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227 results for “Osteoclasts”
Extra Testing Data for paper "OC_Finder: A deep learning-based software for osteoclast segmentation, classification, and counting"
<pre>Here we have 9 datasets we used to validate OC_Finder's performance on various imaging settings. The 9 datasets are inside the folder named "9 datasets for validation experiment". Each dataset is composed of image files and csv files for the coordination of osteoclasts and non-osteoclasts that were manually labelled by human examiner. csv files ending "_posi" has coordination of osteoclasts and "_nega" has coordination of non-osteoclasts. Images in dataset #4, #5, #6, #7, #8, and #9 were resized so the scale of the images matched to the OC_Finder's training dataset. Images in original size before resizing are also provided in "Original images before resizing". Detailed capture setting and resizing information of images in each dataset can be found in "capture setting.xlsx". The number of images in each dataset are as following: #1: 18 #2: 18 #3: 18 #4: 36 #5: 36 #6: 36 #7: 16 #8: 16 #9: 16</pre>
Data for paper "OC_Finder: A deep learning-based software for osteoclast segmentation, classification, and counting"
<pre>This folder contains the source data for the images we used to train the neural network. Tiff files are microscopic images, and each tiff file has two xls or csv files to indicate the location of osteoclasts or non-osteoclasts in each Tiff file. We performed data collection 3 times, and the data from each data collection is stored separately in 3 folders, "Dataset_1", "Dataset_2", "Dataset_3". The "Dataset_1" folder contains a total of 170 tiff images. They are from the cell culture of wild-type cells stimulated with 50 ng/ml RANKL with/without 100 ng/ml TNF-alpha or 10 ng/ml IL-1beta. The location of cells is recorded in xls files. "IMAGE_NAME osteoclasts.xls" is for the coordination of osteoclasts, and "IMAGE_NAME non-osteoclasts.xls" is for the coordination of non-osteoclasts. The x-coordinate is recorded in the "x" column, and the y-coordinate is in the "y" column, with x=0 and y=0 being the coordinates of the upper left corner of the image. Please ignore the columns other than x and y. The "Dataset_2" folder contains a total of 288 images. They are from the cell culture of wild-type cells or cells with gain-of-function mutation of SH3BP2 (KI) stimulated with 25 or 50 ng/ml of RANKL. The image names are composed of the information about the culture conditions, such as gender of cell sources (female and male), the genotype of the cell source (wt: wild-type, KI: Knock-In mutation in Sh3bp2 resulting in the increased osteoclastogenesis), the concentration of RANKL in the culture media (R25: 25 ng/ml of RANKL, R50: 50 ng/ml of RANKL), and the culture period with RANKL stimulation (day 3: cultured with RANKL for 3 days.), excepting the images with the name starting "Image_". The images with the name Image_NUMBER.tif are from the following culture condition; female KI R25. The location of cells is recorded in xls files. "IMAGE_NAME posi.xls" is for the coordination of osteoclasts, and "IMAGE_NAME nega.xls" is for the coordination of non-osteoclasts. The x-coordinate is recorded in the "x" column, and the y-coordinate is in the "y" column, with x=0 and y=0 being the coordinates of the upper left corner of the image. Please ignore the columns other than x and y. The "additional data" folder contains a total of 288 images, which are identical to the images in the "second batch" folder. Using the same images, we collected additional coordination to increase samples. The location of cells is recorded in csv files. "IMAGE_NAME new posi.xls" is for the coordination of osteoclasts, and "IMAGE_NAME new nega.xls" is for the coordination of non-osteoclasts. The x-coordinate is recorded in the "x" column, and the y-coordinate is in the "y" column, with x=0 and y=0 being the coordinates of the upper left corner of the image. Please ignore the columns other than x and y. Please contact Mizuho Kittaka <mkittaka@iu.edu> for the inquery about the dataset.</pre>
Liquiritigenin reduces osteoclast activity in zebrafish model of glucocorticoid-induced osteoporosis
<p>Drug and therapies currently used to treat human bone diseases have a lot of severe side effects. Liquiritigenin is a flavonoid extracted from Glycyrrhiza glabra roots which has been reported to have positive effects in vitro on osteoblasts activity and bone mineralization as well as inhibitory effect on osteoclasts differentiation and activity in vitro. The present study was aimed to evaluate the in vivo effects of liquiritigenin on bone structure and metabolism in physiological and pathological conditions using Danio rerio as experimental animal model. Treatments with liquiritigenin were performed on embryos to evaluate the osteogenesis during skeletal development. Other treatments were performed on adult fish affected by glucocorticoid-induced osteoporosis to assay the therapeutic potential of liquiritigenin in the reversion of bone-loss phenotype in scale model. Liquiritigenin treatment of zebrafish embryo significantly enhances the osteogenesis during development in a dose-dependent manner. In addition, liquiritigenin inhibits the formation of the osteoporotic phenotype in adult zebrafish model of glucocorticoid-induced osteoporosis preventing osteoclast activation in scales. Interestingly, liquiritigenin does not counteract the loss of osteoblastic activity in scales. The liquiritigenin exhibits in vivo anti-osteoporotic activity on adult fish scale model. It can be considered a good candidate to develop new drugs against osteoporosis.</p>
Engineered Osteoclasts as Living Treatment Materials for Heterotopic Ossification Therapy
<p>All data generated in this study are provided in the Supplementary materials and raw data. The data that support the findings of this study are available from the corresponding authors in reasonable request.</p>
Data from: Comparison of osteoclast differentiation protocols from human induced pluripotent stem cells of different tissue origins
<p class="MsoNormal"><span class="apple-converted-space"><span><strong>Background</strong>: </span></span><span class="apple-converted-space"><span>Ever since their discovery, induced pluripotent stem cells (iPSCs) have been extensively differentiated into a large variety of cell types. However, a limited amount of work has been dedicated to differentiating iPSCs into osteoclasts. </span></span><span>While several differentiation protocols have been published, it remains unclear which protocols or differentiation methods are preferable regarding the differentiation of osteoclasts.</span></p> <p class="MsoNormal"><span><strong>Methods</strong>: </span><span>In this study, we compare the osteoclastogenesis capacity of a peripheral blood mononuclear cell (PBMC)-derived iPSC line to a fibroblast-derived iPSC line in conjunction with either embryoid body-based or monolayer-based differentiation strategies. Both cell lines and differentiation protocols were investigated regarding their ability to generate osteoclasts and their inherent robustness and ease of use. The ability of both cell lines to remain undifferentiated while propagating using a feeder-free system was assessed using alkaline phosphatase staining. This was followed by evaluating mesodermal differentiation and the characterization of hematopoietic progenitor cells using flow cytometry. Finally, osteoclast yield and functionality based on resorptive activity, Cathepsin K, and tartrate-resistant acid phosphatase (TRAP) expression were assessed. Results were validated using qRT-PCR throughout the differentiation stages.</span></p> <p class="MsoNormal"><span><strong>Results</strong>: </span><span class="apple-converted-space"><span>Embryoid-body-based differentiation yielded CD45<sup>+</sup>, CD14<sup>+</sup>, and CD11b<sup>+</sup> subpopulations, which in turn differentiated into osteoclasts which demonstrated TRAP positivity, Cathepsin K expression, and mineral resorptive capabilities. This was regardless of which iPSC line was used. Monolayer-based differentiation yielded lower quantities of hematopoietic cells that were mostly CD34<sup>+</sup> and did not subsequently differentiate into osteoclasts.</span></span></p> <p class="MsoNormal"><span class="apple-converted-space"><span><strong>Conclusions</strong>: </span></span><span>The outcome of this study demonstrates the successful differentiation of osteoclasts from iPSCs in conjunction with the embryoid-based differentiation method, while the monolayer-based method did not yield osteoclasts. No differences were observed regarding osteoclast differentiation between the PBMC and fibroblast-derived iPSC lines.</span></p>
Osteoclast Impairment in Chronic Periodontitis by Regenerative Materials.
ClinicalTrials.gov study NCT03227367. IPD Sharing: NO. Countries: 0. Publications: 2.
Data from: Piceatannol attenuates RANKL-induced osteoclast differentiation and bone resorption and promotes caspase3-mediated apoptosis of mature osteoclasts
Open the record for dataset details and reuse information.
Data from: Comparison of osteoclast differentiation protocols from human induced pluripotent stem cells of different tissue origins
Open the record for dataset details and reuse information.
Medaka Osteoclast
During space flight bone mineral density is decreased by the influence of osteoclast activation which molecular mechanism is expectantly investigated. In the study of medaka bone development we investigated the system of vertebra formation and firstly identified the presence of osteoclasts in medaka. Moreover osteoclast rsorbing activity was affected by hypergravity indicating the possibility that we can investigate the effect of microgravity on osteoclasts in space. To find this effect we examine the alteration of osteoclast activity under microgravity with the histological analysis or the expression analysis by RNA in-situ hybridization. Furthermore since we have succeeded the establishment of the medaka osteoclast-specific transgenic lines we perform the in-vivo imaging analyses for gene expression and cell mobility. Finally to examine the gravity sensing system we employ tooth and bone as the high density organs which are highly sensitive to gravity and perform the histological analysis and the gene expression analysis of such gravity-sensitive tissues at surrounding pharyngeal teeth and supporting bone.
Microarray Profile of Gene Expression during Osteoclast Differentiation in Modeled Microgravity
Microgravity leads to a 10-15% loss of bone mass in astronauts during space flight. Osteoclast is the multinucleated bone resorbing cell. In this study we used NASA developed ground based Rotary Wall Vessel Bioreactor (RWV) Rotary Cell Culture System (RCCS) to simulate microgravity (uXg) conditions and demonstrated a significant increase (2-fold) in osteoclastogenesis compared to ground based control (Xg) mouse bone marrow cultures. We further determined the gene expression profiling of RAW 264.7 osteoclast progenitor cells in microgravity by agilent microarray analysis. Gene expression pattern was functional group clustered by transcriptome analysis using gene ontology tree machine (GOTM) for cell proliferation/survival differentiation and function. We confirm the microgravity modulated gene expression critical for osteoclast differentiation by real-time RT-PCR and Western blot analysis in murine bone marrow cultures. We identify transcription factors such as c-Jun c-Fos PU-1 critical for osteoclast differentiation is up-regulated in microgravity conditions. In addition microgravity resulted in 2.3 and 2.0-fold increase in the level of cathepsin K and MMP-9 matrix metalloproteinase expression in preosteoclast cells involved in the bone resorption process respectively. We also demonstrate a significant increase in the expression levels of M-CSF receptor c-Fms and PLCy2 and S100A8 molecules that play an important role in Ca2+ signaling essential for osteoclast function. Further microgravity stimulated preosteoclast cells showed elevated cytosolic Ca2+ levels compared to ground based control cells. Thus microgravity regulated gene expression profiling in preosteoclast cells provide new insights in to molecular mechanisms and therapeutic targets of osteoclast differentiation/activation responsible for bone loss and fracture risk in astronauts during space flight mission. Microgravity associated with space flight is a challenge for normal bone homeostasis. Astronauts experience 10-15% bone loss during a space flight mission. We aimed to determine the effect of simulated microgravity on osteoclast preosteoclasts cells. RAW264.7 cells (1.5 x 106 /ml) were loaded in RCCS with DMEM containing 10% FBS for 24 h. The cells were stimulated with RANKL (80ng/ml) for 24 h to obtain preosteoclasts in parallel with ground based control cells. Total RNA was isolated using RNAzol reagent (Biotecx Labs Houston TX) from control (Xg) and microgravity (uXg) subjected cells and hybridized with Agilent whole mouse genome 4x44K array system. Slides were washed and scanned on an Agilent G2565 microarray scanner. Data obtained were analyzed with Agilent feature extraction and GeneSpring GX v7.3.1 software packages (Genus biosystem Inc. Northbrook IL USA).
TET2 regulates osteoclast differentiation by interacting with RUNX1 and maintaining genomic 5-hydroxymethylcytosine
GEO Series GSE104828. Mus musculus. 9 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
CTLA4-Ig changed the gene expression associated with cellular movement in osteoclast precursors
GEO Series GSE112896. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
A novel stromal cell source of RANKL during sustained osteoclast activation in disuse osteoporosis
GEO Series GSE289940. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
miRCURY LNATM microRNA Array (7th Gen) profiling of monocyte-derived osteoclasts and macrophages.
GEO Series GSE60840. Human alphaherpesvirus 2; Lymphocryptovirus; Betapolyomavirus hominis; JC polyomavirus; Human immunodeficiency virus 1; Rhadinovirus; Merkel cell polyomavirus; Homo sapiens; Human alphaherpesvirus 1; Cytomegalovirus; Betapolyomavirus macacae. 72 samples. Type: Non-coding RNA profiling by array.
Transcriptomic effects of culturing leukaemia cells in osteoclast-derived conditioned media
GEO Series GSE220262. Mus musculus. 8 samples. Type: Expression profiling by high throughput sequencing.
Identification of osteoclast coupling factors in humans reveals links between bone remodeling and energy metabolism II
GEO Series GSE141610. Homo sapiens. 30 samples. Type: Expression profiling by high throughput sequencing.
Next Generation RNA Sequencing of LSD1 knockdown samples in human osteoclast differentiation.
GEO Series GSE166559. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
miR-324 regulates both osteoblast and osteoclast differentiation and function to control bone homeostasis
GEO Series GSE226615. Mus musculus. 36 samples. Type: Expression profiling by high throughput sequencing.
Ga13 functions as a cytoskeletal and mitochondrial regulator to restrain osteoclast function
GEO Series GSE116550. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
Genome-wide analysis of gene expression in osteoclast precursor cells cultured for 3 days with either M-CSF or M-CSF + RANKL
GEO Series GSE129334. Mus musculus. 2 samples. Type: Expression profiling by array.
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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.