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In Print: May's Bioinformatics Papers of Note


Ren X, Wang Y, et al.
A unified computational model for revealing and predicting subtle subtypes of cancers.
BMC Bioinformatics 2012 May 1;13(1):70. [Epub ahead of print]

Haustein V, Schumacher U.
A dynamic model for tumour growth and metastasis formation.
J Clin Bioinforma. 2012 May 1;2(1):11. [Epub ahead of print]

Almeida JS, Gruneberg A, et al.
Fractal MapReduce decomposition of sequence alignment.
Algorithms Mol Biol. 2012 May 2;7(1):12. [Epub ahead of print]

Audemard E, Faraut T, Schiex T.
Detecting long tandem duplications in genomic sequences.
BMC Bioinformatics. 2012 May 8;13(1):83. [Epub ahead of print]

Gonnella G, Kurtz S.
Readjoiner: A fast and memory efficient string graph-based sequence assembler.
BMC Bioinformatics. 2012 May 6;13(1):82. [Epub ahead of print]

Calboli FC, Coin LJ, et al.
MultiPhen: Joint model of multiple phenotypes can increase discovery in GWAS.
PLoS One. 2012;7(5):e34861. Epub 2012 May 2.

Leal SM, Liu DJ.
SEQCHIP: A powerful method to integrate sequence and genotype data for the detection of rare variant associations.
Bioinformatics. 2012 May 3. [Epub ahead of print]

Chopra G, Levitt M, Rodrigues JP.
KoBaMIN: a knowledge-based minimization web server for protein structure refinement.
Nucleic Acids Res. 2012 May 7. [Epub ahead of print]

Chen K, Ding L, et al.
BreakFusion: Targeted assembly-based identification of gene fusions in whole transcriptome paired-end sequencing sata.
Bioinformatics. 2012 May 4. [Epub ahead of print]

Chen FC, Hsiung CA, et al.
GEMSiRV: A software platform for GEnome-scale metabolic model simulation, reconstruction and visualization.
Bioinformatics. 2012 May 4. [Epub ahead of print]

Bayjanov JR, Molenaar D, et al.
PhenoLink — a web tool for linking phenotype to -omics data for bacteria: Application to gene-trait matching for Lactobacillus plantarum strains.
BMC Genomics. 2012 May 4;13:170.

Roy A, Yang J, Zhang Y.
COFACTOR: An accurate comparative algorithm for structure-based protein function annotation.
Nucleic Acids Res. 2012 May 8. [Epub ahead of print]

Akiyama Y, Ishida T, et al.
GHOSTM: A GPU-accelerated homology search tool for metagenomics.
PLoS One. 2012;7(5):e36060. Epub 2012 May 4.

Coe BP, Eichler EE, et al.
Copy number variation detection and genotyping from exome sequence data.
Genome Res. 2012 May 14. [Epub ahead of print]

Bertsch A, Bielow C, et al.
TOPPAS: A graphical workflow editor for the analysis of high-throughput proteomics data.
J Proteome Res. 2012 May 24. [Epub ahead of print]

Aksoy BA, Antipin Y, et al.
The cBio Cancer Genomics Portal: An open platform for exploring multidimensional cancer genomics data.
Cancer Discov. 2012 May;2(5):401-4.

Sahli M, Shibuya T.
Arapan-S: A fast and highly accurate whole-genome assembly software for viruses and small genomes.
BMC Res Notes. 2012 May 16;5(1):243. [Epub ahead of print]

Eskin E, Halperin E, et al.
A model-based approach for analysis of spatial structure in genetic data.
Nat Genet. 2012 May 20;44(6):725-31. doi: 10.1038/ng.2285.

Barton MD, Barton HA.
Scaffolder — Software for manual genome scaffolding.
Source Code Biol Med. 2012 May 28;7(1):4. [Epub ahead of print].

Filed under

The Scan

Pig Organ Transplants Considered

The Wall Street Journal reports that the US Food and Drug Administration may soon allow clinical trials that involve transplanting pig organs into humans.

'Poo-Bank' Proposal

Harvard Medical School researchers suggest people should bank stool samples when they are young to transplant when they later develop age-related diseases.

Spurred to Develop Again

New Scientist reports that researchers may have uncovered why about 60 percent of in vitro fertilization embryos stop developing.

Science Papers Examine Breast Milk Cell Populations, Cerebral Cortex Cellular Diversity, Micronesia Population History

In Science this week: unique cell populations found within breast milk, 100 transcriptionally distinct cell populations uncovered in the cerebral cortex, and more.