Deciphering 3D genome folding using deep learning
Excited to share our work developing experimental strategies for deep learning models to decipher how DNA sequence informs 3D genome folding! Our study po...
Tags
- twitter 21
- awards 8
- deep learning 3
- neuropathology 3
- papers 2
- AI 2
- drug discovery 2
- UCSF 2
- blm 1
- BlackInTheIvory 1
- ShutDownSTEM 1
- MahsaAmini 1
- FreeIran 1
- IranProtests 1
- generative models 1
- diffusion models 1
- genomics 1
- molecular design 1
- CVPR 1
- symposium 1
- enzyme evolution 1
- zebrafish 1
- molecular docking 1
- machine learning 1
- PhD 1
- graduations 1
Kangway named Arnold O. Beckman Postdoctoral Fellow
Congrats to @kangway, who joins the 2019 class of Arnold O. Beckman Postdoctoral Fellows in Chemical Sciences! Thank you @BeckmanFnd for the game-changing su...
Artificial Intelligence Could Vastly Scale Up Alzheimer’s Research
Want to try your own #DeepLearning models for #AlzheimersDisease pathologies? Ziqi Tang’s paper, code, AND data are open to everyone - let us know what you d...
Advanced Topics in #DeepLearning for Biological Sciences (BMI 219)
This year’s “Advanced Topics in #DeepLearning for Biological Sciences (BMI 219) “ course starts Monday morning! Looking forward to Dr. Nobuyuki Ota’s third y...
Training computers to think more like scientists
Two School scientists recently showed how to train computers to think more like scientists. #MachineLearning
Study with John Irwin (UCSF) makes JCIM’s most-read-of-2018
Predicted #Biological Activity of Purchasable #Chemical Space @teaguesterling #Most_read_Year
Leo Gendelev takes home the #TitanV poster prize
Our very own Leo Gendelev takes home the #TitanV poster prize at today’s #UCSF #DeepLearning in #Biomedicine Symposium (https://buff.ly/2F5RjQk)! Big thanks ...
Lab receives CZI Ben Barres Early Career Acceleration Award
Extremely honored to join the #Neurodegeneration Challenge Network as a @cziscience Ben Barres Investigator! We’re working to decode how promising drug-like ...
In the Pipeline – Machine Learning: Be Careful What You Ask For
Great to see Kangway’s piece taken up by today’s In the Pipeline! #drugdiscovery #MachineLearning #ML #Chemistry #DataScience https://t.co/c1ddLZZFyJ
#ml & #deeplearning can almost always find patterns in data
#ml & #deeplearning can almost always find patterns in data. But how often is this scientifically meaningful? We argue that a framework of strong hypothe...
Our #datascience intern Jizhou Yang is looking for a summer internship!
Our #datascience intern Jizhou Yang (https://buff.ly/2GN6ZXf), master’s #computerscience in progress, is looking for a summer internship! #bioinformatics inc...
Today’s #psb18 workshop on explainability in #ML …
Today’s #psb18 workshop on explainability in #ML and #DataScience revisits Platt’s method of Strong Inference from 1964 http://bit.ly/2lQkIDy
Extensive new examples & awesome docs #E3FP
Extensive new examples & awesome docs from @sdaxen for those who’d like to give 3D molecular fingerprints a shot! #E3FP #E3FP docs are live at https:/...
Awesome new ideas & connections @ HHMI #Gilliam2017
Awesome new ideas & connections @ HHMI #Gilliam2017 poster session. #ScienceCultureCommunity
The @fraser_lab Method of Following the Scientific Literature
The @fraser_lab Method of Following the Scientific Literature http://bit.ly/2wJaslH: For the au courant literateur.
3d conformer fingerprint calculation using #RDKit
3d conformer fingerprint calculation using #RDKit http://bit.ly/2w8fMNs. Awesome to see #E3FP in the wild! @sdaxen
RT @sdaxen: Open source software available
Open source software available at http://github.com/keiserlab/e3fp and all code to reproduce the work at http://github.com/keiserlab/e3fp-paper #E3FP ...
RT @sdaxen: Our just accepted @JMedChem paper on #E3FP was recommended on @F1000Prime
Our just accepted @JMedChem paper on #E3FP was recommended on @F1000Prime https://facultyopinions.com/prime/727824514?bd=1 @keiserlab @zenbrainest — Se...
RT @UCSFCancer: Big thanks to @UCSFCancer for supporting this #melanoma project
Big thanks to @UCSFCancer for supporting this #melanoma project. Excited to get rolling! #deeplearning #machinelearning #dl #ml Tough decision but the 201...
RT @sdaxen: Our paper on #E3FP is available on @biorxivpreprint
Our paper on #E3FP is available on @biorxivpreprint http://biorxiv.org/content/early/2017/05/13/136705 @keiser_lab @zenbrainest — Seth Axen (@sdaxen), ...
RT @bioRxiv: Evolutionarily Conserved Roles For Blood-Brain Barrier Xenobiotic Transporters …
Evolutionarily Conserved Roles For Blood-Brain Barrier Xenobiotic Transporters In Endogenous Steroid … https://www.biorxiv.org/content/10.1101/131698v1 #b...
awards
Lab receives CZI Ben Barres Early Career Acceleration Award
Extremely honored to join the #Neurodegeneration Challenge Network as a @cziscience Ben Barres Investigator! We’re working to decode how promising drug-like ...
@UCSFCancer Impact Grant awarded
We’re excited to be a recipient of the 2017 UCSF HDFCCC Impact Grant! Working with Drs. Maria Wei, MD, PhD and Rob Judson, PhD, the project’s goal is to use ...
RT @UCSFCancer: Big thanks to @UCSFCancer for supporting this #melanoma project
Big thanks to @UCSFCancer for supporting this #melanoma project. Excited to get rolling! #deeplearning #machinelearning #dl #ml Tough decision but the 201...
Leo, Garrett, and Elena receive graduate fellowships
Leo, Garrett, and Elena knock it out of the park. In a record summer (hereafter to be known for far more than what some sources dub a ‘shocking’ Game of Thro...
Elena receives NSF GFRP Fellowship
Congratulations to Elena on being selected for a 2016 NSF GRFP fellowship! Opportunely, we were able to memorialize the occasion today with a double celebrat...
Garrett named Hillblom Fellow
Congratulations to Garrett on being awarded a 2015 Graduate Student Fellowship from the Hillblom Center for the Biology of Aging! He will be determining new ...
Lab receives Paul G. Allen Family Foundation Award
Our lab has been selected by the Paul G. Allen Family Foundation’s Allen Distinguished Investigator (ADI) Program to investigate the fundamental cellular bio...
Lab receives Glenn Foundation Award
Our lab was selected this year for a Glenn Award. These awards were initiated in 2007 to provide unsolicited funds to researchers investigating the biology o...
deep learning
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
AI across biological scales at the QBI-Institut Curie symposium
UCSF’s Quantitative Biosciences Institute and Institut Curie co-hosted a week of symposia on AI across biological scales, bringing together researchers from ...
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
neuropathology
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
AI across biological scales at the QBI-Institut Curie symposium
UCSF’s Quantitative Biosciences Institute and Institut Curie co-hosted a week of symposia on AI across biological scales, bringing together researchers from ...
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
papers
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
AI
The lab wraps up eleven years at UCSF
The Keiser Lab wraps up eleven years at UCSF. Thank you to every lab member, and to the colleagues and friends across UCSF who made it all possible. It’s bee...
AI across biological scales at the QBI-Institut Curie symposium
UCSF’s Quantitative Biosciences Institute and Institut Curie co-hosted a week of symposia on AI across biological scales, bringing together researchers from ...
drug discovery
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
AI across biological scales at the QBI-Institut Curie symposium
UCSF’s Quantitative Biosciences Institute and Institut Curie co-hosted a week of symposia on AI across biological scales, bringing together researchers from ...
UCSF
Four lab PhD candidates graduate
Congratulations to recent lab graduates and the UCSF colleagues who co-mentored them to their PhDs and beyond:
The lab wraps up eleven years at UCSF
The Keiser Lab wraps up eleven years at UCSF. Thank you to every lab member, and to the colleagues and friends across UCSF who made it all possible. It’s bee...
blm
Black Lives Matter
As a lab we are deeply disturbed by the killings of George Floyd, Breonna Taylor, Ahmaud Arbery, Tony McDade, and many more. Recent events throughout the US ...
BlackInTheIvory
Black Lives Matter
As a lab we are deeply disturbed by the killings of George Floyd, Breonna Taylor, Ahmaud Arbery, Tony McDade, and many more. Recent events throughout the US ...
ShutDownSTEM
Black Lives Matter
As a lab we are deeply disturbed by the killings of George Floyd, Breonna Taylor, Ahmaud Arbery, Tony McDade, and many more. Recent events throughout the US ...
MahsaAmini
Statement of solidarity and support for Iranian civilians
Widespread protests in Iran have been sparked by the brutal murder of Mahsa Amini by the regime’s “morality” police, for not wearing hijab compliant clothing...
FreeIran
Statement of solidarity and support for Iranian civilians
Widespread protests in Iran have been sparked by the brutal murder of Mahsa Amini by the regime’s “morality” police, for not wearing hijab compliant clothing...
IranProtests
Statement of solidarity and support for Iranian civilians
Widespread protests in Iran have been sparked by the brutal murder of Mahsa Amini by the regime’s “morality” police, for not wearing hijab compliant clothing...
generative models
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
diffusion models
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
genomics
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
molecular design
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
CVPR
Generative AI for molecular design, decoding 3D genome folding, and a CVPR invited talk
Autoregressive fragment-based diffusion for pocket-aware ligand design. NeurIPS GenBio Workshop (2023). Mahdi developed AutoFragDiff, a diffusion model th...
symposium
AI across biological scales at the QBI-Institut Curie symposium
UCSF’s Quantitative Biosciences Institute and Institut Curie co-hosted a week of symposia on AI across biological scales, bringing together researchers from ...
enzyme evolution
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
zebrafish
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
molecular docking
We developed AI to find new drugs, read pathology slides, and map enzyme evolution
Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape. Science (2025). Duncan and the Pinney Lab used microfluidics to measure...
machine learning
The lab wraps up eleven years at UCSF
The Keiser Lab wraps up eleven years at UCSF. Thank you to every lab member, and to the colleagues and friends across UCSF who made it all possible. It’s bee...
PhD
Four lab PhD candidates graduate
Congratulations to recent lab graduates and the UCSF colleagues who co-mentored them to their PhDs and beyond:
graduations
Four lab PhD candidates graduate
Congratulations to recent lab graduates and the UCSF colleagues who co-mentored them to their PhDs and beyond: