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9 results for “multiplex immunofluorescence”
Spatiotemporal multiplexed immunofluorescence imaging of living cells and tissues with bioorthogonal cycling of fluorescent probes
<p>Raw multichannel and/or Z-stack source data from time series images in TIF format to accompany publication of:</p> <p><strong>Spatiotemporal multiplexed immunofluorescence imaging of living cells and tissues with bioorthogonal cycling of fluorescent probes</strong></p> <p>Jina Ko<sup>1</sup>, Martin Wilkovitsch<sup>2</sup>, Juhyun Oh<sup>1</sup>, Rainer Kohler<sup>1</sup>, Evangelia Bolli<sup>1,3</sup>, Mikael J. Pittet<sup>1,3,4,5</sup>, Claudio Vinegoni<sup>1</sup>, David B. Sykes<sup>6,7</sup>, Hannes Mikula<sup>2</sup>, Ralph Weissleder<sup>1,8</sup>*, Jonathan C. T. Carlson<sup>1,7</sup>*</p> <p><sup>1 </sup>Center for Systems Biology, Massachusetts General Hospital, 185 Cambridge St, CPZN 5206, Boston, MA 02114 </p> <p><sup>2</sup> Institute of Applied Synthetic Chemistry, TU Wien, 1060 Vienna, Austria </p> <p><sup>3</sup> Department of Pathology and Immunology, University of Geneva, Geneva, Switzerland</p> <p><sup>4</sup> Ludwig Institute for Cancer Research, Lausanne Branch, Switzerland</p> <p><sup>5</sup> AGORA Cancer Center, Lausanne, Switzerland</p> <p><sup>6</sup> Center for Regenerative Medicine, Massachusetts General Hospital, Boston, MA, USA</p> <p><sup>7 </sup>Department of Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA 02114, USA</p> <p><sup>8 </sup>Department of Systems Biology, Harvard Medical School, 200 Longwood Ave, Boston, MA 02115</p>
Multi-modal image analysis for large scale cancer tissue studies within IMMUcan: multiplex immunofluorescence images
<p>In cancer research, multiplexed imaging has enabled the in-depth characterization of the tumor microenvironment (TME) and how it relates to patient prognosis. However, standardized, multi-modal data from large numbers of patients to identify robust biomarkers is missing. To provide such data across five cancer indications, the IMMUcan consortium performs broad molecular and cellular spatial profiling of thousands of cancer samples. Two reproducible and scalable workflows have been developed for whole slide multiplexed immunofluorescence (mIF) and imaging mass cytometry (IMC) to overcome challenges of reproducibility and scalability. For mIF we developed IFQuant, a web-based tool optimized for user-friendliness and reproducibility. This Zenodo record contains the mIF images and IFQuant settings to reproduce the results presented in the referenced publication. The companion IMC dataset is available as a joint Zenodo record.</p>
Multiplexed Immunofluorescence Staining Dataset - OMAP 7 - Lung, Cell DIVE
<p>This dataset contains an exemplary multiplexed immunofluorescence (MxIF) dataset for the antibody markers captured in Cell DIVE Lung OMAP (OMAP #7). The slide type is a TMA of FFPE tissue, and it contains a range of human lung tissue.</p> <p> </p> <p> </p>
Multiplex immunofluorescence ROIs related to Van Hijfte et al. 2024
<p>Multiplex immunofluorescence ROIs from IDH1-R132H mutant astrocytomas. </p> <p>For more information see associated publication. </p> <p>Panel:</p> <ul> <li>Opal 520: CD3</li> <li>Opal 540: CD68</li> <li>Opal 570: CD8</li> <li>Opal 620: CD56</li> <li>Opal 650: CD20</li> <li>Opal 690: IDH1-R132H</li> </ul>
CD3/CD31/LAMA2 immunofluorescence multiplex data related to Van Hijfte et al.
<p>CD3/CD31/LAMA2 immunofluorescence multiplex images and GeoJSON files used for analysis in R. For more information see related publication.</p>
The datasets for Precise immunofluorescence canceling enables highly multiplexed imaging
<p>Cell states are regulated by responsive signal pathways upon ligand-binding to the receptor and inter-cellular interactions. Thus, high-resolution imaging has been attempted to explore the dynamics of signaling. Recently, multiplexed imaging has been introduced to profile cell state by acquisition of comprehensive spatial protein information in the cells. However, it is still challenging to compromise resolution for visualizing activated signals. Here we developed ‘Precise Emission Canceling Antibody (PECAb)’ attached with erasable fluorescent labeling. PECAbs allow high-resolution sequential imaging using 206 antibodies and it allowed reconstruction of the spatiotemporal dynamics of signaling pathways. Additionally, combining this approach with seq-smFISH can effectively classify cells and identify their signal activation states in human tissue. Overall, the PECAb system serves as a comprehensive platform for analyzing complex cell processes.</p>
Single-cell RNA sequencing combined with multiplex immunofluorescence probes the role of MFAP5+ fibroblasts in the microenvironment of pancreatic ductal adenocarcinoma
GEO Series GSE285264. Homo sapiens. 3 samples. Type: Expression profiling by high throughput sequencing.
Single-cell RNA sequencing combined with multiplex immunofluorescence probes the role of MFAP5+ fibroblasts in the microenvironment of pancreatic ductal adenocarcinoma.
GEO Series GSE288067. Homo sapiens. 1 samples. Type: Other.
Tiled Hematoxylin and Eosin and Multiplex Immunofluorescence Slides for Translation
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.