Rupert Overall @rupertoverall@qoto.org
- Website
- https://rupertoverall.net
I am a scientist researching the genetics behind brain ageing. My work includes phenomics (automated high-throughput behavioural phenotyping), systems genetics (multi-omics and quantitative trait locus mapping) as well as molecular pathway modelling (using disease maps, Boolean models and network analysis). All focussed on the question: how does neuron function change with age? #ageing #aging #genetics #genomics #systemsgenetics #qtl #lifespan #cognitive #healthspan #sbgn #openscience #behaviour #behavior #neuroscience
Joined Nov 2022
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The latest update from the COVID-19 Disease Map consortium is now available as a preprint.
In this work, we show how the map can be used for #modelling of #COVID disease mechanisms and #DrugDiscovery. With new winter waves beginning, there is still much to be done in this field.
https://www.biorxiv.org/content/10.1101/2022.12.17.520865v1?med=mas
Rupert Overall
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ME: is this a date? it feels like a date
MICROSOFT EXCEL: i have no idea
Rupert Overall
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Metabolic footprints are defined as sets of metabolites that can be directly or indirectly influenced by enzyme activity changes. This helps to identify metabolic enzyme deregulations that have systematic impact on metabolic abundances. Tutorial: https://github.com/saezlab/ocean/blob/master/tutorial_ocEAn.R
@nakdim Yes, I use #Zotero daily for collecting papers (one-click plugin in Firefox), for reading (sync to the excellent iPad app), citing (in Word and RStudio mostly) and working with shared libraries (project-specific literature collections together with my students and international collaborations).
Do you people use #zotero? If yes how often, how much and how easier has it made your life?
The latest update from the COVID-19 Disease Map consortium is now available as a preprint.
In this work, we show how the map can be used for #modelling of #COVID disease mechanisms and #DrugDiscovery. With new winter waves beginning, there is still much to be done in this field.
https://www.biorxiv.org/content/10.1101/2022.12.17.520865v1?med=mas
Rupert Overall
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A versatile and interoperable computational framework for the analysis and modeling of COVID-19 disease mechanisms https://www.biorxiv.org/content/10.1101/2022.12.17.520865v1?med=mas
Skis out in #Dresden today for a truly gorgeous wintry 4th Advent!
That's like the 'Turkey test' - to see if someone can spell it correctly without the 'r'...
“Bonferonni correction”, an invaluable method in #statistics, refers to the act of repeatedly correcting misspellings of the word Bonferroni at mul...
RT @hillermich@twitter.com
We have a postdoc opening to integrate TOGA (https://www.biorxiv.org/content/10.1101/2022.09.08.507143v1) with transcriptomics data to generate high-quality gene annotations for bats, cetaceans, snakes & fish genomes sequenced by us and others. Pls apply and RT. https://tbg.senckenberg.de/hillerlab/jobs/ @LOEWE_TBG@twitter.com @Senckenberg@twitter.com
Rupert Overall
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As we don’t have elegance or design principles to inform the models having a “throw all the data at it, give something like the right form / constraints and then fit a bonkers big model” is … well… honest to the biology
If we forget about politics for a minute and think about the _practical_ side of scientific publishing, we might find that the two are linked.
Imagine how much easier it would be to verify scientific claims if those claims were made in terms of structured statements (which could also be parsed by machine learning algorithms).
My weekend task: extracting sensible machine-readable text from a scientific journal article. Of course, articles are published using PDF - so any text flow has been completely garbled. Why do we do this in 2022?
Rupert Overall
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Want to help redesign one of the most popular and widely-used tools for researchers?
Zotero is hiring a designer: https://www.zotero.org/jobs/ui_designer
Would do it if I could. Ideal for someone else who has great UX / product design chops.
Rupert Overall
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Very interesting #science news - the first SI prefixes since 1991 were announced today at the General Conference on Weights and Measures.
➡️ quetta = \( 10^{30}\), Q
➡️ ronna = \( 10^{27}\), R
➡️ ronto = \( 10^{-27}\), r
➡️ quecto = \( 10^{-30}\), q
For example the mass of an electron is just under one quectogram (1qg).
🔗 The resolution (in French) is available here https://www.bipm.org/documents/20126/64811223/Resolutions-2022.pdf/281f3160-fc56-3e63-dbf7-77b76500990f
We have written a piece describing how our new home-cage tracking paradigm can be applied to questions of behavioural individuality.
The manuscript is now online (#openaccess): https://doi.org/10.1016/j.nbd.2022.105916
Rupert Overall
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RNAseq analysis of brain #aging in wild specimens of short-lived Turquoise #Killifish: commonalities and differences with aging under laboratory conditions
https://academic.oup.com/mbe/article/39/11/msac219/6759450?login=false
Rupert Overall
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Upgrade your #causalinference arsenal.
A revision of our book "Causal Inference: What If" is now available
👇
https://hsph.harvard.edu/miguel-hernan/causal-inference-book/
Thanks to everyone who suggested improvements, reported typos, and proposed new citations and material.
Enjoy the #WhatIfBook.
Also, it's free.
Rupert Overall
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Never thought Elon Musk would do so much for the adoption of a decentralised infrastructure…
Please Elon, can you buy Elsevier ?
Rupert Overall
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There is tremendous risk in repeatedly analyzing data as it comes in…
For example, in the absence of any effect, the p-values of repeated t-tests on a growing dataset will randomly walk between 1 and 0!
Thanks to @lakens for inspiring this simulation!
Rupert Overall
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As someone maintaining one of said affected CRAN packages - immensely grateful for everything Hadley & the tidyverse team do for the #rstats community
Making PRs to fix breaking changes in all of your reverse dependencies is a high, high bar to follow...
https://twitter.com/hadleywickham/status/1590455226569408512
Rupert Overall
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In case someone didn't know, two books I've co-authored are freely available online for non-commercial use:
#Bayesian Data Analysis, 3rd ed (aka BDA3) at https://stat.columbia.edu/~gelman/book/ and lectures plus #rstats, #Python and #Stan code at https://avehtari.github.io/BDA_course_Aalto/
#Regression and Other Stories at https://avehtari.github.io/ROS-Examples/ including #rstats and #Stan code
The web sites also have links to the publishers' web stores if you prefer hard copies of these
- Website
- https://rupertoverall.net
I am a scientist researching the genetics behind brain ageing. My work includes phenomics (automated high-throughput behavioural phenotyping), systems genetics (multi-omics and quantitative trait locus mapping) as well as molecular pathway modelling (using disease maps, Boolean models and network analysis). All focussed on the question: how does neuron function change with age? #ageing #aging #genetics #genomics #systemsgenetics #qtl #lifespan #cognitive #healthspan #sbgn #openscience #behaviour #behavior #neuroscience
Joined Nov 2022
