • Geographic patterns of genome admixture in Latin American Mestizos.
    PLoS genetics, Vol. 4, No. 3. (March 2008)
    by S Wang, N Ray, W Rojas, MV Parra, G Bedoya, C Gallo, G Poletti, G Mazzotti, K Hill, AM Hurtado, B Camrena, H Nicolini, W Klitz, R Barrantes, JA Molina, NB Freimer, MC Bortolini, FM Salzano, ML Petzl-Erler, LT Tsuneto, JE Dipierri, EL Alfaro, G Bailliet, NO Bianchi, E Llop, F Rothhammer, L Excoffier, A Ruiz-Linares
    posted to admixture genomics latino by xingxu on 2008-04-17 12:50:53 as **
  • Recruitment to the nuclear periphery can alter expression of genes in human cells.
    PLoS genetics, Vol. 4, No. 3. (March 2008)
    by LE Finlan, D Sproul, I Thomson, S Boyle, E Kerr, P Perry, B Ylstra, JR Chubb, WA Bickmore
    posted to expression nuclear_localization by xingxu on 2008-04-17 12:49:17 as **
  • Importance of Helicobacter pylori oipA in clinical presentation, gastric inflammation, and mucosal interleukin 8 production.
    Gastroenterology, Vol. 123, No. 2. (August 2002), pp. 414-424.
    by Y Yamaoka, S Kikuchi, HM el-Zimaity, O Gutierrez, MS Osato, DY Graham
    posted to pylori by xingxu on 2008-04-03 20:18:10 as **
  • Clinical relevance of the Helicobacter pylori gene for blood-group antigen-binding adhesin
    Proceedings of the National Academy of Sciences, Vol. 96, No. 22. (26 October 1999), pp. 12778-12783.
    by Markus Gerhard, Norbert Lehn, Nina Neumayer, Thomas Boren, Roland Rad, Wolfgang Schepp, Stephan Miehlke, Meinhard Classen, Christian Prinz
    posted to baba pylori by xingxu on 2008-04-03 20:17:54 as **
  • Rhesus monkey gastric mucins: oligomeric structure, glycoforms and Helicobacter pylori binding.
    The Biochemical journal, Vol. 379, No. Pt 3. (1 May 2004), pp. 765-775.
    by S Lindén, T Borén, A Dubois, I Carlstedt
    posted to baba pylori by xingxu on 2008-04-03 19:38:42 as **
  • Correlation of the Helicobacter pylori adherence factor BabA with duodenal ulcer disease in four European countries
    FEMS Immunology & Medical Microbiology, Vol. 44, No. 2. (2005), pp. 151-156.
    by Farzad O Olfat, Quing Zheng, Monica Oleastro, Petra Voland, Thomas Boren, Riita Karttunen, Lars Engstrand, Roland Rad, Christian Prinz, Markus Gerhard
    posted to baba pylori by xingxu on 2008-04-03 18:44:12 as **
  • Factors affecting growth and antibiotic susceptibility of Helicobacter pylori: effect of pH and urea on the survival of a wild-type strain and a urease-deficient mutant
    J Med Microbiol, Vol. 44, No. 6. (1 June 1996), pp. 425-433.
    by JE Sjostrom, H Larsson
    posted to pylori by xingxu on 2008-04-03 17:56:49 as **
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