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May's Bioinformatics Papers of Note

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Fernández JM, Gómez-López G, et al.
RUbioSeq: a suite of parallelized pipelines to automate exome variation and bisulfite-seq analyses.
Bioinformatics. 2013 May 24. [Epub ahead of print]


Kuster B, Lemeer S, et al.
MScDB: A Mass Spectrometry-centric Protein Sequence Database for Proteomics.
J Proteome Res. 2013 May 14. [Epub ahead of print]


Guerrero RF, Kirkpatrick M, et al.
A sequential coalescent algorithm for chromosomal inversions.
Heredity (Edinb). 2013 May 1. [Epub ahead of print]


Antonov AV, Barlev NA, et al.
PPISURV: a novel bioinformatics tool for uncovering the hidden role of specific genes in cancer survival outcome.
Oncogene 2013 May 20. [Epub ahead of print]


Afrasiabi C, Dineen D, et al.
The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification.
Nucleic Acids Res. 2013 May 18. [Epub ahead of print]


Deng HW, Duan J, et al.
CNV-TV: A robust method to discover copy number variation from short sequencing reads.
BMC Bioinformatics. 2013 May 2. [Epub ahead of print]


Birol I, Fejes AP, et al.
Identifying cancer mutation targets across thousands of samples: MuteProc, a high throughput mutation analysis pipeline.
BMC Bioinformatics. 2013 May 28. [Epub ahead of print]


Alfaro ME, Balhoff JP, et al.
Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient.
BMC Bioinformatics. 2013 May 13. [Epub ahead of print]


Bacall F, Balcazar Vargas MP, et al.
The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud.
Nucleic Acids Res. 2013 May 2. [Epub ahead of print]


Alteyrac L, Bouchereau B, et al.
A universal open-source Electronic Laboratory Notebook.
Bioinformatics 2013 May 2. [Epub ahead of print]


Alcantara LC, Assel M, et al.
RegaDB: community-driven data management and analysis for infectious diseases.
Bioinformatics 2013 Jun 1;29(11):1477-1480. Epub 2013 May 2.


Cardoso J, Pereira R, et al.
TNA4OptFlux - a software tool for the analysis of strain optimization strategies.
BMC Res Notes. 2013 May 3;6:175. doi: 10.1186/1756-0500-6-175.


Azad MA, Baylay AJ, et al.
The Comprehensive Antibiotic Resistance Database.
Antimicrob Agents Chemother. 2013 May 6. [Epub ahead of print]


Dubé MP, Legault MA, et al.
pyGenClean: Efficient tool for genetic data clean up before association testing.
Bioinformatics. 2013 May 6. [Epub ahead of print]


Gao N, Tang J, Yang N.
Ancestral genome inference using a genetic algorithm approach.
PLoS One. 2013 May 2


Itoh T, Nakato R, Shirahige K.
DROMPA: easy-to-handle peak calling and visualization software for the computational analysis and validation of ChIP-seq data.
Genes Cells 2013 May 15. [Epub ahead of print]


Ballesteros-Villagrana E, Fu C, et al.
DrugMap Central (DMC), an on-line query and visualization tool to facilitate drug repositioning studies.
Bioinformatics. 2013 May 15. [Epub ahead of print]


Chen T, Jiang R, Zeng F.
PyroHMMsnp: an SNP caller for Ion Torrent and 454 sequencing data.
Nucleic Acids Res. 2013 May 21. [Epub ahead of print]


Bear KA, Nguyen AD, et al.
Clinical Genomic Database.
Proc Natl Acad Sci U S A. 2013 May 21. [Epub ahead of print]


Canzar S, Salzberg SL, et al.
GAGE-B: An Evaluation of Genome Assemblers for Bacterial Organisms.
Bioinformatics 2013 May 10. [Epub ahead of print]


Chang Y, Jiang Y, et al.
HGPGD: The Human Gene Population Genetic Difference Database.
PLoS One. 2013 May 22


Berriman M, Hunt M, et al.
REAPR: a universal tool for genome assembly evaluation.
Genome Biol. 2013 May 27. [Epub ahead of print]


Filed under

The Scan

Highly Similar

Researchers have uncovered bat viruses that are highly similar to SARS-CoV-2, according to Nature News.

Gain of Oversight

According to the Wall Street Journal, the Biden Administration is considering greater oversight of gain-of-function research.

Lasker for mRNA Vaccine Work

The Scientist reports that researchers whose work enabled the development of mRNA-based vaccines are among this year's Lasker Award winners

PLOS Papers on Causal Variant Mapping, Ancient Salmonella, ALK Fusion Test for NSCLC

In PLOS this week: MsCAVIAR approach to map causal variants, analysis of ancient Salmonella, and more.