Andreas Gschwind (@argschwind) header
Andreas Gschwind (@argschwind) profile picture

Andreas Gschwind

@argschwind

Computational Biologist at @Stanford.

 Stanford, CA
Joined September 2015
  • Tweets61
  • Following97
  • Followers283
7Media
Photo by Andreas Gschwind (@argschwind)Photo by Andreas Gschwind (@argschwind)Photo by Andreas Gschwind (@argschwind)Photo by Andreas Gschwind (@argschwind)Photo by Andreas Gschwind (@argschwind)Photo by Andreas Gschwind (@argschwind)Photo by Andreas Gschwind (@argschwind)
Andreas Gschwind retweeted
Jesse Engreitz (@jengreitz) profile picture
Jesse Engreitz@jengreitzAug 4
Update: scE2G is now online at @NatureGenetics! 📄 nature.com/articles/s41588-0… Since the preprint, we added a new benchmark on a fully held-out CRISPR dataset. scE2G continues to show state-of-the-art performance, reinforcing that it generalizes well 1/
Image from Jesse Engreitz (@jengreitz)
Jesse Engreitz (@jengreitz) profile pictureJesse Engreitz@jengreitz25 Nov 2024
Introducing scE2G: a new model to link enhancers to target genes using single-cell data. Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body! Wonderful collaboration with @robin_andersson @613weilin @mayayayas and others 👇
3
41
1
137
17,920
Andreas Gschwind retweeted
Kushal K Dey (@kanishkadey) profile picture
Kushal K Dey
@kanishkadeyJul 15
How to link a non-coding disease GWAS variant to its target genes in the right cell type? ENCODE-rE2G, now out in @Nature addresses this through optimal integration of chromatin activity and 3D contact data in 1,458 biosamples. A huge collaborative effort spanning 6+ years led by @argschwind @jengreitz nature.com/articles/s41586-0…
An encyclopedia of human enhancer–gene regulatory interactions

An encyclopedia of human enhancer–gene regulatory interactions

Nature - An encyclopedia of more than 92 million enhancer–gene regulatory interactions created as part of the ENCODE4 project provides a valuable resource for future studies of gene...

nature.com
1
26
91
7,057
Check out our latest work published today as cover story in @ScienceMagazine! High-speed image-enabled cell sorting (ICS) isolates cells with complex spatial phenotypes, led by @LarsMSteinmetz, @CuylenLab & @BDBiosciences science.org/doi/10.1126/scie… 1/9
Image from Daniel Schraivogel (@SchraivogelS)
21
157
43
526
Andreas Gschwind retweeted
James Davies (@jojdavies) profile picture
James Davies@jojdavies9 Jun 2021
Delighted to share my lab’s @jdavieslab first big paper in @Nature! We’ve developed a new 3C technique called Micro Capture-C that can generate base pair resolution 3C data nature.com/articles/s41586-0…
35
255
42
794
Andreas Gschwind retweeted
Lars Steinmetz (@LarsMSteinmetz) profile picture
Lars Steinmetz@LarsMSteinmetz4 May 2021
We're really looking forward to seeing fellowship applications from these new collaborations! Postdocs - get in quick, define your own joint project between @embl & @StanfordMed and leverage the expertise from two top cell signalling experts @e_petsalaki & Markus!
Life Science Alliance (@LiSciAlliance) profile pictureLife Science Alliance
@LiSciAlliance3 May 2021
Computational postdocs, check out the newest collaboration w/ @e_petsalaki & Markus Covert. Draw on their expertise & computational tools to create a predictive model of cell signalling and its regulation Start brainstorming ASAP, the deadline is 6.6.21! stan.md/3tcpzzl
Image from Life Science Alliance (@LiSciAlliance)
2
3
Andreas Gschwind retweeted
Sergio Triana (@shtriana) profile picture
Sergio Triana@shtriana27 Apr 2021
So happy to see one of the chapters of my Ph.D. thesis out in @MolSystBiol. We did scRNAseq of SARS-CoV-2 infection in gut organoids and showed how the virus interferes with the host signaling! With @thalexandrov @alexandrovteam @LarsMSteinmetz @embl @BoulantLab @CarlMHerrmann
Mol Syst Biol (@MolSystBiol) profile pictureMol Syst Biol@MolSystBiol27 Apr 2021
#SingleCell analyses on infected human intestinal #organoids characterize #SARSCoV2 tropism & identify viral strategies interfering with intrinsic immune responses --> bit.ly/2QDLJ0a @BoulantLab M Stanifer @thalexandrov @EMBL @DKFZ #COVID19
Image from Mol Syst Biol (@MolSystBiol)
1
13
71
Andreas Gschwind retweeted
Kate Petrova Mehta (@kate_ptrv) profile picture
Kate Petrova Mehta@kate_ptrv27 Nov 2020
I couldn’t just walk past this Tweet, so here is some fun #dataviz Scented candles: An unexpected victim of the COVID-19 pandemic 1/n
3 R-generated graphs: 1) Top 3 unscented candles 2017-2020 reviews: rating (1-5) on the y axis; date on the x axis; the scatterplot shows a relatively flat line across the three years. N = 1,118 2) Top 3 scented candles 2017-2020 reviews: rating (1-5) on the y axis; date on the x axis; the scatterplot shows a relatively flat line that drops off sharply after January 2020. N = 11,404 3) A bar chart with 11 bars (January-November 2020). Proportion of reviews mentioning lack of scent on the y axis; month on the x axis. January = 2%, February = 3.5%, March = 2.8%, April = 4.6%, May = 3.4%, June = 2.4%, July = 3%, August = 3.2%, September = 3.1%, October = 5.8%, November = 5.8%.

ALT 3 R-generated graphs: 1) Top 3 unscented candles 2017-2020 reviews: rating (1-5) on the y axis; date on the x axis; the scatterplot shows a relatively flat line across the three years. N = 1,118 2) Top 3 scented candles 2017-2020 reviews: rating (1-5) on the y axis; date on the x axis; the scatterplot shows a relatively flat line that drops off sharply after January 2020. N = 11,404 3) A bar chart with 11 bars (January-November 2020). Proportion of reviews mentioning lack of scent on the y axis; month on the x axis. January = 2%, February = 3.5%, March = 2.8%, April = 4.6%, May = 3.4%, June = 2.4%, July = 3%, August = 3.2%, September = 3.1%, October = 5.8%, November = 5.8%.

This Post is from an account that no longer exists. Learn more
250
10,107
3,775
27,374
Excellent vaccine trial tracker from Dr. Nicole Basta @IDEpiPhD and colleagues. H/t @betzhallo covid19.trackvaccines.org/va…
Image from Natalie E. Dean, PhD (@nataliexdean)
5
71
10
189
Andreas Gschwind retweeted
Nature Methods (@naturemethods) profile picture
Nature Methods@naturemethods7 Oct 2020
For those of you curious about how CRISPR-Cas9 works, check out this super-useful animation that Nature Methods produced a few years ago: nature.com/collections/txhdf… and poster: nature.com/collections/txhdf… #NobelPrize2020 #NobelChem
Image from Nature Methods (@naturemethods)
1
46
2
86
Andreas Gschwind retweeted
Rupert Myers (@RupertMyers) profile picture
Rupert Myers
@RupertMyers20 Aug 2020
2020 in a single remarkable photo - by @noahberger3884 in California
Image from Rupert Myers (@RupertMyers)
794
56,504
4,295
157,109
Andreas Gschwind retweeted
Lars Steinmetz (@LarsMSteinmetz) profile picture
Lars Steinmetz@LarsMSteinmetz6 Jul 2020
We're hiring postdocs at our Stanford lab! If you're experienced in infection biology & interested in tech development, see below for more info on a project to detect antibiotic susceptibility using magnetic levitation. Thanks @jobRxiv, new science job site, for the mention
jobRxiv (@jobRxiv) profile picturejobRxiv
@jobRxiv4 Jul 2020
#ScienceJobs: Postdoc: Detecting antibiotic susceptibility using magnetic levitation with @LarsMSteinmetz Stanford University, USA jobrxiv.org/job/steinmetz-la… #Postdoc
Image from jobRxiv (@jobRxiv)
12
21
Andreas Gschwind retweeted
Nature Methods (@naturemethods) profile picture
Nature Methods@naturemethods4 Jun 2020
Our June issue is live; check it out! nature.com/nmeth/volumes/17/…
Image from Nature Methods (@naturemethods)
3
1
26
single-cell tweeps. Your favorite gene may have count 0 (or much-reduced count) in the counting matrix if it is overlapping with a different gene. tools for counting discard reads fall into the overlapping features. github.com/alexdobin/STAR/is… This thread should be very useful.
STARsolo counting on overlapping features · Issue #847 · alexdobin/STAR

STARsolo counting on overlapping features · Issue #847 · alexdobin/STAR

Hi Alex, I want to test STARsolo for my 10x runs. I have a question on counting the reads on overlapping features. How STARsolo handle this? I heard that cellranger discard reads that fall into the...

github.com
3
16
3
62
Andreas Gschwind retweeted
Lars Steinmetz (@LarsMSteinmetz) profile picture
Lars Steinmetz@LarsMSteinmetz11 Oct 2019
We're looking for postdocs at our Stanford lab with experience in single-cell transcriptomics. Project#1 is understanding transcriptional heterogeneity in the human heart and project#2 probes the immunological basis of Chronic Fatigue Syndrome. More here: stanford.io/2M9YfzP
22
15
Andreas Gschwind retweeted
Eleonora Porcu (@ElePorcu) profile picture
Eleonora Porcu@ElePorcu24 Jul 2019
Excited to share our work @NatureComms! TWMR: a Transcriptome-Wide Mendelian Randomisation approach which integrates summary-level data from GWAS and eQTLs studies to estimate the causal effect of gene expression on human phenotypes. nature.com/articles/s41467-0…
Mendelian randomization integrating GWAS and eQTL data reveals genetic determinants of complex and...

Mendelian randomization integrating GWAS and eQTL data reveals genetic determinants of complex and...

Nature Communications - Many genetic variants identified in genome-wide association studies are associated with gene expression. Here, Porcu et al. propose a transcriptome-wide summary...

nature.com
3
31
6
107
A Way-Too-Philosophical Behind-The-Scenes Post: patreon.com/posts/21037081 in which I reflect on how I can better contribute to society, using badly-drawn graphs and contrived metaphors. (click link for full post!)
Image from Nicky Case · 🐘 mas.to/@ncase (@ncasenmare)
Image from Nicky Case · 🐘 mas.to/@ncase (@ncasenmare)
Image from Nicky Case · 🐘 mas.to/@ncase (@ncasenmare)
Image from Nicky Case · 🐘 mas.to/@ncase (@ncasenmare)
11
98
16
495
Andreas Gschwind retweeted
Lars Steinmetz (@LarsMSteinmetz) profile picture
Lars Steinmetz@LarsMSteinmetz17 Jul 2018
Can genomes be organized differently? Postdoc opening in my lab at @embl to understand life's molecular organization using @SynGenome in @VolkswagenSt project with @caiyizhi and @scalefreegan. Apply by Aug 12. bit.ly/2NpEguL
1
28
2
34
Andreas Gschwind retweeted
R-bloggers (@Rbloggers) profile picture
R-bloggers@Rbloggers20 Jun 2018
Neural Networks Are Essentially Polynomial Regression wp.me/pMm6L-GFL #rstats #DataScience
1
61
11
179
Andreas Gschwind retweeted
François Chollet (@fchollet) profile picture
François Chollet
@fchollet28 Mar 2018
New post: "what worries me about AI" medium.com/@francois.chollet…
What worries me about AI

What worries me about AI

Disclaimer: These are my own personal views. I do not speak for my employer. If you quote this article, please have the honesty to present…

medium.com
34
328
77
748
Andreas Gschwind retweeted
Oliver Stegle (@OliverStegle) profile picture
Oliver Stegle@OliverStegle22 Feb 2018
Multi-omics in single-cells is getting real! Great work by Stephen, @RArgelaguet, et al. Great collaboration with @ReikLab teapaw.org/emblebi/status/9666303…
EMBL-EBI (@emblebi) profile pictureEMBL-EBI@emblebi22 Feb 2018
New #singlecellanalysis technique lets you detect changes in three ‘layers’ of molecular activity simultaneously: nucleosome, DNA methylation and transcription. Could reveal new mechanisms of #generegulation in development and disease ebi.ac.uk/about/news/announc…
Image from EMBL-EBI (@emblebi)
22
2
46
Load more