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January's Bioinformatics Papers of Note

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Gomes J, Jayaram B, et al.
NeuroDNet - an open source platform for constructing and analyzing neurodegenerative disease networks.
BMC Neurosci. 2013 Jan 3 [Epub ahead of print]


Goloborodko AA, Gorshkov MV, et al.
Pyteomics-a Python Framework for Exploratory Data Analysis and RapidSoftware Prototyping in Proteomics.
J Am Soc Mass Spectrom. 2013 Jan 5 [Epub ahead of print]


Liu H, Ma C, et al.
TargetHunter: An In Silico Target Identification Tool for Predicting Therapeutic Potential of Small Organic Molecules Based on ChemogenomicDatabase.
AAPS J. 2013 Jan 5 [Epub ahead of print]


Bottomly D, Druker BJ, et al.
HitWalker: variant prioritization for personalized functional cancer genomics.
Bioinformatics 2013 Jan 22 [Epub ahead of print]


Clark SC, Egan R, et al.
ALE: a generic assembly likelihood evaluation framework for assessing the accuracy of genome and metagenome assemblies.
Bioinformatics 2013 Jan 21 [Epub ahead of print]


Busby MA, Grzeda K, et al.
Scotty: A Web Tool For Designing RNA-Seq Experiments to Measure Differential Gene Expression.
Bioinformatics 2013 Jan 12 [Epub ahead of print]


Babaei S, de Ridder J, et al.
Detecting recurrent gene mutation in interaction network context using multi-scale graph diffusion.
BMC Bioinformatics 2013 Jan 23;14(1):29


Blackburn J, Martens L, et al.
ProteoCloud: A full-featured open source proteomics cloud computing pipeline.
J Proteomics. 2013 Jan 8 [Epub ahead of print]


Liang H, Li G, et al.
A structural-based strategy for recognition of transcription factor binding sites.
PLoS One. Epub 2013 Jan 8.


Groth P, Thieme S.
Genome Fusion Detection: A novel method to detect fusion genes from SNP-array data.
Bioinformatics. 2013 Jan 22. [Epub ahead of print]


Becnel L, Chen ES, et al.
Research Resource: The Endometrium Database Resource (EDR).
Mol Endocrinol. 2013 Jan 22. [Epub ahead of print]


Carter H, Cooper DN, et al.
CRAVAT: Cancer-Related Analysis of VAriants Toolkit.
Bioinformatics. 2013 Jan 16. [Epub ahead of print]


Jin L, Yi H.
Co-phylog: an assembly-free phylogenomic approach for closely related organisms.
Nucleic Acids Res. 2013 Jan 18. [Epub ahead of print]


Beilin LJ, Briollais L, et al.
Co-phylog: an assembly-free phylogenomic approach for closely related organisms.
PLoS One. Epub 2013 Jan 17.


Bernard T, Ganter M, et al.
MetaNetX.org: a website and repository for accessing, analyzing, and manipulating metabolic networks.
Bioinformatics. 2013 Jan 28. [Epub ahead of print]


Ahlers V, Dand N, et al.
BioGranat-IG: A network analysis tool to suggest mechanisms of genetic heterogeneity from exome sequencing data.
Bioinformatics. 2013 Jan 29. [Epub ahead of print]


Filed under

The Scan

Interfering With Invasive Mussels

The Chicago Tribune reports that researchers are studying whether RNA interference- or CRISPR-based approaches can combat invasive freshwater mussels.

Participation Analysis

A new study finds that women tend to participate less at scientific meetings but that some changes can lead to increased involvement, the Guardian reports.

Right Whales' Decline

A research study plans to use genetic analysis to gain insight into population decline among North American right whales, according to CBC.

Science Papers Tie Rare Mutations to Short Stature, Immunodeficiency; Present Single-Cell Transcriptomics Map

In Science this week: pair of mutations in one gene uncovered in brothers with short stature and immunodeficiency, and more.