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Our Perspective "Mapping the Transcriptome - realising the full potential of spatial data analysis" is out today in @CellCellPress cell.com/cell/fulltext/…. A short thread on this work follows...
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Simon Cockell @[email protected]
6K posts
Simon Cockell @[email protected]
@sjcockell
Senior Lecturer in Bioinformatics @UniofNewcastle, Director of Research @NclBNS. #rstats, Python, etc. Gateshead/Newcastle resident. Husband. Dad. Views my own.
Newcastle Upon Tyne, Newcastle 가입일 Haziran 2008
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Simon Cockell @[email protected] 리트윗함
So, Conservatives pledge to increase apprenticeships by 100k by cutting 1 in 8 degrees. I feel a little thread is in order.
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Simon Cockell @[email protected] 리트윗함
How much more money do we need to dump into automating analysis for non experts until we realize that we need to better train scientists to interpret results!
dana_peer@dana_peer
@vitaliikl @maelouisewoods @lpachter @satijalab @fabian_theis Automating defaults rarely works. The HCA spend tens of millions on it and failed. Methods do not need to be fully automated and free of user intervention. Users need to be smart and know what they are doing
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Simon Cockell @[email protected] 리트윗함
This is a massive problem @NCBI. As @TrostLab mentions, @NU_ITservice maintain this is a server-side problem, some clarity (and a fix!) would be very welcome:
Matthias Trost 🇪🇺@TrostLab
Dear @NCBI @NLM_NIH in our institution @StudentsNCL in the UK we cannot access Pubmed or any other NIH/NCBI website anymore. this has been intermittently going on for months! Out IT says it comes from your side. can you please look into this! thanks a lot!
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Simon Cockell @[email protected] 리트윗함
In the latest issue! Mapping the transcriptome: Realizing the full potential of spatial data analysis dlvr.it/T0VhqM
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Simon Cockell @[email protected] 리트윗함
A PhD studentship available with me and collaborators
@LabPeffers
and
@IGM_YoungLab
from October 2024.
findaphd.com/phds/project/b…
Combining omics data to identify regulators of chondrogenesis. Funded via
@NLD_BBSRCDTP
Deadline to apply 15th January
#bioinformatics #PhD
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Things you never thought you’d see in your career… featured content in Cell from “Cockell and colleagues”
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Paper now officially published: cell.com/cell/fulltext/…
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Simon Cockell @[email protected] 리트윗함
Bringing 2023 to a close, the new issue features a 3D atlas of the developing human head, how the ineffective control of EBV-induced autoimmunity increases the risk for multiple sclerosis and a machine learning architecture that integrates cell types across single-cell datasets!
To read more of our new issue click👉 cell.com/cell/current
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Simon Cockell @[email protected] 리트윗함
Now online! Mapping the transcriptome: Realizing the full potential of spatial data analysis dlvr.it/SzrT2M
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To quote ourselves, these features mean that the analysis of these types of data should be "spatial by default", and encourage inter-disciplinary collaboration with those in the geographical sciences to help transfer decades of knowledge from that domain
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3) spatial heterogeneity - the relationships between variables is not static across space, and local relationships rarely look the same as the global picture
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We demonstrate that key features of spatially-resolved data can be shown in biological data (using Visium data by way of example). 1) The modifiable areal unit problem - that the scale you chose for your analysis can strongly influence the results of that analysis
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This paper is essentially the manifesto for @LZormpas's PhD work - that the features of spatial data, so well studied in the geographic sciences, manifest themselves in micro-scale spatial molecular biology data.
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So happy, particularly for my student (@LZormpas), that the editors saw the value in this commentary. Thanks also to the helpful reviewers. And of course coauthors @lexcomber and @rachelq_ncl!
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Our Perspective "Mapping the Transcriptome - realising the full potential of spatial data analysis" is out today in @CellCellPress cell.com/cell/fulltext/…. A short thread on this work follows...
English