Charles Plessy is a user on You can follow them or interact with them if you have an account anywhere in the fediverse. If you don't, you can sign up here.

Charles Plessy

usage for supply chain suggested by researchers from Montana State University in a correspondence to .

Just a as part of 's project, about the exploration of the transcriptional output of gene promoters, that is, answering the question on “what kind of mRNA molecules are produced from this and that location on the chromosomes”.

Today's editorial in reminds that researchers not respecting a embargo during review may lose of their work (from the journal editor's point of view).

However, and more importantly, it states that submission to a repository does not reduce novelty.

Quote from the editorial: “Interactions with the press related to preprints has become one challenging area”.

Do patents read like this in fields other than biology ?

“In special embodiments, the first RNA or the second RNA may be more than 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 40, 45, 50, 60, 70, 80, 90 or more than 100 nucleotides or base pairs in length. Alternatively or in addition thereto, the RNA, either the first RNA or second RNA or both, may be up to 3000, 2000, 1500, 1200, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 80, 70, 60 or up to 50 nucleotides or base pairs in length.”

It is said that 98.7345284 % of the biologists use too many significant numbers in their reports.

Following the excellent book “Cell biology by the numbers”, I will more often round my numbers. Here is the book's standpoint on the matter:

“we try to follow the correct notation where “approximately” is indicated by the symbol ≈, and loosely means accurate to within a factor of 2 or so. The symbol ~ means “order of magnitude” so only to within a factor of 10”

Super clean air in a parallelepipedic volume made easy. I was pretty amazed by the company's video where smoke would refuse to enter the clean zone as if there were an invisible wall.

The system is called KOACH, and the company Koken.

Lots of excitement is palpable at the campus as we are preparing our open day, taking place tomorrow Saturday 23rd!

Spam of the day:

« Dear Charles Plessy, I am writing this in reference to your article "Erratum to [...]";. I am impressed by your quality work [blah blah blah...] » (and then asking me to pay to submit a manuscript to their ghost journal).

I am not sure if I am looking forward the day where AI will help spammers to avoid congratulating me on the imperfections of my work...

By the way, avoid to click on the "R" link if you are at work: it leads to unexpected contents; sorry for this.

looks like being the appropriate hashtag for the R programming language.

Memo on how to use the `paste` function in .

> paste("apple", "pen", sep="-")

[1] "apple-pen"

> paste(c("apple", "pineapple"), "pen", sep="-")

[1] "apple-pen" "pineapple-pen"

> paste(c("pen", "apple"), c("pineapple", "pen"), sep="-", collapse = "-")

[1] "pen-pineapple-apple-pen"

Take home message: `paste()` is vectorized, recycles its arguments if too short, and accepts a `collapse` argument which is not the same as the `sep` argument.

I did not get a talk but a poster.

- The negative viewpoint -> my abstract was not so good in the end.

- The positive viewpoint -> If all the talks are better than my research (which I of course do really like), the conference will be very exciting.

It was long overdue but I created a page on the website of my laboratory at to announce the publication the latest update of our method "nanoCAGE" for and analysis (gene activity, so to speak).

Next: analyse the data that we produced with this method, at single-molecule resolution.

Mind-blowing article showing a pipeline cracked by a specially designed, synthesised and sequenced molecule. To make their proof or principle, the authors actually had to insert a specific weakness in one of the programs, but their manuscript concludes by an overview on how the of bioinformatics software is often very low. Thanks for the link.

Ney, Koscher, Organick, Ceze & Kohno, University of Washington:, <>


The open-source software collection for using is migrating to Git this August 16th!

La collection « Bioconductor » d'outils libres pour la avec R migre à Git le 16 août prochain !

Intel a lancé très récemment le Movidius Neural Compute Stick petite machine d'apprentissage qui fut réalisée grâce à l'entreprise Movidius qui a mis au point le VPU, pour Visual Processing Unit. Cette puce, appelée Myriad 2, est capable de balancer 100 GFLOPS de puissante brute dans un TDP de seulement 1 W ! Une petite vidéo expliquant comment démarrer avec une carte Raspberry Pi 3 =>

Just read an article with 14 authors and more than 25 acknowlegements. is more and more fragmented...

A movie recorded in the genome of bacteria! In last week's Nature, Shipman and coll. (Church lab) encoded a 5-frame animated picture in collections of short molecules, used to sequentially populate arrays (a system use by bacteria to record signatures of viruses they encountered). Thus, frame order was solely recorded by the order in which the CRISPRs were introduced in the bacteria. This opens mind-blowing ways to log temporal information in DNA.