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670 results for “HeLa”
TestDataset for Oneat networks for detection and prediction of dividing Hela cells for different imaging modalities
<p>Here we present the tif files to be used to test the Oneat networks for detection and prediction of division events for Hela cells imaged under different imaging modalities and presented originally here: https://zenodo.org/record/6139958#.Yjcjl3rMJD8</p>
Training dataset for HeLa "Kyoto" cells under the scope
<p>The Patches folder contains the training patches with csv files of cells 2 steps before the division and 2 steps in time after the division for 5 channels of the Kyoto Hela cells, the Oneat folder contains the json file of the cell categories and the map of XYTHW locations and its corresponding integer labels. The dataset is intended to be used for training oneat networks for these cells in different imaging modalities.</p> <p> </p> <p>Training patches with labels for 5 channels of hela cells: trainX, trainY = 64, 64, tminus = 2, tplus = 2, whole image was normalized using percentile based normalization pre patch making process. Patches made without segmentation image as input so height and width = 1 in yolo training labels.</p> <p>Made by oneat software, pip install oneat for training of such datasets.</p> <p> </p> <p>Original data published by Romain Guiet at https://zenodo.org/record/6139958#.YmAh1NpBxhG</p>
Bred 104 Boda Hela Textur
Bred 104, Boda, Uppland. Hällristning hela ytan med textur. Opus Heritas, Fotogrammetri 3D-SfM av Catarina Bertilsson. Stockholms universitet, "Digitala bilder för forskning och publik". Source: Objaverse 1.0 / Sketchfab
STING OPS: HeLa cGAMP (6 hours) Secondary Screen Single-Cell Features
<div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa secondary screen, 6 hours post-cGAMP, with or without rolling ball background subtraction.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/SEC_HeLa.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> <p> </p> </div>
STING OPS: HeLa Unstimulated Secondary Screen Single-Cell Features
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa secondary screen, unstimulated, without rolling ball background subtraction.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/SEC_HeLa.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> <p> </p> </div> <p> </p> </div>
STING OPS: HeLa Unstimulated Secondary Screen Single-Cell Features (Background-Subtracted)
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa secondary screen, unstimulated, with rolling ball background subtraction.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/SEC_HeLa.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> <p> </p> </div> <p> </p> </div>
STING OPS: HeLa Genome-wide Screen Single-Cell Features (Part 2/5)
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa genome-wide screen, Zenodo dataset part 2/5.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/GW*.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> </div> </div>
STING OPS: HeLa Genome-wide Screen Single-Cell Features (Part 5/5)
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa genome-wide screen, Zenodo dataset part 5/5.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/GW*.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> </div> </div>
STING OPS: HeLa cGAMP (4 hours) Secondary Screen Single-Cell Features
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa secondary screen, 4 hours post-cGAMP, with or without rolling ball background subtraction.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/SEC_HeLa.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> </div> </div>
STING OPS: HeLa Genome-wide Screen Single-Cell Features (Part 1/5)
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa genome-wide screen, Zenodo dataset part 1/5.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/GW*.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> </div> </div>
STING OPS: HeLa Genome-wide Screen Single-Cell Features (Part 3/5)
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa genome-wide screen, Zenodo dataset part 3/5.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/GW*.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> </div> </div>
STING OPS: HeLa Genome-wide Screen Single-Cell Features (Part 4/5)
<div> <div> <p><strong>Classification and functional characterization of regulators of intracellular STING trafficking identified by genome-wide optical pooled screening</strong></p> <p>Single-cell features and coordinates for HeLa genome-wide screen, Zenodo dataset part 4/5.</p> <p>Images available at gs://opspublic-east1/STINGOpticalPooledScreen/Images/GW*.</p> <p>README for additional image information is at gs://opspublic-east1/STINGOpticalPooledScreen/STING_README.</p> </div> </div>
TAIL-seq for PABPC1, XRN1, RRP41 KD HeLa samples (internal ID: ms102)
<p>TAIL-seq, MiSeq run (internal ID: ms102)</p> <p>spkN, spk8, spk16, spk32, spk64, spk118, spk128 spike-ins</p> <p>siCont, siCont2, siPABP, siPABPXRN1, siPABPRRP41, siPABPXRN1RRP41 samples</p> <p>This dataset contains cluster intensities of fluorescence signals that are repacked as an HDF5 formatted file.</p> <p> </p>
mTAIL-seq for PARN, CCR4a/b (CNOT6/6L) KD HeLa samples (internal ID: ms119)
<p>mTAIL-seq, MiSeq run (internal ID: ms119)</p> <p>spkN, spk8, spk16, spk32, spk64, spk118, spk128 spike-ins</p> <p>NC2 (siCont), P2 (siPARN), 66L2 (siCCR4a/b or siCNOT6/6L) samples</p> <p>This dataset contains cluster intensities of fluorescence signals that are repacked as an HDF5 formatted file.</p>
Targeted Illumination in HeLa Cells
<p>Files are a time series of showing targeted illumination of a subset of HeLa cell nuclei containing a photolabile ATAC-seq library. Time points are 300 ms apart. The single-channel images were acquired using a spinning disk confocal with a 40X objective (Nikon MRD77410) using a 561 nm laser line and 525/36 emission filter (MVI, 77074803). Images were captured using a Zyla 2.3 PLUS sCMOS camera. The pixel value represents the fluorescence intensity of the photocleavable fluorophore attached to the fragment library. Images are acquired concurrently with targeted illumination using a 405 nm laser line.</p>
PARK15/FBXO7 is dispensable for PINK1/Parkin mitophagy in iNeurons and HeLa cell systems
<p>The protein kinase PINK1 and ubiquitin ligase Parkin promote removal of damaged mitochondria via a feed-forward mechanism involving ubiquitin (Ub) phosphorylation, Parkin activation, and ubiquitylation of mitochondrial outer membrane proteins to support recruitment of mitophagy receptors. The ubiquitin ligase substrate receptor FBXO7/PARK15 is mutated in an early-onset parkinsonian-pyramidal syndrome. Previous studies have proposed a role for FBXO7 in promoting Parkin-dependent mitophagy. Here, we systematically examine the involvement of FBXO7 in depolarization-dependent mitophagy in the well-established HeLa and induced-neurons cell systems. We find that FBXO7<sup>-/-</sup> cells have no demonstrable defect in: 1) kinetics of pUb accumulation, 2) pUb puncta on mitochondria by super-resolution imaging, 3) recruitment of Parkin and autophagy machinery to damaged mitochondria, 4) mitophagic flux, and 5) mitochondrial clearance as quantified by global proteomics. Moreover, global proteomics of neurogenesis in the absence of FBXO7 reveals no obvious alterations in mitochondria or other organelles. These results argue against a general role for FBXO7 in Parkin-dependent mitophagy and point to the need for additional studies to define how FBXO7 mutations promote parkinsonian-pyramidal syndrome. </p>
AFM Dataset on HeLa cells
<p>Dataset acquired using a NanoWizard III (Bruker, Santa Barbara, CA, USA) on 40 HeLa cells using a SAA-SPH-5UM AFM probe (Bruker, Santa Barbara, CA, USA).</p> <p>The dataset includes force maps (20 cells) and microrheological measurements (20 cells) acquired on HeLa cells.</p> <p>Additionally this dataset includes:</p> <p>- Force settings used to acquired the data</p> <p>- Data used to characterize the piezo lag</p> <p>- Data used to characterize the viscous drag</p> <p>- Results obtained from PyFMLab, MATLAB routines and JPKDP</p>
2D phase contrast HeLa cells images with ground truth annotations
<p>Original images are from http://www.robots.ox.ac.uk/~vgg/software/cell_detection/. This software is associated with the publication "Learning to Detect Cells Using Non-overlapping Extremal Regions", MICCAI 2012. (DOI: 10.1007/978-3-642-33415-3_43)</p> <p>Here, we provide the ground truth labels of: cell centers and segmentation, which are used in the publications:</p> <ul> <li>"Learning to Segment: Training Hierarchical Segmentation under a Topological Loss", MICCAI 2015. (DOI: 10.1007/978-3-319-24574-4_32)</li> <li>"Cell Detection and Segmentation Using Correlation Clustering", MICCAI 2014. (DOI: 10.1007/978-3-319-10404-1_2)</li> </ul>
Tanum 62 1 Hela Dec5
Laserscan of the panel - slightly decimated Source: Objaverse 1.0 / Sketchfab
Polarisation camera dSTORM datasets of actin in fixed HeLa cells labeled with phalloidin-Alexa Fluor 488
<p>Polarisation camera dSTORM dataset of the actin of fixed HeLa cells labeled with phalloidin-Alexa Fluor 488.</p> <p><strong>Image acquisition was performed as follows:</strong></p> <p>Imaging was performed on a widefield microscope equipped with a polarisation camera (CS505MUP, Thorlabs). The sample was excited using a 488 nm laser at quasi-TIRF, with a measured power density at the image plane of <span>5.04 kW/cm^2</span>. A single long-pass dichroic (Di02-R488, Semrock) was used to seperate fluorescence from the excitation. The emission was filtered using a long-pass (BLP01-488R, Semrock) and a bandpass filter (FF01-582/64, Semrock) before detection. An exposure time of 30 ms was used.</p> <p><strong>Samples were prepared as follows:</strong></p> <p><span>Cell culture: </span>HeLa TDS cells were cultured in DMEM (Gibco, Invitrogen) supplemented with 10 % Fetal Bovine Serum (FBS, Life Technologies), 1 % penicillin/streptomycin (Life Technologies), and 1 % glutamine (Life Technologies) at 37 °C + 5 % CO_2. Cells were periodically tested for mycoplasma contamination and passaged 3 times per week. Cells were plated at low density on high-precision glass coverslips (MatTek, P35G-0.170-14-C) 1 day prior to fixation for dSTORM experiments.</p> <p><span>Labeling:</span> Cells were simultaneously fixed and permeabilized in cytoskeleton buffer (CBS, 10 mM MES, 138 mM KCl, 3 mM MgCl_2, 2 mM EGTA, 4.5 % sucrose w/v, pH 7.4), + 4 % paraformaldehyde (PFA) and 0.2 % Triton for 6 minutes at 37 °C, and further fixed in CBS + 4 % PFA for 14 minutes at 37 °C. Post-fixation, cells were washed x3 in PBST (PBS supplemented with 0.1 % Tween) and permeabilized a second time in PBS + 0.5 % Triton for 5 minutes at room temperature. The samples were then washed 3 times in PBST and blocked for 30 minutes in 5 % BSA. Cells were washed x3 in PBST and then incubated with Alexa Fluor™ 488 Phalloidin (A12379, Invitrogen, 1:50 in PBS) for 1 h in the dark, followed by x2 washes in PBS. Prior to dSTORM imaging, PBS was replaced with dSTORM imaging buffer (base buffer consisting of 0.56 M glucose, 50 mM Tris (pH 8.5), and 10 mM NaCl supplemented with 5 U/mL pyranose oxidase (Sigma, P4234), 10 mM cysteamine (Sigma, 30070), 40 µg/mL catalase (Sigma, C100) and 2 mM cyclooctatetraene (Sigma, 138924).</p>
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