People use these CITEseq antibodies without titrating them!!!
October 25, 2025 at 4:49 PM
People use these CITEseq antibodies without titrating them!!!
Citeseq data acquired with the ImmGenT consortium (@immgen.bsky.social) and spatial transcriptomics acquired with the @alleninstitute.org, which allowed for the visualization of transcriptional programs expressed by CD4+ Trm across distance from the TLS to the airways. Even cooler...
October 10, 2025 at 7:22 PM
Citeseq data acquired with the ImmGenT consortium (@immgen.bsky.social) and spatial transcriptomics acquired with the @alleninstitute.org, which allowed for the visualization of transcriptional programs expressed by CD4+ Trm across distance from the TLS to the airways. Even cooler...
Our collaborators @rgottardo.bsky.social Peter Sims and Ken Stuart (and others) develop tool ADTNorm, a method of helping noisy CITE-seq data to be "normalized"
#antibody
#ImmuneSky
nature.com/articles/s41...
#CITEseq #SingleCell #ADTNorm
#antibody
#ImmuneSky
nature.com/articles/s41...
#CITEseq #SingleCell #ADTNorm
ADTnorm: robust integration of single-cell protein measurement across CITE-seq datasets - Nature Communications
Here the authors present a computational method that expands the potential of multimodal single-cell analyses by delivering an accurate, fast, and user-friendly approach for normalizing and comparing ...
nature.com
July 2, 2025 at 5:29 PM
Our collaborators @rgottardo.bsky.social Peter Sims and Ken Stuart (and others) develop tool ADTNorm, a method of helping noisy CITE-seq data to be "normalized"
#antibody
#ImmuneSky
nature.com/articles/s41...
#CITEseq #SingleCell #ADTNorm
#antibody
#ImmuneSky
nature.com/articles/s41...
#CITEseq #SingleCell #ADTNorm
hopefully you will get to avoid the special data processing hell that is CITEseq (even though it’s really cool)
January 21, 2025 at 11:38 PM
hopefully you will get to avoid the special data processing hell that is CITEseq (even though it’s really cool)
🌟The first report of GOLM1 protein-level profiling at single-cell resolution.🌟
Learn more about the Human Discovery Panel here: www.ptglab.com/products/Mul...
#Multiomics #SingleCell #BiomarkerDiscovery #CITEseq #HumanDiscoveryPanel
Learn more about the Human Discovery Panel here: www.ptglab.com/products/Mul...
#Multiomics #SingleCell #BiomarkerDiscovery #CITEseq #HumanDiscoveryPanel
June 6, 2025 at 10:37 AM
🌟The first report of GOLM1 protein-level profiling at single-cell resolution.🌟
Learn more about the Human Discovery Panel here: www.ptglab.com/products/Mul...
#Multiomics #SingleCell #BiomarkerDiscovery #CITEseq #HumanDiscoveryPanel
Learn more about the Human Discovery Panel here: www.ptglab.com/products/Mul...
#Multiomics #SingleCell #BiomarkerDiscovery #CITEseq #HumanDiscoveryPanel
Excited to share my Co-First author paper describing ICI landscape of human atherosclerosis plaque &CCR7+ FSCN1+ DCs as crucial Immune-checkpoint-hub. @chiaragiannare1 @kathrynmoorelab@NYULH_DepofMed #Immunology#CyTOF #CITEseq #spatialproteomics #scRNAseq #atherosclerosis #ICIs #cancer rdcu.be/d1S6b
Immune checkpoint landscape of human atherosclerosis and influence of cardiometabolic factors
Nature Cardiovascular Research - Barcia Durán, Dayasagar, et al. map the expression of immune checkpoints in human atherosclerosis and examine the influence of lipid-lowering treatments and...
rdcu.be
February 4, 2025 at 4:15 PM
Excited to share my Co-First author paper describing ICI landscape of human atherosclerosis plaque &CCR7+ FSCN1+ DCs as crucial Immune-checkpoint-hub. @chiaragiannare1 @kathrynmoorelab@NYULH_DepofMed #Immunology#CyTOF #CITEseq #spatialproteomics #scRNAseq #atherosclerosis #ICIs #cancer rdcu.be/d1S6b
Multiomic Atlas of Human Tonsil
scRNAseq
scATACseq
CITEseq
#SpatialTranscriptomics #Visium
Marginal Reticular Cells, not fibroblastic reticular cells, are high in PDGFRβ, #FibrillarCollagen, Proteoglycan core proteins & DIO2
#Immunity 2024
www.cell.com/immunity/ful...
scRNAseq
scATACseq
CITEseq
#SpatialTranscriptomics #Visium
Marginal Reticular Cells, not fibroblastic reticular cells, are high in PDGFRβ, #FibrillarCollagen, Proteoglycan core proteins & DIO2
#Immunity 2024
www.cell.com/immunity/ful...
February 1, 2024 at 12:53 PM
Multiomic Atlas of Human Tonsil
scRNAseq
scATACseq
CITEseq
#SpatialTranscriptomics #Visium
Marginal Reticular Cells, not fibroblastic reticular cells, are high in PDGFRβ, #FibrillarCollagen, Proteoglycan core proteins & DIO2
#Immunity 2024
www.cell.com/immunity/ful...
scRNAseq
scATACseq
CITEseq
#SpatialTranscriptomics #Visium
Marginal Reticular Cells, not fibroblastic reticular cells, are high in PDGFRβ, #FibrillarCollagen, Proteoglycan core proteins & DIO2
#Immunity 2024
www.cell.com/immunity/ful...
We also want to do citeseq and sample multiplexing. No we don't have budget for test runs. LOAD THE CHIP, SHINJI, STOP CRYING.
September 20, 2025 at 5:46 AM
We also want to do citeseq and sample multiplexing. No we don't have budget for test runs. LOAD THE CHIP, SHINJI, STOP CRYING.
Yup... amazing work by @mssanjavickovic and co.. solid phase capture has soooo much potential. Resolution and capture method will be tuned and combined with other clever things like @NYGCtech ‘s CITEseq, cut and tag, etc, to address whtever question you work on. The future. https://t.co/a5N1LkIS7e
November 13, 2024 at 6:27 PM
Yup... amazing work by @mssanjavickovic and co.. solid phase capture has soooo much potential. Resolution and capture method will be tuned and combined with other clever things like @NYGCtech ‘s CITEseq, cut and tag, etc, to address whtever question you work on. The future. https://t.co/a5N1LkIS7e
(3/7) First, we followed up on our paradigm-shifting findings in @cellcellpress.bsky.social
(tinyurl.com/52u5fsfk) by diving deep into the age-unique platelet specification pathway (#megakaryopoiesis) using #CITEseq and a number of other approaches...
(tinyurl.com/52u5fsfk) by diving deep into the age-unique platelet specification pathway (#megakaryopoiesis) using #CITEseq and a number of other approaches...
December 4, 2024 at 8:19 PM
(3/7) First, we followed up on our paradigm-shifting findings in @cellcellpress.bsky.social
(tinyurl.com/52u5fsfk) by diving deep into the age-unique platelet specification pathway (#megakaryopoiesis) using #CITEseq and a number of other approaches...
(tinyurl.com/52u5fsfk) by diving deep into the age-unique platelet specification pathway (#megakaryopoiesis) using #CITEseq and a number of other approaches...
Want to visualize & create a website for your omics data (incld CITEseq, scATACseq, #SpatialTranscriptomics)?
Try ShinyCell2!😆
Compatible with data formats Seurat Signac ArchR Scanpy
vs cellxgene WebAtlas Vitessce
github.com/the-ouyang-l...
bioRxiv 2024
www.biorxiv.org/content/10.1...
Try ShinyCell2!😆
Compatible with data formats Seurat Signac ArchR Scanpy
vs cellxgene WebAtlas Vitessce
github.com/the-ouyang-l...
bioRxiv 2024
www.biorxiv.org/content/10.1...
May 5, 2025 at 6:50 PM
Want to visualize & create a website for your omics data (incld CITEseq, scATACseq, #SpatialTranscriptomics)?
Try ShinyCell2!😆
Compatible with data formats Seurat Signac ArchR Scanpy
vs cellxgene WebAtlas Vitessce
github.com/the-ouyang-l...
bioRxiv 2024
www.biorxiv.org/content/10.1...
Try ShinyCell2!😆
Compatible with data formats Seurat Signac ArchR Scanpy
vs cellxgene WebAtlas Vitessce
github.com/the-ouyang-l...
bioRxiv 2024
www.biorxiv.org/content/10.1...
Amazing new method that checks all the boxes from @mssanjavickovic and co! Automated processing of 96 samples in 2 days! ST + IF! ST + CITESEQ! I see here what the next couple years of my work looks like. https://www.biorxiv.org/content/10.1101/2020.10.14.338418v1
SM-Omics: An automated platform for high-throughput spati...
The spatial organization of cells and molecules plays a k...
www.biorxiv.org
November 14, 2024 at 7:03 AM
Amazing new method that checks all the boxes from @mssanjavickovic and co! Automated processing of 96 samples in 2 days! ST + IF! ST + CITESEQ! I see here what the next couple years of my work looks like. https://www.biorxiv.org/content/10.1101/2020.10.14.338418v1
I didn't see them really assigning a subset from adults as naive with high certainty in the first place (using CITEseq or ribosomal genes among others). Without that context, it's very hard to distinguish ET from mature naive from mature early TSCM/TCM in scRNAseq.
November 9, 2025 at 3:21 PM
I didn't see them really assigning a subset from adults as naive with high certainty in the first place (using CITEseq or ribosomal genes among others). Without that context, it's very hard to distinguish ET from mature naive from mature early TSCM/TCM in scRNAseq.
Jun 2024
First data release of ImmGenT!(cbdm.connect.hms.harvard.edu/ImmgenT/Publ...). Over 30 labs to profile every mouse T cell / location / state.
In collaboration with BioLegend. The dedicated browser is developed by Dania, Niket, and Brinda. #CITEseq #TCR-V #immgen #singleCell
First data release of ImmGenT!(cbdm.connect.hms.harvard.edu/ImmgenT/Publ...). Over 30 labs to profile every mouse T cell / location / state.
In collaboration with BioLegend. The dedicated browser is developed by Dania, Niket, and Brinda. #CITEseq #TCR-V #immgen #singleCell
February 18, 2025 at 6:40 PM
Jun 2024
First data release of ImmGenT!(cbdm.connect.hms.harvard.edu/ImmgenT/Publ...). Over 30 labs to profile every mouse T cell / location / state.
In collaboration with BioLegend. The dedicated browser is developed by Dania, Niket, and Brinda. #CITEseq #TCR-V #immgen #singleCell
First data release of ImmGenT!(cbdm.connect.hms.harvard.edu/ImmgenT/Publ...). Over 30 labs to profile every mouse T cell / location / state.
In collaboration with BioLegend. The dedicated browser is developed by Dania, Niket, and Brinda. #CITEseq #TCR-V #immgen #singleCell
Check out CITEseq cell hashing by @m_stoeckius if you want to get heaps more cells out of your @10xgenomics scRNAseq runs, or differentiate small cells from background noise #agta18
https://www.biorxiv.org/content/early/2017/12/21/237693
https://www.biorxiv.org/content/early/2017/12/21/237693
Cell “hashing” with barcoded antibodies enables multiplex...
Despite rapid developments in single cell sequencing tech...
www.biorxiv.org
December 3, 2024 at 7:36 PM
Check out CITEseq cell hashing by @m_stoeckius if you want to get heaps more cells out of your @10xgenomics scRNAseq runs, or differentiate small cells from background noise #agta18
https://www.biorxiv.org/content/early/2017/12/21/237693
https://www.biorxiv.org/content/early/2017/12/21/237693
We used mass and flow cytometry, scRNAseq with TCRseq/CITEseq coupled with machine learning to dig through the mountain of data and found that our new predictor was consistent in discovery and validation cohorts and across different modalities.
November 21, 2024 at 3:32 PM
We used mass and flow cytometry, scRNAseq with TCRseq/CITEseq coupled with machine learning to dig through the mountain of data and found that our new predictor was consistent in discovery and validation cohorts and across different modalities.
.@m_stoeckius from @nygenome kicking off the new tech session at #agta18 describing CITEseq: using antibodies with DNA barcodes to profile membrane bound proteins with single cell sequencing protocols
December 3, 2024 at 7:36 PM
.@m_stoeckius from @nygenome kicking off the new tech session at #agta18 describing CITEseq: using antibodies with DNA barcodes to profile membrane bound proteins with single cell sequencing protocols
Deep subclustering of #SmoothMuscleCell in👤🐭 #Atherosclerosis
Human: scRNAseq n=21 + CITEseq 274 antibodies n=6
Universal surface markers of👤SMC
CD49a/ITGA1 CD146/MCAM CD29/ITGB1 EGFR
CD90/Thy1⬆️ CD142/F3⬇️ in modulated SMC
#ATVB 2024 @ahajournals.bsky.social
www.ahajournals.org/doi/10.1161/...
Human: scRNAseq n=21 + CITEseq 274 antibodies n=6
Universal surface markers of👤SMC
CD49a/ITGA1 CD146/MCAM CD29/ITGB1 EGFR
CD90/Thy1⬆️ CD142/F3⬇️ in modulated SMC
#ATVB 2024 @ahajournals.bsky.social
www.ahajournals.org/doi/10.1161/...
September 9, 2025 at 11:18 AM
Deep subclustering of #SmoothMuscleCell in👤🐭 #Atherosclerosis
Human: scRNAseq n=21 + CITEseq 274 antibodies n=6
Universal surface markers of👤SMC
CD49a/ITGA1 CD146/MCAM CD29/ITGB1 EGFR
CD90/Thy1⬆️ CD142/F3⬇️ in modulated SMC
#ATVB 2024 @ahajournals.bsky.social
www.ahajournals.org/doi/10.1161/...
Human: scRNAseq n=21 + CITEseq 274 antibodies n=6
Universal surface markers of👤SMC
CD49a/ITGA1 CD146/MCAM CD29/ITGB1 EGFR
CD90/Thy1⬆️ CD142/F3⬇️ in modulated SMC
#ATVB 2024 @ahajournals.bsky.social
www.ahajournals.org/doi/10.1161/...
CITEseq used to barcode cells, a.k.a. cell hashing, enables 'superloading' via efficient doublet removal. That means same doublet rate for 20k cells than 4k cells without cell hashing.
December 3, 2024 at 7:52 PM
CITEseq used to barcode cells, a.k.a. cell hashing, enables 'superloading' via efficient doublet removal. That means same doublet rate for 20k cells than 4k cells without cell hashing.
🧬 New paper out!
🔗 www.nature.com/articles/s41...
Frustrated by noisy CITE-seq data?
ADTNorm helps normalize it and introduces a staining index to assess antibody quality.
Great work by former postdoc Ye Zheng. Supported by @hipcproject.bsky.social
#CITEseq #SingleCell #ADTNorm
🔗 www.nature.com/articles/s41...
Frustrated by noisy CITE-seq data?
ADTNorm helps normalize it and introduces a staining index to assess antibody quality.
Great work by former postdoc Ye Zheng. Supported by @hipcproject.bsky.social
#CITEseq #SingleCell #ADTNorm
ADTnorm: robust integration of single-cell protein measurement across CITE-seq datasets - Nature Communications
Here the authors present a computational method that expands the potential of multimodal single-cell analyses by delivering an accurate, fast, and user-friendly approach for normalizing and comparing ...
www.nature.com
July 1, 2025 at 1:49 PM
🧬 New paper out!
🔗 www.nature.com/articles/s41...
Frustrated by noisy CITE-seq data?
ADTNorm helps normalize it and introduces a staining index to assess antibody quality.
Great work by former postdoc Ye Zheng. Supported by @hipcproject.bsky.social
#CITEseq #SingleCell #ADTNorm
🔗 www.nature.com/articles/s41...
Frustrated by noisy CITE-seq data?
ADTNorm helps normalize it and introduces a staining index to assess antibody quality.
Great work by former postdoc Ye Zheng. Supported by @hipcproject.bsky.social
#CITEseq #SingleCell #ADTNorm