Discover and read the best of Twitter Threads about #openscience

Most recents (24)

last week we had the final @nanocommons meetings at #nanoweek2022

on Monday we had the final GA where everyone presented partner contributions. 1/
@nanocommons of course, the (application) ontology has been a big chuck of it: @nanocommons took over the maintainership from @eNanoMapper, and @NanoSolveIT is the next Dr. Who 2/
@nanocommons @eNanoMapper @NanoSolveIT the "application" part in that tweet refers that the common language of the nanosafety field is immense: it covers in a lot of detail biology, chemistry, regulatory sciences, and law. Because the community needs to start somewhere, we start with the use (=its application) 3/
Read 28 tweets
hot on the heels of of Prof. Willet's analysis of the @jcheminf content (jcheminf.biomedcentral.com/articles/10.11…), it's good to see that more and more people find the #openscience research and cite it. New JIF: 8.489 1/
@jcheminf I looked up the distribution, and it looks great. Unlike when the Avogadro and Open Babel papers were printed, there is not a single article boosting the JIF. It's all articles that are cited a lot :) 2/2
@jcheminf of course, if you want to know why they cite these articles, we need more adoption by the Citation Typing Ontology (CiTO) and not just by @jcheminf 3/3
Read 4 tweets
Max Weber setzte 1904 in »Die "Objektivität" sozialwissenschaftlicher und sozialpolitischer Erkenntnis« den zentralen Begriff unter Anführungszeichen. Darauf bezieht sich der Titel meines @APuZ_bpb-Beitrags über Wissenschaft & Aktivismus: bpb.de/shop/zeitschri…
Thread🧵 1/13
Aktivismusvorwürfe gegen Wissenschaftler:innen (“ein Greuel”) wie Journalist:innen (Abschied von “kritischem Journalismus”) boomen. Aber ist es ein Problem, wenn diese sich aktivistisch, also mit normativen Überzeugungen in öffentliche Debatten einmischen? 2/13
Die Frage nach der Rolle von Wert(haltung)en in der Wissenschaft ist so alt wie die moderne Sozialwissenschaft. Auch im Journalismus ist die Frage nach der Rolle und Offenlegung politischer Überzeugungen keineswegs neu. 3/13
Read 13 tweets
. 🧬Exciting stuff! 🧬
Hope of a genetic-"fix" for youngsters with a rare blood disorder
newscientist.com/article/232451… #bioinformatics #snrtg #scicomm #openscience #technology #biotech #genomics #raredisease
The clinical trial results which prompted extending CRISPR treatment to kids for
🧬 Sickle-cell and Beta-Thalassemia🩸
bit.ly/3n4MwUO #openscience #scicomm
🧵(thread 3/3)
...more 🧬✂️DNA-editing hope:
1⃣ Inborn Errors of Immunity : frontiersin.org/articles/10.33… #bioinformatics #biotech #WomenInSTEM #openscience #scicomm
2⃣ 'CF', ... 🫁 ➕: frontiersin.org/articles/10.33… #immunology #genomics #raredisease
Read 5 tweets
My country 🇮🇱:
in new full-blown #COVID19 🦠wave
⚠️New cases up 7⃣0⃣0⃣% in past 3 weeks
hospitalizations up 90%; positivity rate: 39%
datadashboard.health.gov.il/COVID-19/gener… #openscience #scicomm #snrtg
🇮🇱 COVID-19🦠:
Just In ⚠️
Our Health Ministry has instructed
Israeli hospitals to re-open shuttered COVID wards.
#CovidIsNotOver
🇮🇱🦠A vote to reinstate
indoor masking 😷mandate
could come as early as tomorrow (Tuesday) morning.
Read 4 tweets
. 🦠#COVID19 ⚠️F*CKing⚠️with the
brain🧠and body
of this 15 year-old boy. Real badly.
onlinelibrary.wiley.com/doi/10.1002/cc… #WomenInSTEM #openscience #scicomm #snrtg #immunology #neurology
COVID-19 is NOT "just like the flu."
COVID-19 is NOT "just like the flu."
COVID-19 is NOT "just like the flu."
"Cerebellar examination revealed impaired finger to nose, heel to shin, and rapid alternative movements. Gait was ataxic and he could not walk without help."
* in a previously healthy young man
Read 8 tweets
. 🦠COVID is not over ❗️
⬆️Big recent increases here in my country 🇮🇱 ; a fresh new wave.
1⃣new cases: gov.il/en/departments… 2⃣hospitalizations: timesofisrael.com/israel-sees-sh… #COVID19 #openscience #rstats #serverless #snrtg #Israel
I was not expecting a new COVID wave until at least Autumn. I was wrong.
🦠SarsCov2 is unpredictable. It does not abide by seasons.
The figure of new cases could be a vast underestimation:
"Israel's Covid czar: Likely up to 20,000 cases
every day in current outbreak"
i24news.tv/en/news/corona… #scicomm #COVID19 #Israel #openscience
Read 5 tweets
One of the most devastating and heart-wrenching of the
~7,000 known rare diseases
A novel mutation🧬identified in
*⃣ "Epidermolysis Bullosa"*⃣
bmcmedgenomics.biomedcentral.com/articles/10.11… #bioinformatics #openscience #100daysofcode #snrtg #genomics #raredisease
Young patients with Epidermolysis Bullosa are known as
"Butterfly Children"
A novel gene therapy has shown dramatic and promising results for some of them:
science.org/content/articl… #openscience #biotech #scicomm
Epidemolysis Bullosa: frequently referred to as
'The worst disease you've never heard of'
chron.com/life/health/ar… #openscience #raredisease #scicomm
Read 4 tweets
⚠️Potentially dangerous
new 🦠#COVID19 variants🧬
▪️The pandemic won't end until we prevent this phenomenon
❗️Get💉 vaxxed to shield & protect the immunocompromised
ijidonline.com/article/S1201-… #bioinformatics #WomenInSTEM #openscience #snrtg #immunology #genomics #raredisease
. "NOBODY is safe from the virus until
we are ALL safe from the virus"
~Dr. Tedros Ghebreyesus (WHO Director General)
Viruses🦠do strange things when unchallenged for long periods of times in hosts.
Unfortunately mutating🧬is one of those things.
Read 8 tweets
New 🧬genetic loci linked to #COVID19 🦠susceptibility
♂️ ♀️ with gender specificity
- Results from a huge 🇪🇸 Spanish GWAS study
academic.oup.com/hmg/advance-ar… #bioinformatics #openscience #scicomm #immunology #virology #snrtg #genomics Image
🦠🧬'...variants in 3p21.31 and 21q22.11 loci only among males ♂️; and variants in 9q21.32 near TLE1 only among females ♀️'
Evidence continues to accumulate that:
at least *⃣ for some *⃣ , susceptibility to severe and fatal 🦠COVID may lie in the genes🧬.
Read 4 tweets
🧬"Recessive complete deficiencies of typeI IFN immunity may underlie ∼10% of hospitalizations for COVID-19 🦠pneumonia 🫁 in children"
👥It DID in these 12 youngsters
#bioinformatics #openscience #scicomm #WomenInSTEM #immunology #genomics #raredisease Image
Great work as always by Prof Jean-Laurent @casanova_lab & Co in elucidating genetic susceptibility to SarsCov2. Direct link to the paper: rupress.org/jem/article/21…
The current paper continues this line of research:
"Inborn errors of type I IFN immunity in patients
with life-threatening COVID-19"
science.org/doi/10.1126/sc… #openscience #scicomm
Read 4 tweets
Signs of a new
COVID-19 wave🦠
Here in 🇮🇱 Israel
⬆️Quadrupling ➕of new cases in past week
😷Indoor masking mandate could return (source: Haaretz)
gov.il/en/departments… #CovidIsntOver #snrtg #serverless #openscience #COVID19 #rstats #Israel Image
🦠COVID-19 🇮🇱:
⬆️New daily cases had been in the 1,100 to 1,600
range for the past 3 months. Now a very dramatic,
very sudden upturn.
⬆️29.77% positive test rate today.
⬆️ROI at 1.44
Not particularly good signs.
Our 🇮🇱 Health Ministry is already recommending that people begin to mask again indoors.
😷A debate to require indoor masking again will commence in the coming days against the dramatic rise in new cases.
Read 3 tweets
🦠Sars-Cov-2 severity and mortality has - sadly - been particularly high ⬆️among individuals with Down Syndrome.
Insightful commentary on how and why:
nature.com/articles/s4157… #WomenInSTEM #openscience #itrtg #iot #immunology #scicomm
Some earlier background on vulnerability of individuals with Down Syndrome to life-threatening COVID-19 science.org/content/articl… #openscience #scicomm
Infections and immunodeficiency in Down syndrome
ncbi.nlm.nih.gov/pmc/articles/P…
Read 5 tweets
New clues as to why
Common Variable Immunodeficiency patients
(like me 👤) may have non-protective #COVID19
immunity, despite being 💉fully-vaxxed
mdpi.com/2073-4409/11/1… #womeninSTEM single cell #openscience #bigdata #immunology #snrtg
"36% of CVID patients did not produce anti-SARS-CoV-2 IgG or IgA antibodies.
Non responders had lower peripheral blood lymphocyte counts, circulating naïve and central memory T-cells, low CD40L expression on the CD4+CD45+RO+ and CD8+CD45+RO+ T-cells, high frequencies of TNFα..."
Fellow Common Variable Immunodeficiency patients:
Vaxxed💉and boosted💉does not necessarily mean
protected from 🦠Sars-Cov2. Wear😷mask.
Read 4 tweets
“It was quite a surprise for us to find that this gene is a
critical part of our immune system"
_News: utsouthwestern.edu/newsroom/artic… #bioinformatics single cell #openscience #scicomm #snrtg
_Journal: science.org/doi/10.1126/sc… #immunology #genomics #raredisease Image
"RNA 🧬exosome is crucial for B cell development,
➡️and defects can lead to severe human disease."
Mutations in the SKIV2L gene are associated with a severe inherited disorder, trichohepatoenteric syndrome (THES), with multisystem involvement but unknown disease mechanism."
Genotypes, phenotypes,
and faces of "Trichohepatoenteric Syndrome"
- some of the earliest known cases
cell.com/action/showPdf… #openscience #bioinformatics #scicomm Image
Read 5 tweets
Fatal ⚠️Inborn Error of Immunity🧬
"We present the first reported case of progressive multifocal leukoencephalopathy due to a mutation in the RAC2 gene"
jmedicalcasereports.biomedcentral.com/articles/10.11… #bioinformatics #openscience #snrtg #genomics #raredisease #immunology Image
"PML has been reported as a fatal complication in 26 patients with Primary Immunodefiiency due to various gene mutations. Our patient is the first case reported with PML due to mutations in the RAC2 gene."
Progressive Multifocal Leukoencephalopathy (PML):
▪️ rare, oft-times fatal disease resulting in destruction of the brain's white matter
🦠strongly associated with exposure to 'John Cunningham Polyomavirus'"
sciencedirect.com/topics/medicin… #openscience #scicomm Image
Read 4 tweets
Have you ever wished to have access to 51,404 observations from 69 countries (28 nationally representative samples) from Global North/South to analyze & study the social & moral psychology of #COVID19?

#OpenScience for the win!

Preprint & Materials: doi.org/10.31234/osf.i…

🧵 World map showing the sampl...All moral and social psycho...Abstract of our paper on th...Correlation matrices for su...
As part of the ICSMP (icsmp-covid19.netlify.app), we wrote a paper describing our survey methodology, sharing survey materials, raw/cleaned data, code & translations (osf.io/tfsza/) & data visualization interface/Shiny app: icsmp.shinyapps.io/icsmp_covid19/

doi.org/10.31234/osf.i… Authors list of ICSMP data ...Authors list of ICSMP data ...A screenshot of the ICSMP d...A screenshot of the ICSMP d...
In our reproducible report, we share code for all our plots & tables hoping it can serve as an open resource for research and education #OpenData #OER

flavioazevedo.com/stats-and-r-bl…

doi.org/10.31234/osf.i… Graph depicting cross-cultu...Graph depicting cross-cultu...Graph depicting cross-cultu...A table showing sample size...
Read 12 tweets
1/ 🧵 Dental research generates data, but is data available and is machine-actionable?
That's the question we asked w/ @ASofiMahmudi @raittioe @IlzeMal & @baiba_vilne in #openaccess @JDentRes journals.sagepub.com/doi/full/10.11… thanks to @mikrotik_com & @bbcentre_eu #FAIR #openscience
2/ Raw data allows replication and validation of results. Additionally, if it is in a machine-accessible format, this would allow new hypotheses to be explored using the available data

#reproducibility #researchtransparency #opendata #FAIRdata Image
3/ in order for machines to access data, it must be Findable, Accessible, Interoperable and Reusable. This is known as #FAIRdata Image
Read 29 tweets
Sars-Cov-2 and the brain:
🧠Encephalopathy and
sudden-onset ⚠️Parkinson's* ⚠️symptoms
...in a 31 year-old man
e-jmd.org/upload/jmd-210… #WomenInSTEM #iot #snrtg #openscience #scicomm
Not "just like the flu"
Please💉get vaccinated💉
"He was disorientated but able to follow simple
commands. He had involuntary jaw opening with slow rhythmic movements of his lower facial muscles at rest, which also interfered with his speech. He had reduced eye blinking, hypometric horizontal saccade and jerky pursuit."
Read 8 tweets
1/ Taking a break from #COVID, I am going to dig into our new preprint by @StrauszSatu et al! We found some key genes that could protect people from #Lyme disease. Then, we wanted to see if these genetic findings held up in the lab (SPOILER THEY DID!!!) 🧵
biorxiv.org/content/10.110… Screenshot of biorxiv webpage showing preprint and abstract
2/ #Lyme disease is caused by the bacteria Borrelia burgdorferi. Humans get infected through a bite from an infected tick. When @HannaMOllila & @StrauszSatu originally searched @finngen_fi, they found that a variant in SCGB1D2 gene significantly increases susceptibility to Lyme. Supplementary Table 2. Genome-wide lead variants for Lyme di
3/ Secretoglobin family 1D member 2 protein or SCGB1D2 missense variant causes an amino acid substitution from proline to leucine.

This family of proteins was originally identified in the uterus of 🐇 in the 1970s! Also implicated as a main 🐱 allergen.
academic.oup.com/edrv/article/2…
Read 18 tweets
🗓️ Published 7⃣0⃣ years ago today
The Primary Immunodeficiency world's seminal paper
"A hitherto unrecocognized entity with complete absence of gamma globulin"
publications.aap.org/pediatrics/art… #bioinformatics #openscience #scicomm #itrtg #imunology #raredisease @JPediatr @AmerAcadPeds Image
Not the first Primary Immunodeficiency described as many think - the 3rd in fact - but the most impactful. It launched major interest in the study of these rare immune disorders.
Authored by the late Dr / Col Ogden Bruton, a legend in the Primary Immunodeficiency world. Image
One of my personal heroes: The late Dr / Col Ogden Bruton (right).
The immune disorder he IDd bears his name: "Bruton's Agammaglobulinemia."
(photo: circa 1954 at Walter Reed Army Hospital where he practiced as a pediatric immunologist) Image
Read 4 tweets
Machine Learning Tools for Image-Based Glioma Grading and the Quality of Their Reporting: Challenges and Opportunities mdpi.com/1648502 #mdpicancers via @Cancers_MDPI @YaleRadiology
@MerkajSara @Ryan_Bahar are an outstanding team that wrote this exciting review on application of #ML to the study of #glioma imaging. After reviewing over 12,000 articles and extracting information from over 80 articles they published their systematic review in @FrontOncology.
But, there was so much more that needed to be discussed, so @MerkajSara & @Ryan_Bahar wrote an expert review of literature with focus on future directions. @YaleMed #Neurosurgery This review is a must read when starting out in #ML & #glioma imaging #Radiomics overview
Read 8 tweets
Feels very timely today to be on the way to the #Nobel Symposium in Stockholm: The First Great Pandemic of the 21st Century.
Though I do not believe the #monkeypox outbreak will be a pandemic, it's a reminder there are many pathogens that can rear their heads in different ways.
Tomorrow, I'll talk about how phylogenetics played a critical role in #COVID19 #SARSCoV2 - but also outline what challenges we face when we look to tomorrow's pandemics. In particular we have to ensure: sequencing, sharing, software & sufficient background.
A lot of pandemic preparedness focuses on detecting a new pathogen, or what to do once we know it's bad news. But a lot of the critical work is a little more boring: encouraging #openscience, ensuring credit, maintaining & advancing software & building up our virus knowledge.
Read 8 tweets
A little thread on biodiversity #datasharing #openaccess #openscience. On sharing data on #rainforest birds and habitat that @gundupoo and I collected during 1997-99 in the Kalakad-Mundathurai Tiger Reserve #WesternGhats... a retrospective from a quarter century later 1/n In KMTR, March 1999; Photo by P JeganathanIn KMTR, Dec 2018; Photo by Kalyan Varma
Field biologists need not just collect or hoard biodiversity data for their own use. Sharing under a CC-BY or public domain (CC0) license enables better and wider use and adds value to science and scholarship, students and citizens. 2/n Illustration @dasaptaerwin @WikiCommons
For a start, our doctoral research data from KMTR, used in a couple of papers, is now @datadryad (CC0/Public Domain license). Bird and vegetation/habitat data from 21 transects in rainforests along an elevation gradient and from abandoned plantations. 3/n
datadryad.org/stash/dataset/…
Read 14 tweets

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