Data for: Network Pharmacology-based Identification of the Key Mechanism of Qinghuo Rougan Formula Acting on Uveitis.
Contributors: hongsheng bi, Xiaofeng Xie, xueyan zhang, Diana Jing, Sun zhuolun
... We identified 259 major candidate targets of QHRGF and successfully constructed a ‘QHRGF-compound-target-uveitis’ network. Gene enrichment analysis revealed that targets in the cell cycle, autoimmune disease and related signalling pathways were relevant.
Dramatic response of metastatic cutaneous angiosarcoma to an immune checkpoint inhibitor in a patient with Xeroderma Pigmentosum: whole genome sequencing aids treatment decision in end-stage disease.
Contributors: Serena Nik-Zainal
... "Mutational signatures" are patterns of mutations that report DNA damage and subsequent repair processes that have occurred. Whole genome sequencing (WGS) can provide additional information to standard diagnostic techniques and can identify therapeutic targets. A 32-year-old male with Xeroderma Pigmentosum developed metastatic angiosarcoma which was unresponsive to three lines of conventional sarcoma therapies. WGS was performed on his primary cancer revealing a hypermutated tumor, including clonal ultraviolet radiation-induced mutational patterns (Signature 7) and subclonal signatures of mutated DNA Polymerase-epsilon (POLE) (Signature 10). These signatures are associated with response to immune-checkpoint blockade. Immunohistochemistry confirmed high PD-L1 expression in metastatic deposits. The anti-PD-1 monoclonal antibody Pembrolizumab was commenced off-label given the POLE mutation and high mutational load. After four cycles, there was significant reduction in his disease with almost complete resolution of the metastatic deposits. This case highlights the importance of WGS in the analysis, interpretation and treatment of cancers. We anticipate that as WGS becomes integral to the cancer diagnostic pathway, treatments will be stratified to the individual based upon their unique genomic and/or transcriptomic profile, enhancing classical approaches of histologically-driven treatment decisions.
Redox governed electro-fermentation improves lipid production by the oleaginous yeast Rhodosporidium toruloides: metabolic model and in silico results
Contributors: Philipp Arbter
... This data repository contains the in silico results of the following publication: Arbter, P., Sinha, A., Troesch, J., Utesch, T., Zeng, A.-P., 2019. Redox governed electro-fermentation improves lipid production by the oleaginous yeast Rhodosporidium toruloides. Bioresource Technology 294, 122122. 10.1016/j.biortech.2019.122122. The dataset contains all calculated elementary modes as separate excel files for each tested carbon source and the used metabolic model of R. toruloides in SBML format. It also contains a comprehensive description of the two tested electron transfer mechanisms, a list of the used reaction equations and an overview of the results obtained for all twenty tested scenarios.
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Contributors: Sushant Kumar
... Datasets required for publishing a research article in JGR - Atmospheres
Contributors: Lekhansh Shukla
... Google Trends Data , Location: India, Period: 01.01.11 - 30.08.19
Contributors: marco mendoza, Maria B. Goncalves, Jonathan Corcoran
... Differential gene expression analysis (RNA-sequencing) assessed in the SC from L5-SNL rats and non-injured rats, treated with vehicle or C286. Raw counts per gene (Raw counts.zip file) were normalized (quantile normalization; Normaliez counts.zip), then used for a differential gene expression analysis relative to the sample non-injured + vehicle (Diff_expression_DESeq2.zip). In addition, we have included herein a supplementary Table containing Gene Ontology (GO) terms per gene co-expression paths issued from the differential expression analysis. Notice that GO terms are described by their confidence of enrichment, expressend on "-10*log10(p-value).
Contributors: Hashem Ezzati
... These are some codes and data constructed in Matlab software.
Dataset for the metamodeling of naturally ventilated Brazilian low-cost houses to assess thermal performance
Contributors: Ana Paula Favretto, Camila Grassi, Michele Marta Rossi, Jeffrey Thomas, Yifan Yang, Joseph DeCarolis, Soolyeon Cho, David Hill, Ranji Ranjithan, Karin Chvatal
... Research objective: This study aimed to develop metamodels to assess the thermal discomfort in naturally ventilated Brazilian low-cost houses during early design as a decision-making support framework, and for educational purposes. Method overview: The method encompassed a large number of simulations of the software EnergyPlus [EP] 8.1 using the Monte Carlo method. These simulations were used to develop a set of regression-based mathematical relationships between the inputs and the outputs. The Monte Carlo method was selected to help sample the many independent input variables, each with its own range of values, and form equally likely random combinations of input conditions for the energy simulation. The EnergyPlus outputs were post processed to assess the thermal comfort by means of the degree hours of discomfort by heat and by cold. Files description: The following data items were made available. (a) Parameter_Domains: Curitiba_parameterdomains.csv; Manaus_parameterdomains.csv and Sao_Paulo_parametersdomains.csv: CSV files created for each location. They contain a list of the 24 key parameters and random combinations of their values to create the input data for the 10,000 simulations. (b) Performance_Metrics: Curitiba_performancemetrics.csv; Manaus_performancemetrics.csv and Sao_Paulo_performancemetrics.csv: CSV files created for each location. They contain output values (outdoor and indoor discomfort by heat and by cold) for 10,000 simulations. (c) Sandbox: Sandbox.xlsx: Excel file for the application of the metamodels. It enables a quick and easy assessment of discomfort by heat and by cold for specific combinations of parameters, for each location. (d) Python_Codes: Python_Codes.zip: Compressed file consisting of the codes used to 1) run the simulations randomly combining values for each selected parameter within their specified ranges, and 2) to calculate the hours of discomfort by heat and by cold for each of the parameters’ combinations (10,000 simulations for each studied climate). (e) IDFs_Base: Curitiba_idfbase.idf; Manaus_idfbase.idf; Sao_Paulo_idfbase.idf : Input Data File (IDF) created for each location. They contain the description of all input data considered in an annual building performance simulation.
Contributors: Simone Piva
... INCEPT Study Dataset
Contributors: Ross McKitrick
... The XLSX file contains the daily precipitation records for the indicated locations. The proxy.txt file ccontains the 2,000-year proxy records for the PC and SE regions. The Rcode.txt file reads these inputs (they need to be in a relative subdirectory /data/) and generates the outputs shown in the paper, with parameters (start date, optional calculations) selected.