BOL: Related items

List of bioinformatics companies and genomics service providers

Rahul Agarwal — Wed, 02 Apr 2014 06:52:28 -0500

Plz check out link for bioinformatics and genomics companies.

Address of the bookmark: http://grouthbio.com/Genome_Software_Service.php

Internship Program for Bioinformatics / Biotechnology Professionals (No. Of Vacancy: 2)

Wed, 08 Oct 2014 01:10:08 -0500

ArrayGen is offering an Internship Program for Post graduate Bioinformatics / Biotechnology students and professionals. ArrayGen Technologies provide an excellent opportunity to gain research experience and explore if a scientific career is right for you. Currently we offer positions to outstanding students interested in Next Generation Sequencing (NGS) data analysis. Applications are accepted throughout the year. Accepted students will be listed on web with their schedules. Accepted students can attend our future workshops and trainings freely at the specified venue.

phyloXML: XML for evolutionary biology and comparative genomics

Jit — Wed, 29 Nov 2017 10:04:48 -0600

phyloXML (example) is an XML language designed to describe phylogenetic trees (or networks) and associated data. PhyloXML provides elements for commonly used features, such as taxonomic information, gene names and identifiers, branch lengths, support values, and gene duplication and speciation events. Using these standardized elements allows interoperability between various applications and databases. Furthermore, both due to extensible nature of XML itself and the provision of elements by phyloXML, extensibility as well as domain specific applications are ensured. The structure of phyloXML is described by XML Schema Definition (XSD) language.

Address of the bookmark: http://www.phyloxml.org/

PSPairwise Sequentially Markovian Coalescent (PSMC) model

Jit — Thu, 19 Apr 2018 05:29:23 -0500

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

Address of the bookmark: https://github.com/lh3/psmc

NGS Platforms launched by BGI’s MGI Tech

Jit — Thu, 10 Jan 2019 04:42:06 -0600

MGI Tech Co., Ltd. (MGI), a subsidiary of BGI Group, is committed to enabling effective and affordable healthcare solutions for all. Based on its proprietary technology, MGI produces sequencing devices, equipment, consumables and reagents to support life science research, medicine and healthcare. MGI's multi-omics platforms include genetic sequencing, mass spectrometry and medical imaging. Providing real-time, comprehensive, life-long solutions, its mission is to develop and promote advanced life science tools for future healthcare.

MGI, a subsidiary of global genomics leader BGI Group, announced pricing and its first early access customer for the new ultra high-throughput sequencer, MGISEQ-T7, saying it has driven down sequencing cost to $5 per gigabyte, with exceptionally high accuracy. Such innovations are helping more people to realize the benefits of genomic information.

In October, MGI launched the MGISEQ-T7, a highly flexible production-scale platform that is the most powerful sequencer to date. It can produce as many as 60 whole human genomes in one day. The instrument sells for $1 million.

The T7 enables simultaneous but independent operation of up to four flow cells, which means different applications such as single-cell RNA sequencing, whole exome sequencing and whole genome sequencing can be run in different flow cells at the same time. This helps to reduce costs, allowing MGI to offer the most competitive sequencing price in the market.

Powered by DNBseq™, MGISEQ delivers quality data with accuracy for SNP and Indel calling rate of 99.9% and 99%, respectively, along with decreased duplication rate down to less than 2 percent, and almost zero Index mis-assignment rate.

SOURCE MGI

https://www.bgi.com/global/company/news/bgis-mgi-tech-launches-two-new-ngs-platforms/

http://en.mgitech.cn/

Nucleus: Python and C++ code for reading and writing genomics data.

Jit — Sun, 02 Feb 2020 08:14:19 -0600

Nucleus is a library of Python and C++ code designed to make it easy to read, write and analyze data in common genomics file formats like SAM and VCF. In addition, Nucleus enables painless integration with the TensorFlow machine learning framework, as anywhere a genomics file is consumed or produced, a TensorFlow tfrecords file may be used instead.

Address of the bookmark: https://github.com/google/nucleus

Sibelia: A comparative genomics tool

BioStar — Sat, 22 Aug 2020 02:49:00 -0500

Sibelia: A comparative genomics tool: It assists biologists in analysing the genomic variations that correlate with pathogens, or the genomic changes that help microorganisms adapt in different environments. Sibelia will also be helpful for the evolutionary and genome rearrangement studies for multiple strains of microorganisms.

Sibelia is useful in finding: (1) shared regions, (2) regions that present in one group of genomes but not in others, (3) rearrangements that transform one genome to other genomes.

More at http://bioinf.spbau.ru/sibelia

Sibelia docs http://gensoft.pasteur.fr/docs/Sibelia/3.0.7/SIBELIA.md

Address of the bookmark: https://github.com/bioinf/Sibelia

postdoctoral fellow for a large-scale microbial comparative genomics !

Thu, 29 Apr 2021 08:44:53 -0500

Asaf Levy hiring a postdoctoral fellow for a large-scale microbial comparative genomics project at the Hebrew University of Jerusalem (Israel).
The project is a continuation of Levy Asaf et al. Nature Genetics 2018 paper.
Requirements:
1.Experience with programming in at least one programming language, preferably Python.
2.A PhD in bioinformatics/computational biology
3.At least one first authorship publication in a good journal, preferably more.
4.Good communication skills in English
5.Ability to enter and study in Israel (not applicable for Pakistani people, for example).
6.Ability to work in a team.
Please send CV to alevy@mail.huji.ac.il

Comparative genomics visualisation tools !

Neel — Thu, 17 Feb 2022 05:37:55 -0600

Comparative genomics visualisation tools !

Address of the bookmark: https://cmdcolin.github.io/awesome-genome-visualization/?latest=true&selected=%23BRIG&tag=Comparative

A National Workshop on "DNA Barcoding and Phylogenetics" 09 th – 12 th August, 2017 @ Andhra University, Visakhapatnam, A.P., India

M JAGANNATH — Wed, 26 Jul 2017 00:37:20 -0500

DNA Barcoding is an emerging global standard for identifying species using gene sequences, and it has far reaching applications for society and the study of biodiversity on Earth. DNA Barcoding began during
recent decades with the proposal that organisms could be assigned to their correct species using a short gene sequence from a standardized position in the genome. By using genetic data rather than morphological features, barcoding can identify specimens that challenge the most expert taxonomist: larval forms, eggs, damaged or partial specimens (including gut contents and fecal matter), and derivative forms (e.g., fish filets). Since its introduction, barcoding has proven effective as an identification system for a wide range of taxonomic groups and for varied applications of importance to science and society.
The current Workshop aims to introduce about the current emerging trends and applications of Molecular
Phylogenetics and Evolution studies and to provide hands on training on molecular biology and bioinformatics tools in Molecular Phylogenetics research.

For registration Kindly follow the Link

http://andhrauniversity.edu.in/webnew/admin/docs/Broucher-for-National-workshop-Aug-2017-18072017.pdf