Yogesh Goyal
@goyallab.bsky.social
Single cell systems and synthetic biology lab at Northwestern University and Chan Zuckerberg Biohub Chicago.
https://www.goyallab.org/
https://www.goyallab.org/
Reposted by Yogesh Goyal
📢 Our Dept. of Systems Biology at Columbia University has an open tenure-track Assistant Professor position in the broad area of quantitative biology. Come join our awesome department in NYC! Please circulate.
apply.interfolio.com/177622
Suggested deadline: 12/15/2025.
@columbiasysbio.bsky.social
apply.interfolio.com/177622
Suggested deadline: 12/15/2025.
@columbiasysbio.bsky.social
November 15, 2025 at 4:02 AM
📢 Our Dept. of Systems Biology at Columbia University has an open tenure-track Assistant Professor position in the broad area of quantitative biology. Come join our awesome department in NYC! Please circulate.
apply.interfolio.com/177622
Suggested deadline: 12/15/2025.
@columbiasysbio.bsky.social
apply.interfolio.com/177622
Suggested deadline: 12/15/2025.
@columbiasysbio.bsky.social
Reposted by Yogesh Goyal
Congratulations to Yogesh Goyal, PhD @goyallab.bsky.social, who was named a 2025–2028 Edward Mallinckrodt, Jr. Foundation Grant Fellow!
His work bridges engineering and biology to advance understanding of cellular plasticity and fate in development and disease. Learn more: tinyurl.com/2rumf48v
His work bridges engineering and biology to advance understanding of cellular plasticity and fate in development and disease. Learn more: tinyurl.com/2rumf48v
October 14, 2025 at 4:15 PM
Congratulations to Yogesh Goyal, PhD @goyallab.bsky.social, who was named a 2025–2028 Edward Mallinckrodt, Jr. Foundation Grant Fellow!
His work bridges engineering and biology to advance understanding of cellular plasticity and fate in development and disease. Learn more: tinyurl.com/2rumf48v
His work bridges engineering and biology to advance understanding of cellular plasticity and fate in development and disease. Learn more: tinyurl.com/2rumf48v
Exciting opportunity to work with @ianmellis.bsky.social who is an excellent mentor and working on cool stuff !
Excited to share a job opportunity to work with me and colleagues at Columbia! If you or someone you know would like to be a Research Technician/Assistant working at the interface of molecular systems biology, virology, immunology, and gene and cell therapies, please reach out! (Links below)
October 16, 2025 at 5:30 PM
Exciting opportunity to work with @ianmellis.bsky.social who is an excellent mentor and working on cool stuff !
Reposted by Yogesh Goyal
Congratulations @karalmckinley.bsky.social & lab on their groundbreaking recent preprint establishing + characterizing a chemically inducible model of menstruation in mouse:
www.biorxiv.org/content/10.1...
My jaw dropped when I heard this presented earlier this year. Incredible.
www.biorxiv.org/content/10.1...
My jaw dropped when I heard this presented earlier this year. Incredible.
Induction of menstruation in mice reveals the regulation of menstrual shedding
During menstruation, an inner layer of the endometrium is selectively shed, while an outer, progenitor-containing layer is preserved to support repeated regeneration. Progress in understanding this co...
www.biorxiv.org
October 9, 2025 at 10:59 PM
Congratulations @karalmckinley.bsky.social & lab on their groundbreaking recent preprint establishing + characterizing a chemically inducible model of menstruation in mouse:
www.biorxiv.org/content/10.1...
My jaw dropped when I heard this presented earlier this year. Incredible.
www.biorxiv.org/content/10.1...
My jaw dropped when I heard this presented earlier this year. Incredible.
Reposted by Yogesh Goyal
Nature Biomedical Engineering is hiring again! This time we're hoping to add an editor with machine learning expertise to the team (although we are open to those with other relevant expertise!) Deadline is Oct 20. Please RT! springernature.wd3.myworkdayjobs.com/SpringerNatu...
September 24, 2025 at 6:36 PM
Nature Biomedical Engineering is hiring again! This time we're hoping to add an editor with machine learning expertise to the team (although we are open to those with other relevant expertise!) Deadline is Oct 20. Please RT! springernature.wd3.myworkdayjobs.com/SpringerNatu...
Reposted by Yogesh Goyal
We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics.
www.biorxiv.org/content/10.1...
(1/n)
www.biorxiv.org/content/10.1...
(1/n)
September 22, 2025 at 5:29 AM
We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics.
www.biorxiv.org/content/10.1...
(1/n)
www.biorxiv.org/content/10.1...
(1/n)
Reposted by Yogesh Goyal
Asking BlueSky for help: For a review, I am trying to accurately credit the first paper that measured pairwise 3D distances between 2 pieces of DNA on the same chromosome (or cosmid). Is Trask 1989 the first?
I know of earlier single-locus papers (1982).
www.sciencedirect.com/science/arti...
I know of earlier single-locus papers (1982).
www.sciencedirect.com/science/arti...
September 21, 2025 at 6:54 PM
Asking BlueSky for help: For a review, I am trying to accurately credit the first paper that measured pairwise 3D distances between 2 pieces of DNA on the same chromosome (or cosmid). Is Trask 1989 the first?
I know of earlier single-locus papers (1982).
www.sciencedirect.com/science/arti...
I know of earlier single-locus papers (1982).
www.sciencedirect.com/science/arti...
Reposted by Yogesh Goyal
Some (+)ve news to lighten another heavy weekend: our latest preprint (c/o Mattiroli + Ramani labs) is up!
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
The eukaryotic replisome intrinsically generates asymmetric daughter chromatin fibers
DNA replication is molecularly asymmetric, due to distinct mechanisms for lagging and leading strand DNA synthesis. Whether chromatin assembly on newly replicated strands is also asymmetric remains un...
www.biorxiv.org
September 20, 2025 at 4:10 PM
Some (+)ve news to lighten another heavy weekend: our latest preprint (c/o Mattiroli + Ramani labs) is up!
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
Reposted by Yogesh Goyal
We have an active search for tenure-track faculty interested in #ImmuneEngineering #ProteinEngineering #GenomeEngineering & #CancerImmunology. Join the newly formed Center for Cellular Therapies and Cancer Immunology #CCTCI. Learn more at apply.interfolio.com/173562. #facultyjobs
Apply - Interfolio
{{$ctrl.$state.data.pageTitle}} - Apply - Interfolio
apply.interfolio.com
September 20, 2025 at 12:48 AM
We have an active search for tenure-track faculty interested in #ImmuneEngineering #ProteinEngineering #GenomeEngineering & #CancerImmunology. Join the newly formed Center for Cellular Therapies and Cancer Immunology #CCTCI. Learn more at apply.interfolio.com/173562. #facultyjobs
Reposted by Yogesh Goyal
Highly productive and innovative group doing elegant quantitative bio spanning theory, experimental and computational methods, and actual applications. If you're interested in a postdoctoral position studying cancer, development, or single cell biology, reach out to Yogesh!
**POSTDOC POSITION** My lab (www.goyallab.org) at Northwestern and CZ Biohub Chicago looking for a postdoctoc in quantitative biology. We work on a range of topics, including single-cell cancer plasticity, modeling single-cell perturbations, theory, and stem-embryo models. contact via email. Pls RT
Goyal Lab
www.goyallab.org
September 19, 2025 at 1:17 PM
Highly productive and innovative group doing elegant quantitative bio spanning theory, experimental and computational methods, and actual applications. If you're interested in a postdoctoral position studying cancer, development, or single cell biology, reach out to Yogesh!
**POSTDOC POSITION** My lab (www.goyallab.org) at Northwestern and CZ Biohub Chicago looking for a postdoctoc in quantitative biology. We work on a range of topics, including single-cell cancer plasticity, modeling single-cell perturbations, theory, and stem-embryo models. contact via email. Pls RT
Goyal Lab
www.goyallab.org
September 19, 2025 at 10:36 AM
**POSTDOC POSITION** My lab (www.goyallab.org) at Northwestern and CZ Biohub Chicago looking for a postdoctoc in quantitative biology. We work on a range of topics, including single-cell cancer plasticity, modeling single-cell perturbations, theory, and stem-embryo models. contact via email. Pls RT
Reposted by Yogesh Goyal
What was antibiotic resistance like before we ever used antibiotics? How did we change what antibiotic resistance genes looked like over 100 years?
Our paper looking at resistance genes from a century of NCTC historical isolates now out in mGen:
www.microbiologyresearch.org/content/jour...
Our paper looking at resistance genes from a century of NCTC historical isolates now out in mGen:
www.microbiologyresearch.org/content/jour...
Genomic resistance in historical clinical isolates increased in frequency and mobility after the age of antibiotics
Antibiotic resistance is frequently observed shortly after the clinical introduction of an antibiotic. Whether and how frequently that resistance occurred before the introduction is harder to determin...
www.microbiologyresearch.org
September 1, 2025 at 5:49 PM
What was antibiotic resistance like before we ever used antibiotics? How did we change what antibiotic resistance genes looked like over 100 years?
Our paper looking at resistance genes from a century of NCTC historical isolates now out in mGen:
www.microbiologyresearch.org/content/jour...
Our paper looking at resistance genes from a century of NCTC historical isolates now out in mGen:
www.microbiologyresearch.org/content/jour...
Reposted by Yogesh Goyal
Priyom's preprint is out on biorxiv. See below for a detailed thread. In a nutshell, she has discovered and characterized the oscillator that times notochord and spine segmentation in zebrafish. Turns out that there are uniform Erk oscillations across the entire tissue that act as timekeepers!
Building a spine is no joke, but thankfully zebrafish have their own clocks to keep the pace. Excited to share our preprint on the role of biological oscillators in coordinating notochord development! (www.biorxiv.org/content/10.1...)
Additional thread below
Additional thread below
September 2, 2025 at 5:34 PM
Priyom's preprint is out on biorxiv. See below for a detailed thread. In a nutshell, she has discovered and characterized the oscillator that times notochord and spine segmentation in zebrafish. Turns out that there are uniform Erk oscillations across the entire tissue that act as timekeepers!
Reposted by Yogesh Goyal
Every few months the "good lab hands" thing comes up and it misses a key point: you can learn to have good hands. Training matters.
Good hands aren't some magic gift from the PCR gods, you have to develop them through directed repetitive practice, like any other skill
Good hands aren't some magic gift from the PCR gods, you have to develop them through directed repetitive practice, like any other skill
September 1, 2025 at 6:04 PM
Every few months the "good lab hands" thing comes up and it misses a key point: you can learn to have good hands. Training matters.
Good hands aren't some magic gift from the PCR gods, you have to develop them through directed repetitive practice, like any other skill
Good hands aren't some magic gift from the PCR gods, you have to develop them through directed repetitive practice, like any other skill
Reposted by Yogesh Goyal
@jengreitz.bsky.social l & my lab want to co-hire a computational biologist/biostatistician with project management expertise to help map the regulatory code of the human genome and discover genetic mechanisms of disease.
Details below
careersearch.stanford.edu/jobs/computa...
Plz RT
Details below
careersearch.stanford.edu/jobs/computa...
Plz RT
August 19, 2025 at 12:29 AM
@jengreitz.bsky.social l & my lab want to co-hire a computational biologist/biostatistician with project management expertise to help map the regulatory code of the human genome and discover genetic mechanisms of disease.
Details below
careersearch.stanford.edu/jobs/computa...
Plz RT
Details below
careersearch.stanford.edu/jobs/computa...
Plz RT
Reposted by Yogesh Goyal
Good ideas come from having lots of experience. And experience comes from having lots of bad ideas.
August 25, 2025 at 3:00 AM
Good ideas come from having lots of experience. And experience comes from having lots of bad ideas.
Reposted by Yogesh Goyal
New from the lab led by @natrigg.bsky.social. We started by characterizing mRNA in sperm, EVs, and the epithelium across epididymal transit. This revealed evidence that sperm acquire specific mRNAs through fusion with epididymal EVs, which we further established with in vitro co-incubation assays
Epididymal extracellular vesicles harbor and convey mRNA to sperm for transfer to zygotes https://www.biorxiv.org/content/10.1101/2025.08.18.670952v1
August 23, 2025 at 6:30 PM
New from the lab led by @natrigg.bsky.social. We started by characterizing mRNA in sperm, EVs, and the epithelium across epididymal transit. This revealed evidence that sperm acquire specific mRNAs through fusion with epididymal EVs, which we further established with in vitro co-incubation assays
Nice writeup by Stas capturing Benny Shilo, who passed away untimely. To me as a young graduate student and to others in our lab, Benny was fondly referred to as the “EGFR Uncle.” Benny was kind and I loved how he always had time for young trainees
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Ben-Zion Shilo (1951–2025)
www.sciencedirect.com
August 19, 2025 at 7:41 PM
Nice writeup by Stas capturing Benny Shilo, who passed away untimely. To me as a young graduate student and to others in our lab, Benny was fondly referred to as the “EGFR Uncle.” Benny was kind and I loved how he always had time for young trainees
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
QUESTION: What are the best ways currently to integrate scRNAseq samples (same cell line, drug treated vs untreated) for comparitive analysis? We are aware of scTransfrom, scanorama, harmony, scVI. Any suggestions would be great!
August 18, 2025 at 10:32 PM
QUESTION: What are the best ways currently to integrate scRNAseq samples (same cell line, drug treated vs untreated) for comparitive analysis? We are aware of scTransfrom, scanorama, harmony, scVI. Any suggestions would be great!
Reposted by Yogesh Goyal
Latest on Waddington Landscapes: Computational methods to fit dynamical landscapes directly to single cell data
Applied to neural tube patterning shows morphogen-signalling landscapes can be linearly interpolated
Connects interpretable landscape models with data
www.biorxiv.org/content/10.1...
Applied to neural tube patterning shows morphogen-signalling landscapes can be linearly interpolated
Connects interpretable landscape models with data
www.biorxiv.org/content/10.1...
Reconstructing Waddington's Landscape from Data
The development of a zygote into a functional organism requires that this single progenitor cell gives rise to numerous distinct cell types. Attempts to exhaustively tabulate the interactions within d...
www.biorxiv.org
August 14, 2025 at 7:53 AM
Latest on Waddington Landscapes: Computational methods to fit dynamical landscapes directly to single cell data
Applied to neural tube patterning shows morphogen-signalling landscapes can be linearly interpolated
Connects interpretable landscape models with data
www.biorxiv.org/content/10.1...
Applied to neural tube patterning shows morphogen-signalling landscapes can be linearly interpolated
Connects interpretable landscape models with data
www.biorxiv.org/content/10.1...
Reposted by Yogesh Goyal
Job Alert: A stealth startup focused on non-cancer diagnostics is keen to hire a deep learning for genomics/bio engineer. I am an advisor for the startup & closely involved. Please see the job description below and get in touch if interested. Plz forward.
August 12, 2025 at 12:35 AM
Job Alert: A stealth startup focused on non-cancer diagnostics is keen to hire a deep learning for genomics/bio engineer. I am an advisor for the startup & closely involved. Please see the job description below and get in touch if interested. Plz forward.
Reposted by Yogesh Goyal
I'm excited to announce our new biorxiv preprint, wherein we investigate the evolution of the weirdest genetic locus I've ever seen! Behold the tgr genes of the social amoeba, which mediate self/non-self discrimination during facultative multicellularity 🐅 🧵 1/
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Hypermutable hotspot enables the rapid evolution of self/non-self recognition genes in Dictyostelium
Cells require highly polymorphic receptors to perform accurate self/non-self recognition. In the amoeba Dicytostelium discoideum, polymorphic TgrB1 & TgrC1 proteins are used to bind sister cells and e...
www.biorxiv.org
August 5, 2025 at 12:56 AM
I'm excited to announce our new biorxiv preprint, wherein we investigate the evolution of the weirdest genetic locus I've ever seen! Behold the tgr genes of the social amoeba, which mediate self/non-self discrimination during facultative multicellularity 🐅 🧵 1/
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
August 2, 2025 at 12:19 AM
Reposted by Yogesh Goyal
How challenging is the prediction of transcriptional responses to CRISPR gene perturbations ?
A simple model, just scaling RNA correlation vectors, results in accurate predictions for many perturbations.
The model is intuitive & grounded in a simple approximation.
1/2
A simple model, just scaling RNA correlation vectors, results in accurate predictions for many perturbations.
The model is intuitive & grounded in a simple approximation.
1/2
July 24, 2025 at 11:00 AM
How challenging is the prediction of transcriptional responses to CRISPR gene perturbations ?
A simple model, just scaling RNA correlation vectors, results in accurate predictions for many perturbations.
The model is intuitive & grounded in a simple approximation.
1/2
A simple model, just scaling RNA correlation vectors, results in accurate predictions for many perturbations.
The model is intuitive & grounded in a simple approximation.
1/2
Reposted by Yogesh Goyal
New preprint! We solve a mystery you didn't know existed. Mitotic cells lack new transcription but require ongoing translation. Interphase mRNA half life is only 2-4 hrs. So how do cells arrest in mitosis for hours without depleting their transcriptomes?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Global inhibition of deadenylation stabilizes the transcriptome in mitotic cells
In the presence of cell division errors, mammalian cells can pause in mitosis for tens of hours with little to no transcription, while still requiring continued translation for viability. These unique...
www.biorxiv.org
July 23, 2025 at 10:57 AM
New preprint! We solve a mystery you didn't know existed. Mitotic cells lack new transcription but require ongoing translation. Interphase mRNA half life is only 2-4 hrs. So how do cells arrest in mitosis for hours without depleting their transcriptomes?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...