Cargando…

BamBam: genome sequence analysis tools for biologists

BACKGROUND: Massive computational power is needed to analyze the genomic data produced by next-generation sequencing, but extensive computational experience and specific knowledge of algorithms should not be necessary to run genomic analyses or interpret their results. FINDINGS: We present BamBam, a...

Descripción completa

Detalles Bibliográficos
Autores principales:	Page, Justin T, Liechty, Zachary S, Huynh, Mark D, Udall, Joshua A
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2014
Materias:	Technical Note
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4258253/ https://www.ncbi.nlm.nih.gov/pubmed/25421351 http://dx.doi.org/10.1186/1756-0500-7-829

Ejemplares similares

ppBAM: ProteinPaint BAM track for read alignment visualization and variant genotyping
por: Paul, Robin, et al.
Publicado: (2023)

BamToCov: an efficient toolkit for sequence coverage calculations
por: Birolo, Giovanni, et al.
Publicado: (2022)

Improper Coordination of BamA and BamD Results in Bam Complex Jamming by a Lipoprotein Substrate
por: Tata, Muralidhar, et al.
Publicado: (2019)

Hadoop-BAM: directly manipulating next generation sequencing data in the cloud
por: Niemenmaa, Matti, et al.
Publicado: (2012)

quickBAM: a parallelized BAM file access API for high-throughput sequence analysis informatics
por: Pitman, Anders, et al.
Publicado: (2023)

BamA and BamD Are Essential for the Secretion of Trimeric Autotransporter Adhesins
por: Rooke, Jessica L., et al.
Publicado: (2021)

Megadepth: efficient coverage quantification for BigWigs and BAMs
por: Wilks, Christopher, et al.
Publicado: (2021)

BamView: viewing mapped read alignment data in the context of the reference sequence
por: Carver, Tim, et al.
Publicado: (2010)

Lost in transition: Maize BAM7 is a dual function gene encoding a nuclear BAM7 and plastidial BAM2
por: Chen, Jiawen
Publicado: (2023)

Plasticity within the barrel domain of BamA mediates a hybrid-barrel mechanism by BAM
por: Wu, Runrun, et al.
Publicado: (2021)

The Synthetic Phenotype of ΔbamB ΔbamE Double Mutants Results from a Lethal Jamming of the Bam Complex by the Lipoprotein RcsF
por: Hart, Elizabeth M., et al.
Publicado: (2019)

Geno viewer, a SAM/BAM viewer tool
por: Laczik, Miklós, et al.
Publicado: (2012)

BAMS Neuroanatomical Ontology: Design and Implementation
por: Bota, Mihail, et al.
Publicado: (2008)

A unified model for BAM function that takes into account type Vc secretion and species differences in BAM composition
por: Leo, Jack C., et al.
Publicado: (2018)

Identification of a Compound That Inhibits the Growth of Gram-Negative Bacteria by Blocking BamA–BamD Interaction
por: Li, Yan, et al.
Publicado: (2020)

Bam-readcount - rapid generation of basepair-resolution sequence metrics
por: Khanna, Ajay, et al.
Publicado: (2021)

The TamB ortholog of Borrelia burgdorferi interacts with the β-barrel assembly machine (BAM) complex protein BamA
por: Iqbal, Henna, et al.
Publicado: (2016)

Alfred: interactive multi-sample BAM alignment statistics, feature counting and feature annotation for long- and short-read sequencing
por: Rausch, Tobias, et al.
Publicado: (2019)

biobambam: tools for read pair collation based algorithms on BAM files
por: Tischler, German, et al.
Publicado: (2014)

Deciphering the Roles of BamB and Its Interaction with BamA in Outer Membrane Biogenesis, T3SS Expression and Virulence in Salmonella
por: Namdari, Fatémeh, et al.
Publicado: (2012)

Mutational and Topological Analysis of the Escherichia coli BamA Protein
por: Browning, Douglas F., et al.
Publicado: (2013)

BamView: visualizing and interpretation of next-generation sequencing read alignments
por: Carver, Tim, et al.
Publicado: (2013)

Alview: Portable Software for Viewing Sequence Reads in BAM Formatted Files
por: Finney, Richard P, et al.
Publicado: (2015)

Sam2bam: High-Performance Framework for NGS Data Preprocessing Tools
por: Ogasawara, Takeshi, et al.
Publicado: (2016)

Quality of Work Life in Family Physicians of Bam, Iran
por: Akbarian Bafghi, Akbarian Bafghi, et al.
Publicado: (2020)

Distortion of the bilayer and dynamics of the BAM complex in lipid nanodiscs
por: Iadanza, Matthew G., et al.
Publicado: (2020)

Amylases StAmy23, StBAM1 and StBAM9 regulate cold-induced sweetening of potato tubers in distinct ways
por: Hou, Juan, et al.
Publicado: (2017)

Maize β-amylase7 encodes 2 proteins using alternative transcriptional start sites: Nuclear BAM7 and plastidic BAM2
por: Ozcan, Kenan E, et al.
Publicado: (2023)

Overproducing the BAM complex improves secretion of difficult-to-secrete recombinant autotransporter chimeras
por: Phan, Trang H., et al.
Publicado: (2021)

pBAM1: an all-synthetic genetic tool for analysis and construction of complex bacterial phenotypes
por: Martínez-García, Esteban, et al.
Publicado: (2011)

SAMMate: a GUI tool for processing short read alignments in SAM/BAM format
por: Xu, Guorong, et al.
Publicado: (2011)

BamQuery: a proteogenomic tool to explore the immunopeptidome and prioritize actionable tumor antigens
por: Cuevas, Maria Virginia Ruiz, et al.
Publicado: (2023)

Development of uTCA Hardware for BAM system at FLASH and XFEL
por: Habib, S B, et al.
Publicado: (2012)

Hitting with a BAM: Selective Killing by Lectin-Like Bacteriocins
por: Ghequire, Maarten G. K., et al.
Publicado: (2018)

Structure of a nascent membrane protein as it folds on the Bam complex
por: Tomasek, David, et al.
Publicado: (2020)

Towards shortening the Brief Addiction Monitor-Revised (BAM-R)
por: Blanchard, Brittany E., et al.
Publicado: (2023)

High-throughput screening of BAM inhibitors in native membrane environment
por: Rath, Parthasarathi, et al.
Publicado: (2023)

Drug Binding to BamA Targets Its Lateral Gate
por: Kuo, Katie M., et al.
Publicado: (2023)

Genome-wide identification of BAM genes in grapevine (Vitis vinifera L.) and ectopic expression of VvBAM1 modulating soluble sugar levels to improve low-temperature tolerance in tomato
por: Liang, Guoping, et al.
Publicado: (2021)

SamQL: a structured query language and filtering tool for the SAM/BAM file format
por: Lee, Christopher T., et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_bbka8ch8hoa8ghrokqkrrg1m1s