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Home | Filion lab | genomearchitecture.com Reviews
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The Lab Notes | Genome Architecture blog.
genomearchitecture.com
Home | Filion lab
http://www.genomearchitecture.com/tag/lab-life
The main theme of our research is to understand how gene regulation and genome organization tie in with each other. The Lab Notes. Are the latest headlines from the lab, featuring a collection of random thoughts and useful code snippets. The culture of meetings varies a lot between research teams. Most labs have a team meeting and a journal club. Talk why work does not happen at work. Very instructive about this). Centre for Genomic Regulation (CRG). How to stop sucking. - The secret of success. If you w...
Home | Filion lab
http://www.genomearchitecture.com/tag/publications
The main theme of our research is to understand how gene regulation and genome organization tie in with each other. The Lab Notes. Are the latest headlines from the lab, featuring a collection of random thoughts and useful code snippets. On bad statistical pratice. I have just published in GigaScience. A short note entitled The signed Kolmogorov-Smirnov test: why it should not be used. I had discussed this issue previously on The Grand Locus. Why is it used at all then? Centre for Genomic Regulation (CRG).
Filion lab | A simple life
http://www.genomearchitecture.com/2014/10/a-simple-life
Since the summer, a strange creature is growing in our laboratory. Trichoplax adhaerens. Is the simplest known multi-cellular animal (metazoan) on the planet. At most 1-2 millimetres in size, it consists of two layers of cells and not much else. It leaves on rocks in coastal waters, and is quite abundant in the Mediterranean sea. In Hamburg. Since then, Trichoplax. Grows happily in our laboratory. Most relevant for us,. The purpose of maintaining a cell identity is quite the opposite. It is to. This is w...
Home | Filion lab
http://www.genomearchitecture.com/people
The greatest thing about being a biologist today is that we can finally address one of the most fundamental questions about life: what is biological meaning? If we understand how information is encoded in DNA, we are far from understanding the meaning of that information. Our team works on regulatory sequences, their evolution and their activity in different contexts. In other terms, we want to understand how non coding DNA is decoded. 看不見，可是你依舊存在 is a famous article written by Ching-Kuo Chiang. The twen...
Home | Filion lab
http://www.genomearchitecture.com/tag/sequence-clustering
The main theme of our research is to understand how gene regulation and genome organization tie in with each other. The Lab Notes. Are the latest headlines from the lab, featuring a collection of random thoughts and useful code snippets. Barcode clustering with Starcode. Filed under sequence clustering. Our team has recently published an article in Bioinformatics. Our software to cluster short sequences. On each inserted reporter. Centre for Genomic Regulation (CRG). The Lab Notes is a great way for the ...
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The Grand Locus
http://blog.thegrandlocus.com/tag/gumbel
Life for statistical sciences. June babies and bioinformatics. Filed under extreme value fallacy. 8226; 06 April 2014 •. In July 1982, paleontologist Steven Jay Gould. Was diagnosed with cancer. Facing a median prognosis of only 8 months survival, he used his knowledge of statistics to prepare for the future. As he explains in The Median Isn’t the Message. If half of the patients died of this rare case of mesothelioma. If not the median. Then what is the message? June babies and anorexia.
Once upon a BLAST | The Grand Locus
http://blog.thegrandlocus.com/2014/06/once-upon-a-blast
Life for statistical sciences. Once upon a BLAST. Filed under series: focus on. 8226; 30 June 2014 •. Point well taken. But this unspoken academic pact has sealed what I call the. In simple words, the curse is that by putting all the emphasis on the results, researchers become blind to the research. Because they never discuss it. How to carry out good research? How to discover things? These are the questions that nobody raises (well, almost. Where did I leave off? Is the director of the NCBI. Dynamic] al...
Longest runs and DNA alignments | The Grand Locus
http://blog.thegrandlocus.com/2014/12/longest-runs-and-dna-alignments
Life for statistical sciences. Longest runs and DNA alignments. Filed under sequence alignment. 8226; 31 December 2014 •. It also holds for PacBio and Oxford Nanopore by the way). The problem of sequence alignment. Gets a lot of attention from bioinformaticians (the list of alignment software. Counts more than 200 entries). Yet, the statistical aspect of the problem is often neglected. In the post Once upon a BLAST. David Lipman explained that the breakthrough of BLAST. Longest runs of 1s. P(X 0 leq x) a...
The Grand Locus
http://blog.thegrandlocus.com/tag/benchmark
Life for statistical sciences. Filed under software pollution. 8226; 20 May 2015 •. I never planned to do bioinformatics. It just happened because I liked the time in front of my computer. Still, as every sane individual, I sometimes think that I could do something else with my life, and I wonder whether I am doing the right thing. On this topic, I recently came across the famous farewell to bioinformatics. By Frederick J. Ross. There are indeed many issues in the bioinformatics community and I.
The Grand Locus
http://blog.thegrandlocus.com/tag/statistics
Life for statistical sciences. Did Mendel fake his results? 8226; 11 April 2016 •. You went to high school and you learned genetics. You heard about a certain Gregor Mendel. But then you came to the conclusion that he just got lucky and that he was right for the wrong reasons. After all, he was just a monk on gardening duties, why would you expect him to understand anything about real science? Read more ». Bayesian networks and causation. 8226; 20 June 2015 •. However, for Judea Pearl. The key idea is th...
NetSciReg'15 - Network Models in Cellular Regulation
http://regan.med.harvard.edu/NetSciReg2015/index.php
NetSciReg'15 - Network Models in Cellular Regulation. June 1, 2015 - Zaragoza, Spain. Call for Contributed Talks. The NetSciReg'15 symposium will explore recent advances in understanding the interplay between regulatory network structure, epigenetics and cellular function. It will approach the topic from four distinct angles, topics on which abstract submissions are welcome:. Regulatory dynamics and regulatory network evolution. Regulatory networks in health and disease. King's College, Cambridge, UK.
The Grand Locus
http://blog.thegrandlocus.com/tag/bayesian-networks
Life for statistical sciences. Bayesian networks and causation. 8226; 20 June 2015 •. However, for Judea Pearl. This is not a satisfactory answer. In his book Causality: Models, Reasoning, and Inference. He expresses his opinion vividly. I see no greater impediment to scientific progress than the prevailing practice of focusing all our mathematical resources on probabilistic and statistical inferences while leaving causal considerations to the mercy of intuition and good judgment. Read more ».
The Grand Locus
http://blog.thegrandlocus.com/tag/bioinformatics
Life for statistical sciences. A tutorial on Burrows-Wheeler indexing methods. Filed under Burrows-Wheeler transform. 8226; 04 July 2016 •. There are many resources explaining how the Burrows-Wheeler transform works and how it can be used to index a text, but so far I have not found anything explaining what makes it so awesome. I figured I would write a tutorial like this for those who are not afraid of the detail. The first idea would be to use. Read more ». Stick breaking and DNA alignment. Upon closer...
If cars were made by bioinformaticians... | The Grand Locus
http://blog.thegrandlocus.com/2015/01/if-cars-were-made-by-bioinformaticians
Life for statistical sciences. If cars were made by bioinformaticians. 8226; 31 January 2015 •. 1 Cars would have nice names. Here is what an abstract describing a car would look like. 2 Cars would be fast and accurate. Bioinformaticians develop fast and accurate software. Their cars would be just the same. Here is what a typical benchmark sections would look like. Overall, these results demonstrate that CaЯ outperforms available vehicles in both speed and accuracy. 3 Cars would have many options. Bioinf...
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Genome Appliances
The Future is Here: Providing the Infrastructure for Personalized Genomic Medicine. Genome Appliances, LLC. 333 Lancaster Ave #343. 69;mail Us. Design by OS Templates.
Apollo - Apollo
First instantaneous, collaborative genomic annotation editor available on the Web. Apollo is designed to support geographically dispersed researchers, and the work of a distributed community is coordinated through automatic synchronization: all edits in one client are instantly pushed to all other clients, allowing users to see annotation updates from collaborators in real-time during the editing process. There are no installation requirements for Annotators! Try Apollo on our Public Demo. Gene Ontology ...
Apollo - Apollo
First instantaneous, collaborative genomic annotation editor available on the Web. Apollo is designed to support geographically dispersed researchers, and the work of a distributed community is coordinated through automatic synchronization: all edits in one client are instantly pushed to all other clients, allowing users to see annotation updates from collaborators in real-time during the editing process. There are no installation requirements for Annotators! Try Apollo on our Public Demo. Gene Ontology ...
genomearchitect.readthedocs.io
Apollo — Apollo 2.0.4 documentation
Quick-start Developer’s guide. How to contribute code to Apollo. Example Build Script on Unix with MySQL. Apollo - An instantaneous, collaborative, genome annotation editor. The application’s technology stack includes a Grails-based Java web application with flexible database backends and a Javascript client that runs in a web browser as a JBrowse plugin. You can find the latest release here: https:/ github.com/GMOD/Apollo/releases/latest. Quick-start Developer’s guide. Nodejs / NPM / Bower. How to contr...
Home | Filion lab
The main theme of our research is to understand how gene regulation and genome organization tie in with each other. The Lab Notes. Are the latest headlines from the lab, featuring a collection of random thoughts and useful code snippets. What are lab retreats for? Guillaume tests the three egg-protecting devices that the brave scientists of our team made, using only A4 paper, tape, toilet paper, and a cloth. So you want to do ChIP-seq huh? Bioinformaticians think about algorithms, they discuss analyses a...
Under Construction: genomeark.com
Main Page - Genomeart.com
Retrieved from " http:/ Genomeart.com/index.php/Main Page. Related Links [ Edit. This page was last modified on 26 November 2009, at 02:31. This page has been accessed 19,237 times. Content is available under.
Main Page - Genomeart.org
Getting your own Genome. Possible genomic diseases of you. Storing your genome in you PC. Viewing your genetics family. A brief guide to genomics from NHGRI. Interesting things in your Genome. Compare your genome with other peoples. The principle of universal genome. Genomics Major Paper Publication. Your writing contribution to Genomics. Daphnia Genomics Consortium (DGC). Rice Genome at BGI China. TigerGenome Project by PGI Korea. Retrieved from " http:/ Genomeart.org/index.php/Main Page.
Genome ARTIST
Racker) is a new bioinformatics tool originally developed in order to allow a rapid detection of insertional mutations generated in the genome of Drosophila melanogaster. By means of artificial P element derivatives. Is designed to reveal and to interpret such events. To some extent, Genome ARTIST. By loading other genomes and/or specific transposons. The performances of Genome ARTIST. Were tested on the genomes of Saccharomyces cerevisiae. Allowing the identification of structural orthologous. Is the re...
Main Page - Genomeasia.com
GenomeAsia is a project to sequence all the Asian people to find geno- and phenotype associations. Retrieved from " http:/ Genomeasia.com/index.php/Main Page. Related Links [ Edit. This page was last modified on 17 February 2016, at 09:12. This page has been accessed 11,541 times. Content is available under BioLicense: the freest license.
