Ajit Johnson Nirmal
@ajitjohnson.com
Assistant Professor @harvard • Tumor Microenvironment | Spatial Biology | Computational | Multimodal Data Integration • PI at @nirmallab.com
Honored to receive the 2025 Google Scholar Award 🏆 — this support will help advance our ongoing efforts in AI, spatial biomarkers, and histopathology!
June 20, 2025 at 12:39 PM
Honored to receive the 2025 Google Scholar Award 🏆 — this support will help advance our ongoing efforts in AI, spatial biomarkers, and histopathology!
How can we bridge observational spatial biology with functional characterization—bringing together experts in spatial, systems, and synthetic biology!
Join NCI for virtual workshops on May 13, 15, & 20 (12:00–4:30 PM ET) 📅 Register: events.cancer.gov/nci/syntheti... #SynSysBio4SpatialCancerResearch
Join NCI for virtual workshops on May 13, 15, & 20 (12:00–4:30 PM ET) 📅 Register: events.cancer.gov/nci/syntheti... #SynSysBio4SpatialCancerResearch
May 5, 2025 at 12:50 PM
How can we bridge observational spatial biology with functional characterization—bringing together experts in spatial, systems, and synthetic biology!
Join NCI for virtual workshops on May 13, 15, & 20 (12:00–4:30 PM ET) 📅 Register: events.cancer.gov/nci/syntheti... #SynSysBio4SpatialCancerResearch
Join NCI for virtual workshops on May 13, 15, & 20 (12:00–4:30 PM ET) 📅 Register: events.cancer.gov/nci/syntheti... #SynSysBio4SpatialCancerResearch
Reposted by Ajit Johnson Nirmal
Burning the seeds of innovation and drug development, #NIH cuts hit young scientists hardest timmermanreport.com/2025/03/davi...
NIH Cuts Hit Young Scientists the Hardest - TimmermanReport.com
[Editor’s note: David Baker gave this speech to Seattle community leaders Mar. 10, at a celebration of his 2024 Nobel Prize in Chemistry.] Let me just briefly tell you how innovation arises in biomedi...
timmermanreport.com
March 12, 2025 at 4:28 PM
Burning the seeds of innovation and drug development, #NIH cuts hit young scientists hardest timmermanreport.com/2025/03/davi...
🧵1/3 I’m curious about how researchers, particularly new investigators, manage when they lack access to specialized equipment in their lab.
January 9, 2025 at 12:34 AM
🧵1/3 I’m curious about how researchers, particularly new investigators, manage when they lack access to specialized equipment in their lab.
Happy New Year 🎉
December 31, 2024 at 10:14 PM
Happy New Year 🎉
Happy Holidays Everybody ☃️
December 25, 2024 at 3:09 AM
Happy Holidays Everybody ☃️
PathOmCLIP: Connecting tumor histology with spatial gene expression via locally enhanced contrastive learning of Pathology and Single-cell foundation model.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
December 16, 2024 at 4:09 PM
PathOmCLIP: Connecting tumor histology with spatial gene expression via locally enhanced contrastive learning of Pathology and Single-cell foundation model.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Ajit Johnson Nirmal
Had a wonderful time at our department Christmas party! @ermakov-mikhail.bsky.social @tylerjost.bsky.social @ajitjohnson.com
December 13, 2024 at 1:36 PM
Had a wonderful time at our department Christmas party! @ermakov-mikhail.bsky.social @tylerjost.bsky.social @ajitjohnson.com
Vision foundation models for microscopy from Lundberg lab - first proteome-wide hierarchical map of proteome organization that is learned from image data. #science 🧪
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
December 9, 2024 at 6:15 PM
Vision foundation models for microscopy from Lundberg lab - first proteome-wide hierarchical map of proteome organization that is learned from image data. #science 🧪
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
It was a pleasure delivering the Altschul Visiting Lectureship at the University of Saskatchewan, Canada. I thoroughly enjoyed discussing spatial biology, cancer research, and career paths with the students. Many thanks to @Anand Krishnan and colleagues for the kind invitation!
December 5, 2024 at 10:34 PM
It was a pleasure delivering the Altschul Visiting Lectureship at the University of Saskatchewan, Canada. I thoroughly enjoyed discussing spatial biology, cancer research, and career paths with the students. Many thanks to @Anand Krishnan and colleagues for the kind invitation!
No matter how you distinguish background from foreground in multiplexed imaging, always verify visually. Errors are surprisingly common, even in published papers. This is especially critical when using publicly available image derived data without access to the actual images. #spatialbiology 🧪
🚀✨Exciting update for #scimap users!🚀
We've supercharged #visualgating with:
🖼️ Memory optimization for huge images
🔗 Seamless Napari component linking
⏱️ Fewer clicks = faster, smoother gating
Get ready for a speed boost to your workflows! ⚡🙌
scimap.xyz/Functions/pl...
#imaging #spatialbiology 🧪
We've supercharged #visualgating with:
🖼️ Memory optimization for huge images
🔗 Seamless Napari component linking
⏱️ Fewer clicks = faster, smoother gating
Get ready for a speed boost to your workflows! ⚡🙌
scimap.xyz/Functions/pl...
#imaging #spatialbiology 🧪
November 21, 2024 at 1:57 PM
No matter how you distinguish background from foreground in multiplexed imaging, always verify visually. Errors are surprisingly common, even in published papers. This is especially critical when using publicly available image derived data without access to the actual images. #spatialbiology 🧪
Fun fact: Apparently here's the image from a presentation @jay.bsky.team gave to Twitter, representing the Twitter bird freed from a closed platform to fly in Bluesky's open ecosystem.
November 19, 2024 at 8:22 PM
Fun fact: Apparently here's the image from a presentation @jay.bsky.team gave to Twitter, representing the Twitter bird freed from a closed platform to fly in Bluesky's open ecosystem.
May I ask what’s the price for running 10X Flex single cell sequencing at your institutions core facility? (Excluding the sequencing cost)? #singlecell #transcriptomics
November 19, 2024 at 3:21 PM
May I ask what’s the price for running 10X Flex single cell sequencing at your institutions core facility? (Excluding the sequencing cost)? #singlecell #transcriptomics
DeepCellTypes from Van Valen Lab, a new language-informed vision model, leverages the power of AI to accurately identify cell types in spatial proteomics data across diverse datasets and imaging platforms. 🧪https://www.biorxiv.org/content/10.1101/2024.11.02.621624v2.full.pdf+html
November 19, 2024 at 1:55 PM
DeepCellTypes from Van Valen Lab, a new language-informed vision model, leverages the power of AI to accurately identify cell types in spatial proteomics data across diverse datasets and imaging platforms. 🧪https://www.biorxiv.org/content/10.1101/2024.11.02.621624v2.full.pdf+html
ROSIE by Wu et al. is one of the promising advancements in the field, using AI to predict multiplex protein biomarkers from H&E images.🧪
November 18, 2024 at 1:32 PM
ROSIE by Wu et al. is one of the promising advancements in the field, using AI to predict multiplex protein biomarkers from H&E images.🧪
Wonderful work by Punovuori et al.—They demonstrate that the interplay between partial EMT states and cancer-associated fibroblasts significantly enhances tumor aggressiveness in head and neck squamous cell carcinoma. 🧪
November 18, 2024 at 12:11 AM
Wonderful work by Punovuori et al.—They demonstrate that the interplay between partial EMT states and cancer-associated fibroblasts significantly enhances tumor aggressiveness in head and neck squamous cell carcinoma. 🧪
I just learned that BlueSky was developed by Jack Dorsey, the founder of #Twitter. It started as a project to create a decentralized version of Twitter itself—no wonder it feels so similar to the early days of Twitter!
November 17, 2024 at 5:54 PM
I just learned that BlueSky was developed by Jack Dorsey, the founder of #Twitter. It started as a project to create a decentralized version of Twitter itself—no wonder it feels so similar to the early days of Twitter!
Reposted by Ajit Johnson Nirmal
if you’re trying to find the people you follow on twitter, check out @kawamataryo.bsky.social’s www.sky-follower-bridge.dev
it found a full 1/3 of the people i follow. impressive work by the developer, but also impressive to see that that many twitter people are setting up here.
it found a full 1/3 of the people i follow. impressive work by the developer, but also impressive to see that that many twitter people are setting up here.
November 11, 2024 at 3:44 PM
if you’re trying to find the people you follow on twitter, check out @kawamataryo.bsky.social’s www.sky-follower-bridge.dev
it found a full 1/3 of the people i follow. impressive work by the developer, but also impressive to see that that many twitter people are setting up here.
it found a full 1/3 of the people i follow. impressive work by the developer, but also impressive to see that that many twitter people are setting up here.
✨ Let’s get creative! ✨ Here’s a fun experiment:
Ask ChatGPT, “Based on what you know of me, draw a picture of what you think my life currently looks like.”
Then, comment your result below! Let’s see how our lives get reimagined in unique and unexpected ways—let’s start a conversation! #research
Ask ChatGPT, “Based on what you know of me, draw a picture of what you think my life currently looks like.”
Then, comment your result below! Let’s see how our lives get reimagined in unique and unexpected ways—let’s start a conversation! #research
November 17, 2024 at 2:04 PM
✨ Let’s get creative! ✨ Here’s a fun experiment:
Ask ChatGPT, “Based on what you know of me, draw a picture of what you think my life currently looks like.”
Then, comment your result below! Let’s see how our lives get reimagined in unique and unexpected ways—let’s start a conversation! #research
Ask ChatGPT, “Based on what you know of me, draw a picture of what you think my life currently looks like.”
Then, comment your result below! Let’s see how our lives get reimagined in unique and unexpected ways—let’s start a conversation! #research
November 17, 2024 at 2:46 AM
I would like to follow people who are working in #cancer #spatialbiology and #computationalbiology. Please connect!!
November 17, 2024 at 2:14 AM
I would like to follow people who are working in #cancer #spatialbiology and #computationalbiology. Please connect!!