Virology and Bioinformatics from Virology.ca. Explainer: what is bioinformatics? Bioinformatics underpins and enables research across the life sciences.
This ranges from high-volume reductionist science (genomics, proteomics and the other “omics”, regulation of gene activity, epigenetics, protein and RNA structure and function, cell organisation) to comparative, evolutionary and systems biology. The latter, in particular, attempts to discover how our bodies work. Our hunger for bioscience data Humans have long sought to understand how our bodies work. 09-04-015.pdf?utm_source=dlvr. Insider: A Python Launcher For Windows. Mark Hammond (author of pywin32 and long-time supporter of Python on Windows) has written PEP 397, which describes a new launcher for Python on Windows.
Vinay Sanjip (author of the standard library logging module) has recently created an implementation of the launcher, downloadable from The launcher allows Python scripts (.py and .pyw files) on Windows to specify the version of Python which should be used, allowing simultaneous use of Python 2 and 3. Windows users should consider downloading the launcher and testing it, to help the Python developers iron out any remaining issues. The launcher is packaged as a standalone application, and will support currently available versions of Python. The intention is that once the launcher is finalised, it will be included as part of Python 3.3 (although it will remain available as a standalone download for users of earlier versions). Barcamp at PyCon DE 2011. Atlas 2.0.6 Released! Noncoding RNA database. The noncoding RNA (ncRNA) database is intended to provide information on the sequences and functions of transcripts which do not code for proteins, but perform regulatory roles in the cell.
Currently, the database includes over 30,000 individual sequences from 99 species of Bacteria, Archaea and Eukaryota. The primary source of sequences included in the database was the GenBank. Additional annotation information for mouse and human ncRNAs was derived from FANTOM3 database and H-inviational Integrated Database of Annotated Human Genes version 3.4, respectively.
Genome mapping information was derived from tha data available at the UCSC Genome Browser site. The RNA Modification Database. New software aids RNA cocktail against cancer. With drug developers aiming to make cancer treatment more personalized, German researchers have implemented a software tool to spot genetic mutations for a program that aims to bring individualized RNA therapies to combat tumors.
The group reports that the technology helped it concoct its first RNA drug cocktail for personalized cancer treatment, said Ingenuity Systems, the Redwood City, CA-based developer of the software, called Ingenuity Variant Analysis. The German researchers at TRON, the translational oncology group at the University Medical Center of the Johannes Gutenberg University Mainz, tapped Ingenuity's software to pinpoint genetic variants in genomic data that are driving cancer progression. Their first RNA cocktail therapy, of course, is experimental and must be proven to be safe and effective in homing in on the misfit genes behind tumors.
Sign up for our FREE newsletter for more news like this sent to your inbox! LncRNA Database. OpenHelix : RT @2footgiraffe: Hey scie... CLC bio: CLC RNA Workbench. A comprehensive workbench for advanced DNA, RNA, and protein analyses The functionalities of CLC Main Workbench are used by tens of thousands of researchers all over the world for DNA, RNA, and protein sequence data analysis, such as gene expression analysis, primer design, molecular cloning, phylogenetic analyses, and sequence data management, amongst a wide variety of other features – all wrapped in an intuitive graphical user-interface.
CLC Main Workbench is available on Windows, Mac OS X, and Linux platforms. You can make your computer a high performance computing center. You can use CLC Assembly Cell to accelerate reference assembly and de novo assembly of next generation sequencing data. Your research work will be easy to carry out as the program is graphically based, intuitive, and very user-friendly. The program continouosly evolves and frequent updates keep you up to date with the latest scientific developments.
NONCODE. DeepBase: A database for deeply annotating and mining the deep sequencing data. RNALogo. FOLDALIGN. CARNAC. Predicting secondary structure for a set of homologous RNA sequences Carnac is a software tool for analysing the hypothetical secondary structure of a family of homologous RNA.
It aims at predicting if the sequences actually share a common secondary structure. When this structure exists, Carnac is then able to correctly recover a large amount of the folded stems. The input is a set of single-stranded RNA sequences that need not to be aligned. The folding strategy relies on a thermodynamic model with energy minimization. Visualization Carnac produces CT files. Naview is a freely-distributed program that produces plots of RNA secondary structure RNAfamily is a home-made viewer that allows to display several secondary structures on the same drawing using backbone representation [More information on RNAfamily] Availability You can use Carnac via the web interface. Publications. Rinn_nature_methods_tech_feature. Segal Lab: RNA Motifs 2008 - Predict Motif. TargetRNA. Welcome. RBPDB: The database of RNA-binding specificities. MiRBase. Schedule. Jump to: CT Python and Core Technologies | DS Python in Data Science Day 1 • Wednesday Amphitheatre 204 Classroom 203 Welcome and Announcements Keynote: What Matters in Scientific Software Projects?
International Conference and Exhibition on Metabolomics & Systems Biology -2012. FAS Center: The Scriptome - Protocols for Manipulating Biological Data.