Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing

Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing

<p>Abstract</p> <p>Background</p> <p>Massively parallel sequencing readouts of epigenomic assays are enabling integrative genome-wide analyses of genomic and epigenomic variation. Pash 3.0 performs sequence comparison and read mapping and can be employed as a module wit...

Full description

Bibliographic Details
Main Authors:	Chen Zuozhou, Miller Christopher A, Yu Fuli, Coarfa Cristian, Harris R Alan, Milosavljevic Aleksandar
Format:	Article
Language:	English
Published:	BMC 2010-11-01
Series:	BMC Bioinformatics
Online Access:	http://www.biomedcentral.com/1471-2105/11/572

Similar Items

ReadDepth: a parallel R package for detecting copy number alterations from short sequencing reads.
by: Christopher A Miller, et al.
Published: (2011-01-01)

Pyoderma gangrenosum, acne, and hidradenitis suppurativa (PASH) syndrome with recurrent vasculitis
by: Dorene Niv, DO, et al.
Published: (2017-01-01)

Nodular Pseudoangiomatous Stromal Hyperplasia of Breast (PASH): An Unfamiliar Lesion May be Confused with Tumor
by: Zühal GÜCİN, et al.
Published: (2017-10-01)

A Case report: Pseudoangiomatous stromal hyperplasia (PASH) tumor presenting as a palpable mass.
by: Jean eBouquet De Jolinière
Published: (2016-01-01)

Successful combined antibiotic therapy with oral clindamycin and oral rifampicin for pyoderma gangrenosum in patient with PASH syndrome
by: Marie Lamiaux, DA, et al.
Published: (2018-01-01)

Petrographic analysis of prehistoric pottery found in the Shkodër region of northern Albania by the Shkodra Archaeological Project (PASH)
by: Mara, Anisa
Published: (2018)

Allele-specific epigenome maps reveal sequence-dependent stochastic switching at regulatory loci
by: Altshuler, Robert Charles, et al.
Published: (2019)

ANALISYS OF VARIABILITY OF THE FAMILY OF PACKAGES AND THE VERSATILE PACKAGING MACHINE DESIGN
by: Bohdan PALCHEVSKYI, et al.
Published: (2012-06-01)

Massively parallel read mapping on GPUs with the q-group index and PEANUT
by: Johannes Köster, et al.
Published: (2014-09-01)

Epigenome environment interactions accelerate epigenomic aging and unlock metabolically restricted epigenetic reprogramming in adulthood
by: Lindsey S. Treviño, et al.
Published: (2020-05-01)

Áreas que requieren remediación prioritaria de suelos contaminados como PASH en función a la ZEE de la región Piura
by: Mandujano Reyes, Xiomara Solanch
Published: (2019)

A positive approach to adolescent sexual health promotion: a qualitative evaluation of key stakeholder perceptions of the Australian Positive Adolescent Sexual Health (PASH) Conference
by: Brianna C. S. Crocker, et al.
Published: (2019-06-01)

Design issues for interconnection networks in massively parallel processing systems under advanced VLSI and packaging constraints
by: Lacy, William Stephen
Published: (2007)

Parallel subdomain method for massively parallel computers
by: Su, (Philip) Shin-Chen
Published: (2007)

PREDICTD PaRallel Epigenomics Data Imputation with Cloud-based Tensor Decomposition
by: Timothy J. Durham, et al.
Published: (2018-04-01)

Parallel epigenomic and transcriptomic responses to viral infection in honey bees (Apis mellifera).
by: David A Galbraith, et al.
Published: (2015-03-01)

Massively parallel combinatorial microbiology
by: Kehe, Jared Scott.
Published: (2020)

C++ and Massively Parallel Computers
by: Daniel J. Lickly, et al.
Published: (1993-01-01)

Massively parallelizing the RRT and the RRT*
by: Karaman, Sertac, et al.
Published: (2013)

The Versatile Role of microRNA-30a in Human Cancer
by: Xiang Yang, et al.
Published: (2017-03-01)

The miR-30 family: Versatile players in breast cancer
by: Su-Jin Yang, et al.
Published: (2017-03-01)

Mapping accuracy of short reads from massively parallel sequencing and the implications for quantitative expression profiling.
by: Nicola Palmieri, et al.
Published: (2009-07-01)

Diet and the epigenome
by: Yi Zhang, et al.
Published: (2018-08-01)

Epigenomics and Genomics
Published: (2008-01-01)

The Control of the Epigenome
by: Lezcano, Magda
Published: (2006)

The Dynamic Epigenome
by: Steiner, Lydia
Published: (2013)

MYCN and the Epigenome
by: Stanley eHe, et al.
Published: (2013-01-01)

Bioinformatics for epigenomics
by: Cingolani, Pablo
Published: (2009)

Epigenomics of sarcomas
by: Guilhamon, P. C. M.
Published: (2014)

Epigenetics and Epigenomics
Published: (2014)

MOOSE: Enabling massively parallel multiphysics simulation
by: Cody J. Permann, et al.
Published: (2020-01-01)

Correction: Mapping Accuracy of Short Reads from Massively Parallel Sequencing and the Implications for Quantitative Expression Profiling
by: Nicola Palmieri, et al.
Published: (2009-01-01)

Correction: Mapping Accuracy of Short Reads from Massively Parallel Sequencing and the Implications for Quantitative Expression Profiling.
by: Nicola Palmieri, et al.
Published: (2009-01-01)

On the Importance to Acknowledge Transposable Elements in Epigenomic Analyses
by: Emmanuelle Lerat, et al.
Published: (2019-03-01)

PARALLELIZING SIMULATED ANNEALING ALGORITHM FOR TSP ON MASSIVELY PARALLEL ARCHITECTURES
by: Omer Cetin
Published: (2018-01-01)

Parallelization of Bioinformatics Algorithm Using Accelerated Massive Parallelism (AMP)
by: GAO, YI-CHUNG, et al.
Published: (2016)

Robustness of Massively Parallel Sequencing Platforms.
by: Pınar Kavak, et al.
Published: (2015-01-01)

Massive Parallelization of Multibody System Simulation
by: Michael Valášek, et al.
Published: (2012-01-01)

MASSIVELY PARALLEL GENETIC PROGRAMMING ON GPUS
by: CLEOMAR PEREIRA DA SILVA
Published: (2014)

scAI: an unsupervised approach for the integrative analysis of parallel single-cell transcriptomic and epigenomic profiles
by: Suoqin Jin, et al.
Published: (2020-02-01)