Benjamin S. Simpson (@b3nsimp) header
Benjamin S. Simpson (@b3nsimp) profile picture

Benjamin S. Simpson

@b3nsimp

Senior Bioninformatician at DIOSynVax

 London
Joined October 2015
  • Tweets191
  • Following276
  • Followers157
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Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)Photo by Benjamin S. Simpson (@b3nsimp)
Benjamin S. Simpson retweeted
Mrinalini Watsa (@SurroundScience) profile picture
Mrinalini Watsa@SurroundScience23 Sep 2023
So @nanopore discovered something a few days ago - and it has to do with light. And they posted this image (sorry, too good not to share off the community). Yes, that’s 469% increased output. So, we decided to give it a shot and …
Image from Mrinalini Watsa (@SurroundScience)
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Benjamin S. Simpson retweeted
Ramiro Alberio (@AlberioRamiro) profile picture
Ramiro Alberio@AlberioRamiro2 Sep 2023
Pleased to share latest study from our lab, led by @LukeSimpsn and in collab with the Nichols Lab. biorxiv.org/content/10.1101/… .
A single-cell atlas of pig gastrulation as a resource for comparative embryology

A single-cell atlas of pig gastrulation as a resource for comparative embryology

Early mammalian gastrulation’s cell-fate decisions are poorly understood due to difficulties obtaining non-rodent embryos. The bilaminar disc of pig embryos mirrors humans, making them a useful proxy...

biorxiv.org
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Benjamin S. Simpson retweeted
Manu Setty (@SettyM) profile picture
Manu Setty@SettyM11 Jul 2023
Mellon repository is available at github.com/settylab/mellon, and the pipeline for primed and lineage-specific peak identification (along with other utilities for ATAC metacells) is available at: github.com/settylab/atac_met…

GitHub - settylab/Mellon: Non-parametric density inference for single-cell analysis.

Non-parametric density inference for single-cell analysis. - settylab/Mellon

github.com
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Benjamin S. Simpson retweeted
Jason Sheltzer (@JSheltzer) profile picture
Jason Sheltzer@JSheltzer6 Jul 2023
Check out our new study in @ScienceMagazine, where we take on a 100-year-old debate: what’s the role of aneuploidy in cancer? We discovered that genetically removing extra chromosomes blocks cancer growth - a phenomenon we call “aneuploidy addiction”. science.org/doi/10.1126/scie…
Oncogene-like addiction to aneuploidy in human cancers

Oncogene-like addiction to aneuploidy in human cancers

Specific aneuploidies benefit cancer cells and may be sensitive to treatment

science.org
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Benjamin S. Simpson retweeted
Ramiro Alberio (@AlberioRamiro) profile picture
Ramiro Alberio@AlberioRamiro15 Jun 2023
Delighted to see this work, led by @Lukesimpsn, and a tribute to our late friend Andrew Johnson, published in #PLOSBiology: NANOG is required to establish the competence for germ-layer differentiation in the basal tetra ... dx.plos.org/10.1371/journal.… @mattloose
NANOG is required to establish the competence for germ-layer differentiation in the basal tetrapod...

NANOG is required to establish the competence for germ-layer differentiation in the basal tetrapod...

The role of Nanog and Nodal in establishing pluripotency in an amphibian, the axolotl, indicates that the gene regulatory networks underlying pluripotency are conserved and provided the basis for the...

journals.plos.org
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Benjamin S. Simpson retweeted
Alexander Coulton (@coulton_alex) profile picture
Alexander Coulton@coulton_alex29 Mar 2023
Excited to share our latest work out now in @CD_AACR, a high-resolution insight into how advanced metastatic melanoma evolves as it colonizes various sites in the body. Huge thanks to everyone involved (patients, authors, funders, reviewers etc) aacrjournals.org/cancerdisco…
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Sergio Quezada (@squezadd) profile picture
Sergio Quezada@squezadd15 Feb 2023
We are hiring!! We are looking for talented postdocs experts in cancer immunology, molecular biology/antibody engineering to join ⁦@QuezadaLab⁩ ⁦⁦@CRUKCOLcentre⁩ and the team that will make the next gen immune modulatory agents for cancer. ucl.ac.uk/work-at-ucl/search…
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Benjamin S. Simpson retweeted
Ramiro Alberio (@AlberioRamiro) profile picture
Ramiro Alberio@AlberioRamiro11 Sep 2022
Very proud to see part 1 of the work led by the late Andrew Johnson finally out. Thanks @LukeSimpsn and @mattloose for the great work. #evolution #pluripotency #nanog biorxiv.org/content/10.1101/…
The Nanog epigenetic remodeling complex was essential to vertebrate mesoderm evolution

The Nanog epigenetic remodeling complex was essential to vertebrate mesoderm evolution

Pluripotency defines the unlimited potential of cells in the primitive ectoderm of vertebrate embryos, from which all adult somatic cells and germ cells are derived. Understanding how the programing...

biorxiv.org
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Have you ever needed to automate #PowerPoint in #R? Well you're in luck! I wrote a tutorial on it. Enjoy! Article: buff.ly/3bsRloG #rstats
Image from Matt Dancho (Business Science) (@mdancho84)
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Benjamin S. Simpson retweeted
James L Reading (@JL_Reading) profile picture
James L Reading@JL_Reading15 Jun 2022
🔥Elated to share that I'm amongst the scientists🔬announcing the award of a UKRI Future Leaders Fellowship🏆 Our mission🧗 •Use the immune system to prevent cancer by asking when+how recognition&regulation first occur. #ukriflf @uclcancer @UKRI_News @uclnews @CRUKLungCentre
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🎉🎉 Extremely proud and grateful that our Tissue Immune Cell Atlas is out in @ScienceMagazine bit.ly/Sci_abl5197 A thread 🧵 (1/12)
Cross-tissue immune cell analysis reveals tissue-specific features in humans

Cross-tissue immune cell analysis reveals tissue-specific features in humans

An immune cell atlas of human innate and adaptive immune cells across lymphoid, mucosal, and exocrine sites reveals tissue-specific compositions and features.

science.org
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Benjamin S. Simpson retweeted
nature (@Nature) profile picture
nature
@Nature6 May 2022
Researchers have identified a new and unexpected kind of cell division that occurs without DNA being replicated

A new kind of cell division

Researchers have identified a new and unexpected kind of cell division that occurs without DNA being replicated

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Benjamin S. Simpson retweeted
Eran Hodis (@eranhodis) profile picture
Eran Hodis@eranhodis28 Apr 2022
How does a skin cell become melanoma? We built one to find out, to help understand this lethal disease. science.org/doi/10.1126/scie… @ScienceMagazine W/ co-1st @ele_tt, @johnkwon71, & senior author Aviv Regev. Early years joint w/ @LeviAGarraway. And many others in last tweet! 🧵 1/18
Image from Eran Hodis (@eranhodis)
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Benjamin S. Simpson retweeted
Alex Ritter, PhD (@AlexRitterPhD) profile picture
Alex Ritter, PhD
@AlexRitterPhD14 Apr 2022
Small but mighty! This is a video of a killer T cell of the immune system destroying a monstrous ovarian cancer cell. I recently captured this data on a spinning disc confocal microscope.
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Benjamin S. Simpson retweeted
Alexander Coulton (@coulton_alex) profile picture
Alexander Coulton@coulton_alex8 Apr 2022
Sometimes the mental energy for complicated pipes with xargs just isn't there, and you simply need to get the job done. This is where multiple cursors in Sublime Text (or VSCode) comes in to play: #Bioinformatics #Programming #DataScience
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Benjamin S. Simpson retweeted
NatureRevClinOncol (@NatRevClinOncol) profile picture
NatureRevClinOncol@NatRevClinOncol25 Mar 2022
Preclinical study suggests that AR blockade sensitizes prostate cancer to ICIs by directly enhancing CD8+ T cell function. Mechanistically, AR was found to bind to the IFNγ gene & thus suppress cytokine production in CD8+ T cells. nature.com/articles/s41586-0… #PCSM #ImmunoOnc

Androgen receptor activity in T cells limits checkpoint blockade efficacy

Nature - . Androgen-receptor blockade can overcome immunotherapy resistance in prostate cancer by intrinsically enhancing T cell function and IFNγ responses.

nature.com
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Benjamin S. Simpson retweeted
Nature Cancer (@NatureCancer) profile picture
Nature Cancer@NatureCancer3 Mar 2022
🔥🔥 ONLINE NOW @NatureCancer: "The interaction of CD4+ helper T cells with dendritic cells shapes the tumor microenvironment and immune checkpoint blockade response", by @IdoAmitLab @MiriamMerad #AmosTanay & Co Find it here! go.nature.com/35nKOsq rdcu.be/cIaAQ
Image from Nature Cancer (@NatureCancer)
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Alexander Coulton (@coulton_alex) profile picture
Alexander Coulton@coulton_alex3 Mar 2022
No more shift key when writing long path names on the cluster! Turn on case-insensitive autocompletion for BASH: askubuntu.com/questions/8706…
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Benjamin S. Simpson retweeted
Achilles Therapeutics (@achillestx) profile picture
Achilles Therapeutics@achillestx1 Mar 2022
Today we reported our Q4 and year-end 2021 financial results and business highlights, including clinical data demonstrating the unique ability of our T cell platform to detect, quantify and track our clonal neoantigen-reactive T cells. View here: ir.achillestx.com/news-relea… $ACHL
Image from Achilles Therapeutics (@achillestx)
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New paper out on development of a Tumour-Bone stroma model. Bakkalci et al. show that tumour cells can inhibit osteoblast driven bone formation @dbakkalci @UmberCheema @sfedelelondon @DrGavinJell @Biomat_UIO @JudithPape3 nature.com/articles/s41598-0…
Bioengineering the ameloblastoma tumour to study its effect on bone nodule formation

Bioengineering the ameloblastoma tumour to study its effect on bone nodule formation

Scientific Reports - Bioengineering the ameloblastoma tumour to study its effect on bone nodule formation

nature.com
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