Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time
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CoreGenomics | core-genomics.blogspot.com Reviews
https://core-genomics.blogspot.com
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time
core-genomics.blogspot.com
CoreGenomics: May 2015
http://core-genomics.blogspot.com/2015_05_01_archive.html
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time. The CRUK-CI Genomics Core. Thursday, 28 May 2015. Book Review: Next-Generation DNA Sequencing Informatics 2nd ed. Next-Generation DNA Sequencing Informatics (2nd edition), edited by Stuart M. Brown. Wednesday, 20 May 2015. How many MinIONs can you fit in a PacBio? Friday, 15 May 2015.
CoreGenomics: Your genome for under £2000
http://core-genomics.blogspot.com/2015/07/your-genome-for-under-2000.html
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time. The CRUK-CI Genomics Core. Monday, 13 July 2015. Your genome for under £2000. Illumina have a new offer on their Understand Your Genome. UYG) program that means you can get your genome sequenced, analysed and clinically interpreted for under £2000. And hundreds of genes. With your labs X-...
CoreGenomics: What do you want to be when you grow up?
http://core-genomics.blogspot.com/2015/07/what-do-you-want-to-be-when-you-grow-up.html
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time. The CRUK-CI Genomics Core. Thursday, 23 July 2015. What do you want to be when you grow up? The MRC have a nice career mapping tool: Interactive career framework. Which allows biomedical researchers to navigate through different options to see how they might get where they want to. Divide...
CoreGenomics: June 2015
http://core-genomics.blogspot.com/2015_06_01_archive.html
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time. The CRUK-CI Genomics Core. Thursday, 25 June 2015. Back in 2010 a HiSeq 2000 cost $690,000 - you'll be lucky to get anything today. A V4 2500 might get you $100 k, but your V4 capable V3 just $20k. Depreciation sucks! Wednesday, 24 June 2015. King of the hill: which journal is best? Descr...
CoreGenomics: Exciting developments in Pancreatic Cancer
http://core-genomics.blogspot.com/2015/07/exciting-developments-in-pancreatic.html
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time. The CRUK-CI Genomics Core. Thursday, 9 July 2015. Exciting developments in Pancreatic Cancer. A paper just published in Nature Communications. The three most exciting bits for me were firstly that over a third of the patients had clinically actionable mutations associated with an approved...
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RNA-seq Analysis
http://nextgenseek.com/category/rna-seq-analysis
Making Sense of Next-Gen Sequencing Data. You are here: Home. Archives for RNA-seq Analysis. Kallisto paper summary: Near-optimal RNA-seq quantification. May 31, 2015. Middot; 1 Comment. Middot; Tagged With: kallisto. Bayesian Approach to Single-Cell RNA-Seq Differential Expression Analysis. June 12, 2014. Middot; 1 Comment. Middot; Tagged With: DE in Single-Cell RNA-seq. July 25, 2013. Middot; Leave a Comment. Recently just started playing with TopHat, after a while back, for doing gene expression quant...
How to run kallisto on NCBI SRA RNA-Seq data for differential expression using the mac terminal | genophoria
https://genophoria.wordpress.com/2015/05/13/how-to-run-kallisto-on-ncbi-sra-rna-seq-data-for-differential-expression-using-the-mac-terminal
Genomics euphoria: ramblings of a scientist on genetics, genomics and the meaning of life. How to run kallisto on NCBI SRA RNA-Seq data for differential expression using the mac terminal. On May 13, 2015. Very useful post on Kallisto. This post explains how to run the exceptionally fast RNA-seq k-mer aligner kallisto. From the Pachter lab on data you download from NCBI’s Short Read Archive. Kallisto is really fast and non-memory intensive, without sacrificing accuracy (at least, according to their paper.
Letters from the trenches of war on cancer (Part I) | genophoria
https://genophoria.wordpress.com/2014/07/15/letters-from-the-trenches-of-war-on-cancer-part-i
Genomics euphoria: ramblings of a scientist on genetics, genomics and the meaning of life. Letters from the trenches of war on cancer (Part I). On July 15, 2014. It is not news to anyone that I study the biology and regulation of RNA (see the two previous posts on this very blog: here. And Noam who published their work back in 2008. And with the help of my genius friend Hamed. We developed, benchmarked and validated a computational method named TEISER. Given the success of miRNA regulation and my previou...
RNA rises | genophoria
https://genophoria.wordpress.com/2014/03/23/the-rise-of-rna
Genomics euphoria: ramblings of a scientist on genetics, genomics and the meaning of life. On March 23, 2014. Roushkin et al. 2013, Nature. Last year the first ever large scale binding information for a compendium of RNA-binding proteins (RBPs) was published ( Ray et al, 2013, Nature. The computational methods are also gaining, from SeqFold ( Ouyang et al, 2013, Genome res. To our TEISER ( Goodarzi et al, 2012, Nature. Did I mention these are exciting times? Which I encourage you to read. Interesting...
Sailfish
http://nextgenseek.com/tag/sailfish
Making Sense of Next-Gen Sequencing Data. You are here: Home. Kallisto paper summary: Near-optimal RNA-seq quantification. May 31, 2015. Middot; 1 Comment. Middot; Tagged With: kallisto. Kallisto, a new ultra fast RNA-seq quantitation method. May 6, 2015. Middot; 2 Comments. Middot; Tagged With: kallisto. Transcript quantitation from RNA-seq. RNA-Skim: new RNA-seq quantitation method that is faster than Sailfish. June 19, 2014. Middot; 2 Comments. This is a quick post: summary/thoughts* on the new paper ...
Salmon
http://nextgenseek.com/category/rna-seq/salmon
Making Sense of Next-Gen Sequencing Data. You are here: Home. Paper Summary: Fast and accurate single-cell RNA-seq analysis using equivalence class counts. January 17, 2016. Middot; Leave a Comment. Filed Under: equivalent class counts. Middot; Tagged With: equivalent class counts for single-cell RNA-seq analysis. Kallisto paper summary: Near-optimal RNA-seq quantification. May 31, 2015. Middot; 1 Comment. Middot; Tagged With: kallisto. Follow me on Twitter. How Does NextSeq 500 Compare With MiSeq and Hi...
Seq Papers
http://nextgenseek.com/seq-papers
Making Sense of Next-Gen Sequencing Data. You are here: Home. One of the goals of this blog is to frequently write blog posts on interesting papers on sequencing, be it a new sequencing technology/assay or a new computational method to analyze sequencing data. Although have not really managed to do that to my satisfaction, here is an attempt to summarize what is done so far. Hope this will help increase more posts on interesting papers. Seq Papers in 2016. Seq Papers in 2015. Seq Papers in 2014. Sailfish...
Interesting papers from the GTEx (Genotype-Tissue Expression) Project
http://nextgenseek.com/2015/05/three-papers-from-the-gtex-genotype-tissue-expression-project
Making Sense of Next-Gen Sequencing Data. You are here: Home. Interesting papers from the GTEx (Genotype-Tissue Expression) Project. Interesting papers from the GTEx (Genotype-Tissue Expression) Project. May 8, 2015. Middot; Leave a Comment. It has been a good week for RNA-seq enthusiasts. First, Kallisto. A new way to quantify transcript expression, happened at BOG15. And this weeks’ Science magazine has three interesting papers on the GTEx (Genotype-Tissue Expression) Project. The human transcriptome a...
Functional impacts of RNA modifications | genophoria
https://genophoria.wordpress.com/2015/08/30/functional-impacts-of-rna-modifications
Genomics euphoria: ramblings of a scientist on genetics, genomics and the meaning of life. Functional impacts of RNA modifications. On August 30, 2015. My good friend and all-around awesome scientist Claudio has been working on this very cool idea the fruits of which is now available to all. I had the pleasure of being on his team and I’m personally fascinated by the problem. The broad question that Claudio is tackling is “what to RNA modifications do in the cell? And I invite everyone to read this paper.
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Créateurs de Réalité : un voyage au coeur de vous-même (Core Gem)
BIENVENUE SUR LE MINI-SITE OFFICIEL DU CORE GEM. Présentation du livre. Livre d'Or des lecteurs. Qu'y a-t-il au-delà de la Matrice? Le mot de l'Homme de la Toundra. Vos Signes du Monde. Articles à découvrir sur les livres. Votre navigateur n'est pas compatible Java! Créateurs de Réalité". Pose les bases de compréhension, théorique et pratique de cette nouvelle forme d'Hypnose. Hypnose et PNL sont ici largement dépassées pour ouvrir le lecteur à une autre dimension. Connaissances ...Le deuxième tome.
CoreGenomics
Some comments and analysis from the exciting and fast moving world of Genomics. This blog focuses on next-generation sequencing and microarray technologies, although it is likely to go off on tangents from time-to-time. The CRUK-CI Genomics Core. Monday, 23 January 2017. Follow this link to Enseqlopedia/coregenomics. CoreGenomics is dead.long live CoreGenomics. He CoreGenomics blog has moved to its new home: http:/ enseqlopedia.com/coregenomics. For updates on the NGS map. Other technologies that will ap...
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