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7,327
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7,327 results for “pathways”
Uniform approach for pathway and gene-set based analysis of heterogeneity in single-cell epigenome and transcriptome profiles
GEO Series GSE156138. Homo sapiens. 162 samples. Type: Expression profiling by high throughput sequencing.
Methanol and Methylamine Utilization Pathways in Methyloversatilis universalis FAM5: Genome Wide Gene Expression and Mutagenesis Studies
GEO Series GSE63822. Methyloversatilis universalis FAM5. 4 samples. Type: Expression profiling by high throughput sequencing.
The Drosophila histone methyl-transferase SET1 coordinates multiple signaling pathways in regulating male germline stem cell maintenance and differentiation
GEO Series GSE254876. Drosophila melanogaster. 24 samples. Type: Expression profiling by high throughput sequencing.
Targeting the NF-κB signaling pathway in Notch1-induced T cell leukemia
GEO Series GSE6396. Mus musculus. 3 samples. Type: Expression profiling by array.
Knockdown of NAT12/NAA30 decreases glioblastoma stem cell growth and tumorigenicity by regulating hypoxia response, p-MTOR (Ser2448) and p53 pathway
GEO Series GSE60706. Homo sapiens. 12 samples. Type: Expression profiling by array.
Deletion mutant analysis of established glucose signaling and metabolic pathway members in Saccharomyces cerevisiae
GEO Series GSE33097. Saccharomyces cerevisiae. 295 samples. Type: Expression profiling by array.
Identification of potential key genes and pathways associated with the Pashmina fiber initiation using RNA-Seq and integrated bioinformatics analysis
GEO Series GSE164100. Capra hircus. 19 samples. Type: Expression profiling by high throughput sequencing.
Leukocyte - endothelial cell interaction in infections: the role of IL1, TNF and IFN pathways
GEO Series GSE131590. Homo sapiens. 138 samples. Type: Expression profiling by high throughput sequencing.
Inferring secretory and metabolic pathway activity from omic data with secCellFie
GEO Series GSE248376. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Molecular pathway analysis towards understanding tissue vulnerability in spinocerebellar ataxia type 1
GEO Series GSE122099. Mus musculus. 48 samples. Type: Expression profiling by high throughput sequencing.
Graphics: Evolutionary pathways leading to Double Neutron Star formation
<p>Schematical representations of the evolutionary pathways leading to Double Neutron Stars formation as presented in the paper "Common–Envelope Episodes that lead to Double Neutron Star formation" (<a href="https://arxiv.org/abs/2001.09829">arXiv:2001.09829).</a></p> <p>Contents:</p> <p>./Channel_I/<br> - 00_Channel_I_circular.pdf <br> - 00_Channel_I_circular.png <br> - 00_Channel_I_vertical.jpg<br> - 00_Channel_I_vertical.pdf<br> - 00_Channel_I_horizontal.pdf <br> - 00_Channel_I_horizontal.jpg <br> - Channel_I_individual_pdfs.tar.gz<br> - Channel_I_individual_pngs.tar.gz</p> <p>./Channel_II/<br> - 00_Channel_II_circular.jpg <br> - 00_Channel_II_circular.pdf <br> - 00_Channel_II_vertical.jpg<br> - 00_Channel_II_vertical.pdf<br> - 00_Channel_II_horizontal.jpg <br> - 00_Channel_II_horizontal.pdf <br> - Channel_II_individual_pdfs.tar.gz<br> - Channel_II_individual_pngs.tar.gz</p> <p>00_Channel_*_circular.*, 00_Channel_*_vertical.* and 00_Channel_*_horizontal.* contain the figure of the specified formation channel in the specified format in a circular/vertical/horizontal direction.</p> <p>Channel_*_individual_*.tar.gz contain the individual figures for each formation channel in the specified format.</p> <p>If you use these illustrations please kindly include a citation to:<br> A. Vigna-Gómez, M. MacLeod, C. J. Neijssel, F. S. Broekgaarden, S. Justham, G. Howitt, S. E. de Mink, S. Vinciguerra, and I. Mandel. Common envelope episodes that lead to doubleneutron star formation. PASA, 37:e038, Jan. 2020 (<a href="https://ui.adsabs.harvard.edu/abs/2020PASA...37...38V/abstract">ADS</a>)</p>
Data from: Fadraciclib (CYC065), a novel CDK inhibitor, targets key pro-survival and oncogenic pathways in cancer
<p>Cyclin-dependent kinases (CDKs) contribute to the cancer hallmarks of uncontrolled proliferation and increased survival. As a result, over the last two decades substantial efforts have been directed towards identification and development of pharmaceutical CDK inhibitors. Insights into the biological consequences of CDK inhibition in specific tumor types have led to the successful development of CDK4/6 inhibitors as treatments for certain types of breast cancer. More recently, the development of a new generation of pharmaceutical inhibitors of CDK enzymes that regulate the transcription of key oncogenic and pro-survival proteins, including CDK2 and CDK9, have entered clinical development. Here, we provide the first disclosure of the chemical structure of fadraciclib (CYC065), a CDK inhibitor and clinical candidate designed by further optimization from the aminopurine scaffold of seliciclib. We describe its synthesis and mechanistic characterization. Fadraciclib exhibits improved potency and selectivity for CDK2 and CDK9 compared to seliciclib, and also displays high selectivity across the kinome. We show that the mechanism of action of fadraciclib is consistent with potent inhibition of CDK9-mediated transcription, decreasing levels of RNA polymerase II C-terminal domain serine 2 phosphorylation, the pro-survival protein Myeloid Cell Leukemia 1 (MCL1) and MYC oncoprotein, and inducing rapid apoptosis in cancer cells. This cellular potency and mechanism of action translate to promising anti-cancer activity in human leukemia mouse xenograft models. Studies of leukemia cell line sensitivity identify mixed lineage leukemia (<i>MLL</i>) gene status and the level of B-cell lymphoma 2 (BCL2) family proteins as potential markers for selection of patients with greater sensitivity to CYC605. We show that the combination of fadraciclib with BCL2 inhibitors, including venetoclax, is synergistic in leukemic cell models, as predicted from simultaneous inhibition of MCL1 and BCL2 pro-survival pathways. Fadraciclib preclinical pharmacology data support its therapeutic potential in CDK9- or CDK2-dependent cancers and as a rational combination with BCL2 inhibitors in hematological malignancies. Fadraciclib is currently in Phase 1 clinical studies in patients with advanced solid tumors (<a href="https://clinicaltrials.gov/ct2/show/NCT02552953?cond=CYC065&rank=2">NCT02552953</a>) and also in combination with venetoclax in patients with relapsed or refractory chronic lymphocytic leukemia (CLL) (<a href="https://clinicaltrials.gov/ct2/show/NCT03739554?cond=CYC065&rank=1">NCT03739554</a>) and relapsed refractory acute myeloid leukemia (AML) or myelodysplastic syndrome (MDS) (<a href="https://clinicaltrials.gov/ct2/show/NCT04017546?cond=CYC065&draw=1&rank=2">NCT04017546</a>)</p>
Supplementary Materials for "MicroRNAs associated with biological pathways of left- and right-sided colorectal cancer"
<p>Supplementary materials for the paper entitled "MicroRNAs associated with biological pathways of left- and right-sided colorectal cancer".</p>
Barnase-Barstar Binding Pathways
<p>This is a collection of binding trajectories from the atomistic simulation of the Barnase-Barstar system presented in <a href="https://doi.org/10.1039/C8SC04811H">Protein–protein binding pathways and calculations of rate constants using fully-continuous, explicit-solvent simulations</a> by Saglam and Chong. There is one representative trajectory from each of the five pathways identified.</p> <p>The GRO file here is to be used as a "topology" file, so if your chosen MD viewer or analysis software includes the reference frame from the GRO file, be sure to delete the frame before running your analysis, etc. If you want to analyze just the first frame of a trajectory, load in the GRO/topology file, delete the frame from that file, load in the relevant XTC file and use the first frame from that.</p> <p>Please cite the Saglam and Chong paper if you use these data.</p>
Engineering Relaxation Pathways in Building Blocks of Artificial Spin Ice for Computation
<p>Open access data set for manuscript Engineering Relaxation Pathways in Building Blocks of Artificial Spin Ice for Computation published in Phys. Rev. Applied <strong>11</strong>, 054086 (2019)</p>
Representative Western blots showing the ratio of total expression of phosphorylated and unphosphorylated proteins involved in insulin signaling pathway in the red gastrocnemius muscle in control and HFD groups after chronic CBD treatment.
<p>Representative Western blots showing the ratio of total expression of phosphorylated and unphosphorylated proteins involved in insulin signaling pathway e.g., phosphorylated insulin receptor substrate 1/insulin receptor substrate 1 - pIRS-1/IRS-1 (A), phosphorylated protein kinase B/protein kinase B - pAkt/Akt (B), phosphorylated AS160 protein/AS160 protein – pAS160/AS160 (C) and phosphorylated glycogen synthase kinase 3/glycogen synthase kinase 3 - pGSK-3/GSK-3 (D) in the red gastrocnemius muscle in control and HFD groups after chronic CBD treatment. The total expressions of the above proteins were presented as a percentage difference compared to the control group, which was set as 100%. The data are expressed as mean values ± SD, n = 6 in each group. ap < 0.05 significant difference: control group vs. examined group; bp < 0.05 significant difference: HFD vs. HFD+CBD.</p>
Data from: Early stage prion assembly involves two subpopulations with different quaternary structures and a secondary templating pathway
The dynamics of aggregation and structural diversification of misfolded, host-encoded proteins in neurodegenerative diseases are poorly understood. In many of these disorders, including Alzheimer's, Parkinson's and prion diseases, the misfolded proteins are self-organized into conformationally distinct assemblies or strains. The existence of intrastrain structural heterogeneity is increasingly recognized. However, the underlying processes of emergence and coevolution of structurally distinct assemblies are not mechanistically supported. Here, we show that early prion replication generates two subsets of structurally different assemblies by two sequential processes of formation, regardless of the strain considered. The first process corresponds to a quaternary structural convergence, by reducing the parental strain polydispersity to generate small oligomers. The second process transforms these oligomers into larger ones, by a secondary autocatalytic templating pathway requiring the prion protein. This pathway provides first mechanistic insights into prion structural diversification, a key determinant for prion adaptation and toxicity.
Graphics: Evolutionary pathways leading to Sequential Binary Black Hole Mergers
<p>Schematical representations of the evolutionary pathways leading to sequential binary black hole mergers as presented in the paper "Massive Stellar Triples Leading to Sequential Binary Black-Hole Mergers in the Field".</p> <p>Contents:</p> <p>./sequential_mergers_illustrations/</p> <ul> <li>final.*</li> <li>A/ <ul> <li>panel_A.*</li> <li>*/ <ul> <li>A1</li> <li>A2_1</li> <li>A2_2</li> <li>A2_3</li> <li>A2_4</li> <li>A2_5</li> </ul> </li> </ul> </li> <li>B/ <ul> <li>panel_B.*</li> <li>*/ <ul> <li>B_1</li> <li>B_2</li> <li>B_3</li> <li>B_4</li> <li>B_5</li> <li>B2_1</li> <li>B2_2</li> <li>B2_3</li> <li>B2_4</li> <li>B2_5</li> </ul> </li> </ul> </li> <li>C/ <ul> <li>panel_C.*</li> <li>*/ <ul> <li>C_1</li> <li>C_2</li> <li>C_3</li> <li>C_4</li> </ul> </li> </ul> </li> </ul> <p>The asterisk (*) corresponds to the string "pdf", "png" or "jpg" which indicates the format of the image.</p> <p> </p>
The effects of intestinal dendritic cells on the imbalance of mucosal Th1/Th2 immune response pathway and visceral hypersensitivity in IBS-D rats
<p class="15"><span><span><span>To study the role of intestinal dendritic cells in the imbalance of local mucosal Th1/Th2 immune response pathway and its effect on visceral hypersensitivity in IBS-D rats through the synergy effects by CD4</span></span></span><span><span><span>+</span></span></span><span><span><span>Th cells and mast cells. Methods: 45 adult SD rats were randomly divided into a blank control group, model control group, and model group,each group (n = 15). Rats in the model group were subjected to IBS visceral hypersensitive modeling by acetic acid enema combined with restraint stress. AWR test and fecal characteristics were used to evaluate the visceral sensitivity of rats. The expression of CD103, a surface molecule specific to dendritic cells in the colon tissue of the ileocecal region, was detected by immunohistochemistry. Flow separation technique was employed to isolate dendritic cells from mesenteric lymph nodes and CD4+T lymphocytes from spleen, and the dendritic cells were co-cultured with T lymphocytes in vitro. MTT assay was employed to detect the ability of dendritic cells to promote the proliferation of initial T lymphocytes. The cytokine levels of IL-12 and INF-γ secreted through Th1-pathway, and IL-4 and IL-9 secreted through Th2-pathway were determined by ELISA.Results: Compared with the blank control group and model control group, the number of CD103-labeled dendritic cells in the model group were significantly increased. Dendritic cells from intestinal lymph nodes developed enhanced ability to promote the proliferation of spleen CD4+Tcell, and secreted more IL-4 and IL-9 than that in the control group while the secretion of IL-12 was significantly reduced (P < 0.05).</span></span></span></p>
Hyperpolarization transfer pathways in inorganic materials
<p>Hyperpolarization transfer pathways in inorganic materials: experimental data</p> <p><a href="https://doi.org/10.1016/j.jmr.2020.106888">https://doi.org/10.1016/j.jmr.2020.106888</a></p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.