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 | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Mmolecular COVID-19 Extraction-Free Direct-One-Step Fast Cycling Protocol Resource Report Resource Website |
steve.puts | 10.17504/protocols.io.bkjpkumn | Coronavirus Method Development Community, Mmolecular, XPRIZE Rapid Covid Testing | The Direct One-Step RT-qPCR COVID-19 Test Kit is designed for quantitativereal-time analysis of target RNA directly from, swabs without the requirement of any priorRNA purification steps.Shipping: shipped on blue ice Storage Conditions: store at -20 °C Additional Storage Conditions: avoid freeze/thaw cycles stable at 4 °C for up to 4 weeks Shelf Life: 12 monthsForm: liquid / lyophilized | Mmolecular.com | 1 | 2020 | steve.puts 2020. Mmolecular COVID-19 Extraction-Free Direct-One-Step Fast Cycling Protocol. protocols.io dx.doi.org/10.17504/protocols.io.bkjpkumn | 2021-03-29 03:08:45 | |||
|
Measuring specific leaf area and water content Resource Report Resource Website |
Etienne Laliberté | 10.17504/protocols.io.p3tdqnn | Plant Functional Ecology Lab, Canadian Airborne Biodiversity Observatory | Here we describe the standardised protocol used by the Canadian Airborne Biodiversity Observatory (CABO) to measure leaf water content and specific leaf area, using the WinFOLIA™ software (Régent Instruments). These leaf area and water measurements are done on a subset of leaves from the same bulk leaf sample used to measure leaf spectral reflectance and transmittance. Briefly, after removing their petioles, fresh leaves are weighed, rehydrated for 6 h, scanned for total leaf area and weighed again; they are then oven-dried at 65 ºC for 72 h, and weighed one last time. This allows us to measure leaf dry matter content and its complement, leaf water content, as well as leaf relative water content. Leaf area measurements are used to estimate specific leaf area, a key functional trait central to the leaf economics spectrum. Specific leaf area allows us to estimate equivalent water thickness and to convert concentrations of foliar biochemical constitutents from a leaf mass to a leaf area basis. | Université de Montréal | www.caboscience.org | 1 | 2018 | Etienne Laliberté 2018. Measuring specific leaf area and water content. protocols.io dx.doi.org/10.17504/protocols.io.p3tdqnn | 2021-03-29 03:08:43 | ||
|
ELISA for quantification of human immunoglobulin D (IgD) in serum or plasma. Resource Report Resource Website |
Angel Justiz-Vaillant, Belkis Ferrer-Cosme | 10.17504/protocols.io.bj7wkrpe | University of the West Indies, [email protected] | IgD is a monomer with a molecular weight of 184 Kd. IgD is present in a meager amount in the serum (0.03 mg/mL) and has an unknown function against pathogens. It is regarded as a BCR. IgD may play an essential role in antigen-triggered lymphocyte differentiation. [1] | University of the West Indies St. Augustine, "Saturnino Lora Torres' Provincial Teaching Clinical Surgical Hospital. Cuba | 1 | 2020 | Angel Justiz-Vaillant, Belkis Ferrer-Cosme 2020. ELISA for quantification of human immunoglobulin D (IgD) in serum or plasma.. protocols.io dx.doi.org/10.17504/protocols.io.bj7wkrpe | 2021-03-29 03:08:43 | |||
|
CUT&RUN: Targeted in situ genome-wide profiling with high efficiency for low cell numbers Resource Report Resource Website |
Peter J. Skene, Steven Henikoff | 10.17504/protocols.io.mgjc3un | Human Cell Atlas Method Development Community | Cleavage Under Targets and Release Using Nuclease (CUT&RUN) is an epigenomic profiling strategy in which antibody-targeted controlled cleavage by micrococcal nuclease releases specific protein-DNA complexes into the supernatant for paired-end DNA sequencing. As only the targeted fragments enter into solution, and the vast majority of DNA is left behind, CUT&RUN has exceptionally low background levels. CUT&RUN outperforms the most widely used Chromatin Immunoprecipitation (ChIP) protocols in resolution, signal-to-noise, and depth of sequencing required. In contrast to ChIP, CUT&RUN is free of solubility and DNA accessibility artifacts and can be used to profile insoluble chromatin and to detect long-range 3D contacts without cross-linking. Here we present an improved CUT&RUN protocol that does not require isolation of nuclei and provides high-quality data starting with only 100 cells for a histone modification and 1000 cells for a transcription factor. From cells to purified DNA CUT&RUN requires less than a day at the lab bench.In summary, CUT&RUN has several advantages over ChIP-seq: (1) The method is performed in situ in non-crosslinked cells and does not require chromatin fragmentation or solubilization; (2) The intrinsically low background allows low sequence depth and identification of low signal genomic features invisible to ChIP; (3) The simple procedure can be completed within a day and is suitable for robotic automation; (4) The method can be used with low cell numbers compared to existing methodologies; (5) A simple spike-in strategy can be used for accurate quantitation of protein-DNA interactions. As such, CUT&RUN represents an attractive replacement for ChIPseq, which is one of the most popular methods in biological research. | Howard Hughes Medical Institute, Basic Sciences Division, Fred Hutchinson Cancer Research Center, 1100 Fairview Ave N, Seattle, Washington, USA 98109, Howard Hughes Medical Institute, Basic Sciences Division, Fred Hutchinson Cancer Research Center, 1100 Fairview Ave N, Seattle, Washington, USA 98109 | https://www.biorxiv.org/content/early/2017/09/24/193219 | 1 | 2018 | Peter J. Skene, Steven Henikoff 2018. CUT&RUN: Targeted in situ genome-wide profiling with high efficiency for low cell numbers. protocols.io dx.doi.org/10.17504/protocols.io.mgjc3un | 2021-03-29 03:08:43 | ||
|
CODEX Acquisition Protocol Resource Report Resource Website |
Franchesca Farris, Marda Jorgensen, Jerelyn Nick, Jesus Peñaloza | 10.17504/protocols.io.bdifi4bn | Human BioMolecular Atlas Program (HuBMAP) Method Development Community | Multiplex imaging of lymph node, thymus and spleen is accomplished using the Akoya Biosciences CODEX system at the HubMAP Tissue Mapping Center at the University of Florida, TMC-UF.This protocol is an overview of the CODEX raw data acquisition process guided by the CODEX Instrument Manager (CIM) , which is part of the CODEX Software Suite. The CODEX Instrument Manager is necessary to perform CODEX experiments. It controls the fluidics of the CODEX instrument the integration and synchronization with the Keyence microscope, image data formatting and facilitates transfer of data to the analysis computer.For more information, consult the Akoya Biosciences CODEX User Manual - A.0. | University of Florida, University of Florida, University of Florida, University of Florida | 1 | 2020 | Franchesca Farris, Marda Jorgensen, Jerelyn Nick, Jesus Peñaloza 2020. CODEX Acquisition Protocol. protocols.io dx.doi.org/10.17504/protocols.io.bdifi4bn | 2021-03-29 03:08:43 | |||
|
Streptavidin-CBD purification Resource Report Resource Website |
Manuela De Las Casas | 10.17504/protocols.io.6e8hbhw | AEGIS - Madrid iGEM 2019 | The aim of this protocol is to obtain the purified streptavidin with cellulose binding domains on both sides from the transformed bacteria E. coli. Later on, this protein will be attached to a membrane as part of the detection system. The obtention of the proteins starts at this point with transformed bacteria (E. coli).The previous steps to obtain the transformed bacteria and further steps to use the purified protein do not correspond to this protocol. | Universidad Complutense de Madrid, AEGIS - Madrid iGEM 2019 | 1 | 2019 | Manuela De Las Casas 2019. Streptavidin-CBD purification. protocols.io dx.doi.org/10.17504/protocols.io.6e8hbhw | 2021-03-29 03:08:42 | |||
|
Hemolysis Assay Resource Report Resource Website |
Noreen Wauford | 10.17504/protocols.io.fxkbpkw | 1 | 2016 | Noreen Wauford 2016. Hemolysis Assay. protocols.io dx.doi.org/10.17504/protocols.io.fxkbpkw | 2021-03-29 03:08:43 | ||||||
|
Removal and Preservation of the Urinary Bladder Resource Report Resource Website |
Firuoz Danashgeri | 10.17504/protocols.io.8fahtie | Diabetic Complications Consortium | This protocol describes the proper procedure for harvesting bladders from rats or mice for use by the DiaComp Uropathy group.Diabetic Complication: | Case Western Reserve University | https://www.diacomp.org/shared/document.aspx?id=30&docType=Protocol | 3 | 2019 | Firuoz Danashgeri 2019. Removal and Preservation of the Urinary Bladder. protocols.io dx.doi.org/10.17504/protocols.io.8fahtie | 2021-03-29 03:08:42 | ||
|
Real-time PCR Resource Report Resource Website |
Ruiyun Bi | 10.17504/protocols.io.hu2b6ye | 1 | 2017 | Ruiyun Bi 2017. Real-time PCR. protocols.io dx.doi.org/10.17504/protocols.io.hu2b6ye | 2021-03-29 03:08:42 | ||||||
|
Artificial Cerebrospinal Fluid IX (ACSF.IX) Resource Report Resource Website |
Allen Institute for Brain Science | 10.17504/protocols.io.bctriwm6 | BICCN, Allen Institute for Brain Science | Artificial Cerebrospinal Fluid IX (ACSF.IX) is used for applications including tissue bath solution during electrophysiological recording for probing synaptic connections under physiological conditions. | Allen Institute | 1 | 2020 | Allen Institute for Brain Science 2020. Artificial Cerebrospinal Fluid IX (ACSF.IX). protocols.io dx.doi.org/10.17504/protocols.io.bctriwm6 | 2021-03-29 03:08:42 | |||
|
Autologous platelet-rich plasma for topical application as regenerative therapy in dogs Resource Report Resource Website |
Adolfo Maria TAMBELLA, Evelina SERRI, Anna Rita ATTILI | 10.17504/protocols.io.nb6dare | This protocol describes a step-by-step procedure for the production of autologous platelet-rich plasma for topical application in dogs.This protocol was used in the following publication:Tambella AM, Attili AR, Dini F, Palumbo Piccionello A, Vullo C, Serri E, Scrollavezza P, Dupré G. Autologous platelet gel to treat chronic decubital ulcers: a randomized, blind controlled clinical trial in dogs. Veterinary Surgery, 43(6), 2014: 726-733. (ISSN: 0161-3499) (DOI: 10.1111/j.1532-950X.2014.12148.x).http://onlinelibrary.wiley.com/doi/10.1111/j.1532-950X.2014.12148.x/full | School of Biosciences and Veterinary Medicine, University of Camerino, Matelica, MC, Italy, School of Biosciences and Veterinary Medicine, University of Camerino, Matelica, MC, Italy, School of Biosciences and Veterinary Medicine, University of Camerino, Matelica, MC, Italy | http://onlinelibrary.wiley.com/doi/10.1111/j.1532-950X.2014.12148.x/full | 1 | 2018 | Adolfo Maria TAMBELLA, Evelina SERRI, Anna Rita ATTILI 2018. Autologous platelet-rich plasma for topical application as regenerative therapy in dogs. protocols.io dx.doi.org/10.17504/protocols.io.nb6dare | 2021-03-29 03:08:42 | |||
|
Pour plating of Thalassiosira pseudonana (Tp) Resource Report Resource Website |
Jernej Turnsek, Chris Dupont | 10.17504/protocols.io.i6qchdw | Protist Research to Optimize Tools in Genetics (PROT-G) | Here we present an efficient way to grow Tp colonies inside a 0.25% superclean agar matrix. This protocol could possibly be applicable to other marine microeukaryotes that are problematic to grow on fully solid support. | University of California, Berkeley, J. Craig Venter Institute | 2 | 2017 | Jernej Turnsek, Chris Dupont 2017. Pour plating of Thalassiosira pseudonana (Tp). protocols.io dx.doi.org/10.17504/protocols.io.i6qchdw | 2021-03-29 03:08:42 | |||
|
Electroporation of Aurantiochytrium limacinum (ATCC MYA-1381) Resource Report Resource Website |
Mariana Rius, Jackie Collier | 10.17504/protocols.io.qjcduiw | Protist Research to Optimize Tools in Genetics (PROT-G), Collier Lab | Electroporation strategy used in the transformation of Aurantiochytrium limacinum (ATCC MYA-1381; Stramenopile/ Heterokont, Thraustochytrid). This protocol is following the guidance of Ono et al. 2011. US Patent # 7,888,123 B2. | State University of New York at Stony Brook, State University of New York at Stony Brook | 1 | 2018 | Mariana Rius, Jackie Collier 2018. Electroporation of Aurantiochytrium limacinum (ATCC MYA-1381). protocols.io dx.doi.org/10.17504/protocols.io.qjcduiw | 2021-03-29 03:08:44 | |||
|
aCGH results extraction from TIFF file Resource Report Resource Website |
Hendrik F Van Essen | 10.17504/protocols.io.zj7f4rn | Vincenten JPL, Essen HFv, Lissenberg-Witte BI, Bulkmans NWJ, Krijgsman O, Sie D, Eijk PP, Smit EF, Ylstra B, Thunnissen E (2019) Clonality analysis of pulmonary tumors by genome-wide copy number profiling. PLoS ONE 14(10): e0223827. doi: 10.1371/journal.pone.0223827 | Amsterdam UMC | https://doi.org/10.1371/journal.pone.0223827 | 1 | 2019 | Hendrik F Van Essen 2019. aCGH results extraction from TIFF file. protocols.io dx.doi.org/10.17504/protocols.io.zj7f4rn | 2021-03-29 03:08:44 | |||
|
DNA Extraction of Cesium Chloride-Purified Viruses using Wizard Prep Columns Resource Report Resource Website |
Marine Phage Lab, Matthew Sullivan Lab | 10.17504/protocols.io.c26yhd | VERVE Net, Sullivan Lab | Version 1b17 October 2012This protocol decribes the extraction of DNA from viral particles using Wizard Prep Resin and Columns from Promega. | Matthew Sullivan Lab, University of Arizona, Ohio State University, Matthew Sullivan Lab, University of Arizona, Ohio State University | http://www.eebweb.arizona.edu/faculty/mbsulli/protocols/protocols/Wizard_Column_Viral_DNA_Extraction_v1.pdf | 1 | 2016 | Marine Phage Lab, Matthew Sullivan Lab 2016. DNA Extraction of Cesium Chloride-Purified Viruses using Wizard Prep Columns. protocols.io dx.doi.org/10.17504/protocols.io.c26yhd | 2021-03-29 03:08:44 | ||
|
LAMP/RT-LAMP COVID positive control Resource Report Resource Website |
Anibal Arce Medina, Isaac Núñez, Tamara Matute, Fernan Federici | 10.17504/protocols.io.bsknncve | Laboratorio de Tecnologias Libres, Reclone.org (The Reagent Collaboration Network) | This protocol explains how to prepare dsDNA and ssRNA target positive control for LAMP and RT-LAMP reactions. Particularly it describes the pipeline for SARS-Cov-2 Nucleocapsid (N) gene positive control which is included in the ReClone collection. The general procedure involves amplifying the gene of interest with primers which add T7 promoter and T7 terminator to its sequence followed by T7 in vitro transcription to obtain the ssRNA. Sequence elaboration:Sequence OrfN_5 was designed and synthesized based on IDT SARS-CoV-2 positive control plasmid (CAT#10006625_2019). | Pontificia Universidad Catolica de Chile, SynBioUC, SynBioUC, SynBioUC | 1 | 2021 | Anibal Arce Medina, Isaac Núñez, Tamara Matute, Fernan Federici 2021. LAMP/RT-LAMP COVID positive control. protocols.io dx.doi.org/10.17504/protocols.io.bsknncve | 2021-03-29 03:08:44 | |||
|
Om-mCherry-hsp90 Resource Report Resource Website |
Claudio Slamovits, Pia Elustondo, Ronie Haro, Susana [email protected] | 10.17504/protocols.io.74hhqt6 | Slamovits Lab | Map and sequence of the construct used to transform Oxyrrhis marina using electroporation. | Dalhousie University, Dalhousie University, Dalhousie University, Dalhousie University | 1 | 2019 | Claudio Slamovits, Pia Elustondo, Ronie Haro, Susana [email protected] 2019. Om-mCherry-hsp90. protocols.io dx.doi.org/10.17504/protocols.io.74hhqt6 | 2021-03-29 03:08:44 | |||
|
Pichia pastoris strain and growth condition Resource Report Resource Website |
Igem Dusseldorf | 10.17504/protocols.io.8hcht2w | Heinrich-Heine Universität Düsseldorf | 1 | 2019 | Igem Dusseldorf 2019. Pichia pastoris strain and growth condition. protocols.io dx.doi.org/10.17504/protocols.io.8hcht2w | 2021-03-29 03:08:44 | |||||
|
Embedding yeast colonies for light and electron microscopy Resource Report Resource Website |
Sarah Piccirillo, Melissa G. White, Jeffrey C. Murphy, Douglas J. Law, and Saul M. Honigberg | 10.17504/protocols.io.dw97h5 | Genetics | The following is a modification of a Scherz R., 2001 method for colony embedding. The protocol described here is from:Sarah Piccirillo, et. al. The Rim101p/PacC Pathway and Alkaline pH Regulate Pattern Formation in Yeast Colonies(2010)Genetics184:707-716; doi:10.1534/genetics.109.113480Please see the full manuscript for additional details. | protocols.io, protocols.io, protocols.io, protocols.io, protocols.io | http://www.genetics.org/content/184/3/707 | 1 | 2015 | Sarah Piccirillo, Melissa G. White, Jeffrey C. Murphy, Douglas J. Law, and Saul M. Honigberg 2015. Embedding yeast colonies for light and electron microscopy. protocols.io dx.doi.org/10.17504/protocols.io.dw97h5 | 2021-03-29 03:08:44 | ||
|
Chimeric Protein-LAG and Protein LA sandwich ELISA Resource Report Resource Website |
Angel Justiz-Vaillant | 10.17504/protocols.io.btbenije | Carbon | This ELISA was used to study the interactions between protein-LAG (PLAG) and protein-LA (SpLA) with different immunoglobulin preparations from mammalian and avian species. | University of the West Indies St. Augustine | 1 | 2021 | Angel Justiz-Vaillant 2021. Chimeric Protein-LAG and Protein LA sandwich ELISA . protocols.io dx.doi.org/10.17504/protocols.io.btbenije | 2021-03-29 03:08:44 |
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
