#single_cell — Public Fediverse posts

On Day 1 of European Galaxy Days, Marisa Loach presented The Single Cell and Spatial Omics Community.
Read more: https://galaxyproject.org/community/sig/singlecell/

@galaxyfreiburg
#community #EGD2025 #spatial_omics #galaxyproject #single_cell #eosc #fair #omics #open_science

On Day 1 of European Galaxy Days, Marisa Loach presented The Single Cell and Spatial Omics Community.
Read more: https://galaxyproject.org/community/sig/singlecell/

@galaxyfreiburg
#community #EGD2025 #spatial_omics #galaxyproject #single_cell #eosc #fair #omics #open_science

PhD Position in Megakaryocyte Biology

University Hospital Würzburg

See the full job description on jobRxiv: https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88610

#hematology #hematopoiesis #phosphorylation #platelet_biology #single_cell #ScienceJobs #hiring #research
https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88610

PhD Position in Megakaryocyte Biology

University Hospital Würzburg

See the full job description on jobRxiv: https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88610

#hematology #hematopoiesis #phosphorylation #platelet_biology #single_cell #ScienceJobs #hiring #research
https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88610

PhD Position in Megakaryocyte Biology

University Hospital Würzburg

See the full job description on jobRxiv: https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88582

#hematology #hematopoiesis #phosphorylation #platelet_biology #single_cell #ScienceJobs #hiring #research
https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88582

PhD Position in Megakaryocyte Biology

University Hospital Würzburg

See the full job description on jobRxiv: https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88582

#hematology #hematopoiesis #phosphorylation #platelet_biology #single_cell #ScienceJobs #hiring #research
https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88582

PhD Position in Megakaryocyte Biology

University Hospital Würzburg

See the full job description on jobRxiv: https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88141

#hematology #hematopoiesis #phosphorylation #platelet_biology #single_cell #ScienceJobs #hiring #research
https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88141

PhD Position in Megakaryocyte Biology

University Hospital Würzburg

See the full job description on jobRxiv: https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88141

#hematology #hematopoiesis #phosphorylation #platelet_biology #single_cell #ScienceJobs #hiring #research
https://jobrxiv.org/job/university-hospital-wurzburg-27778-phd-position-in-megakaryocyte-biology/?feed_id=88141

@lwpembleton @grrrck @adamhsparks @defuneste @danwwilson @milesmcbain @njtierney @jimjamslam the workstation at work (ubuntu 22, 24 cores, 125GB RAM memory, 2TB storage). Working very well for omics analysis #single_cell #scRNA, #methylation and #transcriptomics #ShareYourSetup

@lwpembleton @grrrck @adamhsparks @defuneste @danwwilson @milesmcbain @njtierney @jimjamslam the workstation at work (ubuntu 22, 24 cores, 125GB RAM memory, 2TB storage). Working very well for omics analysis #single_cell #scRNA, #methylation and #transcriptomics #ShareYourSetup

Researchers explore a #single_cell using advanced #X_ray imaging techniques.

#tomography #fluorescence #microscopy

https://phys.org/news/2024-07-explore-cell-advanced-ray-imaging.html

Researchers explore a #single_cell using advanced #X_ray imaging techniques.

#tomography #fluorescence #microscopy

https://phys.org/news/2024-07-explore-cell-advanced-ray-imaging.html

New tool decodes complex, #single_cell #genomic data.

#scLENS #scRNA_seq

https://phys.org/news/2024-04-tool-decodes-complex-cell-genomic.html

Scientists share #single_cell #atlas for the highly regenerative #worm, #Pristina leidyi.

#annelids #pluripotency

https://phys.org/news/2024-04-scientists-cell-atlas-highly-regenerative.html

Scientists share #single_cell #atlas for the highly regenerative #worm, #Pristina leidyi.

#annelids #pluripotency

https://phys.org/news/2024-04-scientists-cell-atlas-highly-regenerative.html

New method reveals hidden activity of life below ground.

#deep_earth #microbiome #respiration #single_cell #transcriptomics #sulfate

https://phys.org/news/2024-04-method-reveals-hidden-life-ground.html

New #single_cell analysis tech incorporates advanced fiber optics directly into #microfluidic chips.

#OptiDrop

https://phys.org/news/2024-04-cell-analysis-tech-incorporates-advanced.html

Advancing #plant biology with breakthroughs in #single_cell #RNA_sequencing.

#transcriptomics

https://phys.org/news/2024-03-advancing-biology-breakthroughs-cell-rna.html

Postdoctoral Research Associate

University of Pennsylvania

The Bowman Lab at the University of Pennsylvania is seeking a Postdoctoral Research Associate to join our research team.

See the full job description on jobRxiv: https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=70923

#Leukemia_Modeling. #mouse_models #single_cell #ScienceJobs #hi...
https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=70923

Postdoctoral Research Associate

University of Pennsylvania

The Bowman Lab at the University of Pennsylvania is seeking a Postdoctoral Research Associate to join our research team.

See the full job description on jobRxiv: https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=70923

#Leukemia_Modeling. #mouse_models #single_cell #ScienceJobs #hi...
https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=70923

@foaylward .mtx files are read by Matrix but @bioconductor has great packages and pipelines to analyse #single_cell and #scRNAseq data.

@foaylward .mtx files are read by Matrix but @bioconductor has great packages and pipelines to analyse #single_cell and #scRNAseq data.

Best r packages for processing mtx files from single cell transcriptomes? Seurat? Any others?
#single_cell #bioinformatics #RStats

Best r packages for processing mtx files from single cell transcriptomes? Seurat? Any others?
#single_cell #bioinformatics #RStats

Postdoctoral Research Associate

University of Pennsylvania

The Bowman Lab at the University of Pennsylvania is seeking a Postdoctoral Research Associate to join our research team.

See the full job description on jobRxiv: https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=69400

#Leukemia_Modeling. #mouse_models #Single_Cell #ScienceJobs #hi...
https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=69400

Postdoctoral Research Associate

University of Pennsylvania

The Bowman Lab at the University of Pennsylvania is seeking a Postdoctoral Research Associate to join our research team.

See the full job description on jobRxiv: https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=69400

#Leukemia_Modeling. #mouse_models #Single_Cell #ScienceJobs #hi...
https://jobrxiv.org/job/university-of-pennsylvania-27778-postdoctoral-research-associate/?feed_id=69400

Just watched Dr Aleksandrina Goeva's great 2021 presentation on "Inverse Problems, How to Use Matrix Factorization for Nearly Everything". Very effective visual representations of challenges and potential solutions for high dimensional biological data. Highly recommended! https://youtu.be/VbpCR9L3Zv4?si=I5H47AwhJzQ1zFIE #single_cell #math #biology

Just watched Dr Aleksandrina Goeva's great 2021 presentation on "Inverse Problems, How to Use Matrix Factorization for Nearly Everything". Very effective visual representations of challenges and potential solutions for high dimensional biological data. Highly recommended! https://youtu.be/VbpCR9L3Zv4?si=I5H47AwhJzQ1zFIE #single_cell #math #biology

#RDM and #single_cell #sequencing a new page in the @elixir_europe RDMKit.

https://rdmkit.elixir-europe.org/single_cell_sequencing

Thanks to @unifreiburg to get this started!

For scRNA-seq and scATAC-seq, have people been using "reads" as the important measurement instead of "fragments" for the past few years? Because this paper seems to suggest people have been unintentionally over-inflating the variance in their data by counting "reads"

https://www.nature.com/articles/s41592-023-02112-6/figures/1

I thought we we figured this out a long time ago with the whole "RPKM vs FPKM vs TPM" debate in bulk RNA-seq years ago.

#single_cell #rnaseq #atacseq #compBio #bioinformatics

For scRNA-seq and scATAC-seq, have people been using "reads" as the important measurement instead of "fragments" for the past few years? Because this paper seems to suggest people have been unintentionally over-inflating the variance in their data by counting "reads"

https://www.nature.com/articles/s41592-023-02112-6/figures/1

I thought we we figured this out a long time ago with the whole "RPKM vs FPKM vs TPM" debate in bulk RNA-seq years ago.

#single_cell #rnaseq #atacseq #compBio #bioinformatics

This paper on #single_cell #rna_velocity is important:

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-023-03065-x

> Here, we show that the direction of RNA velocity is strongly determined by the observed k-NN graph of the data. This k-NN graph is also directly reflected by the UMAP layout (indeed, one can view a UMAP layout as a representation of the k-NN graph). Together, this guarantees a compatibility between the UMAP and the vector field: vectors will always point towards neighbors on the UMAP.

Novel algorithm able to detect #mutations in #single_cell #sequencing data sets.

#RNA #SComatic

https://phys.org/news/2023-08-algorithm-mutations-single-cell-sequencing.html

Novel algorithm able to detect #mutations in #single_cell #sequencing data sets.

#RNA #SComatic

https://phys.org/news/2023-08-algorithm-mutations-single-cell-sequencing.html