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In Print: Apr 8, 2011

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De Morrée A, Mons B, Peters DJ, et al.
In silico discovery and experimental validation of new protein-protein interactions.
Proteomics. 2011 Mar;11(5):843-53.


Hetényi C, van der Spoel D.
Towards prediction of functional protein pockets using blind docking and pocket search algorithms.
Protein Sci. 2011 Mar 16. doi: 10.1002/pro.618. [Epub ahead of print]


Ivanciuc O, Gendel SM, Power TD, Schein CH, Braun W.
AllerML: Markup Language for Allergens.
Regul Toxicol Pharmacol. 2011 Mar 17. [Epub ahead of print]


Dewey CF, Ayyadurai VA.
CytoSolve: A Scalable Computational Method for Dynamic Integration of Multiple Molecular Pathway Models.
Cell Mol Bioeng. 2011 Mar;4(1):28-45.


Ma'ayan A, Webb RL.
Sig2BioPAX: Java tool for converting flat files to BioPAX Level 3 format.
Source Code Biol Med. 2011 Mar 21;6(1):5.


Consiglio A, De Leo F, Licciulli F, et al.
PlantPIs — An Interactive Web Resource on Plant Protease Inhibitors.
Curr Protein Pept Sci. 2011 Mar 22. [Epub ahead of print]


Yadav AK, Dash D, Kumar D.
MassWiz: A novel scoring algorithm with target-decoy based analysis pipeline for tandem mass spectrometry.
J Proteome Res. 2011 Mar 18. [Epub ahead of print]


Andronico A, Randall A, Baldi P, Benz RW.
Data-Driven High-Throughput Prediction of the 3-D Structure of Small Molecules: Review and Progress.
J Chem Inf Model. 2011 Mar 18. [Epub ahead of print]


Antonescu C, Gusenleitner D, Liu F, White JA, Quackenbush J.
GCOD — GeneChip Oncology Database.
BMC Bioinformatics. 2011 Feb 3;12:46.


Wenger CD, Phanstiel DH, Bailey DJ, Coon JJ, Lee MV.
COMPASS: A suite of pre- and post-search proteomics software tools for OMSSA.
Proteomics. 2011 Mar;11(6):1064-74.


Decouttere F, Rehm HL, Dunnen JT, et al.
MutaDATABASE: a centralized and standardized DNA variation database.
Nat Biotechnol. 2011 Feb;29(2):117-8.

Macken C, Dietrich J, Dimitrijevic M, Green M, Krishnamoorthy M, Patel P.
Tree Pruner: An efficient tool for selecting data from a biased genetic database.
BMC Bioinformatics. 2011 Feb 9;12:51.


Bujnicki JM, Rother K, Rother M, Puton T.
ModeRNA: a tool for comparative modeling of RNA 3D structure.
Nucleic Acids Res. 2011 Feb 7. [Epub ahead of print]


Lum G, Min XJ.
FunSecKB: the Fungal Secretome KnowledgeBase.
Database. 2011 Feb 6;2011:bar001.


Schmidt B, Liu W, Muller-Wittig W.
CUDA-BLASTP: Accelerating BLASTP on CUDA-Enabled Graphics Hardware.
IEEE/ACM Trans Comput Biol Bioinform. 2011 Feb 16. [Epub ahead of print]


The Scan

PNAS Papers on Siberian Dog Ancestry, Insect Reproduction, Hippocampal Neurogenesis

In PNAS this week: ancestry and admixture among Siberian dogs, hormone role in fruit fly reproduction, and more.

For Better Odds

Bloomberg reports that a child has been born following polygenic risk score screening as an embryo.

Booster Decision Expected

The New York Times reports the US Food and Drug Administration is expected to authorize a booster dose of the Pfizer-BioNTech SARS-CoV-2 vaccine this week for individuals over 65 or at high risk.

Snipping HIV Out

The Philadelphia Inquirer reports Temple University researchers are to test a gene-editing approach for treating HIV.