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32 Article(s) on File
Page 1 of 1
Clustering autism: using neuroanatomical differences in 26 mouse models to gain insight into the heterogeneity
Ellegood J,
Anagnostou E,
Babineau BA,
Crawley JN,
Lin L,
Genestine M,
DiCicco-Bloom E,
Lai JK,
Foster JA,
Penagarikano O,
Geschwind DH,
Pacey LK,
Hampson DR,
Laliberte CL,
Mills AA,
Tam E,
Osborne LR,
Kouser M,
Espinosa-Becerra F,
Xuan Z,
Powell CM,
Raznahan A,
Robins DM,
Nakai N,
Nakatani J,
Takumi T,
van Eede MC,
Kerr TM,
Muller C,
Blakely RD,
Veenstra-VanderWeele J,
Henkelman RM,
Lerch JP

Mol Psychiatry
  (0): Sep 9 2014   Nlm
[Abstract]
[DOI] [Full Text]

Targeted resequencing of a genomic region influencing tameness and aggression reveals multiple signals of positive selection
Albert FW,
Hodges E,
Jensen JD,
Besnier F,
Xuan ZY,
Rooks M,
Bhattacharjee A,
Brizuela L,
Good JM,
Green RE,
Burbano HA,
Plyusnina IZ,
Trut L,
Andersson L,
Schoneberg T,
Carlborg O,
Hannon GJ,
Paabo S

Heredity
  107 (3): 205-214; Sep 2011  
[Abstract]
[DOI] [Full Text]

Chaperonins Facilitate KNOTTED1 Cell-to-Cell Trafficking and Stem Cell Function
Xu XM,
Wang J,
Xuan ZY,
Goldshmidt A,
Borrill PG,
Hariharan N,
Kim JY,
Jackson DP

Science
  333 (6046): 1141-1144; Aug 26 2011   NLM
[Abstract]
[DOI]

Targeted investigation of the neandertal genome by array-based sequence capture
Burbano HA,
Hodges E,
Green RE,
Briggs AW,
Krause J,
Meyer M,
Good JM,
Maricic T,
Johnson PL,
Xuan Z,
Rooks M,
Bhattacharjee A,
Brizuela L,
Albert FW,
De La Rasilla M,
Fortea J,
Rosas A,
Lachmann M,
Hannon GJ,
Paabo S

Science
  328 (5979): 723-725; May 7 2010   PMC3140021
[Abstract]
[DOI] [Full Text] [PDF]

Deep sequencing of target linkage assay-identified regions in familial breast cancer: Methods, analysis pipeline and troubleshooting
Rosa-Rosa JM,
Gracia-Azn√°rez FJ,
Hodges E,
Pita G,
Rooks M,
Xuan Z,
Bhattacharjee A,
Brizuela L,
Silva JM,
Hannon GJ,
Benitez J

PLoS ONE
  5 (4): e9976, 1-10; April 2010  
[Abstract]
[DOI]

Updates to the RMAP short-read mapping software
Smith AD,
Chung WY,
Hodges E,
Kendall JT,
Hannon GJ,
Hicks JB,
Xuan Z,
Zhang MQ

Bioinformatics
  25 (21): 2841-2842; Nov 1 2009   PMCID: PMC2895571
[Abstract]
[DOI] [Full Text] [PDF]

Functional identification of tumor-suppressor genes through an in vivo RNA interference screen in a mouse lymphoma model
Bric A,
Miething C,
Bialucha CU,
Scuoppo C,
Zender L,
Krasnitz A,
Xuan Z,
Zuber J,
Wigler MH,
Hicks JB,
McCombie RW,
Hemann MT,
Hannon GJ,
Powers S,
Lowe SW

Cancer Cell
  16 (4): 324-35; Oct 6 2009   PMC2829755
[Abstract]
[DOI] [Full Text] [PDF]

Investigating repetitively matching short sequencing reads: The enigmatic nature of H3K9me3
Rosenfeld JA,
Xuan Z,
Desalle R

Epigenetics
  4 (7): Oct 1 2009  
[Abstract]
[DOI] [Full Text]

High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing Dup removed 04/2012
Hodges E,
Smith AD,
Kendall JT,
Xuan Z,
Ravi K,
Rooks M,
Zhang MQ,
Ye K,
Bhattacharjee A,
Brizuela L,
McCombie WR,
Wigler MH,
Hannon GJ,
Hicks JB

Genome Res
  19 (9): 1593-1605; Sep 2009   PMCID: PMC2752124
[Abstract]
[DOI] [Full Text] [PDF]

Sensitive and accurate detection of copy number variants using read depth of coverage
Yoon S,
Xuan Z,
Makarov V,
Ye K,
Sebat J

Genome Res
  19 (0): 9; Sep 2009   PMCID: PMC2752127
[Abstract]
[DOI] [Full Text] [PDF]

Hybrid selection of discrete genomic intervals on custom-designed microarrays for massively parallel sequencing
Hodges E,
Rooks M,
Xuan Z,
Bhattacharjee A,
Gordon D,
Brizuela L,
McCombie WR,
Hannon GJ

Nat. Protocols
  4 (6): 960-974; May 28 2009  
[Abstract]
[DOI] [Full Text] [PDF]

The transcriptome of human CD34+ hematopoietic stem-progenitor cells
Kim YC,
Wu Q,
Chen J,
Xuan Z,
Jung Y,
Zhang MQ,
Rowley JD,
Wang SM

Proc Natl Acad Sci U S A
  106 (20): 8278-8283; May 19 2009   PMCID: PMC2688877
[Abstract]
[DOI] [Full Text] [PDF]

High-resolution human core-promoter prediction with CoreBoost_HM
Wang X,
Xuan Z,
Zhao X,
Li Y,
Zhang MQ

Genome Res
  19 (2): 266-75; Feb 2009   PMCID: PMC2652208
[Abstract]
[DOI] [Full Text] [PDF]

Deregulation of Scribble Promotes Mammary Tumorigenesis and Reveals a Role for Cell Polarity in Carcinoma
Zhan L,
Rosenberg A,
Bergami KC,
Yu M,
Xuan ZY,
Jaffe AB,
Allred C,
Muthuswamy SK

Cell
  135 (5): 865-878; Nov 26 2008   PMC3015046
[Abstract]
[DOI] [Full Text] [PDF]

Poly A- transcripts expressed in HeLa cells
Wu Q,
Kim YC,
Lu J,
Xuan ZY,
Chen J,
Zheng Y,
Zhou T,
Zhang MQ,
Wu CI,
Wang SM

PLoS ONE
  3 (7): e2803; Jul 30 2008   PMCID: PMC2481391
[Abstract]
[DOI] [Full Text] [PDF]

Conservation of small RNA pathways in platypus
Murchison EP,
Kheradpour P,
Sachidanandam R,
Smith C,
Hodges E,
Xuan Z,
Kellis M,
Grutzner F,
Stark A,
Hannon GJ

Genome Res
  18 (6): 995-1004; Jun 2008  
[Abstract]
[DOI] [Full Text] [PDF]

Scanning the human genome at kilobase resolution
Chen J,
Kim YC,
Jung YC,
Xuan ZY,
Dworkin G,
Zhang YM,
Zhang MQ,
Wang SM

Genome Res
  18 (5): 751-762; May 2008   PMCID: PMC2336809
[Abstract]
[DOI] [Full Text] [PDF]

Using quality scores and longer reads improves accuracy of Solexa read mapping
Smith AD,
Xuan ZY,
Zhang MQ

Bmc Bioinformatics
  9 (128): Feb 2008   PMCID: PMC2335322
[Abstract]
[DOI] [Full Text] [PDF]

A biochemical approach to identifying microRNA targets
Karginov FV,
Conaco C,
Xuan ZY,
Schmidt BH,
Parker JS,
Mandel G,
Hannon GJ

Proc Natl Acad Sci U S A
  104 (49): 19291-6; Dec 4 2007  
[Abstract]
[DOI] [Full Text] [PDF]

Genome-wide in situ exon capture for selective resequencing
Hodges E,
Xuan ZY,
Balija V,
Kramer MR,
Molla MN,
Smith SW,
Middle CM,
Rodesch MJ,
Albert TJ,
Hannon GJ,
McCombie WR

Nat Genet
  39 (12): 1522-7; Nov 4 2007  
[Abstract]
[DOI] [Full Text] [PDF]

A microRNA component of the p53 tumour suppressor network
He L,
He X,
Lim LP,
De Stanchina E,
Xuan Z,
Liang Y,
Xue W,
Zender L,
Magnus J,
Ridzon D,
Jackson AL,
Linsley PS,
Chen C,
Lowe SW,
Cleary MA,
Hannon GJ

Nature
  447 (7148): 1130-4; Jun 28 2007  
[Abstract]
[DOI] [Full Text] [PDF]

Critical roles for Dicer in the female germline
Murchison EP,
Stein P,
Xuan ZY,
Pan H,
Zhang MQ,
Schultz RM,
Hannon GJ

Genes Dev
  21 (6): 682-93; Mar 15 2007  
[Abstract]
[DOI] [Full Text] [PDF]

Boosting with stumps for predicting transcription start sites
Zhao X,
Xuan ZY,
Zhang MQ

Genome Biol
  8 (2): R17; Feb 2 2007  
[Abstract]
[DOI] [Full Text] [PDF]

TRED: a transcriptional regulatory element database, new entries and other development
Jiang C,
Xuan ZY,
Zhao F,
Zhang MQ

Nucleic Acids Res
  35 (0): D137-D140; Jan 2007   PMCID: PMC1899102
[DOI] [Full Text] [PDF]

Computational prediction of methylation status in human genomic sequences
Das R,
Dimitrova N,
Xuan ZY,
Rollins RA,
Haghighi F,
Edwards JR,
Ju JY,
Bestor TH,
Zhang MQ

Proc Natl Acad Sci U S A
  103 (28): 10713-6; Jul 11 2006  
[Abstract]
[DOI] [Full Text] [PDF]

A clustering property of highly-degenerate transcription factor binding sites in the mammalian genome
Zhang C,
Xuan ZY,
Otto S,
Hover JR,
McCorkle SR,
Mandel G,
Zhang MQ

Nucleic Acids Res
  34 (8): 2238-46; 2006  
[Abstract]
[DOI] [Full Text] [PDF]

Regulating gene expression through RNA nuclear retention
Prasanth KV,
Prasanth SG,
Xuan ZY,
Hearn S,
Freier SM,
Bennett CF,
Zhang MQ,
Spector DL

Cell
  123 (2): 249-263; Oct 2005  
[Abstract]
[DOI] [Full Text] [PDF]

From worm to human: bioinformatics approaches to identify FOXO target genes
Xuan Z,
Zhang MQ

Mech Ageing Dev
  126 (1): 209-15; Jan 2005  
[Abstract]
[DOI]

The mouse genome: experimental examination of gene predictions and transcriptional start sites
Dike S,
Balija VS,
Nascimento LU,
Xuan Z,
Ou J,
Zutavern T,
Palmer LE,
Hannon G,
Zhang MQ,
McCombie WR

Genome Res
  14 (12): 2424-9; Dec 2004  
[Abstract]
[DOI]

Computational comparison of two mouse draft genomes and the human golden path
Xuan Z,
Wang J,
Zhang MQ

Genome Biol
  4 (1): R1; 2003  
[Abstract]
[DOI] [Full Text]

The Argonaute family: tentacles that reach into RNAi, developmental control, stem cell maintenance, and tumorigenesis
Carmell MA,
Xuan ZY,
Zhang MQ,
Hannon GJ

Genes Development
  16 (21): 2733-2742; Nov 2002  
[Full Text]

GFScan: A gene family search tool at genomic DNA level
Xuan ZY,
McCombie WR,
Zhang MQ

Genome Research
  12 (7): 1142-1149; Jul 2002  
[Full Text]


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