Video yükleniyor...

Video Yüklenemedi

Ana Sayfaya Dön

I'm prototyping a little tool for interactively visualizing the near-nearest neighbor network in single-cell RNA-seq. Clicking a cell triggers a wave, revealing its nearest neighbors, then their neighbors, and so forth. Data: 10k PBMCs from a Healthy Donor (v3), 10x Genomics

BradKrajina's profile picture

Brad Krajina

1,784 subscribers

36,019 görüntüleme • 1 yıl önce •via X (Twitter)

Sağlık & İyilikBilim & TeknolojiEğitim
LIVE

Anya Rossi• Live Now

Private livecam show

11 Yorum

Brad Krajina profil fotoğrafı
Brad Krajina1 yıl önce

This visualization was made in TypeScript with PixiJS and captured in real-time in a browser.

PDF GPT profil fotoğrafı
PDF GPT1 yıl önce

This is my favorite AI tool for reviewing reports. Just upload a report, ask for a summary, and get one in seconds. It's like ChatGPT, but built for documents. Try it for free.

Thomas Czerniawski profil fotoğrafı
Thomas Czerniawski1 yıl önce

So exciting to see new ways to poke and prod at higher dimensions

Brad Krajina profil fotoğrafı
Brad Krajina1 yıl önce

Thanks Thomas! With the scale and dimensionality of the data we're dealing with today, I think there is so much room for re-thinking the way that we interface it.

Garry P. Nolan profil fotoğrafı
Garry P. Nolan1 yıl önce

Fantastic!

⌬Michel Rickhaus profil fotoğrafı
⌬Michel Rickhaus1 yıl önce

Gorgeous!

Brad Krajina profil fotoğrafı
Brad Krajina1 yıl önce

Thank you!

Jeffrey West profil fotoğrafı
Jeffrey West1 yıl önce

this is cool!

Brad Krajina profil fotoğrafı
Brad Krajina1 yıl önce

Thanks Jeffrey!

Curtis profil fotoğrafı
Curtis1 yıl önce

This is really cool!!

Brad Krajina profil fotoğrafı
Brad Krajina1 yıl önce

Thanks Curtis!

Benzer Videolar

I'm creating 3D tours of open single cell RNA-seq data in UMAP space. Here, using data from 50k brain cells by the allen institute . ( The UMAP position and class of every cell is read into Blender, realized as a stylized, class-specific model I sculpted
1:06

I'm creating 3D tours of open single cell RNA-seq data in UMAP space. Here, using data from 50k brain cells by the allen institute . ( The UMAP position and class of every cell is read into Blender, realized as a stylized, class-specific model I sculpted

Brad Krajina

48,127 görüntüleme • 3 yıl önce

Select your cell: I'm prototyping an interactive sc RNA-seq portal where the UMAP is dynamically linked to morphing 3D artistic renders of each cell type. You can play with the initial build below.
0:36

Select your cell: I'm prototyping an interactive sc RNA-seq portal where the UMAP is dynamically linked to morphing 3D artistic renders of each cell type. You can play with the initial build below.

Brad Krajina

51,200 görüntüleme • 10 ay önce

There are no stationary objects in the Universe! Even Solar System is moving not only around the center of the Galaxy but also relative to its nearest stellar neighbors. In this video, we show you this motion and what it looks like from the nearest stars 🌟
0:33

There are no stationary objects in the Universe! Even Solar System is moving not only around the center of the Galaxy but also relative to its nearest stellar neighbors. In this video, we show you this motion and what it looks like from the nearest stars 🌟

Star Walk

958,833 görüntüleme • 3 yıl önce

his quirk: cell activation really a healing quirk? bodies recover by cell division... and his quick triggers the cell division the number of times a cell can diving in the human body is fixed so if he did ended up becoming a pro and started 'healing' people he would practically be shrinking the lifespan of his patients?
0:47

his quirk: cell activation really a healing quirk? bodies recover by cell division... and his quick triggers the cell division the number of times a cell can diving in the human body is fixed so if he did ended up becoming a pro and started 'healing' people he would practically be shrinking the lifespan of his patients?

weeb sama

508,410 görüntüleme • 6 ay önce

New preprint! So excited to present CHOIR, a new clustering method for single-cell data that evaluates whether clusters represent statistically distinct cell populations. CHOIR works with both single- and multi-omic data of any type. Check it out!
1:41

New preprint! So excited to present CHOIR, a new clustering method for single-cell data that evaluates whether clusters represent statistically distinct cell populations. CHOIR works with both single- and multi-omic data of any type. Check it out!

Cathrine Sant

73,995 görüntüleme • 2 yıl önce

A wave inside a cell
0:20

A wave inside a cell

Massimo

26,671 görüntüleme • 1 yıl önce

How a salamander develops from a single cell
0:35

How a salamander develops from a single cell

Historic Vids

504,195 görüntüleme • 1 yıl önce

How a salamander develops from a single cell
0:36

How a salamander develops from a single cell

Interesting As Fuck

661,393 görüntüleme • 1 yıl önce

Nashville neighbors stopped ICE from deporting a man and his son. The neighbors made a human chain with their bodies so the man and his son could run into their home. 👊👍💪
0:32

Nashville neighbors stopped ICE from deporting a man and his son. The neighbors made a human chain with their bodies so the man and his son could run into their home. 👊👍💪

Suzie rizzio

781,773 görüntüleme • 1 yıl önce

the process of mitosis, a type of cell division where a single cell divides to produce two identical cells, essential for growth and repair in multicellular organisms.
0:29

the process of mitosis, a type of cell division where a single cell divides to produce two identical cells, essential for growth and repair in multicellular organisms.

Science girl

43,666 görüntüleme • 1 yıl önce

Single-cell RNA-seq transformed biology, but we still sample <0.001% of an organism. 2D sections lose 3D context. What if we image the whole body first? We Introduce DISCO-seq🤩: full 3D imaging then scRNAseq👇🏻 by Harsharan Bhatia, Laurent Simons et al.
0:51

Single-cell RNA-seq transformed biology, but we still sample <0.001% of an organism. 2D sections lose 3D context. What if we image the whole body first? We Introduce DISCO-seq🤩: full 3D imaging then scRNAseq👇🏻 by Harsharan Bhatia, Laurent Simons et al.

Ali Max Erturk

24,126 görüntüleme • 1 ay önce

🔄️ Dan needs our help - please share! 🔄️ Dan urgently needs a stem cell transplant, but tragically has no matching stem cell donor. 💔 Please SHARE this video and REGISTER as a stem cell donor at to help find his hero.
1:03

🔄️ Dan needs our help - please share! 🔄️ Dan urgently needs a stem cell transplant, but tragically has no matching stem cell donor. 💔 Please SHARE this video and REGISTER as a stem cell donor at to help find his hero.

DKMS UK | We Delete Blood Cancer

34,009 görüntüleme • 11 ay önce

The #Eritrean people will not have freedom and Eritrea's neighbors won't have peace until #Eritrea has a democratic govt instead of one that oppresses its citizens and neighbors. The U.S. must support the Eritrean people in their fight for a free Eritrea.
1:59

The #Eritrean people will not have freedom and Eritrea's neighbors won't have peace until #Eritrea has a democratic govt instead of one that oppresses its citizens and neighbors. The U.S. must support the Eritrean people in their fight for a free Eritrea.

Congressman Brad Sherman

181,731 görüntüleme • 1 yıl önce

Sometimes I need my people to get out the kitchen & go to the nearest jail cell
2:09

Sensitive content

Sometimes I need my people to get out the kitchen & go to the nearest jail cell

Ichigo Niggasake

293,688 görüntüleme • 7 ay önce

They were so worried about their neighbor, they noticed his usual routine was off and called for a welfare check… he truly has the sweetest neighbors 🥹❤️
2:08

They were so worried about their neighbor, they noticed his usual routine was off and called for a welfare check… he truly has the sweetest neighbors 🥹❤️

Wholesome Side of 𝕏

170,910 görüntüleme • 2 ay önce

CHOIR is now online Nature Genetics! CHOIR is a new clustering method for single-cell data that evaluates whether clusters represent statistically distinct cell populations. CHOIR scales to millions of cells and works with single-/multi-omic data of any type!
1:42

CHOIR is now online Nature Genetics! CHOIR is a new clustering method for single-cell data that evaluates whether clusters represent statistically distinct cell populations. CHOIR scales to millions of cells and works with single-/multi-omic data of any type!

Cathrine Sant

55,013 görüntüleme • 1 yıl önce

You guys ready for some HOT Cell on Cell action? Heres a little Sneak Peek to Perfect Cell Vs Perfect Cell Ft. Takahata, Lani, Stephan Krosecz and Souljen
0:33

You guys ready for some HOT Cell on Cell action? Heres a little Sneak Peek to Perfect Cell Vs Perfect Cell Ft. Takahata, Lani, Stephan Krosecz and Souljen

Devil Artemis Animation

339,543 görüntüleme • 1 yıl önce

🔬 Exciting News! Our manuscript, "scGPT: toward building a foundation model for single-cell multi-omics using generative AI" is now finally published in Nature Methods (Nature Methods) 🎉 !!! (Re-)Introducing scGPT: A transformative foundation model engineered for single-cell omics analysis. Developed through the analysis of over 33 million human cells, scGPT sets a new benchmark for application versatility, offering both fine-tuning and zero-shot capabilities. Since its preprint in May 2023, scGPT has significantly impacted the field, evidenced by 13K+ installations, 600+ GitHub stars 🌟, and 40+ citations before its official publication! scGPT has been validated by numerous benchmark studies as a leading foundation model in single-cell analysis. Its pre-trained embeddings extend its utility beyond single-cell studies, enhancing a variety of downstream tasks including protein enrichment and genetic perturbation predictions. Some key updates lately: ---Expanded zero-shot applications for efficient reference mapping and integration, now with CellXGene census integration. ---Advanced perturbation analysis capabilities, including genome-scale perturb-seq data analysis and bulk sequencing data generalization. ---Upgraded scGPT package, offering versatile model loading compatible with PyTorch and flash-attn, for both GPU and CPU. ---Cloud-based scGPT applications for reference mapping, cell annotation, and gene regulatory network inference are available on ---Integration with Hugging Face for easier model training. Limitations: scGPT is an early foray into foundation models for single-cell omics, facing challenges like limited zero-shot learning in some tasks, pretraining constraints, data quality issues, and evaluation limitations. See our Supplementary Notes for details. 🚀 Future Work? Short-Term Goals: 1. Releasing a Mouse Model for broader analysis. 2. Developing a comprehensive evaluation suite for foundation models in single-cell analysis. 3. Creating a foundation model for single-cell spatial omics. 4. Enhancing zero-shot capacity by integrating scGPT with RAG (e.g., knowledge graphs). Long-Term Goals: 1. Expanding scGPT for comprehensive single-cell multi-omics analysis. 2. Developing an in-silico perturbation model for predicting genetic perturbation effects. 3. Merging scGPT with multi-modal genomic sequence models for a deeper understanding of cell biology. 📚 Access the paper on Nature Methods: 🔬Preprint in Bioarixv: 💻 All our codes/data/weights are open source: Wholehearted congratulations to all the authors, especially the two co-first authors, Haotian (Haotian Cui ) and Chloe (ChloeXWang), who are really the emerging superstars in AI and biology! Vector Institute Peter Munk Cardiac Centre AI U of T Department of Computer Science Department of Laboratory Medicine & Pathobiology University Health Network University of Toronto #scGPT #GenerativeAI #AI4Science #Combio #opensource
0:52

🔬 Exciting News! Our manuscript, "scGPT: toward building a foundation model for single-cell multi-omics using generative AI" is now finally published in Nature Methods (Nature Methods) 🎉 !!! (Re-)Introducing scGPT: A transformative foundation model engineered for single-cell omics analysis. Developed through the analysis of over 33 million human cells, scGPT sets a new benchmark for application versatility, offering both fine-tuning and zero-shot capabilities. Since its preprint in May 2023, scGPT has significantly impacted the field, evidenced by 13K+ installations, 600+ GitHub stars 🌟, and 40+ citations before its official publication! scGPT has been validated by numerous benchmark studies as a leading foundation model in single-cell analysis. Its pre-trained embeddings extend its utility beyond single-cell studies, enhancing a variety of downstream tasks including protein enrichment and genetic perturbation predictions. Some key updates lately: ---Expanded zero-shot applications for efficient reference mapping and integration, now with CellXGene census integration. ---Advanced perturbation analysis capabilities, including genome-scale perturb-seq data analysis and bulk sequencing data generalization. ---Upgraded scGPT package, offering versatile model loading compatible with PyTorch and flash-attn, for both GPU and CPU. ---Cloud-based scGPT applications for reference mapping, cell annotation, and gene regulatory network inference are available on ---Integration with Hugging Face for easier model training. Limitations: scGPT is an early foray into foundation models for single-cell omics, facing challenges like limited zero-shot learning in some tasks, pretraining constraints, data quality issues, and evaluation limitations. See our Supplementary Notes for details. 🚀 Future Work? Short-Term Goals: 1. Releasing a Mouse Model for broader analysis. 2. Developing a comprehensive evaluation suite for foundation models in single-cell analysis. 3. Creating a foundation model for single-cell spatial omics. 4. Enhancing zero-shot capacity by integrating scGPT with RAG (e.g., knowledge graphs). Long-Term Goals: 1. Expanding scGPT for comprehensive single-cell multi-omics analysis. 2. Developing an in-silico perturbation model for predicting genetic perturbation effects. 3. Merging scGPT with multi-modal genomic sequence models for a deeper understanding of cell biology. 📚 Access the paper on Nature Methods: 🔬Preprint in Bioarixv: 💻 All our codes/data/weights are open source: Wholehearted congratulations to all the authors, especially the two co-first authors, Haotian (Haotian Cui ) and Chloe (ChloeXWang), who are really the emerging superstars in AI and biology! Vector Institute Peter Munk Cardiac Centre AI U of T Department of Computer Science Department of Laboratory Medicine & Pathobiology University Health Network University of Toronto #scGPT #GenerativeAI #AI4Science #Combio #opensource

Bo Wang

199,638 görüntüleme • 2 yıl önce

Water is 70–80% of a cell, with our mspSA + SGAG affinity grid, we capture a near atomic (<2 Å) view showing water actively driving gene transcription inside RNA Pol II. Not just background,water is part of the machinery. Now published in Molecular Cell.
1:44

Water is 70–80% of a cell, with our mspSA + SGAG affinity grid, we capture a near atomic (<2 Å) view showing water actively driving gene transcription inside RNA Pol II. Not just background,water is part of the machinery. Now published in Molecular Cell.

the Peijun Zhang Lab

10,217 görüntüleme • 1 ay önce

not a single brain cell in his head
0:23

not a single brain cell in his head

ava

57,594 görüntüleme • 10 ay önce