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221 results for “Recombinant protein”
Raw data to accompany the manuscript 'Data for Engineering Lipid Metabolism of Chinese Hamster Ovary (CHO) Cells for Enhanced Recombinant Protein Production' published in the Journal Data in Brief
<p>This repository consists of the raw western blot, microscopy and mass spectrometry data to accompany the manuscript 'Data for Engineering Lipid Metabolism of Chinese Hamster Ovary (CHO) Cells for Enhanced Recombinant Protein Production' published in the Journal Data in Brief and associated with the article '<a href="https://www.ncbi.nlm.nih.gov/pubmed/31805379">Engineering of Chinese hamster ovary cell lipid metabolism results in an expanded ER and enhanced recombinant biotherapeutic protein production</a>' published in the journal Metabolic Engineering (see DOI: 10.1016/j.ymben.2019.11.007). </p> <p>The western blot raw file is associated with Figure 1a and 1b of the Data in Brief manuscript.</p> <p>The confocal microscopy raw image files (x3) are associated with Figure 1c of the Data in Brief manuscript.</p> <p>The mass spectrometry files are the raw data that refers to the samples presented in Figure 5 of the Data in Brief manuscript. Files are labelled as in the Data in Brief and Metabolic Engineering manuscripts. The file name structures is as follows;</p> <p>CHO-Controlpoolai</p> <p>Where 'a' represents replicate 'a' of three biological replicates and 'i' refers to mass spectrometry technical analysis 1 of 3 technical analyses of each replicate (thus for each cell pool or line there are three biological replicates that are each analysed in triplicate such that there are 9 raw mass spectrometry files for each cell pool or line).</p> <p>All the mass spectrometry files are found in the compressed (zip) file named mass_spectrometry_raw_files_archive.zip</p>
Data for the publication: Recombinant silk protein condensates show widely different properties depending on the sample background
<p>This entry includes raw data for the publication "Recombinant silk protein condensates show widely different properties depending on the sample background". The original publication was published in: Journal of Materials Chemistry B, DOI: 10.1039/d4tb01422g</p> <p>The folder "Videos_Micropipette_Aspiration_Zenodo.zip" contains 9 TIF files, labeled Number1 - Number9. The numbering corresponds to the numbering of IMAC condensates studied with micropipette aspiration in the publication. Each TIF file is an image stack from a time series.</p> <p>The folders "Videos_IMAC_silk_with_BG_lysate_coalescence.zip", "Videos_HT_silk_coalescence.zip", and "Videos_IMAC_silk_coalescence.zip" all contain subfolders labeled with the purification method, the framerate of the videos and then consecutive numbering. Each of these folders contains the frames of the video as single TIF files.</p> <p>Please find more information in the read_me file uploaded.</p>
Recombinant Hepatitis E Viruses Harboring Tags in the ORF1 Protein
<p>Hepatitis E virus (HEV) is one of the most common causes of acute hepatitis and jaundice in the world. Current understanding of the molecular virology and pathogenesis of hepatitis E is incomplete, especially due to the limited availability of functional tools. Here, we report the development of tagged HEV genomes as a novel tool to investigate the viral life cycle. A selectable subgenomic HEV replicon was subjected to random 15-nucleotide sequence insertion using transposon-based technology. Viable insertions in the open reading frame 1 (ORF1) protein were selected in a hepatoblastoma cell line. Functional insertion sites were identified downstream of the methyltransferase domain, in the hypervariable region (HVR) and between the helicase and RNA-dependent RNA polymerase domains. HEV genomes harboring a hemagglutinin (HA) epitope tag or a small luciferase (NanoLuc) in the HVR were found to be fully functional and to allow for the production of infectious virus. NanoLuc allowed to quantitatively monitor HEV infection and replication by luciferase assay. HA-tagged replicons and full-length genomes allowed to localize putative sites of HEV RNA replication by the simultaneous detection of viral RNA by fluorescence in situ hybridization and of ORF1 protein by immunofluorescence. Candidate HEV replication complexes were found in cytoplasmic dot-like structures which partially overlap with ORF2 and ORF3 proteins as well as exosomal markers. Hence, tagged HEV genomes yield new insights into the viral life cycle and should allow to further investigate the structure and composition of the viral replication complex.</p>
Data and code for: Recombinant venom proteins in insect seminal fluid reduces female lifespan
<p>Publication: https://doi.org/10.1101/2024.01.14.575309</p> <p>This repository contains all the data as well as the scripts used for the analysis and visualisation. </p> <table> <tbody> <tr> <td><strong>File</strong></td> <td><strong>Description</strong></td> </tr> <tr> <td>TMT.ipynb</td> <td>The Jupyter notebook containing the Python code for statistical analysis and figure generation. Scripts are sectioned in the order that results are presented in the study, with sub-headings and figure numbers where appropriate.</td> </tr> <tr> <td>actingal4.csv</td> <td>Offspring phenotype data from the UAS:venom x Act5C-GAL4 assay (Results: Testing functional expression of recombinant venoms).</td> </tr> <tr> <td>femalelifespan_1-1.csv</td> <td>Female lifespan data from the 1:1 male:female mating assay (Results: TMT males reduce the lifespan of mated females). Time = days since initial male exposure until death. Status: 1 = death observed; 0 = censored. </td> </tr> <tr> <td>femalelifespan_3-1.csv</td> <td>Female lifespan data from the 3:1 male:female mating assay (Results: TMT males reduce the lifespan of mated females). Time = days since initial male exposure until death. Status: 1 = death observed; 0 = censored. </td> </tr> <tr> <td>singlemating.csv</td> <td>Data from the single-pair courtship assay. 1 = successful courtship observed; 0 = successful courtship not observed.</td> </tr> <tr> <td>competitivemating.csv</td> <td>Offspring genotype data from the competitive mating assay. Female = group of offspring from a given mother. white = positive result from gDNA PCR using the 'white' primers (supplementary table S2). TMT = positive result from gDNA PCR using the 'UAS' primers (supplementary table S2).</td> </tr> <tr> <td>malelifespan.csv</td> <td>TMT male lifespan data from the male longevity assay. Time = days since eclosion. Status: 1 = death observed; 0 = censored. </td> </tr> </tbody> </table> <p> </p> <p>TMT-GAMA.db and TMT-lethality.db contains data from the GAMA model (doi:10.5281/zenodo.11439089), which is accessed by the Jupyter notebook.</p> <table> <tbody> <tr> <td><strong>Table</strong></td> <td><strong>Description</strong></td> </tr> <tr> <td>TMT_step_output</td> <td>Each simulation will write key values to this table each cycle once transgenic males have begun to be released.</td> </tr> <tr> <td>TMT_female_output</td> <td>Each female will write key values to this table upon their death once transgeni males have begun to be released.</td> </tr> <tr> <td>TMT_PR50</td> <td>Each simulation will write to this table when/if the female population reaches 50% of its initial size.</td> </tr> <tr> <td>TMT_PR95</td> <td>Each simulation will write to this table when/if the female population reaches 95% of its initial size.</td> </tr> </tbody> </table>
Recombination and In-silico protein modelling and functional characterization of copLAB genes from Trinidadian Xanthomonas campestris and melonis isolates
<p>RDP, GARD, RaptorX and InterProScan outputs relating to the publication tentatively titled "Heavy metal resistance islands associated with a putative Tn in Trinidadian copper resistant <em>Xanthomonas campestris </em>and <em>melonis </em>strains are strongly linked to homologs from the <em>Stenotrophomonas </em>genus"</p>
Study of Recombinant Protein Vaccines With Adjuvant as a Primary Series and as a Booster Dose Against COVID-19 in Adults 18 Years of Age and Older
ClinicalTrials.gov study NCT04762680. IPD Sharing: YES. Countries: 7. Publications: 2.
Efficacy and Safety Study of a Recombinant Protein-Free Manufactured Factor VIII (rAHF-PFM) in Previously Untreated Hemophilia A Patients
ClinicalTrials.gov study NCT00157157. IPD Sharing: YES. Countries: 10. Publications: 2.
Study of Recombinant Protein Vaccine Formulations Against COVID-19 in Healthy Adults 18 Years of Age and Older
ClinicalTrials.gov study NCT04537208. IPD Sharing: YES. Countries: 1. Publications: 2.
A Phase 3 Open-label Interventional Study of Intravenous Recombinant Coagulation Factor VIII Fc-von Willebrand Factor-XTEN Fusion Protein, Efanesoctocog Alfa (BIVV001), in Patients With Severe Hemophi
ClinicalTrials.gov study NCT04161495. IPD Sharing: YES. Countries: 19. Publications: 5.
A Safety, Tolerability, and Pharmacokinetics Study of a Single Intravenous Injection of Recombinant Coagulation Factor VIII Fc - Von Willebrand Factor - XTEN Fusion Protein (rFVIIIFc-VWF-XTEN) (BIVV00
ClinicalTrials.gov study NCT03205163. IPD Sharing: YES. Countries: 2. Publications: 1.
Study of Monovalent and Bivalent Recombinant Protein Vaccines Against COVID-19 in Adults 18 Years of Age and Older
ClinicalTrials.gov study NCT04904549. IPD Sharing: YES. Countries: 11. Publications: 1.
Recombinant Costimulatory Fusion Proteins as Functional Immunomodulators Enhance Antitumor Activity in Murine B16F10 Melanoma
<p>Cancer immunotherapy has emerged as an important therapeutic modality in preclinical and clinical oncology. Blocking inhibitory signaling and engaging stimulatory signaling enable some patients to produce an efficient antitumor response. In this work, we demonstrate unique and unexpected immunomodulatory features of different costimulatory ligand proteins with no combination of tumor-associated products, which bridge innate and adaptive immune responses against cancer in preventive as well as therapeutic efficacy.</p>
Supplement Tables of Recombinant Klotho protein protects pulmonary alveolar epithelial cells against sepsis-induced apoptosis by inhibiting the Bcl-2/Bax/caspase-3 pathway
<p>This is Supplement Tables of Recombinant Klotho protein protects pulmonary alveolar epithelial cells against sepsis-induced apoptosis by inhibiting the Bcl-2/Bax/caspase-3 pathway.</p>
Increasing Recombinant Protein Production in E. coli via FACS-Based Selection of N-terminal Coding DNA Libraries
<p>Data for a manuscript to be deposited to the FEBS Journal. </p> <p>Abstract as deposited:</p> <p><span><span>We present a novel approach to modify N-terminal sequences of recombinant proteins to increase their production yield in <em><span>Escherichia coli</span></em>. Prior research has demonstrated a profound impact of a few nucleotides following the initiator codon (further to as N-terminal sequences) on their expression. Most of these investigations have been limited to selecting from a few rationally designed sequences. In contrast we used directed evolution-based methodology screening large numbers of diversified sequences derived from DNA libraries coding for the N-termini of investigated proteins. To facilitate the identification of cells with increasing expression of the target construct, we cloned a GFP gene at the C-terminus of the expressed genes and used fluorescent activated cell sorting (FACS) to separate cells based on their fluorescence. By following this systematic workflow, we successfully elevated the yield of soluble recombinant proteins of multiple constructs up to over 30-fold. </span></span></p>
Interaction of hypertensive rat serum immunoglobulin with recombinant human proteins
<p><strong>Microsoft Excel file: “HuProt supplemental data.xlsx”</strong></p> <p><em>Description of supplementary material : HuProt array v3.1 IgM and IgG signals from rat serum pools.</em></p> <p><strong>Sheet 1</strong>: “Array Z scores” Z scores for all array features for all sample pools used in the study detected with anti-IgM and anti-IgG reporter antibodies</p> <p><strong>Sheet 2</strong>: “IgM Z scores top 35” Z scores for the 35 array features that had highest scores detected with anti-IgM reporter in 28 week old salt loaded SHR-A3 and the corresponding scores for 16 week old SHR-A3 and 28 week old SHR-A3(<em>IgH</em>-B2) congenics.</p> <p><strong>Sheet 3</strong>: “IgM Z scores higher at 28 wks” Refinement of Sheet 2 to eliminate array features in which IgM Z scores were greater in 16 week old SHR-A3 prior to salt loading compared with 28 week old salt-loaded SHR-A3.</p> <p><strong>Sheet 4</strong>: “IgM Z scores congenics down” Refinement of Sheet 3 to include only array features in which IgM Z scores were reduced in 28 week old salt-loaded SHR-A3(<em>IgH</em>-B2) compared with 28 week old salt-loaded SHR-A3.</p> <p><strong>Sheet 5</strong>: “IgG Z scores top 35” Z scores for the 35 array features that had highest scores detected with anti-IgG reporter in 28 week old salt loaded SHR-A3 and the corresponding scores for 16 week old SHR-A3 and 28 week old SHR-A3(<em>IgH</em>-B2) congenics.</p> <p><strong>Sheet 6</strong>: “IgG Z scores higher at 28 wks” Refinement of Sheet 2 to eliminate array features in which IgG Z scores were greater in 16 week old SHR-A3 prior to salt loading compared with 28 week old salt-loaded SHR-A3.</p> <p><strong>Sheet 7</strong>: “IgG Z scores congenics down” Refinement of Sheet 3 to include only array features in which IgG Z scores were reduced in 28 week old salt-loaded SHR-A3(<em>IgH</em>-B2) compared with 28 week old salt-loaded SHR-A3.</p> <p><strong>Sheet 8: </strong>“Table 1 IgM IgG concordance” This data is presented as Table 1 in the manuscript and identifies those array features that are common to both Sheet 4 and Sheet 7, representing array features for which both IgM and IgG reactivity were reduced in 28 week old salt-loaded SHR-A3(<em>IgH</em>-B2) compared with 28 week old salt-loaded SHR-A3.</p>
Activity-based proteomics reveals nine target proteases for the recombinant protein-stabilizing inhibitor SlCYS8 in Nicotiana benthamiana
<p>Complete dataset (MS Label-free quantification) for the publication 'Activity-based proteomics reveals nine target proteases for the recombinant protein-stabilizing inhibitor <em>Sl</em>CYS8 in <em>Nicotiana benthamiana</em>'</p> <p>DOI: 10.1111/pbi.13092</p> <p> </p>
Candidate High-Resolution Mass Spectrometry-Based Reference Method for the Quantification of Procalcitonin in Human Serum Using a Characterized Recombinant Protein as a Primary Calibrator
<p>Dataset related to Huu-Hien Huynh, Vincent Delatour, Maxence Derbez-Morin, Qinde Liu, Amandine Boeuf, and Joëlle Vinh, (2022) Candidate High-Resolution Mass Spectrometry-Based Reference Method for the Quantification of Procalcitonin in Human Serum Using a Characterized Recombinant Protein as a Primary Calibrator. Anal. Chem. 2022, 94, 10, 4146–4154.</p>
Study of Recombinant Coagulation Factor IX Fc Fusion Protein, BIIB029, in Previously Treated Pediatric Participants With Hemophilia B
ClinicalTrials.gov study NCT01440946. IPD Sharing: Not stated. Countries: 6. Publications: 2.
Prophylaxis Study of Recombinant Factor VIII Manufactured Protein-Free (rAHF-PFM) in Patients With Hemophilia A
ClinicalTrials.gov study NCT00243386. IPD Sharing: Not stated. Countries: 10. Publications: 1.
Study to Evaluate the Safety, Efficacy, and Pharmacokinetics of Recombinant Coagulation Factor VIII Fc Fusion Protein (rFVIIIFc) in Previously Treated Pediatric Subjects With Hemophilia A
ClinicalTrials.gov study NCT01458106. IPD Sharing: Not stated. Countries: 8. Publications: 3.
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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.
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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.