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24 Article(s) on File
Page 1 of 1
Two waves of de novo methylation during mouse germ cell development
Molaro A,
Falciatori I,
Hodges E,
Aravin AA,
Marran K,
Rafii S,
McCombie WR,
Smith AD,
Hannon GJ

Genes Dev
  28 (14): 1544-9; Jul 15 2014   Nlm
[Abstract]
[DOI] [Full Text]

Variations in COL15A1 and COL18A1 influence age of onset of primary open angle glaucoma
Wiggs JL,
Howell GR,
Linkroum K,
Abdrabou W,
Hodges E,
Braine CE,
Pasquale LR,
Hannon GJ,
Haines JL,
John SW

Clinical Genetics
  84 (2): 167; Aug 2013   NLM
[DOI] [Full Text]

De novo DNA demethylation and non-coding transcription define active intergenic regulatory elements
Schlesinger F,
Smith AD,
Gingeras TR,
Hannon GJ,
Hodges E

Genome Res
  23 (10): 1601-1614; Jun 28 2013   NLM
[Abstract]
[DOI] [Full Text]

Site identification in high-throughput RNA-protein interaction data
Uren PJ,
Bahrami-Samani E,
Burns SC,
Qiao M,
Karginov FV,
Hodges E,
Hannon GJ,
Sanford JR,
Penalva LO,
Smith AD

Bioinformatics
  28 (23): 3013-3120; Dec 1 2012   NLM
[Abstract]
[DOI] [Full Text]

Genomic landscape of human allele-specific DNA methylation
Fang F,
Hodges E,
Molaro A,
Dean M,
Hannon GJ,
Smith AD

Proceedings of the National Academy of Sciences of the United States of America
  109 (19): 7332-7337; May 2012  
[Abstract]
[DOI] [Full Text]

Directional DNA Methylation Changes and Complex Intermediate States Accompany Lineage Specificity in the Adult Hematopoietic Compartment
Hodges E,
Molaro A,
Dos Santos CO,
Thekkat P,
Song Q,
Uren PJ,
Park JH,
Butler J,
Rafii S,
McCombie WR,
Smith A,
Hannon GJ

Molecular Cell
  44 (1): 17-28; Oct. 7 2011  
[Abstract]
[DOI]

Sperm Methylation Profiles Reveal Features of Epigenetic Inheritance and Evolution in Primates
Molaro A,
Hodges E,
Fang F,
Song Q,
McCombie WR,
Hannon GJ,
Smith A

Cell
  146 (6): 1029-1041; Sep 16 2011   PMC3205962
[Abstract]
[DOI]

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]

Exome sequencing and disease-network analysis of a single family implicate a mutation in KIF1A in hereditary spastic paraparesis
Erlich Y,
Edvardson S,
Hodges E,
Zenvirt S,
Thekkat P,
Shaag A,
Dor T,
Hannon GJ,
Elpeleg O

Genome Research
  21 (5): 658-664; May 2011   PMCID: PMC3083082
[Abstract]
[DOI]

Mutations in the RNA Granule Component TDRD7 Cause Cataract and Glaucoma
Lachke SA,
Alkuraya FS,
Kneeland SC,
Ohn T,
Aboukhalil A,
Howell GR,
Saadi I,
Cavallesco R,
Yue YZ,
Tsai AC,
Nair KS,
Cosma MI,
Smith RS,
Hodges E,
AlFadhli SM,
Al-Hajeri A,
Shamseldin HE,
Behbehani A,
Hannon GJ,
Bulyk ML,
Drack AV,
Anderson PJ,
John SW,
Maas RL

Science
  331 (6024): 1571-1576; Mar 25 2011  
[Abstract]
[DOI]

Targeted enrichment of specific regions in the human genome by array hybridization
Igartua C,
Turner EH,
Ng SB,
Hodges E,
Hannon GJ,
Bhattacharjee A,
Rieder MJ,
Nickerson DA,
Shendure J

Current Protocols in Human Genetics
  66 (0): 18.3.1-18.3.14; Jul 2010   PMCID: PMC2910258
[Abstract]
[DOI] [Full Text] [PDF]

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]

Evolutionary flux of canonical microRNAs and mirtrons in Drosophila
Berezikov E,
Liu N,
Flynt AS,
Hodges E,
Rooks M,
Hannon GJ,
Lai EC

Nature Genetics
  42 (1): 6-9; Jan 2010  
[DOI] [Full Text] [PDF]

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]

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]

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]

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]

Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes
Tam OH,
Aravin AA,
Stein P,
Girard A,
Murchison EP,
Cheloufi S,
Hodges E,
Anger M,
Sachidanandam R,
Schultz RM,
Hannon GJ

Nature
  453 (0): 534-538 ; May 22 2008   PMC2981145
[Abstract]
[DOI] [Full Text] [PDF]

Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5 terminal nucleotide
Mi SJ,
Cai T,
Hu YG,
Chen Y,
Hodges E,
Ni FR,
Wu L,
Li S,
Zhou H,
Long CZ,
Chen S,
Hannon GJ,
Qi YJ

Cell
  133 (1): 116-127; April 4 2008  
[Abstract]
[DOI] [Full Text] [PDF]

A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands
Stark A,
Bushati N,
Jan CH,
Kheradpour P,
Hodges E,
Brennecke J,
Bartel DP,
Cohen SM,
Kellis M

Genes Dev
  22 (1): 8-13; Jan 1 2008   PMCID: PMC2151017
[Abstract]
[DOI] [Full Text] [PDF]

Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes
Stark A,
Kheradpour P,
Parts L,
Brennecke J,
Hodges E,
Hannon GJ,
Kellis M

Genome Res
  17 (12): 1865-79; Nov 7 2007   PMCID: PMC2099594
[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]

Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
Stark A,
Lin MF,
Kheradpour P,
Pedersen JS,
Parts L,
Carlson JW,
Crosby MA,
Rasmussen MD,
Roy S,
Deoras AN,
Ruby JG,
Brennecke J,
Hodges E,
Hinrichs AS,
Caspi A,
Paten B,
Park SW,
Han MV,
Maeder ML,
Polansky BJ,
Robson BE,
Aerts S,
van Helden J,
Hassan B,
Gilbert DG,
Eastman DA,
Rice M,
Weir M,
Hahn MW,
Park Y,
Dewey CN,
Pachter L,
Kent WJ,
Haussler D,
Lai EC,
Bartel DP,
Hannon GJ,
Kaufman TC,
Eisen MB,
Clark AG,
Smith D,
Celniker SE,
Gelbart WM,
Kellis M

Nature
  450 (7167): 219-232; Nov 2007  
[Abstract]
[DOI] [Full Text] [PDF]


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