Stephen Matheson🌵🌲 · @sfmatheson
710 followers · 679 posts · Server fediscience.orgJulia Salzman from Stanford
http://salzmanlab.stanford.edu/
now explaining
SPLASH: Statistically Primary aLignment Agnostic Sequence Homing
We want to rapidly survey large #genomic areas, for regulatory sites, #splicing, etc. How do we look at sequencing data today? Through a lens of alignment with reference genomes. This can fail (e.g. cancer cells with shattered genomes, #V(D)J #recombination in immune cells)
Her metaphor: we need ground penetrating radar for #genomics
1/2
#cssinglecells23 #genomics #Recombination #v #splicing #genomic
Hambone Fakenamington · @CenturyAvocado
85 followers · 836 posts · Server fosstodon.org
My office for the day! #splicing #ruralbroadband #rural #fibre #fibrebroadband #sumitomo
#splicing #ruralbroadband #rural #fibre #fibrebroadband #Sumitomo
Gal Haimovich 😷🔬☣🏳️🌈🏳️⚧ · @grnfluoresceblg
427 followers · 909 posts · Server fediscience.org
We are pleased to announce that registration to this year's annual meeting in memory of Prof. Yossi Sperling is now open, at the link below. The meeting will take place in the Lopatie Hall at the Weizmann Institute on 16 Oct, 2023. We will be celebrating local RNA science, and enjoy contributions from our two wonderful keynote speakers for this year - Marvin Tannenabum and Christin Mayr (see attached poster)
#RNA #mRNA #lncRNA #translation #splicing #transcription
https://erez.weizmann.ac.il/apx/r/ws1/101/101/?P101_PKNS_CODE=2604
#transcription #splicing #translation #lncRNA #mRNA #rna
The EMBO Journal · @embojournal
453 followers · 212 posts · Server sciencemastodon.com
A #transcription-independent mechanism -#RBM10-mediated RNA alternative #splicing coupled to nonsense-mediated #mRNA decay- determines rapid periodic fluctuations of #BRCA1 expression throughout the #cellcycle
#transcription #rbm10 #splicing #mrna #brca1 #cellcycle
Gal Haimovich 😷🔬☣🏳️🌈🏳️⚧ · @grnfluoresceblg
425 followers · 908 posts · Server fediscience.orgA very nice review on RNA granules from Geraldine Seydoux's lab at Genes & Development.
"RNA granules: functional compartments or incidental condensates?"
#RNA #granules #mRNA #phaseseparation #translation #splicing #Pbodies #StressGranules
#GermGranules
#germgranules #StressGranules #pbodies #splicing #translation #phaseseparation #mRNA #granules #rna
The EMBO Journal · @embojournal
439 followers · 158 posts · Server sciencemastodon.com
LncRNA FLAIL affects alternative #splicing and represses flowering in #Arabidopsis
Sebastian Marquardt and coworkers identify #FLAIL as a trans-acting #lncRNA that targets the #spliceosome and regulates plant #flowering by promoting expression of the #laccase LAC8
#splicing #arabidopsis #flail #lncrna #spliceosome #flowering #laccase
Robert Castelo · @robertclab
98 followers · 371 posts · Server genomic.socialRT @hagentilgner
Andrey & Alla put out the newest version of Isoquant
(https://www.nature.com/articles/s41587-022-01565-y); Results unchanged but memory usage down ~10-15 fold and disk usage down ~5-fold;
https://github.com/ablab/IsoQuant/releases/tag/v3.2.0
#LongRead #RNA @iRnaCosi
#nanopore #pacbio #genomics
#Transcripomics #RNAseq #Splicing
#longread #RNA #nanopore #PacBio #genomics #transcripomics #rnaseq #splicing
CellBioNews · @cellbionews
45 followers · 991 posts · Server scientificnetwork.deResearchers reveal structural mechanism of #Tetrahymena #ribozyme self-#splicing reaction.
https://phys.org/news/2023-04-reveal-mechanism-tetrahymena-ribozyme-self-splicing.html
#tetrahymena #ribozyme #splicing #introns
CellBioNews · @cellbionews
0 followers · 7 posts · Server mstdn.scienceResearchers reveal structural mechanism of #Tetrahymena #ribozyme self-#splicing reaction.
https://phys.org/news/2023-04-reveal-mechanism-tetrahymena-ribozyme-self-splicing.html
#tetrahymena #ribozyme #splicing #introns
꧁Alcea ~ver.1.22474487139~꧂ · @alcea
28 followers · 1723 posts · Server pb.todon.deNoisyness is to be expected.
#VocalIsolation has its downsides.
(I can tweak a bit. but there are real hard limits. - Physics - #frequency related ...)
But it is the only #aid alongside #splicing and the like that I have.
And:
Yes.
It *is* blaaaazingly fast :)
<3 Audio processing.
I've waited over 15 #years for this technology.
*happpyy*
#vocalisolation #splicing #years #frequency #aid
CellBioNews · @cellbionews
38 followers · 864 posts · Server scientificnetwork.de
Nicola Romanò · @nicolaromano
82 followers · 241 posts · Server qoto.orgCan someone suggest software/pipelines for analysis of alternative #splicing from long-read #RNAseq (from #Nanopore #MinION)? Basically, I'd like to quantify abundance of different splicing variants in different samples. #bioinformatics
#splicing #rnaseq #nanopore #minion #bioinformatics
The EMBO Journal · @embojournal
424 followers · 137 posts · Server sciencemastodon.com
#Splicing factor YBX1 regulates bone marrow stromal cell fate during aging
Reduced expression of #YBX1 in #aging #bonemarrow stromal cells induces their #senescence and bone loss due to mRNA mis-splicing
#splicing #ybx1 #aging #bonemarrow #senescence
Jill Townley · @citsci
29 followers · 10 posts · Server genomic.socialEterna soon will be launching a new antisense oligonucleotide project in collaboration with the University of California, Santa Cruz exploring how short pieces of #RNA can remediate aberrant #splicing caused by genetic mutations.
New #citsci players can try our Oligo Training puzzles to get familiar with the game interface: https://eternagame.org/collections/11431896.
#RNA #splicing #citsci #raredisease
Journal of Cell Science · @J_Cell_Sci
598 followers · 91 posts · Server mstdn.science
Staněk &co from the Institute of Molecular Genetics, Czech Academy of Sciences, Prague, provide new insights into SART3-mediated spliceosome recycling; read more in our Research highlight:
https://journals.biologists.com/jcs/article/136/2/e136_e0202/286812/Having-a-splice-time-interactions-of-SART3-with-a
#cellbiology #research #Science #RNA #splicing
#cellbiology #research #Science #RNA #splicing
Hambone Fakenamington · @CenturyAvocado
51 followers · 522 posts · Server fosstodon.org
Exhausted after spending the day splicing and testing 144 #fibre tray for #RuralBroadband #altnet . More chambers and customer connections to do tomorrow! #FasterThanBT #splicing
#fibre #ruralbroadband #altnet #fasterthanbt #splicing
Nicole Roed · @NicoleRoed
187 followers · 1922 posts · Server toot.community@albertcardona there’s so much research going on right now on #aging. The things that Crisper gene-splicing is going to be able to do. I hope I live long enough for it to help me 🤣🤣 #Gene #splicing
Anupama Jha, PhD · @AnupamaJha48
67 followers · 26 posts · Server genomic.socialRT @hagentilgner
Out in @NatureBiotech: What isoforms are really in your @PacBio or @nanopore run? Andrey&Alla (with help by @noush_joglekar, AS, @jjarroux &AL) have precise answers:
https://www.nature.com/articles/s41587-022-01565-y
#LongRead #RNA @iRnaCosi #nanopore #pacbio #genomics
#Transcripomics #RNAseq #Splicing
#longread #RNA #nanopore #PacBio #genomics #transcripomics #rnaseq #splicing
Martin Smith · @Martinalexsmith
387 followers · 271 posts · Server genomic.social
RT @hagentilgner@twitter.com
Out in @NatureBiotech@twitter.com: What isoforms are really in your @PacBio@twitter.com or @nanopore@twitter.com run? Andrey&Alla (with help by @noush_joglekar@twitter.com, AS, @jjarroux@twitter.com &AL) have precise answers:
https://www.nature.com/articles/s41587-022-01565-y
#LongRead #RNA @iRnaCosi@twitter.com #nanopore #pacbio #genomics
#Transcripomics #RNAseq #Splicing
🐦🔗: https://twitter.com/hagentilgner/status/1610275737562673153
#longread #RNA #nanopore #PacBio #genomics #transcripomics #rnaseq #splicing
Robert Castelo · @robertclab
75 followers · 111 posts · Server genomic.socialRT @hagentilgner
Out in @NatureBiotech: What isoforms are really in your @PacBio or @nanopore run? Andrey&Alla (with help by @noush_joglekar, AS, @jjarroux &AL) have precise answers:
https://www.nature.com/articles/s41587-022-01565-y
#LongRead #RNA @iRnaCosi #nanopore #pacbio #genomics
#Transcripomics #RNAseq #Splicing
#longread #RNA #nanopore #PacBio #genomics #transcripomics #rnaseq #splicing