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HOW I FEEL WHEN CODING IN R

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Related PostsDo you feel lonely sometimes? You are never alone. Darwin: A Graphic BiographyGene FusionsInstant Japanese Candy – you gotta see this.
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Bioinformatics Training
Bioinformatics, blended with education and health sciences subjects
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GTPB: SMLMC14 - Structural Modeling for Large Macromolecular Complexes

GTPB: SMLMC14 - Structural Modeling for Large Macromolecular Complexes | Bioinformatics Training | Scoop.it

Joanna Kasprzak with Grzegorz Chojnowski

 

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June 11th-13th 2014 in Oeiras,PT

 New Deadline for Applications: May 20th 2014

 

One of the major challenges in structural biology is to determine the structures of macromolecular complexes and to understand their function and mechanism of action. However, structural characterization of macromolecular assemblies is very difficult. To begin addressing this problem, we have developed PyRy3D.
In a nutshell, PyRy3D employs a hybrid computational approach that incorporates spatial information from a variety of experimental methods into the modelling procedure to build low-resolution models of large macromolecular complexes. The PyRy3D model building procedure uses a Monte Carlo approach to sample the solutions-space. It uses spatial restraints to define components interacting with each other, and a simple scoring function is applied to pack them tightly into contours of the entire complex (e.g. cryoEM density maps).

 

Course duration: 3 days   Course Fee: 240.00 Eur

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INSIGHT-As sequencing moves into clinical use, insurers balk

CHICAGO, June 19 (Reuters) - Aimee Robeson just wants ananswer.Her son, Christian, was born in 2010 with multiple,mysterious syndromes that leave him unable to speak, chew, orwalk on his own.Initial
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And a Hologram in Every Lecture Hall: Marketing 3D Tech to Universities

And a Hologram in Every Lecture Hall: Marketing 3D Tech to Universities | Bioinformatics Training | Scoop.it
First came the mouse, then touch-screen technology. And if Silicon-Valley-based zSpace has its way, the next leap in human-computer interaction will look like something out of your local IMAX Theater.
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ISB Researchers Identify New Protein Modification Critical to Growth of Tuberculosis Pathogen

ISB Researchers Identify New Protein Modification Critical to Growth of Tuberculosis Pathogen | Bioinformatics Training | Scoop.it
3 Bullets:
Institute for Systems Biology and Seattle BioMed researchers collaborated and discovered a new protein post-translational modification in the human pathogen Mycobacterium tuberculosis.
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Coursera Chief: Reach of Teaching Will Define Great Universities

Coursera Chief: Reach of Teaching Will Define Great Universities | Bioinformatics Training | Scoop.it
In October 1993, in his first major speech as president of Yale University, Richard C.
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2014 Release: New report offers a primer for doctors' use of clinical genome and exome sequencing

2014 Release: New report offers a primer for doctors' use of clinical genome and exome sequencing | Bioinformatics Training | Scoop.it
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Optogenetic characterization methods overcome key challenges in synthetic and systems biology

Optogenetic characterization methods overcome key challenges in synthetic and systems biology | Bioinformatics Training | Scoop.it

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Socrates Logos's curator insight, June 18, 6:53 PM

by
Evan J Olson & Jeffrey J Tabor

"Systems biologists aim to understand how organism-level processes, such as differentiation and multicellular development, are encoded in DNA. Conversely, synthetic biologists aim to program systems-level biological processes, such as engineered tissue growth, by writing artificial DNA sequences. To achieve their goals, these groups have adapted a hierarchical electrical engineering framework that can be applied in the forward direction to design complex biological systems or in the reverse direction to analyze evolved networks. Despite much progress, this framework has been limited by an inability to directly and dynamically characterize biological components in the varied contexts of living cells. Recently, two optogenetic methods for programming custom gene expression and protein localization signals have been developed and used to reveal fundamentally new information about biological components that respond to those signals. This basic dynamic characterization approach will be a major enabling technology in synthetic and systems biology."


 bit.ly/SV3C6G

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Nanopores are here - AllSeq

Nanopores are here - AllSeq | Bioinformatics Training | Scoop.it

First example of user-generated data from Oxford Nanopore’s MinION next generation sequencing platform.

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Careers in Bioinformatics and Precision Medicine - Career Development Week

Visit: http://www.uctv.tv/) Precision medicine integrates molecular and clinical research with patient data and outcomes, aiming to place the patient at the center of all elements. In this...
Pedro Fernandes's insight:

Bioinformatics as it is applied today in dealing with NGS data

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Why Inquiry Learning is Worth the Trouble

Why Inquiry Learning is Worth the Trouble | Bioinformatics Training | Scoop.it
Nearly seven years after first opening its doors, the Science Leadership Academy public magnet high school* in Philadelphia and its inquiry-based approach to
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AlCoB 2014

AlCoB 2014 | Bioinformatics Training | Scoop.it
Pedro Fernandes's insight:

Insteresting set of accepted papers at

 

http://grammars.grlmc.com/alcob2014/acceptedpapers.php

 

 

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Course: Comparative Genomics: from evolution to function (2nd edition) | BioSB research school

Course: Comparative Genomics: from evolution to function (2nd edition) | BioSB research school | Bioinformatics Training | Scoop.it
Pedro Fernandes's insight:
Desciption

Comparative genomics between species and between types of data facilitates the understanding of what these data really reflect about the underlying processes. Comparative genomics therewith relies on a solid understanding of basic elements of Bioinformatics like homology and orthology. Moreover it is important to know the assumptions and heuristics of bioinformatic methods for comparative genomics and hence we aim to let participants develop an understanding of why they fail (or misdetect) as a consequence of a variety of biological /evolutionary causes.

The first two days of the course provide a basis for the course with the aim to move “beyond blast” in terms of more sensitive homology searches, domain level analysis of protein evolution as well as more fine grained definitions of relatedness as can be obtained from the proper interpretation of gene trees (i.e. various levels of orthology).

This foundation is used to discuss in the three following days in more detail three topics:

(1) the study of  functional and evolutionary consequence of (genome) duplications,

(2) the evolution of interactions and complexes and

(3) the prediction and evolution of genomic regulatory elements.

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Course: Algorithms for Biological Networks (3rd edition) | BioSB research school

Course: Algorithms for Biological Networks (3rd edition) | BioSB research school | Bioinformatics Training | Scoop.it
Pedro Fernandes's insight:
Course description

In the third edition of this course, we will first give a brief overview of molecular biology, the advent of high-throughput measurement techniques and large databases containing biological knowledge, and the importance of networks to model all this. We will highlight a number of peculiar features of biological networks. Next, a number of basic network models (linear, Boolean, Bayesian) will be discussed, as well as methods of inferring networks from observed measurement data and of integrating various data sources and databases to refine networks. Once networks are derived they often serve as the cornerstone in the visualization, analysis and interpretation of high-throughput data; we will discuss a number of methods in this area.

As an alternative to static networks, a number of alternative dynamic network models more suited for high-level simulation of cellular behaviour for will be introduced. Finally, we will give some examples of algorithms exploiting the networks found to learn about biology, specifically for inspecting protein interaction networks and for finding active sub networks.

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QuickWire: Sloan Consortium Picks a New Name

QuickWire: Sloan Consortium Picks a New Name | Bioinformatics Training | Scoop.it
The Sloan Consortium, an influential champion of online learning that grew out of the Alfred P. Sloan Foundation’s early interest in the topic, is changing its name and will now be known as the Online Learning Consortium.
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Genomics at USF Health

Always on the cutting edge of science, USF Health is offering a new course in human genomics this fall. Genomics is the study of genes and their function and...
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IPA Training on New Features

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Large-Scale Expression Analysis - Paul Meltzer (2014) - YouTube

May 14, 2014 - Current Topics in Genome Analysis 2014 A lecture series covering contemporary areas in genomics and bioinformatics. More: http://www.genome.go...

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Kelvin Lecture: Synthetic Biology - One of the Eight Great Technologies - Pixel Health

Kelvin Lecture: Synthetic Biology - One of the Eight Great Technologies - Pixel Health | Bioinformatics Training | Scoop.it
The Kelvin Lecture is one of the most prestigious talks you can give in the UK, so to is extremely...

Via Socrates Logos
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-Essay Writing

-Essay Writing | Bioinformatics Training | Scoop.it
Writing, therefore, demands a series of processes. These processes could be followed in a sequential manner (i.e., step one: read, step two: draft; step three: review).
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Structural Genomics: The Song

Celebrating the Seattle Structural Genomics Center for Infectious Disease with a new song by composer Peter S. Kessler.
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A P. aeruginosa serotype-defining single read from our first Oxford Nanopore run

A P. aeruginosa serotype-defining single read from our first Oxford Nanopore run | Bioinformatics Training | Scoop.it
A P. aeruginosa serotype-defining single read from our first Oxford Nanopore run
Pedro Fernandes's insight:

Well done, Nick Loman, Josh Quick et al.

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Global school tests under attack as OECD accused of killing 'joy of learning'

Global school tests under attack as OECD accused of killing 'joy of learning' | Bioinformatics Training | Scoop.it
Leading academics from 12 countries including UK call for next round of OECD Pisa tests on 15-year-olds to be scrapped

Via Jacqueline Boerefijn
Pedro Fernandes's insight:

Probably wrong to do this kind of study, in the first place.

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DNA Dreams 2013 - YouTube

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Course: International Chemical Design & Discovery

Course: International Chemical Design & Discovery | Bioinformatics Training | Scoop.it
Pedro Fernandes's insight:
Course description

This course, developed together with Schering-Plough/MSD, hosted by the Radboud University Nijmegen and supported by The Netherlands Bioinformatics Centre and The Netherlands eScience Center, is part of a series of bioinformatics courses offered to advanced students in (bio)chemistry, medical chemistry or related sciences at the University of Nijmegen. Computational discovery has become a well-established scientific discipline in pharmaceutical and food research and has created numerous opportunities to speed up and rationalize the compound design and discovery process. Compound discovery is intrinsically multidisciplinary. The miniaturization and robotisation of chemical and biological experiments have resulted in a huge increase of data volumes. Today, in silico chemists have to bridge several disciplines ranging from molecular biology to chemistry and physics in order to translate these huge amounts of structural and sequence information from protein targets, ligands and their complexes, into useful knowledge. The scientific discipline of compound discovery informatics covers an increasingly large number of subjects, including molecular modelling, 3D-QSAR, pharmacophore and target based molecular design. The course covers some of the recent advances in discovery informatics, with a focus on the application of e-science to real life problems. Scientists from academia and industry will give lectures on real-life-examples and describe amongst others the process of in silico gene hunting, virtual molecular screening and structure-based design. They will also introduce and discuss tools and scientific concepts that are part of the modern drug, food supplement and ingredient discovery pipeline from target discovery & validation to lead discovery and optimization. CMBI lecturers will explain underlying expertise and techniques. The practical component of the course will provide participants the opportunity to work with the different in silico tools and databases available to the in silico chemist such as 3D protein-ligand modelling, virtual docking, and molecular superposition techniques. 

 Topics

You can expect lectures and practicals on the following topics:

·         Introduction to Computational Discovery & Design.

·         Comparative Protein Modelling.

·         Sequence Retrieval, Analysis and Alignment Techniques.

·         Computational Medicinal Chemistry; Molecular Descriptors & Library Design.

·         The Application of Computational Drug Design to Real Life Problems.

·         Molecular Docking and Virtual Screening.

·         Advanced 3D Database Searches and Scaffold Hopping.

·         QSAR and COMFA methods.

·         Structure Based Drug Design Techniques.

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NGS Workshop Sheffield | bioteXcel Conference

NGS Workshop Sheffield | bioteXcel Conference | Bioinformatics Training | Scoop.it
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First level acquaintance with NGS - Workshops in the UK

This Next Generation Sequencing Workshop will be structured as modules consisting of hands on tutorials that will allow a good understanding of:

NGS TheoryNGS PlatformsNGS WorkflowsAnalysis of NGS data
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Resources and Downloads to Improve Student Performance

Resources and Downloads to Improve Student Performance | Bioinformatics Training | Scoop.it
Cochrane’s strong PD and its list of ten non-negotiable classroom practices have been critical to the school's turnaround, helping to boost student engagement and double student performance in t
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