Ruby is a dynamic, reflective, general purpose object-oriented programming language that combines syntax inspired by Perl with Smalltalk-like features. Ruby originated in Japan during the mid-1990s and was initially developed and designed by Yukihiro "Matz" Matsumoto. It was influenced primarily by Perl, Smalltalk, Eiffel, and Lisp.

Ruby supports multiple programming paradigms, including functional, object oriented, imperative and reflective. It also has a dynamic typesystem and automatic memory management; it is therefore similar in varying respects to Python, Perl, Lisp, Dylan, Pike, and CLU.

The standard 1.8.7 implementation is written in C, as a single-pass interpreted language. There is currently no specification of the Ruby language, so the original implementation is considered to be the de facto reference. As of 2010, there are a number of complete or upcoming alternative implementations of the Ruby language, including YARV, JRuby, Rubinius, IronRuby, MacRuby and HotRuby, each of which takes a different approach, with IronRuby, JRuby and MacRuby providing just-in-time compilation and MacRuby also providing ahead-of-time compilation. The official 1.9 branch uses YARV, as will 2.0 (development), and will eventually supersede the slower Ruby MRI.

Ruby Quick Reference
http://www.zenspider.com/Languages/Ruby/QuickRef.html

Ruby Annotation
http://www.w3.org/TR/ruby/

Ruby in Linux Journals
http://www.linuxjournal.com/article/5915

Ruby Documentation: Programming Ruby
http://ruby-doc.org/docs/ProgrammingRuby/

The Top 10 Reasons The Ruby Programming Language Sucks

http://www.slideshare.net/vishnu/the-top-10-reasons-the-ruby-programming-language-sucks

Ruby : The Programmers best friends
http://www.ruby-lang.org/en/

For Ruby Beginners
http://www.squidoo.com/ruby-programming-beginner

Ruby Programming
http://en.wikibooks.org/wiki/Ruby_Programming

Ruby CookBook
http://en.wikibooks.org/wiki/Cookbook:Table_of_Contents

Ruby Programming Challenge for Newbies -
http://rubylearning.com/blog/ruby-programming-challenge-faq/

Common "issues" faced by Ruby Newbies by Chris Strom -
http://japhr.blogspot.com/2009/10/newbie-feedback.html

Books
http://www.sapphiresteel.com/The-Book-Of-Ruby

Free Online Ruby Programming along with many Ruby newbies here -
http://rubylearning.org/class/

More at https://www.raku.org/

Address of the bookmark: https://www.raku.org/

Features

• An amazing real-time web framework, allowing you to easily grow single file prototypes into well-structured MVC web applications.
  • Powerful out of the box with RESTful routes, plugins, commands, Perl-ish templates, content negotiation, session management, form validation, testing framework, static file server, CGI/PSGI detection, first class Unicode support and much more for you to discover.
• A powerful web development toolkit, that you can use for all kinds of applications, independently of the web framework.
  • Full stack HTTP and WebSocket client/server implementation with IPv6, TLS, SNI, IDNA, HTTP/SOCKS5 proxy, UNIX domain socket, Comet (long polling), Promises/A+, keep-alive, connection pooling, timeout, cookie, multipart and gzip compression support.
  • Built-in non-blocking I/O web server, supporting multiple event loops as well as optional pre-forking and hot deployment, perfect for building highly scalable web services.
  • JSON and HTML/XML parser with CSS selector support.
• Very clean, portable and object-oriented pure-Perl API with no hidden magic and no requirements besides Perl 5.24.0 (versions as old as 5.10.1 can be used too, but may require additional CPAN modules to be installed)
• Fresh code based upon years of experience developing Catalyst, free and open source.
• Hundreds of 3rd party extensions and high quality spin-off projects like the Minion job queue.

http://mojolicious.org/

Address of the bookmark: http://mojolicious.org/

The primary home page for DendroPy, with detailed tutorials and documentation, is at:

http://dendropy.org/

DendroPy is also hosted in the official Python repository:

http://packages.python.org/DendroPy/

Address of the bookmark: https://pypi.org/project/DendroPy/

The easiest way to install Gooey is via pip

pip install Gooey 

Alternatively, you can install Gooey by cloning the project to your local directory

git clone https://github.com/chriskiehl/Gooey.git

run setup.py

python setup.py install

Address of the bookmark: https://github.com/chriskiehl/Gooey

Additional Information:

If you have any questions about scientific aspects of this position, please contact Prof. Lars Bertram, head of LIGA (lars.bertram@uni-luebeck.de).

Please contact Ms. Anna Wolbert for further questions about administrative details (recruiting@uksh.de).

Weitere Informationen erhalten Sie auch unter www.uksh.de/karriere.

Wir freuen uns auf Ihre Bewerbung bis zum 15.03.2020 unter Angabe unserer Ausschreibungsnummer 20190570.119.CL.

• DNA-mapping*
• ChIP-seq*
• RNA-seq*
• ATAC-seq*
• scRNA-seq
• Hi-C
• Whole Genome Bisulfite Seq/WGBS

(*Also available in "allele-specific" mode)

snakePipes can be installed via conda :

'conda install -c mpi-ie -c bioconda -c conda-forge snakePipes'.

Source code (https://github.com/maxplanck-ie/snakepipes) and documentation (https://snakepipes.readthedocs.io/en/latest/) are available online.

Address of the bookmark: https://github.com/maxplanck-ie/snakepipes

Most people who have a balanced translocation have the right amount of chromosome material but it has been rearranged in some way. This may happen if two chromosomes swap pieces (a reciprocal translocation). In other cases two whole chromosomes may become stuck together (a Robertsonian translocation). This page describes what happens when someone has a reciprocal translocation.

Reciprocal chromosomal translocations occur following double-strand breaks (DSBs) in DNA when a section of one chromosome is exchanged with that of another, non-homologous chromosome. These exchanges may produce a dysfunctional fusion gene that disrupts cell growth and survival pathways, such as the translocations seen in leukemia and childhood sarcomas.

Chromosomal translocations have been well studied in cancer cell lines which are associated with two types of cancer, acute myeloid leukemia and Ewing's sarcoma, but determining how they contribute to cancer development is complicated by additional mutations and altered gene expression profiles in these cultured cells. Now, Juan Carlos Ramirez, head of the Viral Vector Facility at the Fundacion Centro Nacional de Investigaciones Cardiovasculares (CNIC) and his colleagues Raul Torres at CNIC and Sandra Rodriguez-Peralez at the Spanish National Cancer Center (CNIO) in Madrid, Spain have used a new genome editing tool, CRISPR-Cas9, to induce chromosomal translocations for the first time in a human cell line and in primary cells. The study's authors conclude by stating that the use of this technology will allow for the clarification of how and why chromosomal translocation occurs, which without doubt will allow new anti-cancer therapeutic strategies to be tackled.

Using RNA-Guided Endonuclease (RGEN) technology or CRISPR/Cas9 genome engineering technology, CNIO and CNIC researchers have shown that it is possible to obtain such chromosomal translocations. The CRISPR-Cas9 system is extremely simple to introduce a cut at the desired locus, easier to design, and cheaper than many other systems. Using the CRISPR-Cas9 system, Ramirez and his colleagues reproduced the translocations observed in Ewing’s Sarcoma (ES) and Acute Myeloid Leukemia (AML) patient cell lines in HEK293 cells and also generated the ES translocation in human mesenchymal stem cells and the AML translocation in umbilical cord blood cells.

By focusing on chromosomal translocation without the confounding characteristics of established cell lines, these new cells lines should help answer the fundamental question of what causes a cell to become cancerous. Ramirez and his team now look forward to modeling other chromosome translocations in a variety of cell types.

Reference:

http://en.wikipedia.org/wiki/Chromosomal_translocation

http://www.nature.com/ncomms/2014/140603/ncomms4964/abs/ncomms4964.html