Plug and Play gene expression in mosquitoes!
We characterize modifications 5' & 3' UTR of transgenes to create a toolbox for gene expression modulation in #mosquito cell lines.
https://www.biorxiv.org/content/10.1101/2023.08.31.555539v1
#transgenic #syntheticbiology #geneexpression

Now Katie Pollard from UCSF
https://docpollard.org/

Resolving single-cell regulatory elements across species and contexts with CellWalker2

lab builds #statistical models and #ComputationalBiology tools
#neuroscience

did microdissection then single-cell ATAC-seq
developed CellWalker to solve challenges in resolving regulatory elements
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-021-02279-1

#GeneExpression
#genomics
#SingleCell
#CSSingleCells23

1/2

Aviv Regev (Genentech)
https://www.gene.com/scientists/our-scientists/aviv-regev

From cell to perturbation atlases

Deciphering causal intra- and intercellular circuits

Using Perturb-seq
https://www.biorxiv.org/content/10.1101/2023.01.23.525198v1

#SystemsBiology
#CSSingleCells23
#GeneExpression

Now want to do multiple perturbations in one cell... do effects combine? Can do this with orig Perturb-seq, then categorize interactions

But the space of interactions is far bigger than the number of cells (in universe)

1/2

Hallo all - I guess an introduction might be a good idea!

I'm a mid-career (already!?) group leader, trying to unpick how different aspects of the local environment at #enhancers work together to regulate #transcription and #geneexpression.

We especially like non-coding enhancer #RNA, how their structures and dynamic movements make them functional; how disease mutations affect #eRNA activity and how the enhancer environment affects the #chromatin regulator CBP.

Super-excited to land here!

Do you know that there are non-venomous spiders? This project started from a 1931 hand-drawn observation that Uloboridae spiders do not carry a functional venom system.
With histological, RNAseq and bioinformatics work led by the great Giulia Zancolli and master student Xiaojing Peng, we confirm that Uloboridae 🕷️ have lost venom glands , but find that they produce putative neurotoxins in the digestive gland. #EvoDevo #spider #Uloboridae #GeneExpression #venom #toxin
https://www.biorxiv.org/content/10.1101/2023.06.26.546488v1

Videos of the #SIB course “Gene expression made useful easily: tools and database of Bgee” (Frederic Bastian & @marcrr):
Introduction of trainers https://www.youtube.com/watch?v=vjrTq0fGCTk
Overview of Bgee https://www.youtube.com/watch?v=x8Fypkwlmuw
Data integration in Bgee https://www.youtube.com/watch?v=hTx4fk77DZ4
Bgee data access https://www.youtube.com/watch?v=5cbXWL9quCA
Bgee tools https://www.youtube.com/watch?v=iUSjT9wDbmU
#biocuration #bioinformatics #RNAseq #SingleCell #GeneExpression #training

Referenced link: https://medicalxpress.com/news/2023-06-space-gene-white-blood-cells.html
Discuss on https://discu.eu/q/https://medicalxpress.com/news/2023-06-space-gene-white-blood-cells.html

Originally posted by Phys.org / @physorg_com: http://nitter.platypush.tech/medical_xpress/status/1671732260129722373#m

RT by @physorg_com: Space travel can alter #geneexpression in white blood cells, weakening our #immunesystem @frontiersin @frontiersin https://medicalxpress.com/news/2023-06-space-gene-white-blood-cells.html

@biorxiv_genetics "Somatic cells of human males and females have 45 chromosomes in common, including the "active" X chromosome. In males the 46th chromosome is a Y; in females it is an "inactive" X (Xi). Through linear modeling of autosomal gene expression in cells from individuals with zero to three Xi and zero to four Y chromosomes, we found that Xi and Y impact autosomal expression broadly and with remarkably similar effects." #genetics #GeneExpression #XLinked #Xchromosome

Bgee inside: Hara & Kuraku "The impact of local genomic properties on the evolutionary fate of genes"
https://elifesciences.org/articles/82290 #bioinformatics #evodevo #GeneExpression #MolecularEvolution

RT @virtigation: #GeneExpression in🌱is a complex research field, but offers various pathways into using the potential of #PlantGenes to trigger natural resistance against emerging #PlantViruses. The last edition of the #VIRTIGATION #PlantScience101 series shines a light on Plant Gene Expression https://t.co/kVrJES8aEz

🐦🔗: https://n.respublicae.eu/Plants_EFSA/status/1661231630927708163

#Zoonomia paper Christmas et al 2023 reports genes TLK1 and HAT1 interact in cerebral cortex with a conserved non coding region, and "both are expressed in the cerebral cortex of 19 (TLK1) or 21 (HAT1) out of 19 or 21 mammals analyzed in a previous study, respectively (87)." How do they know? They used precomputed expression calls with comparison of homolog organs and ortholog genes in @bgeedb's Expression Comparison tool 🤓. https://www.science.org/doi/10.1126/science.abn3943#body-ref-R87 #GeneExpression #evodevo

Postdoctoral position in bioinformatics of new types of transcriptomic data @Bgeedb

#Postdoc on the #bioinformatics / #biostatistics of new types of #GeneExpression data in Bgee database: #SingleCell, isoforms, etc

https://jobrxiv.org/job/universite-de-lausanne-27778-postdoctoral-position-in-bioinformatics-of-new-types-of-transcriptomic-data/?feed_id=44124

#Scienc...
https://jobrxiv.org/job/universite-de-lausanne-27778-postdoctoral-position-in-bioinformatics-of-new-types-of-transcriptomic-data/?feed_id=44124

We still have some seats available for the #SIB course on:
Gene expression made useful easily: tools and database of Bgee
live-streamed on 26 May 2023
https://www.sib.swiss/training/course/20230526_BGEEL
#biocuration #bioinformatics #RNAseq #SingleCell #GeneExpression #training

All of the Bgee team will be at #biocuration2023 @biocuration2023 this Monday-Wednesday, meet us to discuss #RNAseq bulk & #singlecell, anatomical and developmental #ontologies, and how to make #GeneExpression data useful. #SIB #bioinformatics #biocuration

Postdoctoral position in bioinformatics of new types of transcriptomic data @Bgeedb

#Postdoc on the #bioinformatics / #biostatistics of new types of #GeneExpression data in Bgee database: #SingleCell, isoforms, etc

https://jobrxiv.org/job/universite-de-lausanne-27778-postdoctoral-position-in-bioinformatics-of-new-types-of-transcriptomic-data/?feed_id=42564

#Scienc...
https://jobrxiv.org/job/universite-de-lausanne-27778-postdoctoral-position-in-bioinformatics-of-new-types-of-transcriptomic-data/?feed_id=42564

Referenced link: https://phys.org/news/2023-04-method-tracks-gene-cells-space.html
Discuss on https://discu.eu/q/https://phys.org/news/2023-04-method-tracks-gene-cells-space.html

Originally posted by Phys.org / @physorg_com: http://nitter.platypush.tech/physorg_com/status/1645783022443143168#m

New method tracks #geneexpression in single cells over space and time @broadinstitute @naturemethods https://www.nature.com/articles/s41592-023-01829-8 https://phys.org/news/2023-04-method-tracks-gene-cells-space.html

Postdoctoral position in bioinformatics of new types of transcriptomic data @Bgeedb

#Postdoc on the #bioinformatics / #biostatistics of new types of #GeneExpression data in Bgee database: #SingleCell, isoforms, etc

https://jobrxiv.org/job/universite-de-lausanne-27778-postdoctoral-position-in-bioinformatics-of-new-types-of-transcriptomic-data/?feed_id=41682

#Scienc...
https://jobrxiv.org/job/universite-de-lausanne-27778-postdoctoral-position-in-bioinformatics-of-new-types-of-transcriptomic-data/?feed_id=41682

We are recruiting a #postdoc to work on the #bioinformatics / #biostatistics of new types of #GeneExpression data in @bgeedb: new #SingleCell, isoform-specific #RNAseq, etc. We integrate all data types into summary scores and calls of expression, so there are a lot of challenges in integrating each new data type. And a lot of opportunities both for methodological research, and for downstream biology using these newly integrated data. #academicjobs @dee_unil #SIB https://bit.ly/3G7DUGD

in a study published March 23 in Nature Microbiology, Li and colleagues reveal how the #virus responsible for #COVID19 remodels #chromatin, the complex of #DNA and #proteins that makes up #chromosomes. The resulting changes in #geneexpression may be responsible for the #immune #dysregulation seen in #infected people and may offer clues as to why some experience #prolonged #symptoms. #LongCovid https://www.the-scientist.com/news-opinion/covid-19-infections-may-reshape-genetic-landscape-71045

Bgee used to support the identification of the target gene for depletion experiment in zebrafish: https://elifesciences.org/articles/83652
#zebrafish #cytoskeleton #ortholog #paralog #GeneExpression #SIB @dee_unil @marcrr