id float64 1.55k 110k ⌀ | title stringlengths 1 256 ⌀ | template_id float64 0 6 ⌀ | doi stringlengths 39 49 ⌀ | url stringlengths 40 92 ⌀ | authors stringlengths 1 933 ⌀ | protocol_text stringlengths 34 1.08M | steps_list stringlengths 2 269k |
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36,988 | Western blot, ELISA and enzymatic assays of reference proteins for subcellular fractionation | 1 | dx.doi.org/10.17504/protocols.io.bgc4jsyw | https://www.protocols.io/view/western-blot-elisa-and-enzymatic-assays-of-referen-bgc4jsyw | Saumel Perez Rodriguez, María De Jesús Ramírez-Lira, Tune Wulff, Bjørn Gunnar Voldbor, Octavio T Ramírez, Mauricio A Trujillo-Roldán, Norma A Valdez-Cruz | TITLE: Western blot, ELISA and enzymatic assays of reference proteins for subcellular fractionation
AUTHORS: Saumel Perez Rodriguez, María De Jesús Ramírez-Lira, Tune Wulff, Bjørn Gunnar Voldbor, Octavio T Ramírez, Mauricio A Trujillo-Roldán, Norma A Valdez-Cruz
[DESCRIPTION]
<div class = "text-blocks"><div cla... | ["[Membrane preparation and protein transfer for WB assays]\nCut the PVDF membrane to the dimensions of the polyacrylamide gel from which the proteins are to be transferred.", "[Membrane preparation and protein transfer for WB assays]\nSoak the PVDF membrane in 100% methanol for , with a constant agitation.", "[Membran... |
63,302 | A novel laboratory method to simulate climatic stress with successful application to experiments with medically relevant ticks | 4 | dx.doi.org/10.17504/protocols.io.rm7vzyo8rlx1/v4 | https://www.protocols.io/view/a-novel-laboratory-method-to-simulate-climatic-str-b93er8je | Sang Hyo Kim, Caleb Nielebeck, Lauren Dedmon, Mark Pangilinan, Jahred Quan, William Ota, Javier D. Monzón | TITLE: A novel laboratory method to simulate climatic stress with successful application to experiments with medically relevant ticks
AUTHORS: Sang Hyo Kim, Caleb Nielebeck, Lauren Dedmon, Mark Pangilinan, Jahred Quan, William Ota, Javier D. Monzón
[DESCRIPTION]
This protocol details a novel method to isolate indivi... | ["[Set up] Place a single tick with one wooden skewer in each tube and seal with a cap, labelling each tube with an individual identifier", "[Set up] Place six tubes in each airtight container along with a humidity pack, labelling each container", "[Set up] Confirm the humidity in one container of each RH level with th... |
null | null | null | dx.doi.org/10.17504/protocols.io.skdecs6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a controlled, randomized, and cross-over investigation with 40-week duration. The participants were male young adults with previous experience with RT for testing the effect of long-term RT with different volumes on HRV. This study was conducted in healthy participant... | [] |
65,792 | Bradford protein assay – Protein concentration measurement (A590/A450 improved linearity) | 1 | dx.doi.org/10.17504/protocols.io.kqdg3pd9ql25/v1 | https://www.protocols.io/view/bradford-protein-assay-protein-concentration-measu-ccg8stzw | Daniel C Moreira | TITLE: Bradford protein assay – Protein concentration measurement (A590/A450 improved linearity)
AUTHORS: Daniel C Moreira
[DESCRIPTION]
This protocol describes how to measure the concentration of total protein in a sample performing the Bradford's assay using microtiter plates. Procedures are slightly modifications b... | ["[Bradford's protein reagent preparation] Prepare a solution containing 0.01% (w/v) Coomassie Brilliant Blue G-250 (e.g., B0770, Sigma-Aldrich), 4.7% (v/v) ethanol, and 8.5% (v/v) phosphoric acid as described in the next steps.", "[Bradford's protein reagent preparation] Weight 100 mg of Coomassie Brilliant ... |
93,841 | Data Analysis Procedures | 5 | null | https://www.protocols.io/view/data-analysis-procedures-c7vrzn56 | Deziray.Howard | TITLE: Data Analysis Procedures
AUTHORS: Deziray.Howard
[DESCRIPTION]
Draft of the procedures and workflow for data analysis within PDI
[STEPS]
SECTION: Introduction
1. Welcome to the PDI Data Analysis Playbook
This document serves as a comprehensive guide to the processes and methodologies followed by our team in d... | ["[Introduction] Welcome to the PDI Data Analysis Playbook\n\nThis document serves as a comprehensive guide to the processes and methodologies followed by our team in data analysis to derive meaningful insights and support informed decision-making. We aim to ensure consistency, reliability, and efficiency in our analyt... |
77,981 | Prepare Samples for Miseq | 4 | null | https://www.protocols.io/view/prepare-samples-for-miseq-cqd5vs86 | FishFloorUCL | TITLE: Prepare Samples for Miseq
AUTHORS: FishFloorUCL
[DESCRIPTION]
(MiSeq nano V2 chip 300 cycle), MiSeq multiplexes sequences, allowing you to DNA sequence multiple samples at once. This is particularly useful for genotyping fish with mosaic genotypes, such as F0 knockouts.
@FishFloorUCL
[STEPS]
SECTION: Design ... | ["[Design Miseq Primers] Design primers surrounding your site of interest\n\nOptimal amplicon size 200bp\nAs far as possible, the site of interest should be in the middle of the designed amplicon. (This is so that it has the best chance of being read by both the forward and reverse reads)\nIf possible, try and avoid de... |
28,834 | Chlorophyll Extraction and Spectral Analysis with Spectrometer Calibration | null | dx.doi.org/10.17504/protocols.io.8eahtae | null | Victor Rodriguez | TITLE: Chlorophyll Extraction and Spectral Analysis with Spectrometer Calibration
AUTHORS: Victor Rodriguez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is designed to be able to extract and analyze the concentration of chlorophyll within a sample of a given plant. The procedures o... | ["[Extraction of Chlorophyll ]\nWeigh out of sample subject and add it to a pestle.\n0.25 g", "[Extraction of Chlorophyll ]\nWeigh out of and add it to a pestle.\n0.13 g", "[Extraction of Chlorophyll ]\nAdd of to the pestle.\n1 ml", "[Extraction of Chlorophyll ]\nGrind the entire mixture until the sample is consist... |
94,591 | Transformation of Diplonema papillatum by electroporation | 1 | dx.doi.org/10.17504/protocols.io.4r3l28e1xl1y/v4 | https://www.protocols.io/view/transformation-of-diplonema-papillatum-by-electrop-c8k7zuzn | Matus Valach, Gertraud Burger | TITLE: Transformation of Diplonema papillatum by electroporation
AUTHORS: Matus Valach, Gertraud Burger
[DESCRIPTION]
Variant protocol for transformation of Diplonema papillatum by electroporation using a "home-made" transformation buffer. The procedure was devised based on previously published protocols by Kaur et al... | ["Prepare the transformation (cytomix-like) buffer.", "Inoculate Diplonema cells at 1–2×105 /mL into 100 mL OSS medium supplemented with 0.05% tryptone and let them grow for 2–3 days.", "Harvest the cells while they are in the late exponential phase (optimal density 8×106–2×107 /mL) by centrifugation (2,000×g, 5 min, 4... |
51,067 | Content of the therapeutic protocol | 1 | dx.doi.org/10.17504/protocols.io.bv43n8yn | https://www.protocols.io/view/content-of-the-therapeutic-protocol-bv43n8yn | Mohammad Tahan | TITLE: Content of the therapeutic protocol
AUTHORS: Mohammad Tahan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Animal-Assisted Therapy </span></div></div>
[STEPS]
?. Introduction, briefing, primary assessing and introduction to the course
?. Giving an introduct... | ["Introduction, briefing, primary assessing and introduction to the course", "Giving an introduction about animals and their specific characteristics", "Taking children to the place that animals were kept", "Spending time in the place that animals were kept, talking about them and how to communicate with them", "Convin... |
null | null | null | dx.doi.org/10.17504/protocols.io.quwdwxe | null | null | TITLE: No Title
AUTHORS:
[BEFORE_START]
<p><span style="font-weight: 400;">Pre-made Alamar Blue (Resazurin) solutions from companies (e.g. </span><a href="https://www.thermofisher.com/order/catalog/product/DAL1025" target="_blank" rel="noopener noreferrer"><span style="font-weight: 400;">alamarBlue™ Cell Viability Re... | [] |
43,390 | Stranded Mapping from Oriented Long Reads | 1 | dx.doi.org/10.17504/protocols.io.bnk6mcze | https://www.protocols.io/view/stranded-mapping-from-oriented-long-reads-bnk6mcze | David Eccles | TITLE: Stranded Mapping from Oriented Long Reads
AUTHORS: David Eccles
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol demonstrates how to map strand-oriented long reads to a genome, and visualise them in a genome browser.</div><div class = "text-block">The general idea is to use minim... | ["[Orient Reads]\nOrient reads as per protocol Preparing Reads for Stranded Mapping.If this has been done, then the following command should produce output without errors:for bc in $(awk '{print $2}' barcode_counts.txt); do ls oriented/${bc}_reads_dirAdjusted.fq.gz;doneExample output:oriented/BC03_reads_dirAdjusted.fq... |
75,242 | Intracellular Staining of PUMA in Primary PBMC Lymphocytes | 1 | dx.doi.org/10.17504/protocols.io.q26g7yx69gwz/v1 | https://www.protocols.io/view/intracellular-staining-of-puma-in-primary-pbmc-lym-cmqiu5ue | Dennis Juarez, dfruman | TITLE: Intracellular Staining of PUMA in Primary PBMC Lymphocytes
AUTHORS: Dennis Juarez, dfruman
[DESCRIPTION]
Flow cytometric assessment of Intracellular PUMA levels is useful when wanting to assess PBMC subsets but are limited by sample as with primary patient samples. Here I describe a protocol for intracellular P... | ["[Staining] Treat at least 1 million PBMCs per sample, including flow cytometry controls (unstained, single stain controls, and FMO controls)", "[Staining] Harvest cells at 20 hours and wash with PBS.", "[Staining] Stain cells with anti-CD3, anti-CD4 and anti-CD19 for 20 minutes at 4 degrees in the dark. Create unstai... |
89,368 | C-SOP-301: DNA Library Preparation using the NEBNext Ultra II FS DNA Kit (≥100 ng DNA input) | 4 | null | https://www.protocols.io/view/c-sop-301-dna-library-preparation-using-the-nebnex-c3hyyj7w | Mihir Kekre, Ben Pascoe | TITLE: C-SOP-301: DNA Library Preparation using the NEBNext Ultra II FS DNA Kit (≥100 ng DNA input)
AUTHORS: Mihir Kekre, Ben Pascoe
[DESCRIPTION]
The NEBNext®Ultra™ II FS DNA Library Prep Kit meets the dual challenges of constructing high quality libraries from ever-decreasing input material, and scalability of libr... | ["[Before Starting] Prior to initiating the protocol, ensure that all active workbenches are cleaned with 80% ethanol, all relevant personal protective clothing is worn and the work area is prepared according to local GLP guidelines for molecular methods.", "[Before Starting] Create an organised bench space by clearing... |
null | null | null | dx.doi.org/10.17504/protocols.io.f3wbqpe | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Totally digest marine particles collected on polyethersulfone (PES, Pall Supor) filters.</p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
87,116 | Collection and shipment of live skeletal muscle for RNA and cell isolation | 4 | dx.doi.org/10.17504/protocols.io.5qpvo3krzv4o/v1 | https://www.protocols.io/view/collection-and-shipment-of-live-skeletal-muscle-fo-czbkx2kw | Prech Uapinyoying | TITLE: Collection and shipment of live skeletal muscle for RNA and cell isolation
AUTHORS: Prech Uapinyoying
[DESCRIPTION]
Collecting and transporting fresh muscle tissue from a clinical site for experimentation at a remote location can be a logistical challenge. This protocol provides the procedures for collecting, p... | ["[Sample collection & preparations] At sample collection site, communicate and schedule with mortician to come pick up the muscle autopsy sample, ensuring samples be collected 48 hours or less postmortem.", "Record relevant details about the sample such as: the site name, subject ID, age of donor when sample colle... |
106,903 | Male role norms and development of PTSD among Polish male paramedics | 0 | dx.doi.org/10.17504/protocols.io.14egn61j6l5d/v1 | https://www.protocols.io/view/male-role-norms-and-development-of-ptsd-among-poli-dkmx4u7n | Magdalena Sitko-Dominik, Tomasz Jakubowski, Eugenia Mandal | TITLE: Male role norms and development of PTSD among Polish male paramedics
AUTHORS: Magdalena Sitko-Dominik, Tomasz Jakubowski, Eugenia Mandal
[DESCRIPTION]
The aim of the study is to assess a potential relationship
between PTSD symptoms, trauma-related data, social relations/support,
compliance with masculinity norm... | ["[Design Plan] The current study is a part of the larger project which will\nbe realized as a cross-sectional study. The study will not use any experimental\nmanipulations or any form of blinding.", "[Aims of the study/Hypothesis] The aim of the study is to assess a potential relationship\nbetween PTSD symptoms, traum... |
105,343 | FACS Nuclei Isolation | 0 | dx.doi.org/10.17504/protocols.io.4r3l2qbwql1y/v1 | https://www.protocols.io/view/facs-nuclei-isolation-di474gzn | Naeem Nadaf | TITLE: FACS Nuclei Isolation
AUTHORS: Naeem Nadaf
[DESCRIPTION]
This protocol details the isolation of nuclei from frozen tissue for subsequent single-nuclei sequencing using a droplet-based platform, such as 10X Genomics. The procedure emphasizes maintaining the integrity of nuclei and minimizing RNA degradation, us... | ["Procedure", "Pre-Cooling:\nEnsure all buffers are cooled to 4 °C before use\nPre-cool centrifuge, tubes, well plates, 26-gauge needle, 40 µm cell strainer, and syringe at 4 °C for at least 20 minutes.", "Tissue Dissociation:\nTransfer the frozen tissue sample to the prepared 6-well plate using 150 µL of ExB buffer.\n... |
27,409 | Calibration Protocol - Plate Reader Fluorescence Calibration | null | dx.doi.org/10.17504/protocols.io.6zrhf56 | null | Geoff Baldwin, Traci Haddock-Angelli, Jacob Beal, Ari Dwijayanti, Marko Storch, Natalie Farny, Cheryl Telmer, Alejandro Vignoni, Richard Tennant, Paul Rutten | TITLE: Calibration Protocol - Plate Reader Fluorescence Calibration
AUTHORS: Geoff Baldwin, Traci Haddock-Angelli, Jacob Beal, Ari Dwijayanti, Marko Storch, Natalie Farny, Cheryl Telmer, Alejandro Vignoni, Richard Tennant, Paul Rutten
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "jus... | ["[Prepare the fluorescein stock solution]\nSpin down fluorescein kit tube to make sure pellet is at the bottom of tube", "[Prepare the fluorescein stock solution]\nPrepare the stock solution of your reference dye. See sub-step 2.1 for Fluorescein and 2.2 for dyes compatible with red fluorescent proteins (note recommen... |
null | null | null | dx.doi.org/10.17504/protocols.io.ewnbfde | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol describes the extraction process of RNA and/or DNA from marine environmental samples. Samples are assumed to be collected via filtering sample seawater onto filters. Filters are then flash frozen in the first lysis buffer. The protocol describes the steps used t... | [] |
37,464 | Freezing cancer cell lines | 1 | dx.doi.org/10.17504/protocols.io.bgtyjwpw | https://www.protocols.io/view/freezing-cancer-cell-lines-bgtyjwpw | Emily Souster, Verity Goodwin, Adam Jackson, Charlotte Beaver, Rizwan Ansari, Fiona Behan, Mathew Garnett | TITLE: Freezing cancer cell lines
AUTHORS: Emily Souster, Verity Goodwin, Adam Jackson, Charlotte Beaver, Rizwan Ansari, Fiona Behan, Mathew Garnett
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol outlines routine banking of cancer cell lines and Ca9 transduced cancer lines.</div><div ... | ["Prepare freezing media per vial as follows: complete culture media + 10% DMSO.\n1 mL", "Detach and collect cells from a flask, by following Steps 1-6 of the protocol: Passaging adherent cancer cell lines.", "Aspirate the supernatant, taking care to avoid disturbing the cell pellet. Resuspend the pellet in an approp... |
70,333 | Smart-seq3xpress | 1 | dx.doi.org/10.17504/protocols.io.yxmvmk1yng3p/v2 | https://www.protocols.io/view/smart-seq3xpress-cgw5txg6 | Michael Hagemann-Jensen, Christoph Ziegenhain, Rickard Sandberg | TITLE: Smart-seq3xpress
AUTHORS: Michael Hagemann-Jensen, Christoph Ziegenhain, Rickard Sandberg
[DESCRIPTION]
Plate-based single-cell RNA-sequencing methods with full-transcript coverage typically excel at sensitivity but are more resource and time-consuming. Here, we miniaturized and streamlined the Smart-seq3 proto... | ["[Considerations (PLEASE READ BEFORE START)] • This protocol requires a some type of liquid handler capable of doing nanoliter dispenses. We have tested and used (Formulatrix Mantis, Dispendix I.Dot & Dispendix I.Dot Mini). Other (non contact) liquid dispensers should work as well, as long as they can dispense the req... |
null | null | null | dx.doi.org/10.17504/protocols.io.cigubv | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.tb9eir6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Appropriate tissue fixation is essential for a good quality immunocytochemistry (ICC).</p>
<p> </p>
<p>There are several fixation methods, but "whole body" or "target" perfusion of the animal is one of the most efficient methods.</p>
<p>Most perfusing protocols include only p... | [] |
34,542 | Digital model of spatio-temporal narratives of Chinese classical narrative literature | null | dx.doi.org/10.17504/protocols.io.bdyni7ve | https://www.protocols.io/view/digital-model-of-spatio-temporal-narratives-of-chi-bdyni7ve | Zhaoyi Ma, Jie He, Shuai Shuai Liu | TITLE: Digital model of spatio-temporal narratives of Chinese classical narrative literature
AUTHORS: Zhaoyi Ma, Jie He, Shuai Shuai Liu
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">In order to reconstruct the relationship between text and space in the tradition of Chinese classical narrative lit... | ["[Structuring]\nStructuring of Narrative", "[Digitalization]\n1.1 Text version from 中国哲学书电子化计划（CText）1.2 Proofreading Text Edition based on the version fromComplete Library in Four Sections四库全书", "[Representation]\nSpatio–temporal Representations of Narrative", "[Structuring]\nText database on word level (sheet1_nam... |
29,031 | Protocol Publishing QC Checklist (Warinner Group) | 1 | dx.doi.org/10.17504/protocols.io.q26g7bb59lwz/v1 | https://www.protocols.io/view/protocol-publishing-qc-checklist-warinner-group-8kfhutn | James A Fellows Yates, Christina Warinner | TITLE: Protocol Publishing QC Checklist (Warinner Group)
AUTHORS: James A Fellows Yates, Christina Warinner
[DESCRIPTION]
This protocol serves as a QC checklist which must be completed prior for a protocol to be made public, for all protocols written by members of the Warinner Group.
[BEFORE_START]
Use this checklist... | ["[Standardisation] Have all editors of the protocol been added as authors?", "[Standardisation] Has the 'owner' of the protocol been transferred either to a main author or administrator (Tina, Irina, or Raphaela)?", "[Standardisation] If this protocol has been previously published in a journal, has the citation been a... |
null | null | null | dx.doi.org/10.17504/protocols.io.ef5bbq6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The protocol follow the instruction manual from BIO-RAD of Catalog number 170-2480
[STEPS]
?.
?.
?. | [] |
56,343 | OPestTL V1.1 -- the Open Pesticide Transition Library | 1 | null | https://www.protocols.io/view/opesttl-v1-1-the-open-pesticide-transition-library-b29xqh7n | Benjamin Orsburn | TITLE: OPestTL V1.1 -- the Open Pesticide Transition Library
AUTHORS: Benjamin Orsburn
[DESCRIPTION]
Pesticide residue screening is a critical method for environmental and food safety. Today, disjointed libraries of pesticide transitions can make it challenging to develop new methods between instrument vendors. From ... | [] |
61,653 | High Throughput SARS-COV-2, PMMOV, and BCoV quantification in settled solids using digital RT-PCR | 1 | dx.doi.org/10.17504/protocols.io.e6nvw5orwvmk/v4 | https://www.protocols.io/view/high-throughput-sars-cov-2-pmmov-and-bcov-quantifi-b8fvrtn6 | Aaron Topol (Verily Life Sciences), marlene.wolfe , Brad White (Verily Life Sciences), Krista Wigginton, Alexandria B B Boehm | TITLE: High Throughput SARS-COV-2, PMMOV, and BCoV quantification in settled solids using digital RT-PCR
AUTHORS: Aaron Topol (Verily Life Sciences), marlene.wolfe , Brad White (Verily Life Sciences), Krista Wigginton, Alexandria B B Boehm
[DESCRIPTION]
v3 updates: changes to the S gene primers and probes for detect... | ["[Preparation (both assays)] Retrieve all kit components from the One-Step RT-ddPCR advanced kit for probes from the -20 °C freezer and thaw the components on ice.", "[Preparation (both assays)] Retrieve ddPCR positive control aliquots (50 copies per uL gRNA and 100 copies per µL BCoV and PMMoV gene blocks) from the -... |
69,283 | Lysis and transduction of E. coli with P1 phage - creation of double-knockout mutants | 4 | dx.doi.org/10.17504/protocols.io.n92ldpbmxl5b/v1 | https://www.protocols.io/view/lysis-and-transduction-of-e-coli-with-p1-phage-cre-cfwbtpan | Saul Moore | TITLE: Lysis and transduction of E. coli with P1 phage - creation of double-knockout mutants
AUTHORS: Saul Moore
[DESCRIPTION]
The creation of double-knockout mutants from single gene deletion mutants of the Keio Collection was performed by Cassandra Backes of the Host-Microbe Co-Metabolism laboratory, MRC-LMS.
[S... | ["[Lysis] Dilute an overnight culture of donor strain grown with selection for the marker to be transduced 1:100 in fresh LB supplemented with 5 mM CaCl2, and 0.2% (or 10 mM) D-Glucose. DO NOT ADD ANTIBIOTIC TO THIS CULTURE. Also prepare an extra tube (for no-phage control).\nE. g. For each 5 mL culture add: \n ... |
28,597 | Natural competence of Bacillus subtilis transformation | null | dx.doi.org/10.17504/protocols.io.76vhre6 | null | iGEM Dusseldorf | TITLE: Natural competence of Bacillus subtilis transformation
AUTHORS: iGEM Dusseldorf
[DESCRIPTION]
<div class = "text-blocks"><table border><tr style = "text-align:center;"><td> </td><td>A</td><td>B</td><td>C</td><td>D</td><td>E</td><td>F</td><td>G</td></tr><tr><td style = "text-align:center;">1</td><td rowspan = "... | [] |
35,215 | High Molecular Weight DNA extraction for long-read sequencing v.1 | 1 | dx.doi.org/10.17504/protocols.io.bempjc5n | https://www.protocols.io/view/high-molecular-weight-dna-extraction-for-long-read-bempjc5n | Kanae Nishii, Michael Möller, Michelle Hart | TITLE: High Molecular Weight DNA extraction for long-read sequencing v.1
AUTHORS: Kanae Nishii, Michael Möller, Michelle Hart
[DESCRIPTION]
Third generation long-read sequencing requires high quality DNA. Here, we developed a protocol for the extraction of high quality, high molecular weight(HMW) DNA from plants. Thi... | ["[Before starting] Prepare 200 ml Nuclei isolation buffer (NIB) and leave on ice.\non ice", "[Before starting] Prepare liquid nitrogen in a suitable dewar. Place mortar and pestle in fume hood.", "[Before starting] Prepare 20 ml NIB base-Triton mix and leave on ice.\non ice", "[Before starting] Prepare the other set o... |
null | null | null | dx.doi.org/10.17504/protocols.io.icpcavn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Please contact Dr. Steven Wilhelm (wilhelm@utk.edu) for additional information regarding this protocol.</p>
<p> </p>
<p><span style="font-family: 'Segoe UI', sans-serif; font-size: small;">Adapted from Arnow, L. E. Colorimetric determination of components of 3,4-dihydroxyphen... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.k34cyqw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The CE IVD, lateral flow, immunochromatographic HIV rapid test [Exacto<sup>®</sup> PRO Test HIV, Biosynex, Strasbourg, France], was adapted as a prototype finger-stick whole-blood HIV self-test (Exacto<sup>®</sup> Test HIV, Biosynex). The test uses a combination of a specific... | [] |
38,181 | Processing the PDF files for the project | 3 | null | https://www.protocols.io/view/processing-the-pdf-files-for-the-project-bhidj4a6 | Arindam Basu | TITLE: Processing the PDF files for the project
AUTHORS: Arindam Basu
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Steps of processing PDFs for the project of meta-analysis of Wellness interventions in the workplace</div></div>
[STEPS] | [] |
71,398 | DNA - Ball Python DNA Extraction from sheds | 4 | dx.doi.org/10.17504/protocols.io.rm7vzb344vx1/v1 | https://www.protocols.io/view/dna-ball-python-dna-extraction-from-sheds-chyet7te | Jose Avila Cervantes | TITLE: DNA - Ball Python DNA Extraction from sheds
AUTHORS: Jose Avila Cervantes
[DESCRIPTION]
Protocol to extract DNA from Ball Python (Python regius) dry sheds using Phenol:Chloroform:Isoamyl Alcohol
[STEPS]
1. EQUIPMENT
Dry Bath / Heated Block
Microcentrifuge
DNA LoBind tubes 1.5mL
Micropipettes
Assorted pipette t... | ["EQUIPMENT\nDry Bath / Heated Block\nMicrocentrifuge\nDNA LoBind tubes 1.5mL\nMicropipettes\nAssorted pipette tips", "REAGENTS\n\nLysis Buffer (10 millimolar (mM) Tris-base, 100 millimolar (mM) EDTA, 2% SDS, 5 Molarity (M), NaCl, pH 8 )\nTE Buffer (EDTA 1 millimolar (mM), Tris-Cl 10 millimolar (mM) )\nProteinase K... |
74,024 | Karnovsky's Fixative | 6 | null | https://www.protocols.io/view/karnovsky-39-s-fixative-ckiguubw | Jens Berndtsson | TITLE: Karnovsky's Fixative
AUTHORS: Jens Berndtsson
[DESCRIPTION]
Karnovsky's fixative is a standard fixative devloped by M. J. Karnovsky and consist of: 2.5% glutaraldehyde, 2% formaldehyde, 0.02% sodium azide in 0.05 M Na-cacodylate buffer at pH 7.4.
FIXATION TIME:
1 hour minimum, 2-3 hours preferred, can be ... | ["[1000 ml] Mix the following in a 1000 ml beaker:\n100 mL of \n125 mL of \n0.2 g of \n250 mL of 200 millimolar (mM) Na-cacodylate buffer\n525 mL of \n\nAliquote the mixture in:\n20 x 5 mL - 15 ml falcon tube labelled K5\n30 x 10 mL - 15 ml falcon tube labelled K10\n30 x 20 mL - 50 ml falcon tube labelled K20\n... |
94,759 | MSD V-PLEX Proinflammatory panel | 1 | dx.doi.org/10.17504/protocols.io.n92ldmd28l5b/v1 | https://www.protocols.io/view/msd-v-plex-proinflammatory-panel-c8sfzwbn | patricia.garcia | TITLE: MSD V-PLEX Proinflammatory panel
AUTHORS: patricia.garcia
[DESCRIPTION]
The V-PLEX panel offers analytically validated multiplex assay kits. Developed under rigorous design control, V-PLEX kits provide accurate and reproducible results with consistency from lot to lot. The V-PLEX Proinflammatory Panel 1 (human)... | ["[MSD V-PLEX Proinflammatory Panel] Prepare calibrator dilutions\na. Prepare the highest calibrator (Calibrator 1) by adding 1000mL of Diluent 2 to the lyophilized calibrator vial. After reconstituting, invert at least 3 times. Let it equilibrate for 15-30 minutes at room temperature and then vortex briefly using s... |
102,349 | Preparation of PEI for primary coating of MaxOne (neuronal cultures) | 0 | dx.doi.org/10.17504/protocols.io.j8nlk8dy6l5r/v1 | https://www.protocols.io/view/preparation-of-pei-for-primary-coating-of-maxone-n-df7m3rk6 | Yonatan Katz | TITLE: Preparation of PEI for primary coating of MaxOne (neuronal cultures)
AUTHORS: Yonatan Katz
[DESCRIPTION]
Polyethyleneimine (PEI) coating to enhance cell adhesion on MaxOne chips. PEI coating is followed by Laminin coating.
[STEPS]
SECTION: 0.07% PEI solution preparation - Primary coating
2. Prepare 100 mL of 1... | ["[0.07% PEI solution preparation - Primary coating] Prepare 100 mL of 1X borate buffer: \n5 mL \n95 mL", "[0.07% PEI solution preparation - Primary coating] 7% PEI stock solution: \n1.4 mL \n8.6 mL \n\nMix 30 min using a magnetic stirrer until fully dissolved\n(can be stored in 0.5 mL aliquots at -20°C for 1 month).\... |
42,922 | Western Blot | 4 | null | https://www.protocols.io/view/western-blot-bm6ik9ce | James Montgomery | TITLE: Western Blot
AUTHORS: James Montgomery
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Gel Electrophoresis ]
Make loading dye using LDS Sample Buffer (4X) and Reducing agent (10X). For of sample, add sample buffer and reducing agent, keeping in mind that each well holds total.
20 µl
7.5 µl
... | ["[Gel Electrophoresis ]\nMake loading dye using LDS Sample Buffer (4X) and Reducing agent (10X). For of sample, add sample buffer and reducing agent, keeping in mind that each well holds total.\n20 µl\n7.5 µl\n3.5 µl\n30 µl", "[Gel Electrophoresis ]\nCombine sample and loading dye and heat at for .\n95 °... |
null | null | null | dx.doi.org/10.17504/protocols.io.ea3bagn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
A protocol to separate chloroplasts from diatom cells using ammonium fluoride to permeate the silica frustrule and a percoll gradient to separate the plastid from other cellular components.
[BEFORE_START]
Make sure all buffers are prepared according to the instructions in "Buff... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.cvhw35 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This buffer was modified from Lindsay and McCaffery 2014 (DOI: 10.1111/boc.201200076). We use to investigate FMRP protein-protein interactions.
[STEPS]
?.
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56,915 | SARS-CoV-2 NCBI submission protocol: SRA, BioSample, and BioProject | 1 | null | https://www.protocols.io/view/sars-cov-2-ncbi-submission-protocol-sra-biosample-b3ttqnnn | Ruth Timme, Emma Griffiths, Duncan MacCannell, Lee Katz, Michael Weigand, Technical Outreach and Assistance for States Team | TITLE: SARS-CoV-2 NCBI submission protocol: SRA, BioSample, and BioProject
AUTHORS: Ruth Timme, Emma Griffiths, Duncan MacCannell, Lee Katz, Michael Weigand, Technical Outreach and Assistance for States Team
[DESCRIPTION]
PURPOSE:
This is a SARS-CoV-2 specific protocol that covers the steps needed to establish ... | ["["Ingredients" to have in place before starting your submissions] Set up a new NCBI submission environment for your lab\n1.1: Create an NCBI user account\n1.2: Set up an NCBI submission user group for your lab\n1.4: Bookmark the link to your Submission Portal\n1.5. Identify or establish new BioProjects (det... |
102,390 | PRIMARY GLIA ISOLATION AND CULTURE PROTOCOL | 0 | dx.doi.org/10.17504/protocols.io.36wgqn6k3gk5/v1 | https://www.protocols.io/view/primary-glia-isolation-and-culture-protocol-df8w3rxe | Scott Vermilyea | TITLE: PRIMARY GLIA ISOLATION AND CULTURE PROTOCOL
AUTHORS: Scott Vermilyea
[DESCRIPTION]
This protocol details the isolation of primary glia from cortex.
[STEPS]
SECTION: Primary Glia Isolation From Cortex Protocol
1. Before dissection:
SECTION: Primary Glia Isolation From Cortex Protocol
1.1. Clean and autoclave al... | ["[Primary Glia Isolation From Cortex Protocol] Before dissection:", "[Primary Glia Isolation From Cortex Protocol] Clean and autoclave all dissection tools (scissors, forceps, spatulas, razor blades) prior to use.", "[Primary Glia Isolation From Cortex Protocol] Prepare dishes or plates.\n\nMinimum of 60 min in 37 °C ... |
null | null | null | dx.doi.org/10.17504/protocols.io.sx2efqe | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p>This NSF (National Science Foundation) generic template includes the following sections: </p>
<p> </p>
<p>1. Types of data produced</p>
<p>2. Data and metadata standards</p>
<p>3. Policies for access and sharing</p>
<p>4. Policies for re-use, re-distribution, derivatives</p>
<... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.fy7bpzn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>RefSeqMash uses the MinHash (http://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0997-x) algorithm to characterize the genera/species/strains present in metagenomic samples by comparing the reads to ~11K known RefSeq genomes.</p>
[STEPS]
?.
?.
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8,515 | Signal peptide screen with SignalP 4.0 | 1 | null | https://www.protocols.io/view/signal-peptide-screen-with-signalp-4-0-kjbcuin | João Vitor Molino | TITLE: Signal peptide screen with SignalP 4.0
AUTHORS: João Vitor Molino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is to screen a protein sequence database in fasta format for signal peptides by SignalP4.0.</div></div>
[STEPS] | [] |
15,381 | prime-seq | 1 | dx.doi.org/10.17504/protocols.io.s9veh66 | https://www.protocols.io/view/prime-seq-s9veh66 | Aleksandar Janjic, Lucas Esteban Wange, Johannes Bagnoli, Johanna Geuder, Phong Nguyen, Daniel Richter, Christoph Ziegenhain, Wolfgang Enard | TITLE: prime-seq
AUTHORS: Aleksandar Janjic, Lucas Esteban Wange, Johannes Bagnoli, Johanna Geuder, Phong Nguyen, Daniel Richter, Christoph Ziegenhain, Wolfgang Enard
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>prime-seq is a simple and open RNA-seq method, which can be easily established ... | ["[Sample Collection]\nAdd cells or tissue to wells\nCellsMinimum: 100 cells, Optimum: 10,000 cells Make sure that the same number of cells are used for each sample. Large differences between cells will impact distribution of sequencing reads and can potentially affect normalization.\nTissueIf samples are difficult to ... |
61,301 | Whole Mount In Situ Hybridization in Zebrafish | 4 | dx.doi.org/10.17504/protocols.io.j8nlkk33wl5r/v1 | https://www.protocols.io/view/whole-mount-in-situ-hybridization-in-zebrafish-b74vrqw6 | D R Hammond-Weinberger | TITLE: Whole Mount In Situ Hybridization in Zebrafish
AUTHORS: D R Hammond-Weinberger
[DESCRIPTION]
Whole mount in situ hybridization protocol optimized for single gene detection using chromogenic substrates NBT/BCIP in zebrafish (Danio rerio). Options are included for bleaching and permeabilization. This protocol bei... | ["[Day 1] Wear gloves and treat surfaces for RNAses.", "[Day 1] Wash embryos in 0.5 mL 75% Methanol/25% PBTween, rocking, for 5 min at Room temperature in 1.5 mL centrifuge tubes.", "[Day 1] Wash embryos in 0.5 mL 50% MeOH / 50% PBTween, rocking, for 5 min at Room temperature", "[Day 1] Wash embryos in 0.5 mL 25% MeO... |
64,467 | ONT Q20+ (V12) Adapter Ligation for Fungal DNA Barcoding | 4 | dx.doi.org/10.17504/protocols.io.dm6gpb5zdlzp/v2 | https://www.protocols.io/view/ont-q20-v12-adapter-ligation-for-fungal-dna-barcod-ca7tshnn | Stephen Douglas Russell, Stephen Douglas Russell | TITLE: ONT Q20+ (V12) Adapter Ligation for Fungal DNA Barcoding
AUTHORS: Stephen Douglas Russell, Stephen Douglas Russell
[DESCRIPTION]
This process will take your A-tailed library and add the nanopore adapters. Simply put chemicals together for a single reaction and do a bead cleanup.
Tested with:
Flowcells... | ["[Adapter Ligation] Spin down the Adapter Mix H (AMX H) and Quick T4 Ligase, and place on ice.\n\nAMX H - \nQuick T4 Ligase -", "[Adapter Ligation] Thaw Ligation Buffer (LNB) at room temperature, spin down and mix by pipetting. Due to viscosity, vortexing this buffer is ineffective. Place on ice immediately after tha... |
98,530 | Flow Cytometry ICS Nuclear Antigens | 4 | dx.doi.org/10.17504/protocols.io.rm7vz3qdxgx1/v3 | https://www.protocols.io/view/flow-cytometry-ics-nuclear-antigens-dcga2tse | Michael Betts, Gregory Golden | TITLE: Flow Cytometry ICS Nuclear Antigens
AUTHORS: Michael Betts, Gregory Golden
[DESCRIPTION]
High-parameter flow cytometry enables identification and characterization of a wide range of cell populations within a biological sample. A combined analysis of extracellular epitope staining (ECS) and intra-cellular epitop... | ["[Procedure] Thawing and Resting\n\na. Pre-warm R10 media in a 37 °C water bath. \n\nb. Thaw samples in-vial using a 37 °C water bath.\n\nc. Add thawed cells to 14 mL of R10, then spin cells at 500 xg for 5 min.\n\nd. Resuspend cell pellet in 3 mLof R10 and count cells. \n\ne. Rest cells at least 3 hours (up to overni... |
101,404 | Bacterial and fungal DNA extraction protocol for long-read whole genome sequencing | 0 | dx.doi.org/10.17504/protocols.io.5jyl82dn9l2w/v1 | https://www.protocols.io/view/bacterial-and-fungal-dna-extraction-protocol-for-l-de943h8w | Manon Norest, Anne-Yvonne Guillerm-Erckelboudt, Claudia Bartoli | TITLE: Bacterial and fungal DNA extraction protocol for long-read whole genome sequencing
AUTHORS: Manon Norest, Anne-Yvonne Guillerm-Erckelboudt, Claudia Bartoli
[DESCRIPTION]
In the context of the ERC Starting Grant HoloE2Plant N° 101039541 “Exploring the Holobiont concept through a Plant Evolutionary Experiment st... | ["[Bacterial and fungal growth] Fungal growth\n\nPlace a fungal stab (obtained from the culture collection tube stored at 4°C) on four Inhibitory Mold Agar plates. Collect the mycelium from the four plates into a 5ml Eppendorf tube and incubate it at -80°C for 24h. Lyophilize the mycelium for 48h at -55°C. In this stud... |
62,596 | Green Otter CBD Gummies - Can Reduce Your Chronic Aches/Pains! | 3 | dx.doi.org/10.17504/protocols.io.bp2l61rz1vqe/v1 | https://www.protocols.io/view/green-otter-cbd-gummies-can-reduce-your-chronic-ac-b9dcr22w | GreenOtterCBDGummiesORDER | TITLE: Green Otter CBD Gummies - Can Reduce Your Chronic Aches/Pains!
AUTHORS: GreenOtterCBDGummiesORDER
[DESCRIPTION]
Green Otter CBD Gummies Reviews Cubes basically uses the best hemp oil in the United States.
[STEPS] | [] |
21,288 | Yale - Blood and Urine Inorganic Phosphorous | null | dx.doi.org/10.17504/protocols.io.y2gfybw | null | John Stack, Gary Cline | TITLE: Yale - Blood and Urine Inorganic Phosphorous
AUTHORS: John Stack, Gary Cline
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Procedure used to determine the concentration of inorganic phosphorus in blood, serum,... | ["Calibrate Cobas for Phosphorus analysis by running a multi-analyte serum calibrator and two control serum.", "Sample handling as performed by Cobas Mira Plus a) Pipette 3 µL of sample into cuvette. b) Add 280 µL of Phosphorus Liquid Reagent. c) Mixture is incubated at 37˚C for 10 minutes d) Absorbance is... |
17,085 | INDICE DE QUALITÉ DE VIE ASSOCIÉE À L’ÉTAT DE SANTÉ DU CHIEN (IQVESC) | null | dx.doi.org/10.17504/protocols.io.uw5exg6 | null | Eric Troncy, Louis-Philippe de Lorimier | TITLE: INDICE DE QUALITÉ DE VIE ASSOCIÉE À L’ÉTAT DE SANTÉ DU CHIEN (IQVESC)
AUTHORS: Eric Troncy, Louis-Philippe de Lorimier
[STEPS] | [] |
42,119 | Protoplast isolation and PEG-mediated transformation | 1 | dx.doi.org/10.17504/protocols.io.36wgqwd5gk57/v2 | https://www.protocols.io/view/protoplast-isolation-and-peg-mediated-transformati-bmdfk23n | Diep R Ganguly, rebeccah.tyrrell , Taj Arndell | TITLE: Protoplast isolation and PEG-mediated transformation
AUTHORS: Diep R Ganguly, rebeccah.tyrrell , Taj Arndell
[DESCRIPTION]
Adapted from Yoo S-D, Cho Y-H, & Sheen J (2007) Nature Protocols and Arndell T et al (2019) BMC Biotechnology. Originally designed for the isolation of Arabidopsis mesophyll proto... | ["[Preparation] Grow Arabidopsis or wheat under 12-hour photoperiod at 21 °C and 50% relative humidity, with approx. 100 µmol photons m-2 s-1 light intensity on soil (Premium potting mix, Martins fertilizers) supplemented with fertiliser (1 g/kg Osmocote; Arabidopsis: 3 weeks, wheat: 1 week) or (Arabidopsis only) nutri... |
28,900 | Expressing genes in Saccharomyces cerevisiae | null | dx.doi.org/10.17504/protocols.io.8gchtsw | null | Jaclyn Winter | TITLE: Expressing genes in Saccharomyces cerevisiae
AUTHORS: Jaclyn Winter
[STEPS] | [] |
77,671 | Immunohistochemistry using paraffin embedded tissue | 4 | dx.doi.org/10.17504/protocols.io.eq2ly72ywlx9/v1 | https://www.protocols.io/view/immunohistochemistry-using-paraffin-embedded-tissu-cp4fvqtn | Michael J Hurley | TITLE: Immunohistochemistry using paraffin embedded tissue
AUTHORS: Michael J Hurley
[DESCRIPTION]
This protocol describes how to stain paraffin wax embedded sections of tissue for alpha-synuclein by immunofluorescence or DAB/peroxidase immunohistochemistry and is based on Hurley et al., 2013 (https://doi.org/10.1093/... | ["[Wax embedding] Dissect tissue (fresh or trans-cardially perfused with formalin (10% neutral buffered formaldehyde) or 4% paraformaldehyde in PBS).", "[Wax embedding] Place tissue in at least 5 volumes of fixative at 4 °C for > 2880 min if tissue was perfused or > 5760 min if fresh. The tissue can stay in fixative in... |
30,846 | Intracellular Staining With True-Phos™ Perm Buffer in Whole Blood | null | dx.doi.org/10.17504/protocols.io.bac6iaze | null | Sam Li | TITLE: Intracellular Staining With True-Phos™ Perm Buffer in Whole Blood
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Buffer Preparation:]
Warm 1 X RBC Lysis/Fixation Solution (Cat 422401, 10X solution). For each 0.1mL of whole blood, aliquot 2mL of 1 X RBC Lysis/Fixation Solution to a ... | ["[Buffer Preparation:]\nWarm 1 X RBC Lysis/Fixation Solution (Cat 422401, 10X solution). For each 0.1mL of whole blood, aliquot 2mL of 1 X RBC Lysis/Fixation Solution to a 50mL conical tube and warm to 37°C.", "[Buffer Preparation:]\nChill True-Phos™ Perm Buffer to -20°C. For each 0.1mL of whole blood, aliquot 1.0mL o... |
72,227 | Assessment of TNF-alpha and BDNF | 6 | dx.doi.org/10.17504/protocols.io.14egn224mg5d/v1 | https://www.protocols.io/view/assessment-of-tnf-alpha-and-bdnf-cisbuean | hananagm | TITLE: Assessment of TNF-alpha and BDNF
AUTHORS: hananagm
[DESCRIPTION]
Abstract
Background: Cerebral palsy (CP) is the most common motor disability in children, which is instigated by damage to the developing brain that affects the ability to control the muscles. The main types of CP are spastic CP, dyskinesia CP an... | ["[Assessment of TNF-alpha and BDNF] Catalog No ab181421 (www.abcam.com/ab181421 , BDNF ab212166 www.abcam.com/ab212166)\n\nFirst separate the serum", "[Assessment of TNF-alpha and BDNF] store samples in low degree properly -10 c", "[Antibody Cocktail] 300 ul of l HumanCapture Antibody + 300 ul of Detector ... |
25,240 | RNA Isolation from Plant Tissue Protocol 3: CTAB-PVP Method | null | dx.doi.org/10.17504/protocols.io.4vygw7w | null | Beijing Genomics Institute | TITLE: RNA Isolation from Plant Tissue Protocol 3: CTAB-PVP Method
AUTHORS: Beijing Genomics Institute
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Implemented by: Beijing Genomics Institute</div><div class = "text-block"><span>This protocol is part of a collection of eighteen protocols used to i... | ["Grind tissue to a powder in liquid nitrogen.", "Add – of ground, frozen tissue to of pre-heated extraction buffer in a 5 ml tube.\n200 mg\n500 mg\n3 ml", "Vortex the tube until the tissue is mixed with the buffer.", "Incubate the tube at for (min), vortexing briefly () every 2–3 min during the incubation.\n65 °C",... |
null | null | null | dx.doi.org/10.17504/protocols.io.ruqd6vw | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
69,217 | Human Sample Processing and Isolation of Extracellular Vesicles with Size Exclusion Chromatography | 1 | dx.doi.org/10.17504/protocols.io.3byl4jeb2lo5/v1 | https://www.protocols.io/view/human-sample-processing-and-isolation-of-extracell-cft9tnr6 | J. Nathaniel Diehl, Amelia Ray, Lauren B. Collins, Andrew Peterson, Kyle C. Alexander, John S. Ikonomidis, Adam W. Akerman | TITLE: Human Sample Processing and Isolation of Extracellular Vesicles with Size Exclusion Chromatography
AUTHORS: J. Nathaniel Diehl, Amelia Ray, Lauren B. Collins, Andrew Peterson, Kyle C. Alexander, John S. Ikonomidis, Adam W. Akerman
[DESCRIPTION]
This protocol details the steps necessary to isolate circulating pl... | ["[Human plasma collection] Collect 5 mL peripheral venous blood by a trained nurse or phlebotomist into prelabeled EDTA-coated evacuated tubes.", "[Human plasma collection] Immediately after the sample is collected, mix the tube thoroughly and store at Room temperature (< 120 min).", "[Human plasma collection] Centrif... |
null | null | null | dx.doi.org/10.17504/protocols.io.r88d9zw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>GENERAL INFORMATION</strong></p>
<p> </p>
<p><em><strong>Product Overview</strong></em></p>
<p> </p>
<p>The NEXTflex™ Small RNA-Seq Kit v3 can be used to prepare small RNA libraries from total RNA for Illumina-compatible next-generation sequencing. The NEXTflex Small ... | [] |
94,167 | PCR and Gel electrophoresis/purification protocol | 4 | dx.doi.org/10.17504/protocols.io.4r3l22j3pl1y/v1 | https://www.protocols.io/view/pcr-and-gel-electrophoresis-purification-protocol-c77xzrpn | Katie Jing Kay Lam, Claire D Clelland | TITLE: PCR and Gel electrophoresis/purification protocol
AUTHORS: Katie Jing Kay Lam, Claire D Clelland
[DESCRIPTION]
This protocol describes Polymerase chain reaction PCR, Gel electrophoresis and Gel purification.
[STEPS]
SECTION: DNA preparation by QuickExtract™
1. Wash cells (from a 96-well plate) with 100 µL PBS ... | ["[DNA preparation by QuickExtract™] Wash cells (from a 96-well plate) with 100 µL PBS & aspirate", "[DNA preparation by QuickExtract™] Add 30 µL QuickExtract™ and scrape well bottom with pipette tip to detach cells", "[Primer preparation] Resuspend IDT primers with H2O to 100 µM\nE.g. 20 nmol of primer (marked on tube... |
59,802 | FLASH-seq Low-Amplification protocol | 4 | dx.doi.org/10.17504/protocols.io.yxmvmnod5g3p/v3 | https://www.protocols.io/view/flash-seq-low-amplification-protocol-b6m2rc8e | Simone Picelli, Vincent Hahaut | TITLE: FLASH-seq Low-Amplification protocol
AUTHORS: Simone Picelli, Vincent Hahaut
[DESCRIPTION]
Building upon the existing Smart-seq2/3 workflows, we developed FLASH-seq (FS), a new full-length scRNA-seq method capable of detecting a significantly higher number of genes than both previous versions, requiring lim... | ["[Prepare lysis mix] Prepare the following lysis mix:\n ReagentReaction concentrationVolume (µl)384-well plateTriton-X100 (10% v/v)0.2%0.0208.448dNTP mix (25 mM each)6 mM0.240101.376SMART dT30VN (100 µM)1.8 mM0.0187.603RNAse inhibitor (40 U/µL)1.2 U/µL0.03012.672DTT (100 mM)1.2 mM0.0125.069FS TSO (100 µM)9.2 µM0.09... |
42,239 | HisPur Purification of His-Tagged Proteins--CHEM 584 | 4 | dx.doi.org/10.17504/protocols.io.bmg7k3zn | https://www.protocols.io/view/hispur-purification-of-his-tagged-proteins-chem-58-bmg7k3zn | Ken Christensen | TITLE: HisPur Purification of His-Tagged Proteins--CHEM 584
AUTHORS: Ken Christensen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The Thermo Scientific HisPur Ni-NTA Resin enables effective immobilized metal affinity chromatography (IMAC) purification of polyhistidine-tagged proteins from a solub... | ["Add of a 50% Ni-NTA resinslurry to a 1.7 ml microcentrifuge tube. Centrifuge tube for at 700 × g and carefully remove and discard the supernatant.\n250 µl\nThe HisPur Ni-NTA Resin allows for purification strategy customization. Purification conditions can be scaled as needed. The procedure may be performed at room ... |
41,560 | ELISA for quantification of granulocyte macrophage-colony stimulating factor (GM-CSF) in tissue culture supernatant, human serum or plasma. | 6 | dx.doi.org/10.17504/protocols.io.bktykwpw | https://www.protocols.io/view/elisa-for-quantification-of-granulocyte-macrophag-bktykwpw | Angel Justiz-Vaillant, Belkis Ferrer-Cosme | TITLE: ELISA for quantification of granulocyte macrophage-colony stimulating factor (GM-CSF) in tissue culture supernatant, human serum or plasma.
AUTHORS: Angel Justiz-Vaillant, Belkis Ferrer-Cosme
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Granulocyte macrophage-colony stimulating fac... | ["An anti-human granulocyte macrophage-colony stimulating factor (GM-CSF) coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum or plasma into the wells. GM-CSF present in the serum sample binds to antibodies adsorbed into the micr... |
48,851 | Reuse N95 | 3 | dx.doi.org/10.17504/protocols.io.btxtnpnn | https://www.protocols.io/view/reuse-n95-btxtnpnn | thananda | TITLE: Reuse N95
AUTHORS: thananda
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Laboratory Protocol</div><div class = "text-block">Fit test procedure </div></div>
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.chht35 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is the correct protocol if you are using the C2987I cells. If you are using the C2987H cells, please refer to <a href="http://protocols.io/view/High-Efficiency-Transformation-Protocol-C2987H-imst3v" target="_blank">this protocol</a>.
[GUIDELINES]
<strong>Transformation Pro... | [] |
50,137 | Biphasic Activation of WNT Signaling Facilitates the Derivation of Midbrain Dopamine Neurons from hESCs for Translational Use | 1 | dx.doi.org/10.17504/protocols.io.bu7znzp6 | https://www.protocols.io/view/biphasic-activation-of-wnt-signaling-facilitates-t-bu7znzp6 | Tae Wan Kim, Jinghua Piao, So Yeon Koo, Sonja Kriks, Sun Young Chung, Doron Betel, Nicholas D. Socci, Se Joon Choi, Susan Zabierowski, Brittany N. Dubose, Ellen J. Hill, Eugene V. Mosharov, Stefan Irion, Mark J. Tomishima, Viviane Tabar, Lorenz Studer | TITLE: Biphasic Activation of WNT Signaling Facilitates the Derivation of Midbrain Dopamine Neurons from hESCs for Translational Use
AUTHORS: Tae Wan Kim, Jinghua Piao, So Yeon Koo, Sonja Kriks, Sun Young Chung, Doron Betel, Nicholas D. Socci, Se Joon Choi, Susan Zabierowski, Brittany N. Dubose, Ellen J. Hill, Eugene V... | ["[Directed differentiation into midbrain dopamine neurons (mDA)]\nDissociate hPSCs into single cells using Accutase (Cell Technologies, #AT104), and plate at 400K cells/cm2 onto Geltrex (Life Technologies, #A1413201) coated dishes with Neurobasal (Life Technologies)/N2 (Stem Cell Technologies)/B27(Life Technologies) m... |
62,239 | Bay Park CBD Gummies: Reviews, Cost, Benefits & Is Legal !! | 3 | dx.doi.org/10.17504/protocols.io.n2bvj6zrnlk5/v1 | https://www.protocols.io/view/bay-park-cbd-gummies-reviews-cost-benefits-amp-is-b8z7rx9n | nathon.jahzeel | TITLE: Bay Park CBD Gummies: Reviews, Cost, Benefits & Is Legal !!
AUTHORS: nathon.jahzeel
[DESCRIPTION]
Straight Park CBD Gummies are totally protected to utilize
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ia5cag6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
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null | null | null | dx.doi.org/10.17504/protocols.io.emebc3e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
For use in <a href="https://www.protocols.io/view/Generating-viral-metagenomes-from-the-coral-holobi-ejgbcjw" target="_blank">Generating viral metagenomes from the coral holobiont</a>.
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.fscbnaw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol is a modified version of the MoBio PowerPlant Pro 96 well DNA extraction kit for plant and lichen tissues that have been stored in CTAB buffer. Prior to being placed in CTAB, photosynthetic tissues from plants and lichens were surface-sterilized with sequential... | [] |
64,957 | Feeding bacteria to house flies for microbe fate and gene expression analysis. | 1 | dx.doi.org/10.17504/protocols.io.81wgb6w8qlpk/v1 | https://www.protocols.io/view/feeding-bacteria-to-house-flies-for-microbe-fate-a-cbn5smg6 | Dana Nayduch, Hayley Meier, Christine Mccoy | TITLE: Feeding bacteria to house flies for microbe fate and gene expression analysis.
AUTHORS: Dana Nayduch, Hayley Meier, Christine Mccoy
[DESCRIPTION]
Objective: To feed individual house flies a specific amount of bacteria in order to
determine bacteria “fate” (persistence, via enumeration; spatiotemporal locatio... | ["[Preparing House Flies for Bacterial Feeding] Collect pupae from colony and surface sanitize for 2 minutes each with gentle swirling in 10% bleach, sterile H2O, 100% ethanol, sterile H2O. \n \n\nStore pupae in a sterile container (e.g. petri dish, secured with rubber band or tape) or individually-house in 15 ml conic... |
null | null | null | dx.doi.org/10.17504/protocols.io.neudbew | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>To ensure reliable quantification of rat lung fibrosis, support vector machine learning was used on digitalized images to design a fully automated method that analyzes two important aspects of lung fibrosis: (i) areas having substantial tissue remodeling with appearance of de... | [] |
43,370 | High-Throughput Tiled Amplicon Sequencing of Sars-CoV2 using Seqwell's plexWell 384 | 4 | dx.doi.org/10.17504/protocols.io.bnkimcue | https://www.protocols.io/view/high-throughput-tiled-amplicon-sequencing-of-sars-bnkimcue | Megan Folkerts, mnguyen , Danielle Vazquez, Amber Jones | TITLE: High-Throughput Tiled Amplicon Sequencing of Sars-CoV2 using Seqwell's plexWell 384
AUTHORS: Megan Folkerts, mnguyen , Danielle Vazquez, Amber Jones
[STEPS]
?. [cDNA synthesis]
For cDNA synthesis of viral RNA, follow steps 1-6 of the v2 nCoV-2019 sequencing protocol by Josh Quick dx.doi.org/10.17504/prot... | ["[cDNA synthesis]\nFor cDNA synthesis of viral RNA, follow steps 1-6 of the v2 nCoV-2019 sequencing protocol by Josh Quick dx.doi.org/10.17504/protocols.io.bdp7i5rn .\nA new version of this protocol has been released which replaces ThermoFisher's SSIV reverse transcriptase with NEB's Lunascript. Though this provides... |
89,041 | SIOG-IO Reporting of Older Subgroups Enrolled to Pivotal Immunotherapy Trials 2018-2022 | 1 | dx.doi.org/10.17504/protocols.io.3byl4q5d2vo5/v1 | https://www.protocols.io/view/siog-io-reporting-of-older-subgroups-enrolled-to-p-c27ryhm6 | Mac Eochagain Colm | TITLE: SIOG-IO Reporting of Older Subgroups Enrolled to Pivotal Immunotherapy Trials 2018-2022
AUTHORS: Mac Eochagain Colm
[DESCRIPTION]
Reporting of older subgroups enrolled to drug trials in solid oncology immunotherapy leading to FDA approvals between 2018-2022
[STEPS]
SECTION: Review Title
1. Reporting of Older S... | ["[Review Title] Reporting of Older Subgroups in Immunotherapy Registration Trials, 2018-2022", "[Language] English", "[Anticipated or Actual Start Date] 15/10/23", "[Anticipated Completion Date] 28/02/2024", "[Stage of Review at the time of Submission] Preliminary searches commenced 28 September 2023", "[Review Stage]... |
49,275 | edX Learner and Course Analytics and Visualization Pipeline | 1 | dx.doi.org/10.17504/protocols.io.buc3nsyn | https://www.protocols.io/view/edx-learner-and-course-analytics-and-visualization-buc3nsyn | Michael Ginda, Katy Borner, Michael Richey, Mark Cousino | TITLE: edX Learner and Course Analytics and Visualization Pipeline
AUTHORS: Michael Ginda, Katy Borner, Michael Richey, Mark Cousino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The edX Student and Course Analytics and Visualization Pipeline is analytics and visualization pipeline using edX cour... | ["[Acquire edX Data]\nReview edX Research Guide, which provides documentation for how a user may acquire edX course data from an edX Data Czar, how to properly and responsibly maintain and use these data in research, and describe in detail the data exports provided for a given edX courses. The edX Research guide is ava... |
62,594 | A parallel transcriptomics and proteomics workflow for organisms with minimal reference protein databases | 1 | null | https://www.protocols.io/view/a-parallel-transcriptomics-and-proteomics-workflow-b9dar22e | Peter Thuy-Boun | TITLE: A parallel transcriptomics and proteomics workflow for organisms with minimal reference protein databases
AUTHORS: Peter Thuy-Boun
[DESCRIPTION]
This is a method that lets researchers perform mass spectrometry-based proteomics experiments and build a new reference protein database to help interpret that data in... | ["[Proteomics Sample Preparation] Dissect salivary gland tissue from 10 adult female Amblyomma americanum ticks into approximately 100 µL of sterile water and store at -20°C. Note that tissue/cells from other organisms can be substituted for Amblyomma americanum salivary gland tissue. These other tissue/cell types may ... |
null | null | null | dx.doi.org/10.17504/protocols.io.tcbeisn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><em>Schadenfreude</em> (i.e., the pleasure derived from another’s misfortune) has been widely studied by having participants imagine how they would feel in hypothetical scenarios describing another person’s pain or misfortune. However, research on affective forecasting shows ... | [] |
71,020 | Field Sampling Protocol | 6 | dx.doi.org/10.17504/protocols.io.kqdg3962pg25/v1 | https://www.protocols.io/view/field-sampling-protocol-chkkt4uw | maggie.bowman | TITLE: Field Sampling Protocol
AUTHORS: maggie.bowman
[DESCRIPTION]
Written by Maggie Bowman (maggie.bowman@pnnl.gov)
Updated 4/7/2022
This protocol describes soil core sampling for the 1000 Soils Pilot Campaign. Please keep in mind that it is the collector’s responsibility to ensure compliance with any environmenta... | ["[Collect Metadata] Record the sample kit number, general vegetation type (e.g., conifer forest or tall prairie), general weather conditions (sunny, rainy, extreme heat, etc.), longitude and latitude in decimal degrees (smart phone app ‘My GPS Coordinates’), and the time and date of sampling.", "[Collect Metadata] It ... |
17,665 | Flow Imaging Microscopy of Elastin-like Polymers | null | dx.doi.org/10.17504/protocols.io.vg9e3z6 | null | Eva Rose Balog, Laura Marvin | TITLE: Flow Imaging Microscopy of Elastin-like Polymers
AUTHORS: Eva Rose Balog, Laura Marvin
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the methods used by the Balog lab at the University of New England to evaluate elastin-like polymer microparticles using the FlowCam. ... | ["[Sample Preparation]\nPrepare a bucket of ice for keeping samples, solvents, and focus beads cold.", "[Instrument Setup]\nTurn on the computer, then the FlowCam. Open the Visual Spreadsheet software.", "[Flow Cell Cleaning]\nSonicate the flow cell in DI water for 180 s.", "[Focusing]\nClick the Setup|Focus icon to op... |
28,315 | CDO expression into OnePot PURE | null | dx.doi.org/10.17504/protocols.io.7v3hn8n | null | Dana Mozaffari | TITLE: CDO expression into OnePot PURE
AUTHORS: Dana Mozaffari
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol explains the procedure for expressing the catechol degrading enzyme </span><span style = "font-style:italic;">Catechol-2,3-deoxygenase </span><span style = "font-style:i... | ["Label 3 PCR tubes according to the reactions", "Add the catechol, CDO and water as needed according to the materials chart.", "Make a quick spin in the centrifuge to have all the liquid in the bottom.", "Incubate one hour at 37°C", "In each tubes add the Energy solution, proteins and ribosomes."] |
40,524 | Indirect Enzyme Linked Immunosorbent Assay (ELISA) for Detection of Anti-HIV Antibodies in Human Serum | 4 | dx.doi.org/10.17504/protocols.io.bjtkknkw | https://www.protocols.io/view/indirect-enzyme-linked-immunosorbent-assay-elisa-f-bjtkknkw | Norma McFarlane-Anderson | TITLE: Indirect Enzyme Linked Immunosorbent Assay (ELISA) for Detection of Anti-HIV Antibodies in Human Serum
AUTHORS: Norma McFarlane-Anderson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol was already used successfully to detect anti-HIV antibody in the serum of women with cervical ... | ["The 96 well polystyrene microplate (U-shaped bottom; Sigma-Aldrich) is coated with 50 ng of a mixture of synthetic peptides (including the fragment 579-601 of the HIV gp41 and fragments 254-274, 308-331 and 421-438 of the HIV gp120) for 4 h at 37ºC.", "The microplate is blocked with 3% non-fat milk in PBS, 25 µl/well... |
99,138 | LC-MS of Native Nanodiscs | 0 | dx.doi.org/10.17504/protocols.io.e6nvw1k97lmk/v1 | https://www.protocols.io/view/lc-ms-of-native-nanodiscs-dc3a2yie | Caroline Brown, Snehasish Ghosh, Rachel McAllister, Mukesh Kumar, Gerard Walker, Eric Sun, Talat Aman, Aniruddha Panda, Shailesh Kumar, Wenxue Li, Jeff Coleman, Yansheng Liu, James E Rothman, Moitrayee Bhattacharyya, Kallol Gupta | TITLE: LC-MS of Native Nanodiscs
AUTHORS: Caroline Brown, Snehasish Ghosh, Rachel McAllister, Mukesh Kumar, Gerard Walker, Eric Sun, Talat Aman, Aniruddha Panda, Shailesh Kumar, Wenxue Li, Jeff Coleman, Yansheng Liu, James E Rothman, Moitrayee Bhattacharyya, Kallol Gupta
[DESCRIPTION]
This protocol provides a step-by-... | ["[Liquid Chromatography] Resuspend peptides in water + 0.1 formic acid varying amount of water so that 500ng of peptide can be loaded in a reasonable volume.", "[Liquid Chromatography] Chromatography is subsequently conducted using home-packed C18 columns (15cm x 75uM ID) for separation of peptides by hydrophobicity."... |
null | null | null | dx.doi.org/10.17504/protocols.io.ermbd46 | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong>What to look for in a silver stain protocol<br /><br /></strong>Avoid silver-ammine stains. Ammonia is touchy stuff and procedures are lengthy. Glutaraldehyde is unnecessary, unless you've got basic proteins (luteovirus capsids? - no data). Be sure gel is thin (0.75mm)... | [] |
103,181 | Primary cortical neuron isolation and culture | 0 | dx.doi.org/10.17504/protocols.io.81wgbz57ygpk/v1 | https://www.protocols.io/view/primary-cortical-neuron-isolation-and-culture-dgzm3x46 | Shiyi Wang | TITLE: Primary cortical neuron isolation and culture
AUTHORS: Shiyi Wang
[DESCRIPTION]
Primary cortical neuron isolation and culture
[STEPS]
1. **Dissection and Digestion** - Micro-dissect cortices from P1 rat pups of both sexes (Sprague Dawley, Charles River Laboratories, SD-001). - Digest cortices in papain (~7.5 u... | ["**Dissection and Digestion** - Micro-dissect cortices from P1 rat pups of both sexes (Sprague Dawley, Charles River Laboratories, SD-001). - Digest cortices in papain (~7.5 units/ml) at 33°C for 45 minutes.", "**Cell Preparation** - Triturate the digested tissue in low and high ovomucoid solutions. - Resuspend cells ... |
null | null | null | dx.doi.org/10.17504/protocols.io.h2sb8ee | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol describes the preparation of Illumina libraries for high through-put sequencing of near full-length bacterial 16S rRNA sequences. The method is based on the universal 27F and 1492R primers designed by Lane <em>et al</em>.*</p>
<p> </p>
<p>Sequences for primers a... | [] |
40,926 | Copy of ELISA for quantification of human C5 in serum or plasma. | 6 | dx.doi.org/10.17504/protocols.io.bj76krre | https://www.protocols.io/view/copy-of-elisa-for-quantification-of-human-c5-in-se-bj76krre | Angel Justiz-Vaillant, Belkis Ferrer-Cosme | TITLE: Copy of ELISA for quantification of human C5 in serum or plasma.
AUTHORS: Angel Justiz-Vaillant, Belkis Ferrer-Cosme
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. An anti-human C5 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate b... | ["An anti-human C5 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum or plasma. Human C5 present in the serum or plasma binds to antibodies adsorbed into the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buf... |
20,238 | U Mass - Insulin | null | dx.doi.org/10.17504/protocols.io.xznfp5e | null | Jason Kim | TITLE: U Mass - Insulin
AUTHORS: Jason Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">The insulin enzyme-linked immunosorbent assay (ELISA) is a standard immunoassay for the detection of insulin levels in serum sam... | ["The microplate should be equilibrated to room temperature prior to opening the foil pouch.", "Assign microplate strips for a duplicate measurement for the standards, controls, and samples. The remaining microplate strips can be stored at 2~8°C in the tightly sealed foil pouch containing the desiccant.", "Pipette 5 o... |
null | null | null | dx.doi.org/10.17504/protocols.io.j8ecrte | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p>Use PBS1X cold (4C) to ensure the correct performig of the bronchoalveolar lavage</p>
<p> </p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
106,463 | AAV production and purification | 4 | dx.doi.org/10.17504/protocols.io.n2bvjnew5gk5/v1 | https://www.protocols.io/view/aav-production-and-purification-dj774rrn | Gerard Michael Coughlin | TITLE: AAV production and purification
AUTHORS: Gerard Michael Coughlin
[DESCRIPTION]
We recently developed adeno-associated virus (AAV) capsids to facilitate efficient and noninvasive gene transfer to the central and peripheral nervous systems. However, a detailed protocol for generating and systemically delivering n... | ["[Reagent setup: Plasmid DNA] Grow bacterial stocks in LB or Plasmid+ media containing the appropriate selective antibiotic; refer\nto the Addgene catalog for suggested growth conditions. Use a large-scale endotoxin-free plasmid purification kit to isolate plasmids; elute plasmid DNA with the supplied Tris-EDTA (TE) b... |
36,494 | Derivation of organoids from primary tumour tissue | 1 | dx.doi.org/10.17504/protocols.io.bfvnjn5e | https://www.protocols.io/view/derivation-of-organoids-from-primary-tumour-tissue-bfvnjn5e | Hazel Rogers, Laura Letchford, Sara Vieira, Maria Garcia-Casado, Mya Fekry-Troll, Charlotte Beaver, Rachel Nelson, Hayley Francies, Mathew Garnett | TITLE: Derivation of organoids from primary tumour tissue
AUTHORS: Hazel Rogers, Laura Letchford, Sara Vieira, Maria Garcia-Casado, Mya Fekry-Troll, Charlotte Beaver, Rachel Nelson, Hayley Francies, Mathew Garnett
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the derivation... | ["[Process Diagram]", "[Protocol]\nPour or pipette tissue, and media sample has been transported in, into a glass petri dish.\nIf tissue has unknown infection status, only open the container the sample has been transported in within a microbiological safety cabinet.\nWe recommend using glass rather than plastic petri d... |
17,524 | Operating the gassing manifold | null | dx.doi.org/10.17504/protocols.io.vcue2ww | null | Roey Angel | TITLE: Operating the gassing manifold
AUTHORS: Roey Angel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Standard operating procedure for using the gassing manifold</span></div><div class = "text-block"><span>The gassing manifold is used for replacing the headspace... | ["Attach new needles to the syringe filters. If working with sensitive samples, the syringe filters should also be changed to avoid contamination.\nThe selected needles must be thick enough to penetrate the stoppers, but thin enough as to not break the stoppers.", "Attach the vials by piercing the stoppers with the att... |
98,108 | Blood sampling, cell isolation, single-cell GEM-generation, globin mRNA blockers and sequencing library preparation protocol | 0 | dx.doi.org/10.17504/protocols.io.kxygxyeydl8j/v1 | https://www.protocols.io/view/blood-sampling-cell-isolation-single-cell-gem-gene-db242qgw | Dorien De Pooter, Ben De Clerck, Koen Dockx, Domenica De Santis, Sarah Sauviller, Pascale Dehertogh, Matthias Beyens, Isabelle Bergiers, Isabel Nájera, Ellen Van Gulck, Nádia Conceição-Neto, Wim Pierson | TITLE: Blood sampling, cell isolation, single-cell GEM-generation, globin mRNA blockers and sequencing library preparation protocol
AUTHORS: Dorien De Pooter, Ben De Clerck, Koen Dockx, Domenica De Santis, Sarah Sauviller, Pascale Dehertogh, Matthias Beyens, Isabelle Bergiers, Isabel Nájera, Ellen Van Gulck, Nádia Conc... | ["[Blood sampling] Place the animal in the restrainer so that only one of the two the hind legs and tail are free. Stretch out the leg.", "[Blood sampling] Remove the fur from the lateral side of the hind leg using the electric clipper.", "[Blood sampling] Locate the lateral saphenous vein (If necessary: swab the skin ... |
21,067 | UC Davis - Metabolomics: Sample preparation for GCTOF analysis | null | dx.doi.org/10.17504/protocols.io.ytjfwkn | null | Oliver Fiehn | TITLE: UC Davis - Metabolomics: Sample preparation for GCTOF analysis
AUTHORS: Oliver Fiehn
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This SOP describes sample extraction and sample preparation for primary metabo... | ["Preparation of extraction mix before experiment: (1). Check pH of acetonitrile and isopropanol (pH7) using wetted pH paper (2). Acetonitrile, isopropanol and water are mixed in volumes in proportion 3 : 3 : 2 (3). Rinse the extraction solution mix for 5 min with nitrogen with small bubbles. Make sure that the nitr... |
43,274 | FCMPASS - Acquisition and gating of light scatter reference materials | 5 | dx.doi.org/10.17504/protocols.io.bnhimb4e | https://www.protocols.io/view/fcmpass-acquisition-and-gating-of-light-scatter-re-bnhimb4e | Joshua Welsh, Jennifer Jones | TITLE: FCMPASS - Acquisition and gating of light scatter reference materials
AUTHORS: Joshua Welsh, Jennifer Jones
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol outlines the steps required to collect data from light scatter reference materials for use with the FCMPASS software. This ... | ["Calculate the stock traceable size calibration reference bead particle concentration using percent solids value and particle density provided by the manufacturer and the following formula, whereis the concentration (particles mL-1),, is the percent solids,is the particle density (g mL-1), andis the average diameter (... |
19,554 | Wolbachia limits pathogen infections through induction of host innate immune responses | null | dx.doi.org/10.17504/protocols.io.xcafise | null | lin chen | TITLE: Wolbachia limits pathogen infections through induction of host innate immune responses
AUTHORS: lin chen
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Mosquitoes]
The Cx. pipiens pallens larvae were collected from NJ (Nanjing, Jiangsu Province，32°3'30.11"N, 118°47'47.28"E), and TK (Tangkou, Shand... | ["[Mosquitoes]\nThe Cx. pipiens pallens larvae were collected from NJ (Nanjing, Jiangsu Province，32°3'30.11\"N, 118°47'47.28\"E), and TK (Tangkou, Shandong Province, 34°52'34.97\"N, 117°22'53.69\"E) in 2017 from July to August. All collection was done on public land. After morphology identification, the larvae were the... |
36,004 | Protein Synthesis Reaction using PURExpress (E6800) | null | null | https://www.protocols.io/view/protein-synthesis-reaction-using-purexpress-e6800-bfecjjaw | New England Biolabs | TITLE: Protein Synthesis Reaction using PURExpress (E6800)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>PURExpress® is a reconstituted protein synthesis system based on the PUREsystem™ (Shimizu et al., 2001) where all necessary components needed for in vitro tr... | ["Thaw the necessary number of aliquots of solution A and B . Pulse-spin in microfuge to collect solutions to bottom of tube.\non ice\nCertain components in Solution A may precipitate during storage. Be sure to mix it well prior to assembling reactions. The performance of the kit will not be compromised.", "Assemble th... |
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