Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
| Name | Authors | DOI | Group |
Summary |
Associated Publications |
RRIDs used | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Quant-iT™ RiboGreen™ RNA Quantification Resource Report Resource Website |
Roey Angel, Eva Petrova | 10.17504/protocols.io.qdsds6e | SoWa RI Anaerobic and Molecular Microbiology (public) | The following protocol is intended for the quantification of RNA using Quant-iT™ RiboGreen™ RNA Assay Kit (ThermoFisher). This protocol is a simplified and condensed version of the full protocol from the manufacturer.The procedure described here is for 96 reactions. If samples are run in duplicates, then this should allow quantifying 40 samples. | Soil and Water Research Inrastructure, Soil and Water Research Inrastructure | https://sfamjournals.onlinelibrary.wiley.com/doi/abs/10.1111/1462-2920.12140 | 1 | 2020 | Roey Angel, Eva Petrova 2020. Quant-iT™ RiboGreen™ RNA Quantification. protocols.io dx.doi.org/10.17504/protocols.io.qdsds6e | 2021-03-29 03:11:04 | ||
|
CITE-seq and Cell Hashing Resource Report Resource Website |
Marlon Stoeckius, Peter Smibert | 10.17504/protocols.io.nhqdb5w | Human Cell Atlas Method Development Community | This protocol is for performing CITE-seq and Cell Hashing in parallel. CITE-seq: Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-seq) is a multimodal single cell phenotyping method developed in the Technology Innovation lab at the New York Genome Center in collaboration with the Satija lab.CITE-seq uses DNA-barcoded antibodies to convert detection of proteins into a quantitative, sequenceable readout. Antibody-bound oligos act as synthetic transcripts that are captured during most large-scale oligodT-based scRNA-seq library preparation protocols (e.g. 10x Genomics, Drop-seq, ddSeq).This allows for immunophenotyping of cells with a potentially limitless number of markers and unbiased transcriptome analysis using existing single-cell sequencing approaches.Cell Hashing:Sample multiplexing and super-loading on single cell RNA-sequencing platforms.Cell Hashing uses a series of oligo-tagged antibodies against ubiquitously expressed surface proteins with different barcodes to uniquely label cells from distinct samples, which can be subsequently pooled in one scRNA-seq run. By sequencing these tags alongside the cellular transcriptome, we can assign each cell to its sample of origin, and robustly identify doublets originating from multiple samples. | New York Genome Center Technology Innovation Lab, New York Genome Center Technology Innovation Lab | https://cite-seq.com/protocol/ | 1 | 2018 | Marlon Stoeckius, Peter Smibert 2018. CITE-seq and Cell Hashing. protocols.io dx.doi.org/10.17504/protocols.io.nhqdb5w | 2021-03-29 03:11:04 | ||
|
Whole colony fixation Resource Report Resource Website |
Simon Blanchoud, Silvia Moreno Forero, Margaux de Raemy | 10.17504/protocols.io.brw6m7he | Blanchoud lab, UNIFR | This protocol has been successfully tested on Botrylloides diegensis and Ciona robusta. | University of Fribourg, University of Fribourg, University of Fribourg | 2 | 2021 | Simon Blanchoud, Silvia Moreno Forero, Margaux de Raemy 2021. Whole colony fixation. protocols.io dx.doi.org/10.17504/protocols.io.brw6m7he | 2021-03-29 03:11:04 | |||
|
Adult human small intestine cell dissociation (on ice) Resource Report Resource Website |
Andrew Potter | 10.17504/protocols.io.rnnd5de | Human Cell Atlas Method Development Community | Protocol for human small intestine cell dissociation, performed on ice to reduce artifact gene expression. | Cincinnati Children's Hospital Medical Center | 7 | 2018 | Andrew Potter 2018. Adult human small intestine cell dissociation (on ice). protocols.io dx.doi.org/10.17504/protocols.io.rnnd5de | 2021-03-29 03:11:05 | |||
|
Week 7: Binning Genomes with Anvi’o Resource Report Resource Website |
Rika Anderson | 10.17504/protocols.io.g6tbzen | 2 | 2017 | Rika Anderson 2017. Week 7: Binning Genomes with Anvi’o. protocols.io dx.doi.org/10.17504/protocols.io.g6tbzen | 2021-03-29 03:11:05 | ||||||
|
Developing a database for pedestrians’earthquake emergency evacuation in indoor scenarios Resource Report Resource Website |
Junxue Zhou, Sha Li，Gaozhong Nie | 10.17504/protocols.io.mfxc3pn | With the booming development of evacuation simulation software, developing an extensive database in indoor scenarios for evacuation models is imperative. In this paper, we conduct a qualitative and quantitative analysis on the collected videotapes and aim to provide a complete and unitary database of pedestrians' earthquake emergency response behaviors in indoor scenarios, including interactions between man and the environment. Using the qualitative analysis method, we extract keyword groups and keywords that code the response modes of pedestrians in indoor scenarios and construct a general decision flowchart using chronological organization. Using the quantitative analysis method, we analyze data on the delay time, evacuation speed, evacuation route and emergency exit choices. Furthermore, we study the effect of classroom layout on emergency evacuation. The database in indoor scenarios provides reliable input parameters and allows the construction of real and effective constraints for use in software and mathematical models. It can also be used to validate the accuracy of evacuation models. | Institute of Geology, China Earthquake Administration, | 1 | 2018 | Junxue Zhou, Sha Li，Gaozhong Nie 2018. Developing a database for pedestrians’earthquake emergency evacuation in indoor scenarios. protocols.io dx.doi.org/10.17504/protocols.io.mfxc3pn | 2021-03-29 03:11:05 | ||||
|
Protocol: Schonger & Sele, How to better communicate the exponential growth of infectious diseases, PLOS ONE 15(12), 2020. Resource Report Resource Website |
Martin Schonger, Daniela Sele | 10.17504/protocols.io.bqgmmtu6 | ETHZ - ETH Zurich, Hochschule Luzern, ETHZ - ETH Zurich | 1 | 2020 | Martin Schonger, Daniela Sele 2020. Protocol: Schonger & Sele, How to better communicate the exponential growth of infectious diseases, PLOS ONE 15(12), 2020.. protocols.io dx.doi.org/10.17504/protocols.io.bqgmmtu6 | 2021-03-29 03:11:05 | |||||
|
Sample preparation for single nuclei sequencing of brain Resource Report Resource Website |
Anna Martinez Casals, Nicholas Mitsios | 10.17504/protocols.io.v44e8yw | Human Protein Atlas | Sample preparation for single nuclei sequencing using fresh frozen tissue from human postmortem brain. The protocol is a combination of an already existing and published protocol in Nature protocols Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons and the 10x Genomics handbook Sample preparation, isolation of nuclei for single nuclei RNA sequencing. | Science for life laboratory / KTH - Royal Institute of Technology, Karolinska Institute Stockholm | 1 | 2019 | Anna Martinez Casals, Nicholas Mitsios 2019. Sample preparation for single nuclei sequencing of brain. protocols.io dx.doi.org/10.17504/protocols.io.v44e8yw | 2021-03-29 03:11:04 | |||
|
10g/L Fe Stock Solution Resource Report Resource Website |
Matthew Sullivan Lab | 10.17504/protocols.io.c2zyf5 | VERVE Net, Sullivan Lab | 10g/L Fe Stock Solution for Iron Chloride Precipitation of Viruses from Seawater Protocol. | Matthew Sullivan Lab, University of Arizona, Ohio State University | 1 | 2015 | Matthew Sullivan Lab 2015. 10g/L Fe Stock Solution. protocols.io dx.doi.org/10.17504/protocols.io.c2zyf5 | 2021-03-29 03:11:04 | |||
|
Larval development Resource Report Resource Website |
Wen Aw | 10.17504/protocols.io.rqzd5x6 | Cage Studies | Aw WC, Towarnicki SG, Melvin RG, Youngson NA, Garvin MR, Hu Y, Nielsen S, Thomas T, Pickford R, Bustamante S, Vila-Sanjurjo A, Smyth GK, Ballard JWO (2018) Genotype to phenotype: Diet-by-mitochondrial DNA haplotype interactions drive metabolic flexibility and organismal fitness. PLoS Genet 14(11): e1007735. doi: 10.1371/journal.pgen.1007735 | [email protected] | https://doi.org/10.1371/journal.pgen.1007735 | 1 | 2018 | Wen Aw 2018. Larval development. protocols.io dx.doi.org/10.17504/protocols.io.rqzd5x6 | 2021-03-29 03:11:05 | ||
|
FLASH v2.0 Resource Report Resource Website |
Amy Lyden, Gloria Castañeda, Emily Crawford, Saharai Caldera, Jenai Quan, Katherine Travisano | 10.17504/protocols.io.3ingkde | Chan Zuckerberg Biohub | FLASH is a crispr-cas9 technology that enriches for targeted sequences in sequencing libraries. The initial DNA sample undergoes a blocking step that removes of the 5’ phosphoryl groups of the DNA fragments, resulting in a product that is not amendable for downstream adaptor ligation or amplification via standard Illumina-based library preparation. The subsequent incorporation of targeted CRISPR-cas9 library exposes the desired regions of interest, allowing them to be processed into a library. For more information on methods and results, please see the FLASH paper. For FLASH guide RNA design help, please see our github. | CZ Biohub, CZ Biohub, CZ Biohub, CZ Biohub, UCSF, CZ Biohub, CZ Biohub | 1 | 2019 | Amy Lyden, Gloria Castañeda, Emily Crawford, Saharai Caldera, Jenai Quan, Katherine Travisano 2019. FLASH v2.0. protocols.io dx.doi.org/10.17504/protocols.io.3ingkde | 2021-03-29 03:11:05 | |||
|
50 mM Phosphate Buffer (with 0.02% sodium azide option) Resource Report Resource Website |
Allen Institute for Brain Science | 10.17504/protocols.io.bg52jy8e | BICCN, Allen Institute for Brain Science | 50 mM Phosphate Buffer can be used as a general buffer solution for multiple applications. It is suitable for use as a buffer for specimen embedding, as part of brain preparation associated with TissueCyte 2P Serial Imaging, described in PF0315 TissueCyte Specimen Embedding Acrylamide Coembedding.Note: Research reported in this publication was supported by the National Institute Of Mental Health of the National Institutes of Health under Award Number U19MH114830. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. | Allen Institute | 2 | 2020 | Allen Institute for Brain Science 2020. 50 mM Phosphate Buffer (with 0.02% sodium azide option). protocols.io dx.doi.org/10.17504/protocols.io.bg52jy8e | 2021-03-29 03:11:05 | |||
|
Github ssh keys Resource Report Resource Website |
Ken Youens-Clark | 10.17504/protocols.io.fsubnew | Metafunc Course 2017 | University of Arizona | 2 | 2017 | Ken Youens-Clark 2017. Github ssh keys. protocols.io dx.doi.org/10.17504/protocols.io.fsubnew | 2021-03-29 03:11:06 | ||||
|
Hydroxyl Radical-scavenging Activity Resource Report Resource Website |
Jing Xu | 10.17504/protocols.io.bdazi2f6 | The scavenging of hydroxyl radicals were determined by Guo et al. The reactions were performed in 0.3 ml of 20 mM sodium salicylate, 2.0 ml of 1.5 nM FeSO4, 1.0 ml of samples, and 1.0 ml of 6 mM H2O2.The reaction mixture was incubated for 1 hat 37 °C. The absorbance was measured at 510 nm. The inhibition percent and 50% of absorbance(EC50)were calculated. | Zhou J, Yang Q, Zhu X, Lin T, Hao D, Xu J (2020) Antioxidant activities of Clerodendrum cyrtophyllum Turcz leaf extracts and their major components. PLoS ONE 15(6): e0234435. doi: 10.1371/journal.pone.0234435 | Hainan University | https://doi.org/10.1371/journal.pone.0234435 | 1 | 2020 | Jing Xu 2020. Hydroxyl Radical-scavenging Activity. protocols.io dx.doi.org/10.17504/protocols.io.bdazi2f6 | 2021-03-29 03:11:06 | ||
|
Standard Operating Procedure for Real-Time PCR Reaction (qPCR) Resource Report Resource Website |
Leonardo Ribeiro, María Cristina Vidal Pessolani | 10.17504/protocols.io.pnqdmdw | Goal:This SOP aims to guide users and establish a standardization for the real-time PCR protocol.General considerations:- This standard operating protocol was based on the protocols provided by the manufacturer of the Step One plus and ViiA 7 (Applied Biosystems) PCR machines available in the leprosy laboratory, Oswaldo Cruz Foundation, Brazil.- Considering that the PCR principle is based on the amplification of DNA or cDNA molecules, it is essential that the material to be used (tubes, tips, water, etc.) is free of nucleases.Procedures:TaqMan® system (used for molecular feasibility testing)Turn on the molecular biology cabinet and leave UV light on for 10 minutes;Inside the cabinet, dilute the stock of primers and probe in nucleases free water (eg RF) or TE buffer (see information from this solution below) at 10 μM concentration in RNAse/DNAse-free PCR microtubes (eppendorf or similar). Typically, the stock of primers at an initial 100 μM concentration needs to be diluted 1:10.Prepare the Mix containing the primers by adding: Add 8μL of the reaction MIX per well to the PCR plate (96-well or 384-well plate)Outside of the cabinet, add 2 μL of cDNA or DNA (cDNA or DNA concentration 5 ng / μL) per reaction. In this way the reaction will have a final volume of 10 μL (The final volume indicated for each reaction above can be varied / increased according to need, in that case the volume of all the reagents must be adjusted to respect the recommended final concentration).Take the plate to the thermocycler and start the reaction. SYBR® Green SystemConnect the molecular biology cabinet and leave in UV light for 10 minutes;Inside the cabinet, dilute the primers at a concentration of 10 μM in a microtube (stock usually at 200 μM);Prepare the Mix containing the primers, adding: Add 8 μL of reaction MIX per well to the PCR plate (96- or 384-well plate);Outside the cabinet, add 2 μL containing 10 ng of cDNA per reaction to a final volume of 10 μL. (The final volume of the reaction may vary as needed, so all reagent concentrations should be adjusted.) Programming softwareOpen the program on the ViiA 7 RUO software icon;Click the "Experiment setup" option;In the side menu of the window, in the item "experiments properties" it is possible to: name the experiment, select type of plate (96 or 384), type of experiment, type of reagent used and finally if the run will be "standard" (normal time) or "fast" (fast tempo), according to the type of master mix used;In the "define" option, name the target genes in the tab called "targets", number of samples in the "samples" tab and, if necessary, define the biological replicates in the "Biological replicates group" tab;In the "assign" option, select the names and genes and targets in the "targets" and "samples" tab, and construct the design of the PCR plate in the "Plate Layout" tab, selecting with the mouse the area on the board and defining both the sample and the selected gene;In the "run methods" option, in the Graphical view tab, indicate the number of reaction cycles and reaction volume desired (usually following the manufacturer's recommendations);Finally, in the "Run" option, start the run with the green button indicating "start run". Materials:Eppendorf tubes (free from RNAse / DNAse)MicropipettesPlate CentrifugeOptical plate sealerPCR plate 96 or 384 wellsMaster Mix Syber Green or Master Mix TaqmanRnase/Dnase free tips with filterRF Water (RNase free water)TE buffer (5 mM TrisHCl and 0.1 mM EDTA pH 8.0) A10.2 μL Primer Reverse (10 μM) 20.2 μL Primer Sense (10 μM) 30.2 μL Probe (10 μM) 45.0 μL master mix 52.4 μL Water RF Add 8μL of the reaction MIX per well to the PCR plate (96-well or 384-well plate)Outside of the cabinet, add 2 μL of cDNA or DNA (cDNA or DNA concentration 5 ng / μL) per reaction. In this way the reaction will have a final volume of 10 μL (The final volume indicated for each reaction above can be varied / increased according to need, in that case the volume of all the reagents must be adjusted to respect the recommended final concentration).Take the plate to the thermocycler and start the reaction. SYBR® Green SystemConnect the molecular biology cabinet and leave in UV light for 10 minutes;Inside the cabinet, dilute the primers at a concentration of 10 μM in a microtube (stock usually at 200 μM);Prepare the Mix containing the primers, adding: Add 8 μL of reaction MIX per well to the PCR plate (96- or 384-well plate);Outside the cabinet, add 2 μL containing 10 ng of cDNA per reaction to a final volume of 10 μL. (The final volume of the reaction may vary as needed, so all reagent concentrations should be adjusted.) Programming softwareOpen the program on the ViiA 7 RUO software icon;Click the "Experiment setup" option;In the side menu of the window, in the item "experiments properties" it is possible to: name the experiment, select type of plate (96 or 384), type of experiment, type of reagent used and finally if the run will be "standard" (normal time) or "fast" (fast tempo), according to the type of master mix used;In the "define" option, name the target genes in the tab called "targets", number of samples in the "samples" tab and, if necessary, define the biological replicates in the "Biological replicates group" tab;In the "assign" option, select the names and genes and targets in the "targets" and "samples" tab, and construct the design of the PCR plate in the "Plate Layout" tab, selecting with the mouse the area on the board and defining both the sample and the selected gene;In the "run methods" option, in the Graphical view tab, indicate the number of reaction cycles and reaction volume desired (usually following the manufacturer's recommendations);Finally, in the "Run" option, start the run with the green button indicating "start run". Materials:Eppendorf tubes (free from RNAse / DNAse)MicropipettesPlate CentrifugeOptical plate sealerPCR plate 96 or 384 wellsMaster Mix Syber Green or Master Mix TaqmanRnase/Dnase free tips with filterRF Water (RNase free water)TE buffer (5 mM TrisHCl and 0.1 mM EDTA pH 8.0)SYBR® Green SystemConnect the molecular biology cabinet and leave in UV light for 10 minutes;Inside the cabinet, dilute the primers at a concentration of 10 μM in a microtube (stock usually at 200 μM);Prepare the Mix containing the primers, adding: Add 8 μL of reaction MIX per well to the PCR plate (96- or 384-well plate);Outside the cabinet, add 2 μL containing 10 ng of cDNA per reaction to a final volume of 10 μL. (The final volume of the reaction may vary as needed, so all reagent concentrations should be adjusted.) Programming softwareOpen the program on the ViiA 7 RUO software icon;Click the "Experiment setup" option;In the side menu of the window, in the item "experiments properties" it is possible to: name the experiment, select type of plate (96 or 384), type of experiment, type of reagent used and finally if the run will be "standard" (normal time) or "fast" (fast tempo), according to the type of master mix used;In the "define" option, name the target genes in the tab called "targets", number of samples in the "samples" tab and, if necessary, define the biological replicates in the "Biological replicates group" tab;In the "assign" option, select the names and genes and targets in the "targets" and "samples" tab, and construct the design of the PCR plate in the "Plate Layout" tab, selecting with the mouse the area on the board and defining both the sample and the selected gene;In the "run methods" option, in the Graphical view tab, indicate the number of reaction cycles and reaction volume desired (usually following the manufacturer's recommendations);Finally, in the "Run" option, start the run with the green button indicating "start run". Materials:Eppendorf tubes (free from RNAse / DNAse)MicropipettesPlate CentrifugeOptical plate sealerPCR plate 96 or 384 wellsMaster Mix Syber Green or Master Mix TaqmanRnase/Dnase free tips with filterRF Water (RNase free water)TE buffer (5 mM TrisHCl and 0.1 mM EDTA pH 8.0) A10.2 μL Pair of primers (10 μM) 25.0 μL master mix 32.8 μL Water RF Add 8 μL of reaction MIX per well to the PCR plate (96- or 384-well plate);Outside the cabinet, add 2 μL containing 10 ng of cDNA per reaction to a final volume of 10 μL. (The final volume of the reaction may vary as needed, so all reagent concentrations should be adjusted.) Programming softwareOpen the program on the ViiA 7 RUO software icon;Click the "Experiment setup" option;In the side menu of the window, in the item "experiments properties" it is possible to: name the experiment, select type of plate (96 or 384), type of experiment, type of reagent used and finally if the run will be "standard" (normal time) or "fast" (fast tempo), according to the type of master mix used;In the "define" option, name the target genes in the tab called "targets", number of samples in the "samples" tab and, if necessary, define the biological replicates in the "Biological replicates group" tab;In the "assign" option, select the names and genes and targets in the "targets" and "samples" tab, and construct the design of the PCR plate in the "Plate Layout" tab, selecting with the mouse the area on the board and defining both the sample and the selected gene;In the "run methods" option, in the Graphical view tab, indicate the number of reaction cycles and reaction volume desired (usually following the manufacturer's recommendations);Finally, in the "Run" option, start the run with the green button indicating "start run". Materials:Eppendorf tubes (free from RNAse / DNAse)MicropipettesPlate CentrifugeOptical plate sealerPCR plate 96 or 384 wellsMaster Mix Syber Green or Master Mix TaqmanRnase/Dnase free tips with filterRF Water (RNase free water)TE buffer (5 mM TrisHCl and 0.1 mM EDTA pH 8.0)Programming softwareOpen the program on the ViiA 7 RUO software icon;Click the "Experiment setup" option;In the side menu of the window, in the item "experiments properties" it is possible to: name the experiment, select type of plate (96 or 384), type of experiment, type of reagent used and finally if the run will be "standard" (normal time) or "fast" (fast tempo), according to the type of master mix used;In the "define" option, name the target genes in the tab called "targets", number of samples in the "samples" tab and, if necessary, define the biological replicates in the "Biological replicates group" tab;In the "assign" option, select the names and genes and targets in the "targets" and "samples" tab, and construct the design of the PCR plate in the "Plate Layout" tab, selecting with the mouse the area on the board and defining both the sample and the selected gene;In the "run methods" option, in the Graphical view tab, indicate the number of reaction cycles and reaction volume desired (usually following the manufacturer's recommendations);Finally, in the "Run" option, start the run with the green button indicating "start run". Materials:Eppendorf tubes (free from RNAse / DNAse)MicropipettesPlate CentrifugeOptical plate sealerPCR plate 96 or 384 wellsMaster Mix Syber Green or Master Mix TaqmanRnase/Dnase free tips with filterRF Water (RNase free water)TE buffer (5 mM TrisHCl and 0.1 mM EDTA pH 8.0)Materials:Eppendorf tubes (free from RNAse / DNAse)MicropipettesPlate CentrifugeOptical plate sealerPCR plate 96 or 384 wellsMaster Mix Syber Green or Master Mix TaqmanRnase/Dnase free tips with filterRF Water (RNase free water)TE buffer (5 mM TrisHCl and 0.1 mM EDTA pH 8.0)References:https://tools.thermofisher.com/content/sfs/manuals/cms_095288.pdfhttps://tools.thermofisher.com/content/sfs/manuals/cms_046736.pdf | Acosta CCD, Dias AA, Rosa TLSA, Batista-Silva LR, Rosa PS, Toledo-Pinto TG, Costa FdMR, Lara FA, Rodrigues LS, Mattos KA, Sarno EN, Bozza PT, Guilhot C, Berrêdo-Pinho Md, Pessolani MCV (2018) PGL I expression in live bacteria allows activation of a CD206/PPARγ cross-talk that may contribute to successful Mycobacterium leprae colonization of peripheral nerves. PLoS Pathog 14(7): e1007151. doi: 10.1371/journal.ppat.1007151 | Oswaldo Cruz Foundation, Oswaldo Cruz Foundation | https://doi.org/10.1371/journal.ppat.1007151 | 1 | 2018 | Leonardo Ribeiro, María Cristina Vidal Pessolani 2018. Standard Operating Procedure for Real-Time PCR Reaction (qPCR). protocols.io dx.doi.org/10.17504/protocols.io.pnqdmdw | 2021-03-29 03:11:06 | ||
|
School environmental contamination of methicillin-sensitive Staphylococcus aureus as an independent risk factor for nasal colonization in schoolchildren: an observational, cross-sectional study protocol Resource Report Resource Website |
Jialing Lin, Zhenjiang Yao | 10.17504/protocols.io.vcce2sw | A cross-sectional study was conducted in eight elementary schools in Guangzhou, China. Nasal swabs from students and environmental swabs from school environments were collected. Univariate and multivariate logistic regression analyses under a multistage stratified cluster cross-sectional survey design were performed to access the prevalence relationship and influencing factors, respectively. Phenotypic and molecular characterizations of MSSA isolates were conducted using the Kirby-Bauer disk diffusion method and polymerase chain reaction assays, respectively. | Lin J, Zhang T, Bai C, Liang J, Ye J, Yao Z (2018) School environmental contamination of methicillin-sensitive Staphylococcus aureus as an independent risk factor for nasal colonization in schoolchildren: An observational, cross-sectional study. PLoS ONE 13(11): e0208183. doi: 10.1371/journal.pone.0208183 | Guangdong Pharmaceutical University, Guangdong Pharmaceutical University | https://doi.org/10.1371/journal.pone.0208183 | 1 | 2018 | Jialing Lin, Zhenjiang Yao 2018. School environmental contamination of methicillin-sensitive Staphylococcus aureus as an independent risk factor for nasal colonization in schoolchildren: an observational, cross-sectional study protocol. protocols.io dx.doi.org/10.17504/protocols.io.vcce2sw | 2021-03-29 03:11:06 | ||
|
Determination of Total Hydrogen Cyanide Levels in Fresh Cassava Roots using the picrate paper method Resource Report Resource Website |
Matema Imakumbili | 10.17504/protocols.io.ygzftx6 | This protocol describes how to analyse total cyanide (HCN) levels in fresh cassava roots using the picrate paper method. The method gives the potential cyanide content of cassava roots on a fresh weight basis. | Imakumbili MLE, Semu E, Semoka JMR, Abass A, Mkamilo G (2019) Soil nutrient adequacy for optimal cassava growth, implications on cyanogenic glucoside production: A case of konzo-affected Mtwara region, Tanzania. PLoS ONE 14(5): e0216708. doi: 10.1371/journal.pone.0216708 | Sokoine University of Agriculture | https://doi.org/10.1371/journal.pone.0216708 | 1 | 2019 | Matema Imakumbili 2019. Determination of Total Hydrogen Cyanide Levels in Fresh Cassava Roots using the picrate paper method. protocols.io dx.doi.org/10.17504/protocols.io.ygzftx6 | 2021-03-29 03:11:04 | ||
|
ELISA for quantification of IL-26 in human serum. Resource Report Resource Website |
Angel Justiz-Vaillant | 10.17504/protocols.io.bj3vkqn6 | University of the West Indies, [email protected] | Interleukins (IL) are a type of cytokine first thought to be expressed by leukocytes alone but have later been found to be produced by many other body cells. They play essential roles in the activation and differentiation of immune cells, as well as proliferation, maturation, migration, and adhesion. They also have pro-inflammatory and anti-inflammatory properties. The primary function of interleukins is, therefore, to modulate growth, differentiation, and activation during inflammatory and immune responses. Interleukins consist of a large group of proteins that can elicit many reactions in cells and tissues by binding to high-affinity receptors in cell surfaces. It is strongly associated inflammatory activity with IL-26. Th17 cells produce this interleukin. It acts on epithelial cells and intestinal epithelial cells. It induces IL-10 expression, stimulates the production of IL-1-beta, IL-6, and IL-8 and causes Th17 cell generation. [1]Reference1. Justiz Vaillant AA, Qurie A. Interleukin. In:StatPearls. Treasure Island (FL): StatPearls Publishing; June 12, 2019. | University of the West Indies St. Augustine | 1 | 2020 | Angel Justiz-Vaillant 2020. ELISA for quantification of IL-26 in human serum.. protocols.io dx.doi.org/10.17504/protocols.io.bj3vkqn6 | 2021-03-29 03:11:04 | |||
|
Fluorescent in vitro model to assess adhesion and invasion of Bd in PAK Resource Report Resource Website |
Elin Verbrugghe | 10.17504/protocols.io.8ihhub6 | The largest current disease-induced loss of vertebrate biodiversity is due to chytridiomycosis and despite the increasing understanding of the pathogenesis, knowledge unravelling the early host-pathogen interactions remains limited. Batrachochytrium dendrobatidis (Bd)zoospores attach to and invade the amphibian epidermis, with subsequent invasive growth in the host skin. Availability of an in vitro assay would facilitate in depth study of this interaction while reducing the number of experimental animals needed. We describe a fluorescent cell-based in vitro infection model that reproduces host-Bd interactions. Using primary keratinocytes from Litoria caerulea and the epithelial cell line A6 from Xenopus laevis, we reproduced different stages of host cell infection and intracellular growth of Bd, resulting in host cell death, a key event in chytridiomycosis. The presented in vitro models may facilitate future mechanistic studies of host susceptibility and pathogen virulence. | Verbrugghe E, Rooij PV, Favoreel H, Martel A, Pasmans F (2019) In vitro modeling of Batrachochytrium dendrobatidis infection of the amphibian skin. PLoS ONE 14(11): e0225224. doi: 10.1371/journal.pone.0225224 | Ghent University, Faculty of Veterinary Medicine, Wildlife Health Ghent | https://doi.org/10.1371/journal.pone.0225224 | 1 | 2019 | Elin Verbrugghe 2019. Fluorescent in vitro model to assess adhesion and invasion of Bd in PAK . protocols.io dx.doi.org/10.17504/protocols.io.8ihhub6 | 2021-03-29 03:11:08 | ||
|
Streptococcal Protein-G and Protein-LG sandwich ELISA Resource Report Resource Website |
Angel Justiz-Vaillant | 10.17504/protocols.io.btaznif6 | Carbon | This ELISA was used to study the interactions between SpG) and SpLG) with different immunoglobulin preparations from mammalian and avian species. | University of the West Indies St. Augustine | 1 | 2021 | Angel Justiz-Vaillant 2021. Streptococcal Protein-G and Protein-LG sandwich ELISA. protocols.io dx.doi.org/10.17504/protocols.io.btaznif6 | 2021-03-29 03:11:12 |
Can't find your Protocol?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. If you want to find a specific protocol and you know the DOI of the protocol already, it's easier to enter a DOI to search. You can refine the search results using Facets on the left side of the search results page. If you are on the table view, you can also search in a specific column by clicking the column title and enter the keywords.
If you still could not find your protocol in the search results, please help us by adding it into the system — it's easy. Create and publish your protocols at Protocols.io.
Welcome to the dkNET Resources search. From here you can search through a compilation of resources used by dkNET and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that dkNET has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on dkNET then you can log in from here to get additional features in dkNET such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into dkNET you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
Email: info_at_ dknet.org
