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Ajit Johnson Nirmal

@ajitjohnson.com
3.6K followers 2.4K following 42 posts

Assistant Professor @harvard • Tumor Microenvironment | Spatial Biology | Computational | Multimodal Data Integration • PI at @nirmallab.com

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Ajit Johnson Nirmal @ajitjohnson.com · 20/06/2025
Honored to receive the 2025 Google Scholar Award 🏆 — this support will help advance our ongoing efforts in AI, spatial biomarkers, and histopathology!
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Ajit Johnson Nirmal @ajitjohnson.com · 05/05/2025
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
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Reposted by Ajit Johnson Nirmal
Bruce Levine, Ph.D. 🇺🇦 @bllphd.bsky.social · 12/03/2025
Burning the seeds of innovation and drug development, #NIH cuts hit young scientists hardest timmermanreport.com/2025/03/davi...
timmermanreport.com
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...
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Ajit Johnson Nirmal @ajitjohnson.com · 09/01/2025
🧵3/3 Are there alternatives to S10 grant for acquiring equipments?
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Ajit Johnson Nirmal @ajitjohnson.com · 09/01/2025
🧵2/3 For large-scale experiments, one can often book core facility equipment, even if it requires planning months in advance due to high demand. However, for day-to-day tasks like troubleshooting or assay development, where frequent and short-term access is needed, how do people handle this?
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Ajit Johnson Nirmal @ajitjohnson.com · 09/01/2025
🧵1/3 I’m curious about how researchers, particularly new investigators, manage when they lack access to specialized equipment in their lab.
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Ajit Johnson Nirmal @ajitjohnson.com · 31/12/2024
Happy New Year 🎉
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Ajit Johnson Nirmal @ajitjohnson.com · 25/12/2024
Happy Holidays Everybody ☃️
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Ajit Johnson Nirmal @ajitjohnson.com · 16/12/2024
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...
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Reposted by Ajit Johnson Nirmal
The Nirmal Lab (Harvard + MGB) @nirmallab.com · 13/12/2024
Had a wonderful time at our department Christmas party! @ermakov-mikhail.bsky.social @tylerjost.bsky.social @ajitjohnson.com
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Ajit Johnson Nirmal @ajitjohnson.com · 09/12/2024
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...
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Ajit Johnson Nirmal @ajitjohnson.com · 05/12/2024
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!
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Ajit Johnson Nirmal @ajitjohnson.com · 28/11/2024
🎯
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
P.S- Unsupervised clustering does not solve the issue.
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
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 🧪
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
done :)
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
Wohooo 🎉🎉
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
could you please add me
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
could you please add me
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
could you please add me
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
could you please add me
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
could you please add me
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Ajit Johnson Nirmal @ajitjohnson.com · 21/11/2024
could you please add me
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Ajit Johnson Nirmal @ajitjohnson.com · 19/11/2024
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.
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Ajit Johnson Nirmal @ajitjohnson.com · 19/11/2024
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
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Ajit Johnson Nirmal @ajitjohnson.com · 19/11/2024
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
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
i would love to be added
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
i would love to be added
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
i would love to be added.
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
please add me too.
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
please add me too.
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
would love to be added.
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
Its ability to distinguish immune cell subtypes like tumor-infiltrating lymphocytes is a significant step towards enhancing standard pathology practices. www.biorxiv.org/content/10.1...
biorxiv.org
ROSIE: AI generation of multiplex immunofluorescence staining from histopathology images
Hematoxylin and eosin (H&E) is a common and inexpensive histopathology assay. Though widely used and information-rich, it cannot directly inform about specific molecular markers, which require additio...
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
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.🧪
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
Would love to be part of this community
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
Would love to be part of this community
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
This interaction forms a robust prognostic signature, highlighting the crucial role of stromal-epithelial crosstalk in cancer progression. www.cell.com/cell/fulltex...
cell.com
Multiparameter imaging reveals clinically relevant cancer cell-stroma interaction dynamics in head and neck cancer
An image analysis pipeline that integrates cell-state and morphological markers identifies clinically relevant tumor phenotypes and cell-state-dependent interplay between tumor and stroma that drives ...
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Ajit Johnson Nirmal @ajitjohnson.com · 18/11/2024
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. 🧪
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Ajit Johnson Nirmal @ajitjohnson.com · 17/11/2024
More #spatialbiology go.bsky.app/AE8csH9
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Ajit Johnson Nirmal @ajitjohnson.com · 17/11/2024
I would love to be part of the community
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Ajit Johnson Nirmal @ajitjohnson.com · 17/11/2024
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!
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Reposted by Ajit Johnson Nirmal
Molly White @molly.wiki · 11/11/2024
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.
Sky Follower Bridge
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Ajit Johnson Nirmal @ajitjohnson.com · 17/11/2024
✨ 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
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Ajit Johnson Nirmal @ajitjohnson.com · 17/11/2024
Let’s create a community for #spatialbiology - Let’s add to this list. go.bsky.app/AE8csH9
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Ajit Johnson Nirmal @ajitjohnson.com · 17/11/2024
I would like to follow people who are working in #cancer #spatialbiology and #computationalbiology. Please connect!!
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