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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35,377 | Q5® Site-Directed Mutagenesis (E0554) | null | dx.doi.org/10.17504/protocols.io.besrjed6 | null | New England Biolabs | TITLE: Q5® Site-Directed Mutagenesis (E0554)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is the protocol for the Q5® Site-Directed Mutagenesis Kit (E0554)</div></div>
[STEPS]
?. [Exponential Amplification (PCR)]
Assemble the following reagents in a thin-walled... | ["[Exponential Amplification (PCR)]\nAssemble the following reagents in a thin-walled PCR tube. ABC1 25 μl RXNFINAL CONC.2Q5 Hot Start High-Fidelity 2X Master Mix12.5 μl1X310 μM Forward Primer1.25 μl0.5 μM410 μM Reverse Primer1.25 μl0.5 μM5Template DNA (1–25 ng/μl)1 μl1-25 ng6Nuclease-free water9.0 μl\nABC1 25 μl RXNF... |
95,147 | 700 - Infection Medium | 4 | null | https://www.protocols.io/view/700-infection-medium-c86jzzcn | Sam Leiboff | TITLE: 700 - Infection Medium
AUTHORS: Sam Leiboff
[DESCRIPTION]
This is part of the Leiboff Lab maize transformation protocol for somatic embryogenesis of B104 immature embryos. This protocol is a combination of Chen et al. 2022 and Kang et al. 2022 with some modifications based on material availability. This protoco... | ["[Planning] Estimate the volume of 700 you will need based on the following:\n\n \n\nMake sure to round up! Check the table below to plan your media\nDo not forget to add L-Methionine or Acetosyringone prior to transformation", "[Mixing Heat-Stable Ingredients] Retrieve the following heat-stable ingredients:\nMurashi... |
104,133 | Protocol SAM-Seq Zea Mays | 4 | dx.doi.org/10.17504/protocols.io.kqdg3x25zg25/v3 | https://www.protocols.io/view/protocol-sam-seq-zea-mays-dhxd37i6 | basile.leduque leduque, s Quadrana Leandro | TITLE: Protocol SAM-Seq Zea Mays
AUTHORS: basile.leduque leduque, s Quadrana Leandro
[DESCRIPTION]
Background: Epigenetic modifications, including chromatin accessibility, nucleosome positioning, and DNA methylation (5mC), are pivotal in shaping genome function. However, current short read sequencing approaches pre... | ["[Plant nuclei purification and permeabilization] Add the powder to 12.5 ml of Extraction Buffer (EB) 1 in a 50 ml falcon tube. Homogenise and let sit on ice for 5 min.", "[Plant nuclei purification and permeabilization] Add 1% Formaldehyde for crosslinking (i.e. 338 µl Formaldehyde 37% in 12.5 ml of EB1). Incubate ... |
82,740 | Single-cell Whole Genome Amplification (scWGA) of human frozen post-mortem brain samples isolated by Laser Capture Microdissection (LCM) | 4 | dx.doi.org/10.17504/protocols.io.5qpvorjw7v4o/v1 | https://www.protocols.io/view/single-cell-whole-genome-amplification-scwga-of-hu-cu2uwyew | Ester Kalef-Ezra, Amy Bowes, Christos Proukakis | TITLE: Single-cell Whole Genome Amplification (scWGA) of human frozen post-mortem brain samples isolated by Laser Capture Microdissection (LCM)
AUTHORS: Ester Kalef-Ezra, Amy Bowes, Christos Proukakis
[DESCRIPTION]
This protocol uses Laser Capture Microdissection (LCM) technology on human post-mortem brain tissue slid... | ["[Section 1: Tissue cryo-sectioning] UV pre-treat PEN slides and pre-label them with a pencil prior use.", "[Section 1: Tissue cryo-sectioning] Clean and UV the cryostat prior use and set the temperature approx. @-20 °C.", "[Section 1: Tissue cryo-sectioning] Place a new blade on cryostat.", "[Section 1: Tissue cryo-s... |
93,685 | DNA damage assessment in the adult Drosophila brain via pH2Av (S137) immunostaining | 1 | dx.doi.org/10.17504/protocols.io.dm6gp36q5vzp/v1 | https://www.protocols.io/view/dna-damage-assessment-in-the-adult-drosophila-brai-c7qvzmw6 | Mel Feany | TITLE: DNA damage assessment in the adult Drosophila brain via pH2Av (S137) immunostaining
AUTHORS: Mel Feany
[DESCRIPTION]
This protocol describes how to stain adult Drosophila brains with pH2Av to assess DNA damage.
[STEPS]
SECTION: Fly fixation and paraffin embedding
1. Fix flies of the desired genotype in 4% fo... | ["[Fly fixation and paraffin embedding] Fix flies of the desired genotype in 4% formalin, embedded heads in paraffin, cut \n4-micron sections, and dry at 42˚C", "[Deparaffinization] Deparaffinize and bring through ethanol to water (xylene x 2, 100% ethanol x 2, 95% ethanol x 2, H2O x 2)", "[Antigen-retrieval] Microwa... |
48,854 | How to get coding sequences of proteins of interest from plants that have no genome data available | 4 | dx.doi.org/10.17504/protocols.io.btxwnppe | https://www.protocols.io/view/how-to-get-coding-sequences-of-proteins-of-interes-btxwnppe | Kaia Kukk | TITLE: How to get coding sequences of proteins of interest from plants that have no genome data available
AUTHORS: Kaia Kukk
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The protocol describes obtaining coding DNA sequences of plant proteins when genomic data is not available, but there are sequ... | ["[Collecting and storing plant material]\nCollect plant material, keep it fresh and freeze as soon as possible in liquid nitrogen. Store at or lower.\n-70 °C", "[RNA extraction and cDNA synthesis]\nExtract RNA. For simple tissues such as green leaves use Protocol 1 described in:Anthocyanin and/or polysaccharide rich ... |
null | null | null | dx.doi.org/10.17504/protocols.io.k4mcyu6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Potato tubers (250 g) were washed with distilled water and smashed in 500 mL of a mixture containing 50% alcohol and 1.6% citric acid. The resulting mixture was filtrated twice and centrifuged at 4000 rpm. The supernatant was transferred into a column filled with the pretreat... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jwncpde | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A total protein extraction used by the Campbell Lab for phytoplankton cell pellets and GFF or polycarbonate filters. </p>
[STEPS] | [] |
66,618 | Go keto gummies Weight Loss: Reviews & Is It Scam! Cost & How To Consume! | 3 | dx.doi.org/10.17504/protocols.io.36wgq7zqkvk5/v1 | https://www.protocols.io/view/go-keto-gummies-weight-loss-reviews-amp-is-it-scam-cda2s2ge | macallister.tevon , macallister.tevon | TITLE: Go keto gummies Weight Loss: Reviews & Is It Scam! Cost & How To Consume!
AUTHORS: macallister.tevon , macallister.tevon
[DESCRIPTION]
Product Name - Go Keto Gummies
Composition –Natural Organic compound
Side-Effects–NA
Availability– Online
Rating –★★★★★
Official Website– Go Keto Gummies
This post ... | [] |
68,157 | Anthoceros punctatus (hornwort) transformation | 1 | dx.doi.org/10.17504/protocols.io.81wgb6jz3lpk/v1 | https://www.protocols.io/view/anthoceros-punctatus-hornwort-transformation-ces5teg6 | Eftychis Frangedakis, Manuel Waller | TITLE: Anthoceros punctatus (hornwort) transformation
AUTHORS: Eftychis Frangedakis, Manuel Waller
[DESCRIPTION]
Anthoceros punctatus (hornwort) transformation
[STEPS]
4. Tissue preparation:
Collect approximately 1 g of thallus tissue grown for 4-6 weeks under low light intensity (approximately 0.1 g of tissu... | ["Tissue preparation: \n\nCollect approximately 1 g of thallus tissue grown for 4-6 weeks under low light intensity (approximately 0.1 g of tissue per petri dish - 10 petri dishes in total). Figure1 and Figure 3.1\n\nTransfer the tissue into an empty petri dish, add sterile water until the tissue is covered and fragme... |
77,153 | Basic Analysis Protocol | 5 | dx.doi.org/10.17504/protocols.io.n2bvjx24xlk5/v2 | https://www.protocols.io/view/basic-analysis-protocol-cpj9vkr6 | Clark Fritsch | TITLE: Basic Analysis Protocol
AUTHORS: Clark Fritsch
[DESCRIPTION]
This protocol is meant to describe the basic procedure needed to go from .nd2 files that are recorded using NIS-ELEMENTS during a standard single-molecule FRET experiment to usable FRET time traces that can be used for further downstream analysis.
[S... | ["In NIS-Elements, we record our single-molecule FRET movies with a .nd2 file format. However, to analyze our data we must first convert our movies from .nd2 files to .tiff files.", "We can convert .nd2 files to .tiff files in several ways, depending on whether you used alternating laser excitation (ALEX) during your m... |
68,825 | Semi-automated protocol to quantify and characterize fluorescent three-dimensional vascular images | 1 | dx.doi.org/10.17504/protocols.io.j8nlkk7m1l5r/v1 | https://www.protocols.click/view/semi-automated-protocol-to-quantify-and-characteri-cffztjp6 | Danny F Xie, Christian Crouzet, Krystal LoPresti, Yuke Wang, Christopher Robinson, William Jones, Fjolla Muqolli, Chuo Fang, David H. Cribbs, Mark Fisher, Bernard Choi | TITLE: Semi-automated protocol to quantify and characterize fluorescent three-dimensional vascular images
AUTHORS: Danny F Xie, Christian Crouzet, Krystal LoPresti, Yuke Wang, Christopher Robinson, William Jones, Fjolla Muqolli, Chuo Fang, David H. Cribbs, Mark Fisher, Bernard Choi
[DESCRIPTION]
The microvasculature f... | ["[Cardiac perfusion and retrooribtal injection] Cardiac perfusion", "[Cardiac perfusion and retrooribtal injection] Begin by anesthetizing a mouse using an isoflurane chamber with 1.5 L/min of oxygen and 4.0% isoflurane.", "[Cardiac perfusion and retrooribtal injection] Once the mouse is anesthetized, remove it from t... |
84,310 | LB + Mg + Glucose for better Gram-N growth (agar + antibiotics possible) 1L | 4 | dx.doi.org/10.17504/protocols.io.6qpvr3o9bvmk/v1 | https://www.protocols.click/view/lb-mg-glucose-for-better-gram-n-growth-agar-antibi-cwjwxcpe | Dylan brettingham | TITLE: LB + Mg + Glucose for better Gram-N growth (agar + antibiotics possible) 1L
AUTHORS: Dylan brettingham
[DESCRIPTION]
LB media with additives to improve thegrowth of gram-negative microbes. LB is Mg defficeint and some of the proteins invovled in LPS synthesis require Mg as a co-factor, so by increasing the conc... | ["[LB-2X media] Weigh out ingredients and add to clean bottle\n- 10g Tryptone\n- 5g Yeast Extract\n- 5g NaCl (this is for Lennox formulation, 10g can be used for Miller Formulation)\n- 2.46g MgSO4 * 7H20 (10mM)\n- 10g D-glucose (1%)\n+ 15g Agar if making plates (1.5%)", "[LB-2X media] - Add stir bar to bottle and 1000m... |
72,195 | Expression, purification and characterization of the GpC methyltransferase M.CviPI | 4 | dx.doi.org/10.17504/protocols.io.eq2ly776plx9/v1 | https://www.protocols.io/view/expression-purification-and-characterization-of-th-cirbud2n | Karine Lapouge, Rozemarijn Kleinendorst, Kasit Chatsirisupachai, Nikolay Dobrev, Kim Remans, Arnaud Krebs | TITLE: Expression, purification and characterization of the GpC methyltransferase M.CviPI
AUTHORS: Karine Lapouge, Rozemarijn Kleinendorst, Kasit Chatsirisupachai, Nikolay Dobrev, Kim Remans, Arnaud Krebs
[DESCRIPTION]
Methylation footprinting can be used to map protein-DNA contacts at the resolution of individual D... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dyu7wv | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Sodium acetate solution is used in DNA extraction. This recipe makes 50 mL of a 3 M stock solution at ph 5.2 -- dilute tenfold in water to a working concentration of 0.3 M for use in the DNA extraction protocol.
[STEPS]
?.
?.
?.
?. | [] |
78,255 | Intervention in stigma of autism spectrum disorders as a workshop using the experience of simulated autistic perception and social contact | 1 | dx.doi.org/10.17504/protocols.io.q26g7y9e9gwz/v1 | https://www.protocols.io/view/intervention-in-stigma-of-autism-spectrum-disorder-cqnpvvdn | Masaki Tsujita, Miho Homma, Shin-ichiro Kumagaya, Yukie Nagai | TITLE: Intervention in stigma of autism spectrum disorders as a workshop using the experience of simulated autistic perception and social contact
AUTHORS: Masaki Tsujita, Miho Homma, Shin-ichiro Kumagaya, Yukie Nagai
[DESCRIPTION]
This protocol was made for an intervention in the stigma of ASD through an experienc... | ["[Recruitment for participation] Workshop participants are recruited through web pages in a developmental disability portal site that a developmental disability support company manage or emails from a company’s mailing list, about 30 days before the workshop.\nDuring recruitment, two adjacent days are announced as the... |
54,235 | Titan-gc SARS-CoV-2 Strain Characterization Workflow for Bioconda | 1 | null | https://www.protocols.io/view/titan-gc-sars-cov-2-strain-characterization-workfl-by73pzqn | Michelle Su, Robert A Petit III, Technical Outreach and Assistance for States Team | TITLE: Titan-gc SARS-CoV-2 Strain Characterization Workflow for Bioconda
AUTHORS: Michelle Su, Robert A Petit III, Technical Outreach and Assistance for States Team
[DESCRIPTION]
This protocol covers the process of using Titan on the command-line, which was developed by Robert Petit at Wyoming Public Heath Laborato... | ["[Set up conda environment] The Titan workflow and its dependencies can be installed using the Conda package manager and the Bioconda channel for bioinformatics software. To install Conda, follow the instructions in Step 1.1. To update an existing Conda installation, go to Step 1.2. To add the Bioconda channel, go to ... |
101,697 | BAF_S02_Jasco 1500 Circular Dichroism Spectrometer | 0 | dx.doi.org/10.17504/protocols.io.j8nlk896dl5r/v1 | https://www.protocols.io/view/baf-s02-jasco-1500-circular-dichroism-spectrometer-dfi93kh6 | Nicholas Sherman | TITLE: BAF_S02_Jasco 1500 Circular Dichroism Spectrometer
AUTHORS: Nicholas Sherman
[DESCRIPTION]
This is a general step-by-step to run a sample in the Jasco 1500 CD spectrometer.
[BEFORE_START]
Cell holders:
There are two cell holders: Standard & Temperature Controlled
- Standard: no temperature control, holds mic... | ["[Running a Sample] Turn on the nitrogen supply. this will turn on the lamp", "[Running a Sample] Open both nitrogen cylinders, and open the low-pressure flow valve on the wall mounted manifold. don't change pressure regulators. Both pressure gauges should show a reading and noise during gas flow is normal", "[Running... |
null | null | null | dx.doi.org/10.17504/protocols.io.c7gzjv | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Formulation for a phosphate-buffered 20% glutaraldehyde stock solution.
[GUIDELINES]
<table>
<tbody>
<tr>
<td>Solution A</td>
<td>Solution B</td>
</tr>
<tr>
<td>Na<sub>2</sub>HPO<sub>4</sub> 1.414g in 50ml 0.02µm filtered mQ</td>
<td>NaH<sub>2</sub>PO<sub>4</sub> 1.058g in 50ml... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ecmbau6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<strong>Viral Bioinformatic Resource Centre</strong>
<ul>
<li><strong>Provide databases of viral genomic information.</strong>
<ul>
<li>Please check the <strong><em>Organisms</em></strong> menu to see which viruses we support: we’re now focusing on large DNA viruses</li>
<li>The... | [] |
95,912 | gRNA POOL NGS SEQUENCING LIBRARY PREPARATION | 0 | null | https://www.protocols.io/view/grna-pool-ngs-sequencing-library-preparation-c9wgz7bw | Renuka Ravi Gupta, Helaine Graziele Santos Vieira, Helen E. King, Nona Farbehi, hendersa, Vikram Khurana, Gist Croft, Robert J Weatheritt, Lorenz Studer, Joseph Powell | TITLE: gRNA POOL NGS SEQUENCING LIBRARY PREPARATION
AUTHORS: Renuka Ravi Gupta, Helaine Graziele Santos Vieira, Helen E. King, Nona Farbehi, hendersa, Vikram Khurana, Gist Croft, Robert J Weatheritt, Lorenz Studer, Joseph Powell
[DESCRIPTION]
Quantification of the frequency of each sgRNA in the library pool is necessa... | ["[DNA Extraction] Collect cells after FACS sort in E8 flex media.", "[DNA Extraction] Centrifuge the cells at 300 g for 4 mins.", "[DNA Extraction] Aspirate the supernatant and freeze down the cell pellet or continue with DNA extraction using the QIAamp DNA Blood Mini Kit.", "[DNA Extraction] Measure the concentration... |
41,573 | OnsiteGene 1 Protocol Nasal Direct | 4 | dx.doi.org/10.17504/protocols.io.bkudkws6 | https://www.protocols.io/view/onsitegene-1-protocol-nasal-direct-bkudkws6 | yliu | TITLE: OnsiteGene 1 Protocol Nasal Direct
AUTHORS: yliu
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This OnsiteGene protocol is designed for testing the nasal swab samples without nucleic acid extraction. It uses the Star Array® Hi-Sense</span><span style = "vertical-align:super;">TM</spa... | ["[Sample Collection Procedure]\nAnterior nasal swab should be collected with the assistance of a healthcare worker or technician.", "[Sample Collection Procedure]\nBefore collection, clean hands using alcohol-based sanitizer or soap and water (no fragrances) and wear appropriate PPE (at minimum, gloves and a mask).", ... |
105,990 | Characterisation of parasympathetic ascending nerves in human colon | 0 | dx.doi.org/10.17504/protocols.io.36wgqnpr3gk5/v1 | https://www.protocols.io/view/characterisation-of-parasympathetic-ascending-nerv-djre4m3e | Adam G Humenick, Michaela E Johnson, Simon JH Brookes | TITLE: Characterisation of parasympathetic ascending nerves in human colon
AUTHORS: Adam G Humenick, Michaela E Johnson, Simon JH Brookes
[DESCRIPTION]
This protocol explains how ascending nerves (also called “shunt fascicles”) in the plane of the myenteric plexus of human distal colon can be identified using fluoresc... | ["[Collecting tissue] All handling of un-fixed human tissue must be exclusively done by staff trained in occupational health and safety requirements for handling hazardous material, wearing appropriate PPE (personal protective equipment) (gloves, gowns and masks) and working in areas designated for human tissue, with a... |
null | null | null | dx.doi.org/10.17504/protocols.io.kjycupw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.idsca6e | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
53,031 | SRA and Genbank BioSample-Linked Submission with Mercury_Prep and Mercury_Batch | 1 | null | https://www.protocols.io/view/sra-and-genbank-biosample-linked-submission-with-m-bx2fpqbn | Francis Ambrosio | TITLE: SRA and Genbank BioSample-Linked Submission with Mercury_Prep and Mercury_Batch
AUTHORS: Francis Ambrosio
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Submitting sequencing data to public data repositories is a meaningful yet tedious procedure. Linking submissions between SRA and Genbank w... | ["[Data Preparation]\nThe Titan Genomic Characterization workflow must be run prior to submitting sequences to SRA and Genbank in order to prepare the data for submission. Please use the Titan workflow that is compatible with your sequencing data.", "[Metadata Formatting]\nThe Terra Metadata Formatter is an excel sprea... |
27,696 | Psychometric Properties of the Korean Version of the Health Literacy on Social Determinants of Health Questionnaire (K-HL-SDHQ) | null | dx.doi.org/10.17504/protocols.io.7aqhidw | null | Mikyeong Cho, Hyeonkyeong Lee, Young-Me Lee, Ja-yin Lee, Haeyoung Min, Youlim Kim, Sookyung Kim | TITLE: Psychometric Properties of the Korean Version of the Health Literacy on Social Determinants of Health Questionnaire (K-HL-SDHQ)
AUTHORS: Mikyeong Cho, Hyeonkyeong Lee, Young-Me Lee, Ja-yin Lee, Haeyoung Min, Youlim Kim, Sookyung Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The as... | [] |
70,604 | Expansion-assisted iterative fluorescence in situ hybridization (EASI-FISH) in Drosophila CNS | 1 | dx.doi.org/10.17504/protocols.io.5jyl8jmw7g2w/v1 | https://www.protocols.io/view/expansion-assisted-iterative-fluorescence-in-situ-cg7ktzkw | Mark Eddison, Gudrun Ihrke | TITLE: Expansion-assisted iterative fluorescence in situ hybridization (EASI-FISH) in Drosophila CNS
AUTHORS: Mark Eddison, Gudrun Ihrke
[DESCRIPTION]
A straightforward, robust, and reliable protocol (EASI-FISH) that utilizes expansion microscopy and the hybridization chain reaction for multiplexed in situ hybridizati... | ["[Fly brain dissection] Dissect fly CNS in S2 medium.\n(for more details see attached protocol)", "[Fly brain dissection] Fix up to 20 brains or 10 CNS in 2 mL of 2% PFA/S2 medium for 55 min in the dark on a nutator.", "[Fly brain dissection] Rinse sample 1 x 2 mL PBST (0.5% Triton).", "[Fly brain dissection] Wash sam... |
50,300 | Eligibility (Part 4 of Safety and Efficacy of Imatinib for Preserving Beta-Cell Function in New-onset Type 1 Diabetes Mellitus) | 1 | dx.doi.org/10.17504/protocols.io.bvc4n2yw | https://www.protocols.io/view/eligibility-part-4-of-safety-and-efficacy-of-imati-bvc4n2yw | Stephen.Gitelman , Jeffrey A. Bluestone | TITLE: Eligibility (Part 4 of Safety and Efficacy of Imatinib for Preserving Beta-Cell Function in New-onset Type 1 Diabetes Mellitus)
AUTHORS: Stephen.Gitelman , Jeffrey A. Bluestone
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is Part 4 of "Safety and Efficacy of Imatinib for Preserving Be... | ["[INCLUSION CRITERIA]\nPatents must meet all of the following criteria:Males and females age 12–45 years of age who meet the ADA standard T1DM criteria.", "[INCLUSION CRITERIA]\nPositive for at least one islet cell autoantibody (glutamate decarboxylase; insulin, if obtained within 10 days of the onset of insulin thera... |
59,408 | JAX - 10x Genomics - NEXTGEM v3.1 - 3' Gene Expression | 1 | dx.doi.org/10.17504/protocols.io.b59qq95w | https://www.protocols.io/view/jax-10x-genomics-nextgem-v3-1-3-39-gene-expression-b59qq95w | William F F F. Flynn | TITLE: JAX - 10x Genomics - NEXTGEM v3.1 - 3' Gene Expression
AUTHORS: William F F F. Flynn
[DESCRIPTION]
Standard 10x Genomics - NEXTGEM v3.1 - 3' protocol used by the JAX Single Cell Biology lab for single cell transcriptomics.
[STEPS]
1. Follow the 10x Genomics NEXTGEM v3.1 single cell 3' gene expression proto... | ["Follow the 10x Genomics NEXTGEM v3.1 single cell 3' gene expression protocol."] |
70,644 | protocols.io for startups | 1 | dx.doi.org/10.17504/protocols.io.kqdg395w7g25/v1 | https://www.protocols.io/view/protocols-io-for-startups-cg8utzww | protocols.io team, protocols.io team | TITLE: protocols.io for startups
AUTHORS: protocols.io team, protocols.io team
[DESCRIPTION]
We understand the financial constraints of young biotechs and other research-intensive startups. At the same time, it is important to establish early on the best practices around organizing and collaborating on development of ... | ["[Benefits] Unlimited private workspaces and protocols\nDedicated customer support\nCustomized training (2 training workshops per year and unlimited 1-on-1 demos)\nImport of existing protocols\nHIPAA support\nAudit trail and electronic signature for 21 CFR Part 11", "[Price] The annual Enterprise cost for startups is ... |
34,597 | Autoclaving Erlenmeyer Flasks for Sterile Algal Cultures | null | dx.doi.org/10.17504/protocols.io.bd2di8a6 | null | Jakub Nedbal | TITLE: Autoclaving Erlenmeyer Flasks for Sterile Algal Cultures
AUTHORS: Jakub Nedbal
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes autoclaving the Erlenmeyer flasks for sterile microalgae culture. It describes the cleaning and preparation of flasks for autoclaving. In the ... | ["[Cleaning Culture Flasks]\nWash the dish washing area with 70 % denatured ethanol.", "[Cleaning Culture Flasks]\nWash away all permanent marker labels and writing from the Erlenmeyer flasks using 70 % denatured ethanol.", "[Cleaning Culture Flasks]\nWash used flasks with dish-washing liquid using vial cleaning brush.... |
65,660 | Protoplast isolation and transfection in a 96-well plate | 3 | dx.doi.org/10.17504/protocols.io.yxmvmn1d6g3p/v1 | https://www.protocols.io/view/protoplast-isolation-and-transfection-in-a-96-well-ccc4ssyw | Adil Khan, James P B Lloyd, Brendan Kidd, Ryan Lister | TITLE: Protoplast isolation and transfection in a 96-well plate
AUTHORS: Adil Khan, James P B Lloyd, Brendan Kidd, Ryan Lister
[DESCRIPTION]
This protocol describes a robust, high-throughput method for isolation and transfection of Arabidopsis leaf protoplasts.
[STEPS] | [] |
38,731 | Thawing an organoid cryovial | 1 | dx.doi.org/10.17504/protocols.io.bh3jj8kn | https://www.protocols.io/view/thawing-an-organoid-cryovial-bh3jj8kn | Emily Souster, Hazel Rogers, Laura Letchford, Sara Vieira, Maria Garcia-Casado, Mya Fekry-Troll, Charlotte Beaver, Rachel Nelson, Hayley Francies, Mathew Garnett | TITLE: Thawing an organoid cryovial
AUTHORS: Emily Souster, 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 SOP defines the procedure for thawing a ... | ["[Process Diagram]", "[Protocol]\nRemove cryovial from liquid nitrogen storage and place on dry-ice for transfer to cell culture lab.", "[Protocol]\nThaw the cryovial in a waterbath until only a small ice crystal remains.\n37 °C", "[Protocol]\nAdd 500µl of the warmed organoid media, dropwise, to the vial and then tr... |
null | null | null | dx.doi.org/10.17504/protocols.io.e8qbhvw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>MegaLong™ isolates high molecular weight (>100kb) genomic DNA from a variety of samples, including animal tissues, cultured cells, whole blood, bacterial and yeast.</p>
<p> </p>
<p>The protocol described here is for yeast samples. Please <a href="https://www.protocols.io/v... | [] |
46,090 | Membrane Depolarization Assay Using DiBAC4 | 4 | null | https://www.protocols.io/view/membrane-depolarization-assay-using-dibac4-bq9imz4e | Elizabeth Fozo | TITLE: Membrane Depolarization Assay Using DiBAC4
AUTHORS: Elizabeth Fozo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">MD assay protocol (signup for the flow machine for the date and time you want to run)</div><div class = "text-block"><span style = "font-weight:bold;">Membrane Depolarization Ass... | ["[Staining]\nWash the cells in ~ 4 mL of Phosphate Buffer Saline (PBS), 3000 RPM -10 minutes", "[Staining]\nResuspend in 0.5 mL of PBS, add 5 ul of DiBAC4(3) working solution", "[Staining]\nMix (vortex gently) and incubate in dark at room temperature for 20 minutes", "[Staining]\nWash the cells twice with PBS, and in ... |
49,142 | Plant RNA extractions using TRI reagent | 4 | dx.doi.org/10.17504/protocols.io.bt8wnrxe | https://www.protocols.io/view/plant-rna-extractions-using-tri-reagent-bt8wnrxe | Peter Crisp, Diep Ganguly, Aaron Smith | TITLE: Plant RNA extractions using TRI reagent
AUTHORS: Peter Crisp, Diep Ganguly, Aaron Smith
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Extraction of total RNA from plant tissue using TRI reagent.</div></div>
[STEPS]
?. Collect 50-100 mg of plant tissue and freeze immediately in liquid N2.
?... | ["Collect 50-100 mg of plant tissue and freeze immediately in liquid N2.", "Invert each tube by hand ~20x and incubate at room temperature for 5 minutes (DO NOT vortex samples as it may result in RNA degradation).", "Centrifuge at 14,000 rcf for 10 minutes at 4°C.", "Repeat steps 4 and 5 (approx. 400 µL).Note, if you a... |
48,914 | SARS Direct Saliva Protocol Takarabio | 3 | dx.doi.org/10.17504/protocols.io.btzsnp6e | https://www.protocols.io/view/sars-direct-saliva-protocol-takarabio-btzsnp6e | Timothy Hamerly, Caroline J Stephenson, Borja Lopez-Gutierrez, Rhoel Dinglasan | TITLE: SARS Direct Saliva Protocol Takarabio
AUTHORS: Timothy Hamerly, Caroline J Stephenson, Borja Lopez-Gutierrez, Rhoel Dinglasan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Diagnostic testing for SARS-CoV-2 by RT-qPCR has steadily increased since the COVID-19 pandemic began, resulting in th... | [] |
99,370 | 0.1xBWT+SDS buffer | 3 | dx.doi.org/10.17504/protocols.io.5qpvo311zv4o/v2 | https://www.protocols.io/view/0-1xbwt-sds-buffer-ddai22ce | Anna Schmidt, Sarah Nagel, Matthias Meyer, Elena Essel | TITLE: 0.1xBWT+SDS buffer
AUTHORS: Anna Schmidt, Sarah Nagel, Matthias Meyer, Elena Essel
[DESCRIPTION]
Protocol for the preparation of 0.1x BWT+SDS buffer (Bind and wash buffer I) for automated single-stranded DNA library preparation using the ssDNA2.0 method (Gansauge et al. 2020).
References
Gansauge, M.-T., Aximu... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.q5zdy76 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A non-ionising approach based on 3D opto-electronic stereophotogrammetric measurements of body landmarks labelled by passive retro-reflective markers has been chosen to build a 3D parametric biomechanical skeleton model. The developed model can work at different stages of com... | [] |
20,291 | U Mass - Lipase | null | dx.doi.org/10.17504/protocols.io.x3bfqin | null | Jason Kim | TITLE: U Mass - Lipase
AUTHORS: Jason Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span><span style = "font-weight:bold;"> </span></div><div class = "text-block">
This experiment involves a spectrophotometric measurement using Roche Cobas Clinical C... | ["Perform daily quality control assessment of instrumentation before analysis.", "Load each sample into a specialized micro-sample cup for the clinical chemistry analyzer.", "Select Lipase test on display and run the analysis.", "Collect and analyze the data."] |
null | null | null | dx.doi.org/10.17504/protocols.io.ebcbaiw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is a protocol from: <br /><br />Stedman, K. M., K. Porter, and M. L. Dyall-Smith. 2010. Chapter 6: The isolation of viruses infecting Archaea. Manual of Aquatic Viral Ecology. Waco, TX:American Society of Limnology and Oceanography. doi:10.4319/mave.2010.978-0-9845591-0-7<b... | [] |
66,206 | Polychromatic UV Fluence (Dose) Response Determination | 1 | dx.doi.org/10.17504/protocols.io.n92ldzqoov5b/v2 | https://www.protocols.io/view/polychromatic-uv-fluence-dose-response-determinati-ccv6sw9e | Daniel Ma, NATALIE HULL | TITLE: Polychromatic UV Fluence (Dose) Response Determination
AUTHORS: Daniel Ma, NATALIE HULL
[DESCRIPTION]
The purpose of this protocol is to document the steps used for determination of UV doses for polychromatic UV sources such as UV LEDs, excimer lamps, medium pressure mercury lamps. The method is not limited to ... | ["[UV Dose Spreadsheet] UV Dose Spreadsheet: \n\nHere is an example spreadsheet filled out with radiometer factors, absorbance scan of sample, UV emission spectra of a low pressure mercury lamp, and sample geometry: \n\nThis protocol will guide users through important parts of the UV Dose Spreadsheet.", "[Performin... |
null | null | null | dx.doi.org/10.17504/protocols.io.e7ebhje | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The HLA class I ELISA is an enzyme immunoassay based on the detection of β2-microglobulin subunit of HLA class I complexes, after capturing the complex through the conjugated biotin. To this end, biotinylated HLA class I complex is first captured in streptavidin coated microt... | [] |
36,808 | Maintaining physical activity through the use of digital tools for people with a long-term condition/s (LTCs): A scoping review. | null | dx.doi.org/10.17504/protocols.io.bf7gjrjw | https://www.protocols.io/view/maintaining-physical-activity-through-the-use-of-d-bf7gjrjw | Paul Clarkson, Jo Adams, Paul Muckelt, Chloe Grimmett, Hazel Everitt, Carol Clark, Zoe Saynor, Katherine Cook, Aoife Stephenson, Suzanne McDonough | TITLE: Maintaining physical activity through the use of digital tools for people with a long-term condition/s (LTCs): A scoping review.
AUTHORS: Paul Clarkson, Jo Adams, Paul Muckelt, Chloe Grimmett, Hazel Everitt, Carol Clark, Zoe Saynor, Katherine Cook, Aoife Stephenson, Suzanne McDonough
[DESCRIPTION]
<div class = ... | ["Protocol and registrationThe protocol for this scoping review is publicly available from protocols.io.", "Eligibility criteriaAll studies types will be included, from 2009 - 2019Long-term conditions include; cardiovascular disease, myocardial infarction, stroke/TIA, Asthma, COPD, chronic kidney disease, diabetes mell... |
60,811 | Bead clean-up (single tube) | 4 | dx.doi.org/10.17504/protocols.io.n92ldz5qxv5b/v1 | https://www.protocols.io/view/bead-clean-up-single-tube-b7mjrk4n | timothy.creed | TITLE: Bead clean-up (single tube)
AUTHORS: timothy.creed
[DESCRIPTION]
Protocol for purification of DNA using SPRI beads
[STEPS]
SECTION: Prepare reagents
1. Prepare the following reagents/materials:
or Homemade SPRI beads
Fresh 70% Ethanol
Nuclease-free water or elution buffer
DNA sample/PCR product
Clean 1.5 mL ... | ["[Prepare reagents] Prepare the following reagents/materials:\n or Homemade SPRI beads\nFresh 70% Ethanol\nNuclease-free water or elution buffer\nDNA sample/PCR product\nClean 1.5 mL tubes\nMagnetic tube rack", "[Add beads to sample] In a 1.5 mL tube, add resuspended beads to sample/PCR product in ratio specified in ... |
98,877 | CUT&RUN abbreviated protocol | 1 | dx.doi.org/10.17504/protocols.io.8epv5rzo4g1b/v1 | https://www.protocols.io/view/cut-amp-run-abbreviated-protocol-dcs52wg6 | Derek Janssens, Steven Henikoff, CG - | TITLE: CUT&RUN abbreviated protocol
AUTHORS: Derek Janssens, Steven Henikoff, CG -
[DESCRIPTION]
We previously described a novel alternative to Chromatin Immunoprecipitation, Cleavage Under Targets & Release Using Nuclease (CUT&RUN), in which unfixed permeabilized cells are incubated with antibody, followed by bin... | ["[Binding cells to beads (~30 min)] Harvest fresh culture(s) at room temperature and count cells. The same protocol can be used for up to 500,000 mammalian cells per sample and/or digestion time point.", "[Binding cells to beads (~30 min)] Centrifuge 3 min 600 x g at room temperature and withdraw liquid.\n3 min", "[Bi... |
39,781 | Manual DNA Extraction using Qiagen DNeasy Blood and Tissue Kit | 4 | dx.doi.org/10.17504/protocols.io.bi4dkgs6 | https://www.protocols.io/view/manual-dna-extraction-using-qiagen-dneasy-blood-an-bi4dkgs6 | Julie Haendiges, Ruth Timme, George Kastanis, Maria Balkey | TITLE: Manual DNA Extraction using Qiagen DNeasy Blood and Tissue Kit
AUTHORS: Julie Haendiges, Ruth Timme, George Kastanis, Maria Balkey
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This SOP outlines the procedure for manual extraction of genomic DNA from live bacterial cells using the Qiagen Qi... | ["[Collect Cells]\nResuspend cells in the bacterial culture by pulse vortexing 3-5 times on low setting or by pipetting.", "[Collect Cells]\nTransfer bacterial culture into a 2.0 ml sterile Eppendorf tube.\n1 mL", "[Collect Cells]\nPellet cells by centrifuging at for minutes.\nCentrifuge: 7500 33", "[Collect Cells]\... |
76,387 | General freezing protocol for HEK-Blue cells | 4 | null | https://www.protocols.io/view/general-freezing-protocol-for-hek-blue-cells-cnubvesn | Andreas Sagen | TITLE: General freezing protocol for HEK-Blue cells
AUTHORS: Andreas Sagen
[DESCRIPTION]
HEK-Blue is a product from Invivogen, which provide reporter cells for endotoxin-testing among others. Here is a generalized protocol for freezing cells with reporter characteristics. This protocol differ significantly from Invivo... | ["[Concentrated complete freeze medium (CCMF)] Pre-prepare freezing medium. While you could create freeze medium outright, and suspend the cells directly in it, it is recommended to minimize the exposure time of cells with DMSO. To do this, the cells are initially resuspended and counted in serum-free medium. This give... |
32,855 | The predictive role of serum copeptin levels in preeclampsia: a meta-analysis | null | dx.doi.org/10.17504/protocols.io.bcbxispn | null | Ioannis Bellos, Vasilios Pergialiotis, Angeliki Papapanagiotou, Dimitrios Loutradis, Georgios Daskalakis | TITLE: The predictive role of serum copeptin levels in preeclampsia: a meta-analysis
AUTHORS: Ioannis Bellos, Vasilios Pergialiotis, Angeliki Papapanagiotou, Dimitrios Loutradis, Georgios Daskalakis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Preeclampsia represents a major pregnancy complicatio... | ["Review title: The predictive role of serum copeptin levels in preeclampsia: a meta-analysis", "Review question: The present systematic review aims to compare copeptin concentration among normotensive and preeclamptic women and assess whether its serum level alteration precedes the onset of the disease. Population: Pr... |
63,436 | Cardio Defend | 3 | dx.doi.org/10.17504/protocols.io.yxmvmnqkng3p/v1 | https://www.protocols.io/view/cardio-defend-b97kr9kw | G A | TITLE: Cardio Defend
AUTHORS: G A
[DESCRIPTION]
key to making the ketogenic diet work is by simply “tricking” your body into achieving ketosis
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.qvzdw76 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Table 1. Antibiotic concentrations used for establishing axenic sea-ice diatom cultures.</p>
<table>
<tbody>
<tr>
<td width="94">
<p><strong>Antibiotic</strong></p>
</td>
<td width="154">
<p><strong>Final concentration (µg/ml)</strong></p>
</td>
</tr>
<tr>
<td width="94">
<p>... | [] |
77,704 | STC-1 cell culture | 4 | dx.doi.org/10.17504/protocols.io.5jyl8jky8g2w/v1 | https://www.protocols.io/view/stc-1-cell-culture-cp5gvq3w | Michael J Hurley | TITLE: STC-1 cell culture
AUTHORS: Michael J Hurley
[DESCRIPTION]
Cell culture of STC-1 mouse enteroendocrine cells.
[STEPS]
SECTION: STC-1 cell culture
1. Obtain Mouse (Mus musculus) neuroendocrine duodenal adenoma STC-1 cells (RRID:CVCL_J405) from the American Type Culture Collection (ATCC-CRL-3254™).
SECTION: STC-... | ["[STC-1 cell culture] Obtain Mouse (Mus musculus) neuroendocrine duodenal adenoma STC-1 cells (RRID:CVCL_J405) from the American Type Culture Collection (ATCC-CRL-3254™).", "[STC-1 cell culture] Grow STC-1 cells in DMEM:F12 Ham with GlutaMax™ media supplemented with 10 % charcoal absorbed foetal bovine serum (LabTech)... |
20,836 | UC Davis - Glutathione | null | dx.doi.org/10.17504/protocols.io.ykcfusw | null | Peter Havel | TITLE: UC Davis - Glutathione
AUTHORS: Peter Havel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">Cayman's GSH assay kit utilizes a carefully optimized enzymatic recycling method, using glutathione reductase for the qu... | ["Add 50 µl of Standard (tubes A-H ) per well in the designated wells on the plate (see Sample Plate Format, Figure 2, page 13).", "Add 50 µl of sample to each of the sample wells.", "Cover the plate with the plate cover provided.", "Prepare the Assay Cocktail by mixing the following reagents in a 20 ml vial: MES Buffe... |
25,585 | 05 Agarose Gel Electrophoresis | null | dx.doi.org/10.17504/protocols.io.48rgzv6 | null | TJUSLS China | TITLE: 05 Agarose Gel Electrophoresis
AUTHORS: TJUSLS China
[STEPS]
?. Use 1×TAE buffer to prepare 1% Agarose mix in a flask, then put it in the microwave and heat it as long as it takes to completely dissolve the Agarose.
?. Take out the conical flask, cool it in the wash basin to about 50°C. Add EB quickly , and th... | ["Use 1×TAE buffer to prepare 1% Agarose mix in a flask, then put it in the microwave and heat it as long as it takes to completely dissolve the Agarose.", "Take out the conical flask, cool it in the wash basin to about 50°C. Add EB quickly , and then mix well. Pour the Agarose gel into gel tray and insert comb into s... |
94,027 | Analysis of monomeric aromatic compounds in alkaline lignin-rich liquors via UHPLC-DAD | 1 | dx.doi.org/10.17504/protocols.io.14egn3q2ql5d/v1 | https://www.protocols.io/view/analysis-of-monomeric-aromatic-compounds-in-alkali-c73jzqkn | Sean P. Woodworth, Morgan A. Ingraham, Stefan J. Haugen, Kelsey J. Ramirez, Gregg T. Beckham, Davinia Salvachua | TITLE: Analysis of monomeric aromatic compounds in alkaline lignin-rich liquors via UHPLC-DAD
AUTHORS: Sean P. Woodworth, Morgan A. Ingraham, Stefan J. Haugen, Kelsey J. Ramirez, Gregg T. Beckham, Davinia Salvachua
[DESCRIPTION]
An analysis method was developed to quantify aromatic compounds present in lignin-rich, al... | ["[Preparation of standards] By weight, create individual 10 g/L stock standards of the following analytes using ethanol (EtOH) as a diluent:\nProtocatechuic acid\nCatechol\n4-Hydroxybenzoic acid\np-Coumaric acid\nFerulic acid\nVanillyl alcohol\nVanillic acid\n4-Hydroxybenzaldehyde\nVanillin", "[Preparation of standard... |
null | null | null | dx.doi.org/10.17504/protocols.io.jmnck5e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The assay is intended to amplify and sequence the HIV-1 gp120 V3 domain and infer if the virus can use the CXCR4 coreceptor for cell entry. The use of this coreceptor renders the virus not susceptible to the CCR5 coreceptor antagonist maraviroc. </p>
[STEPS]
?.
?.
?.
?.
... | [] |
66,341 | Bridport Health Liver Support:-SUPPLEMENT FOR LIVER HEALTH | 3 | dx.doi.org/10.17504/protocols.io.3byl4b4bjvo5/v1 | https://www.protocols.io/view/bridport-health-liver-support-supplement-for-liver-cc2dsya6 | bridporthealthliver | TITLE: Bridport Health Liver Support:-SUPPLEMENT FOR LIVER HEALTH
AUTHORS: bridporthealthliver
[DESCRIPTION]
The body is built to withstand a lot of chaos, but most people take it for granted. Whether drinking alcohol serves as a social lubricant or a symptom of depression, it can lead to addiction for some people. ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.rt8d6rw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Previously, <em>Picelli et al</em> (Picelli et al., 2014) reported a Tn5 transposase-based library construction procedure for Illumina sequencing. Here, we describe an optimised procedure for high throughput library preparation to facilitate large-scale sequencing that does n... | [] |
59,878 | Protocol: Resin-based adhesives, composites, and luting agents: A cross-sectional study of citations and altmetrics | 1 | dx.doi.org/10.17504/protocols.io.261gen5yyg47/v1 | https://www.protocols.io/view/protocol-resin-based-adhesives-composites-and-luti-b6qerdte | Fernanda Lauer | TITLE: Protocol: Resin-based adhesives, composites, and luting agents: A cross-sectional study of citations and altmetrics
AUTHORS: Fernanda Lauer
[DESCRIPTION]
The aim of this cross-sectional, scientometric study is to investigate factors associated with journal citations and altmetrics of dental articles reporting... | ["Study protocol\n\nVersion 1 – March 2022\n\nResin-based adhesives, composites, and luting agents: A cross-sectional study of citations and altmetrics \n\nFernanda Lauer a, Rodrigo Rohenkohl Silva a, Rafael Sarkis-Onofre b, Clóvis Faggion Jr c, Rafael R. Moraes a\n\na Graduate Program in Dentistry, Universidade Federa... |
105,080 | Mitochondrial Enzyme Activities Protocol | 0 | dx.doi.org/10.17504/protocols.io.kxygxy2nwl8j/v1 | https://www.protocols.io/view/mitochondrial-enzyme-activities-protocol-diuy4exw | Jack Devine | TITLE: Mitochondrial Enzyme Activities Protocol
AUTHORS: Jack Devine
[DESCRIPTION]
Mitochondrial enzymatic activity assays developed in the Picard lab at Departments of Psychiatry and Neurology, Robert N Butler Columbia Aging Center, Columbia University Irving Medical Center, New York, NY, USA
[STEPS]
SECTION: Homoge... | ["[Homogenization buffer]", "[Homogenization procedure for Mouse Tissue:] · Weigh tissue samples by transferring into pre-weighed 1.5ml Eppendorf tube \n· Subtract empty tube weight from weight of tube containing sample to get sample weight\n· Add 180µl of homogenization buffer per mg of tissue (1mg:180µ... |
106,767 | JAX-Sen: Collection and shipment of specimen for single-nuclei RNA sequencing (snRNA-Seq) | 0 | dx.doi.org/10.17504/protocols.io.3byl4982jgo5/v2 | https://www.protocols.io/view/jax-sen-collection-and-shipment-of-specimen-for-si-dkhp4t5n | Laura Robinson, Susan Sheehan, Gaven Garland, Ron Korstanje | TITLE: JAX-Sen: Collection and shipment of specimen for single-nuclei RNA sequencing (snRNA-Seq)
AUTHORS: Laura Robinson, Susan Sheehan, Gaven Garland, Ron Korstanje
[DESCRIPTION]
These samples are part of the JAX-Sen project in the SenNet Consortium. Here we provide details on specimen collection and shipment to the ... | ["[Reagents and Materials] 2mL Cryovials/ screw-cap tubes\nice cold 1X PBS\nKimwipes\nPetri dishes\nLiquid Nitrogen\nDry ice\nTweezers (clean, sterile)", "[Quality Key Points:] The tissue specimen should be kept at 4 degrees Celsius and RNase-free until snap-freezing and maintained at -80 degrees C or on dry ice therea... |
43,642 | Measuring Fungal Growth | 3 | dx.doi.org/10.17504/protocols.io.bnu2meye | https://www.protocols.io/view/measuring-fungal-growth-bnu2meye | João Araújo | TITLE: Measuring Fungal Growth
AUTHORS: João Araújo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to measure fungal growth.</div><div class = "text-block"><span>This protocol is part of the Bark Beetle Mycobiome (BBM) Research Coordination Network. For more information ... | [] |
101,642 | Creating a protocol with protocols.io for BD2 | 0 | null | https://www.protocols.io/view/creating-a-protocol-with-protocols-io-for-bd2-dfhi3j4e | Kelsey Barcomb | TITLE: Creating a protocol with protocols.io for BD2
AUTHORS: Kelsey Barcomb
[DESCRIPTION]
This protocol describes how to create and post a protocol on the BD2 workspace.
[STEPS]
SECTION: Create a new protocol file on the BD2 workspace
1. Login and open your team's folder. In the upper right corner click 'NEW +' and ... | ["[Create a new protocol file on the BD2 workspace] Login and open your team's folder. In the upper right corner click 'NEW +' and then 'New protocol'.", "[Create a new protocol file on the BD2 workspace] Confirm the destination folder for the new protocol. Click continue.", "[Add steps to the protocol] This step descr... |
65,712 | Iron Warrior Testo Thrust | Natural Ingredients | 1 | dx.doi.org/10.17504/protocols.io.yxmvmnjxog3p/v1 | https://www.protocols.io/view/iron-warrior-testo-thrust-natural-ingredients-cceqstdw | ukcondorcbd | TITLE: Iron Warrior Testo Thrust | Natural Ingredients
AUTHORS: ukcondorcbd
[DESCRIPTION]
Iron Warrior Testo Thrust:- Getting more settled can cause a few troublesome issues with your sexual concurrence. That is the explanation we really want to illuminate you concerning another upgrade calledIron Warrior Testo Thru... | [] |
33,632 | Protein-coding gene annotation protocol for the eastern banjo frog | 1 | dx.doi.org/10.17504/protocols.io.bc38iyrw | https://www.protocols.io/view/protein-coding-gene-annotation-protocol-for-the-ea-bc38iyrw | Qiye Li, Qunfei Guo, Yang Zhou, Huishuang Tan, Terry Bertozzi, Yuanzhen Zhu, Ji Li, Stephen Donnellan, Guojie Zhang | TITLE: Protein-coding gene annotation protocol for the eastern banjo frog
AUTHORS: Qiye Li, Qunfei Guo, Yang Zhou, Huishuang Tan, Terry Bertozzi, Yuanzhen Zhu, Ji Li, Stephen Donnellan, Guojie Zhang
[DESCRIPTION]
This pipeline is the protein-coding gene annotation by using homology-based and de novo predictions to bu... | ["[Gene models combination] Combine gene models dervied from the above two methods into a non-redundant gene set using a similar strategy to Xiong et al. (2016).", "[Gene filtration] Remove genes showing BLASTP (blast-2.2.26) hits to transposon proteins in the UniProtKB/Swiss-Prot database (v2019_11), or with more than... |
null | null | null | dx.doi.org/10.17504/protocols.io.tfyejpw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?. | [] |
40,853 | Hypotheses, Objectives, Endpoints, and Case Definitions (Part 2 of Phase 3 study of Vaccine Candidate for COVID-19) | 1 | dx.doi.org/10.17504/protocols.io.bj5vkq66 | https://www.protocols.io/view/hypotheses-objectives-endpoints-and-case-definitio-bj5vkq66 | Chris Ockenhouse, Chris Gast, Renee Holt, Jorge Flores | TITLE: Hypotheses, Objectives, Endpoints, and Case Definitions (Part 2 of Phase 3 study of Vaccine Candidate for COVID-19)
AUTHORS: Chris Ockenhouse, Chris Gast, Renee Holt, Jorge Flores
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This is Part 2 of "Phase 3 randomized, double-blinded, plac... | [] |
71,931 | Western Blot | 1 | null | https://www.protocols.io/view/western-blot-cig3ubyn | Elena Coccia, gustavo.parfitt | TITLE: Western Blot
AUTHORS: Elena Coccia, gustavo.parfitt
[DESCRIPTION]
Western Blot Protocol
[STEPS]
SECTION: Cell lysis preparation
1. Prepare the appropriate amount of RIPA buffer with Protease and Phosphatases Inhibitor Cocktail (Roche) and maintain on ice
SECTION: Cell lysis preparation
2. Collect cells/organo... | ["[Cell lysis preparation] Prepare the appropriate amount of RIPA buffer with Protease and Phosphatases Inhibitor Cocktail (Roche) and maintain on ice", "[Cell lysis preparation] Collect cells/organoids in PBS on ice in an eppendorf and spin down 500 rpm, 5 min, 4 °C", "[Cell lysis preparation] Add appopriate amount o... |
58,937 | Quick Decapitation for Paraffin Embedding | 4 | dx.doi.org/10.17504/protocols.io.b5szq6f6 | https://www.protocols.io/view/quick-decapitation-for-paraffin-embedding-b5szq6f6 | Haley Geertsma | TITLE: Quick Decapitation for Paraffin Embedding
AUTHORS: Haley Geertsma
[DESCRIPTION]
This protocol is used to quickly decapitate mice and isolate their brain for paraffin embedding and microtome sectioning.
[STEPS]
1. Sedate mice with isoflurane then quickly decapitate.
2. Extract the brain and incubate in 4% par... | ["Sedate mice with isoflurane then quickly decapitate.", "Extract the brain and incubate in 4% paraformaldehyde or 10% formalin for 72 hours", "Incubate brain in 70% ethanol and submit for paraffin embedding. Once embedded, section brains at 5μm."] |
93,047 | Optimizing patient outcomes in severe pneumonia: Timing of Multiplex PCR in critically ill pa-tients | 1 | dx.doi.org/10.17504/protocols.io.eq2lyj59mlx9/v1 | https://www.protocols.io/view/optimizing-patient-outcomes-in-severe-pneumonia-ti-c64xzgxn | Jia-Hao Zhang, Hou-Tai Chang | TITLE: Optimizing patient outcomes in severe pneumonia: Timing of Multiplex PCR in critically ill pa-tients
AUTHORS: Jia-Hao Zhang, Hou-Tai Chang
[DESCRIPTION]
The impact of multiplex PCR on the mortality rate of patients with severe pneumonia in the intensive care unit remains uncertain. Hence, this retrospective coh... | ["Study population\n\nNumber of Subjects Enrolled: 110 patients from Far Eastern Hospital.\nInclusion Criteria:(1)Patients admitted to the medical intensive care unit (MICU) with acute respiratory failure and severe pneumonia were included in accordance with the diagnostic criteria outlined by the Infectious Diseases S... |
48,515 | Effect of cement augmentation on early postoperative ADL score in patients treated with cephalomedullary nailing for trochanteric fractures | 1 | dx.doi.org/10.17504/protocols.io.btmbnk2n | https://www.protocols.io/view/effect-of-cement-augmentation-on-early-postoperati-btmbnk2n | Yusuke Mochizuki, Norio Yamamoto, Tatsuya Fujii, Tomoyuki Noda, Toshifumi Ozaki | TITLE: Effect of cement augmentation on early postoperative ADL score in patients treated with cephalomedullary nailing for trochanteric fractures
AUTHORS: Yusuke Mochizuki, Norio Yamamoto, Tatsuya Fujii, Tomoyuki Noda, Toshifumi Ozaki
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "f... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.g3kbykw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This brief protocol shows you how easy it is to get shRNA from demostrated siRNA sequence. With these self-designed shRNA, I've got more than 10 genes knockdown from mammalian cell lines, including mouse embryonic stem cells. Believe it or not, using siRNA sequence from Dharmaco... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.eh9bb96 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol outlines the quality control analysis measuring the percent relative abundance of 16S rRNA levels in the virome and whole metagenome, as well as the number of virome sequences mapping to the whole metagenome, and vice versa. These measures are used to validate the ... | [] |
103,949 | Soil Metagenome ONT | 0 | dx.doi.org/10.17504/protocols.io.j8nlk8nmwl5r/v1 | https://www.protocols.io/view/soil-metagenome-ont-dhrm3546 | Robert S James, Gaetan Benoit, Sebastian Raguideau, Georgina Alabone, Christopher Quince | TITLE: Soil Metagenome ONT
AUTHORS: Robert S James, Gaetan Benoit, Sebastian Raguideau, Georgina Alabone, Christopher Quince
[DESCRIPTION]
This protocol describes the sample collection to sequence acquisition workflow for Oxford Nanopore long-read sequencing of a complex soil sample using a ligation sequencing kit kit... | ["[1. Soil sample collection and storage] Collect approximately 15 g of soil using a sterile soil corer or similar device and transfer to a sterile soil sieve and collection plate.", "[5. PromethION Flow cell priming, loading and sequence acquisition] Complete the requested sequencing parameters on the MinKNOW GUI and ... |
52,641 | Maps | 1 | dx.doi.org/10.17504/protocols.io.3byl4k4zzvo5/v1 | https://www.protocols.io/view/maps-bxm9pk96 | Dakota Betz | TITLE: Maps
AUTHORS: Dakota Betz
[DESCRIPTION]
Basic MarMap instructions for plotting maps in R studio.
[STEPS]
SECTION: Programs and Dependencies
1.
SECTION: Programs and Dependencies
2. Once you have R and R Studio installed, install marmap
SECTION: Programs and Dependencies
3. Marmap depends on some other package... | ["[Programs and Dependencies]", "[Programs and Dependencies] Once you have R and R Studio installed, install marmap", "[Programs and Dependencies] Marmap depends on some other packages, and you may encounter errors if they're not up to date.", "[Troubleshooting Errors] Message: \nError in if (ncol(x) == 3 & !exists(\"b... |
37,958 | HTAPP_CST- Nuclei isolation from frozen tissue | 1 | dx.doi.org/10.17504/protocols.io.bhbej2je | https://www.protocols.io/view/htapp-cst-nuclei-isolation-from-frozen-tissue-bhbej2je | Eugene Drokhlyansky, Nicholas Van Wittenberghe, Michal Slyper, Julia Waldman, Asa Segerstolpe, Orit Rozenblatt-Rosen, Aviv Regev | TITLE: HTAPP_CST- Nuclei isolation from frozen tissue
AUTHORS: Eugene Drokhlyansky, Nicholas Van Wittenberghe, Michal Slyper, Julia Waldman, Asa Segerstolpe, Orit Rozenblatt-Rosen, Aviv Regev
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes a method based on work by </sp... | ["[Nuclei isolation]\nUsing forceps, place tissue in the pre-filled well of the 6-well plate on ice (containing the 1 ml of CST; Step 1) and chop tissue for 10 minutes in the buffer using spring scissors.\n[On ice]", "[Nuclei isolation]\nWith a 1 ml pipette transfer the suspension from the 6-well plate to a 40 µm filte... |
62,980 | Ikaria Lean Belly Juice Reviews (UPDATED) HONEST REVIEW - Is It Best #Supplement? | 3 | dx.doi.org/10.17504/protocols.io.kxygxz1wzv8j/v1 | https://www.protocols.io/view/ikaria-lean-belly-juice-reviews-updated-honest-rev-b9rcr52w | health , health | TITLE: Ikaria Lean Belly Juice Reviews (UPDATED) HONEST REVIEW - Is It Best #Supplement?
AUTHORS: health , health
[DESCRIPTION]
If you are looking for a natural and healthy way to lose weight, then you should try Ikaria Lean Belly Juice Reviews. This is a revolutionary product that has the ability to help people lo... | [] |
40,700 | ELISA for quantification of IL-10 in human serum. | 6 | dx.doi.org/10.17504/protocols.io.bjy4kpyw | https://www.protocols.io/view/elisa-for-quantification-of-il-10-in-human-serum-bjy4kpyw | Angel Justiz-Vaillant | TITLE: ELISA for quantification of IL-10 in human serum.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Interleukin-10 is a pleiotropic cytokine playing a critical role as a regulator of myeloid and lymphoid cell function. Due to the ability of IL-10 to blocking cyto... | ["An anti-human IL-10 coating antibody is adsorbed onto microwells by incubation overnight at 4°C.", "Add 50 µl of human serum. Human IL-10 present in the serum sample binds to antibodies adsorbed to the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buffer and later wasth o remove unbound proteins.... |
null | null | null | dx.doi.org/10.17504/protocols.io.p57dq9n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol aims at building a methodological synthesis to understand cancerous cells not only by bio lab’s facilities but also by new-media arts lab’s tools, applications, and vision. The template illustrates potential technical, conceptual, and aesthetic inputs derived fr... | [] |
92,760 | SiMOA total LRRK2 Homebrew Assay | 1 | dx.doi.org/10.17504/protocols.io.yxmvm317ol3p/v1 | https://www.protocols.io/view/simoa-total-lrrk2-homebrew-assay-c6tyzepw | yuan.yuan, andrew.west | TITLE: SiMOA total LRRK2 Homebrew Assay
AUTHORS: yuan.yuan, andrew.west
[DESCRIPTION]
Assay for the detection of total LRRK2 protein (rodent or human) in biofluids or lysates.
[STEPS]
2. Prepare the Beads
3. Conjugate
SECTION: Prepare Capture Beads Concentrate (5-6 hours)
1. Prepare capture beads using a two-step EDC... | ["Prepare the Beads", "Conjugate", "[Prepare Capture Beads Concentrate (5-6 hours)] Prepare capture beads using a two-step EDC coupling protocol. Reaction occurs between the antibody primary amino groups (-NH2) and the carboxyl groups (-COOH) on the beads. 80ug of antibody is required for 0.2 mg/ml buffer exchanged ant... |
26,961 | Overview of difficult airway management cllinical practice guidelines in anesthesia. | null | dx.doi.org/10.17504/protocols.io.6jrhcm6 | null | Ciapponi Agustín, Lucas Perelli, Hernan Cohen Arazi, Germán Solioz, Bardach Ariel | TITLE: Overview of difficult airway management cllinical practice guidelines in anesthesia.
AUTHORS: Ciapponi Agustín, Lucas Perelli, Hernan Cohen Arazi, Germán Solioz, Bardach Ariel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Summary</div></div>... | [] |
53,971 | Cyanobacteria Total Lipid Extraction from Polycarbonate Filters | 1 | dx.doi.org/10.17504/protocols.io.byxtpxnn | https://www.protocols.io/view/cyanobacteria-total-lipid-extraction-from-polycarb-byxtpxnn | Robbie Martin, Steven W Wilhelm, Katarina A. Jones, Hector Castro, Shawn Campagna | TITLE: Cyanobacteria Total Lipid Extraction from Polycarbonate Filters
AUTHORS: Robbie Martin, Steven W Wilhelm, Katarina A. Jones, Hector Castro, Shawn Campagna
[DESCRIPTION]
This protocol is designed/used for extraction of total cellular lipids from cyanobacteria samples (either lab cultures or field samples) collec... | ["Prepare the three separate solutions needed for this extraction protocol as listed below.\n lipid extraction solvent (step 2) with a 1:1 ratio of butanol and lab purified water (water-saturated butanol, and lab purified water", "Prepare the three separate solutions needed for this extraction protocol as follows:\nlip... |
84,352 | Actin flow | 4 | dx.doi.org/10.17504/protocols.io.5jyl8pmb8g2w/v1 | https://www.protocols.click/view/actin-flow-cwk8xczw | Juan.Gonzalez | TITLE: Actin flow
AUTHORS: Juan.Gonzalez
[DESCRIPTION]
Actin flow
[STEPS]
SECTION: Experimental procedure
1. Transfect the cells with the LifeAct-GFP plasmid following the protocol "Cells electroporation for cell transfection with NEON system"
SECTION: Experimental procedure
2. The next day, trypsinize the cells a... | ["[Experimental procedure] Transfect the cells with the LifeAct-GFP plasmid following the protocol \"Cells electroporation for cell transfection with NEON system\"", "[Experimental procedure] The next day, trypsinize the cells as usual", "[Experimental procedure] Seed the cells on glass (i.e. gels on glass bottom petri... |
22,355 | Aichivirus real-time RT-PCR 2007 method | null | dx.doi.org/10.17504/protocols.io.z3tf8nn | null | Judy A. Northill | TITLE: Aichivirus real-time RT-PCR 2007 method
AUTHORS: Judy A. Northill
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>A real-time assay to detect </span><span style = "font-style:italic;">Aichivirus A</span><span> (AiV-A) in human samples. It is based in the 3'UTR region and has been emplo... | ["Oligonucleotide sequences AB1Name5'-3'2AiV-F-8046TGCTTCGGCACGCTTAGTT3AiV-R-8151TGCARTACAACCAYGGCTTAGG4AiV-8082-FAM6FAM-CACTCCTCCATGGTGATATAAAGACCAC-TAMRA\nAB1Name5'-3'2AiV-F-8046TGCTTCGGCACGCTTAGTT3AiV-R-8151TGCARTACAACCAYGGCTTAGG4AiV-8082-FAM6FAM-CACTCCTCCATGGTGATATAAAGACCAC-TAMRA", "Reagents", "Reaction Set-upAssa... |
101,270 | Protocol L2.3 (LIG fabrication) | 1 | dx.doi.org/10.17504/protocols.io.bp2l6b5y5gqe/v2 | https://www.protocols.io/view/protocol-l2-3-lig-fabrication-de5w3g7e | Eric S McLamore, Diana Vanegas, dbahamo, kmccour, Yifan Tang | TITLE: Protocol L2.3 (LIG fabrication)
AUTHORS: Eric S McLamore, Diana Vanegas, dbahamo, kmccour, Yifan Tang
[DESCRIPTION]
This protocol describes the procedure for deposition of biotinylated aptamers on avidin-coated LIG electrodes. The complete process requires approximately 25 min to complete (Fig 1).
[BEF... | ["[LIG on polyimide film] Step 1) Prepare image file for processing and send to tool\nVerify that the Universal Control Panel (UCP) is running in the taskbar by looking for the square red icon with a diamond (Fig 1A)\nUsing CorelDraw, Open the image called “LIG working electrode_triple_COVID” and press Cntrl+P and sele... |
40,805 | ELISA for quantification of IL-38 in human serum. | 6 | dx.doi.org/10.17504/protocols.io.bj4dkqs6 | https://www.protocols.io/view/elisa-for-quantification-of-il-38-in-human-serum-bj4dkqs6 | Angel Justiz-Vaillant | TITLE: ELISA for quantification of IL-38 in human serum.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">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.... | ["An anti-human IL-38 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum. Human IL-38 present in the serum sample binds to antibodies adsorbed into the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buffer and... |
83,152 | Stereotactic Viral Injection into Subthalamic Nucleus in Mice | 4 | dx.doi.org/10.17504/protocols.io.5jyl8prd8g2w/v1 | https://www.protocols.click/view/stereotactic-viral-injection-into-subthalamic-nucl-cvfqw3mw | Elizabeth P., Maite Azcorra | TITLE: Stereotactic Viral Injection into Subthalamic Nucleus in Mice
AUTHORS: Elizabeth P., Maite Azcorra
[DESCRIPTION]
This is a protocol describing the surgical procedure of injecting AAV viruses into the subthalamic nucleus of a mouse. It contains information regarding the stereotactic setup, surgery preparation, a... | ["[Preparation] Turn on heat sterilizer ahead of time. Sterilize the following tools:\n- Large scissors\n- Large forceps\n- Fine forceps\n- Rod or flat spatula", "[Preparation] Have the following tools and substances at hand:\n- Isoflurane\n- Glass micropipettes\n- Plastic tubing\n- Hand syringe\n- Insulin syringes\n- ... |
49,651 | Overview of NCBI's SARS-CoV-2 submission process and the metadata required | 1 | dx.doi.org/10.17504/protocols.io.buqtnvwn | https://www.protocols.io/view/overview-of-ncbi-39-s-sars-cov-2-submission-proces-buqtnvwn | Ruth E Timme, Emma Griffiths, Lee Katz | TITLE: Overview of NCBI's SARS-CoV-2 submission process and the metadata required
AUTHORS: Ruth E Timme, Emma Griffiths, Lee Katz
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">PURPOSE: </span></div><div class = "text-block"><span style = "font-weight:bold;">Th... | ["[Three templates needed for NCBI SARS-CoV-2 submission]\nSTART HERE FIRST: Read the PHA4GE contextual data specification BEFORE populating your submission templates!", "[Three templates needed for NCBI SARS-CoV-2 submission]\nTraining video:For the visual learners, here is a 10min video summarizing the entire NCBI s... |
95,814 | New Bung Decontamination | 0 | null | https://www.protocols.io/view/new-bung-decontamination-c9tez6je | jack.hocking | TITLE: New Bung Decontamination
AUTHORS: jack.hocking
[DESCRIPTION]
This protocol is the process by which we eliminate any stubborn contaminations picked up in the manufacture and/or shipping of our OGI Bio BioReactor Culture and Media Flask Bungs to our site.
[BEFORE_START]
Ensure adequate PPE.
[GUIDELINES]
Virko... | ["[On Receipt of Bungs] Place bungs in a large plastic container.", "[On Receipt of Bungs] Fill container with tap water by decanting 1 or 2 L bottles into it. Make a note of how many litres it takes to cover the bungs with at least a centimeter of water.", "[On Receipt of Bungs] Per litre of water, add two virkon tab... |
72,224 | A tri-specific killer engager (TriKE) against mesothelin targets NK cells towards lung cancer | 2 | dx.doi.org/10.17504/protocols.io.5qpvorx29v4o/v2 | https://www.protocols.click/view/a-tri-specific-killer-engager-trike-against-mesoth-cir8ud9w | Philippa R Kennedy | TITLE: A tri-specific killer engager (TriKE) against mesothelin targets NK cells towards lung cancer
AUTHORS: Philippa R Kennedy
[DESCRIPTION]
A collection of protocols associated with the publication 'A tri-specific killer engager (TriKE) against mesothelin targets NK cells towards lung cancer' by Kennedy et al.
[S... | [] |
38,846 | Banana sensor sfGFP test | 1 | null | https://www.protocols.io/view/banana-sensor-sfgfp-test-bh66j9he | Hung Liang Pai | TITLE: Banana sensor sfGFP test
AUTHORS: Hung Liang Pai
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The goal of this protocol is to ensure that our lab technique and environmental circumstarnces are compatible to this expiriment. Based on iGEM team EPFL 2019, we try to define a concentration of ... | ["[Preparation]\nSterilize the bench, and put on a labmat", "[Preparation]\nThaw the reagents\non ice", "[Preparation]\nSet the microplate (384 well plate) reader machine", "[Protocols]\nSpin down or gently shake the tube before adding (especially solution A and DNA plasmid)", "[Protocols]\nSeparate the droplets in the... |
61,989 | Demuxlet Cell Preparation Protocol | 1 | dx.doi.org/10.17504/protocols.io.n2bvjyb55vk5/v2 | https://www.protocols.io/view/demuxlet-cell-preparation-protocol-b8sdrwa6 | Woong-Yang Park, Jay Shin, Shyam Prabhakar | TITLE: Demuxlet Cell Preparation Protocol
AUTHORS: Woong-Yang Park, Jay Shin, Shyam Prabhakar
[DESCRIPTION]
This protocol details Demuxlet cell preparation.
[GUIDELINES]
If cell viability for any sample is <50%, avoid using that sample in the suspension mix.
If cell viability is between 50-70%, you may try to en... | ["[Preparation of Reagents and Media] Prepare appropriate volume of thawing media (RPMI + 5% HS + 1% Pen/Strep + 1% Glutamine) and keep it at 4 °C.", "[Preparation of Reagents and Media] Prepare appropriate volume of wash media (RPMI + 10% FBS + 1% Pen/Strep + 1% Glutamine) and and keep it at 4 °C.", "[Preparation of R... |
12,884 | PROTOCOL FOR PIGMENT CONTENT QUANTIFICATION IN HERBACEOUS COVERS: SAMPLING AND ANALYSIS | 1 | dx.doi.org/10.17504/protocols.io.qtudwnw | https://www.protocols.io/view/protocol-for-pigment-content-quantification-in-nbs-qtudwnw | Rosario R. Gonzalez-Cascon, Maria Pilar Martin | TITLE: PROTOCOL FOR PIGMENT CONTENT QUANTIFICATION IN HERBACEOUS COVERS: SAMPLING AND ANALYSIS
AUTHORS: Rosario R. Gonzalez-Cascon, Maria Pilar Martin
[DESCRIPTION]
The scope of the protocol is the quantification of pigments in pasture samples in the context of proximal and remote sensing-based studies. The proto... | ["[1.\tFIELD SAMPLING PROTOCOL] The filed protocol is designed to sample 25*25 m permanent plots randomly located inside the footprint of an Eddy covariance tower installed in a tree-grass ecosystem. Inside each plot at least two 1*1 m quadrant are used for destructive herbaceous layer sampling. The number of 1*1 m qua... |
57,511 | Purification of human cortex excitatory neuron nuclei from fetal and postnatal tissue using fluorescent activated nuclei sorting (FANS) in combination with a SATB2 antibody. | 4 | dx.doi.org/10.17504/protocols.io.n92ldz9d8v5b/v1 | https://www.protocols.io/view/purification-of-human-cortex-excitatory-neuron-nuc-b4efqtbn | Jonathan P Davies, Stefania S S Policicchio, Barry Chioza, Gina Commin, Joe Burrage, Emma L Dempster, Jonathan Mill | TITLE: Purification of human cortex excitatory neuron nuclei from fetal and postnatal tissue using fluorescent activated nuclei sorting (FANS) in combination with a SATB2 antibody.
AUTHORS: Jonathan P Davies, Stefania S S Policicchio, Barry Chioza, Gina Commin, Joe Burrage, Emma L Dempster, Jonathan Mill
[DESCRIPTION]... | ["[Nuclear prep for FACS separation (using SATB2 and Hoechst)] The protocol below yields approximately 660,000 SATB2+ve, 800,000 SATB2 -ve nuclei per 200 mg of frozen human fetal post-mortem cortex tissue. Recovery might vary from sample to sample due to high inter-sample variability (developmental stage and density ... |
69,820 | Auxin-induced (AID) protein degradation in drosophila larvae | 4 | null | https://www.protocols.io/view/auxin-induced-aid-protein-degradation-in-drosophil-cge4ttgw | Denis Jullien, Adeline Payet, Emmanuelle Guillou, Henri-Marc Bourbon, Sandra Bernat-Fabre, muriel.boube-trey | TITLE: Auxin-induced (AID) protein degradation in drosophila larvae
AUTHORS: Denis Jullien, Adeline Payet, Emmanuelle Guillou, Henri-Marc Bourbon, Sandra Bernat-Fabre, muriel.boube-trey
[DESCRIPTION]
The present protocol describes how to operate the auxin degradation system in drosophila larvae.The auxin-induced degr... | ["[Carry out AID protein degradation in drosophila larvae] Initiate larvae production", "[Carry out AID protein degradation in drosophila larvae] Preparation of NAA containing medium", "[Carry out AID protein degradation in drosophila larvae] Triggering protein degradation in L3 larvae", "[Carry out AID protein degrada... |
69,348 | A multi-modal cognitive behavioral therapy training program for caregivers of children with disabilities in Uganda: a study protocol for a cluster-randomized controlled trial | 1 | null | https://www.protocols.io/view/a-multi-modal-cognitive-behavioral-therapy-trainin-cfyctpsw | Mariam Namasaba, Ali Ayub Baguwemu, Sumaya Nabunje | TITLE: A multi-modal cognitive behavioral therapy training program for caregivers of children with disabilities in Uganda: a study protocol for a cluster-randomized controlled trial
AUTHORS: Mariam Namasaba, Ali Ayub Baguwemu, Sumaya Nabunje
[DESCRIPTION]
Background: Caregivers of children with disabilities (CWDs) oft... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ewtbfen | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Extraction of high quality DNA for long read sequencing e.g. PacBio</p>
<p>Optimized for DNA extraction from wheat stripe rust spores and also tested on barley leaf rust.</p>
<p>Buffers are best when fresh and not older than 3-6 months. Buffered Phenol:Chloroform:Isoamylalcoh... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.m2dc8a6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>To setup the docking, the Lamarckian genetic algorithm (LGA) was used, and docked conformations were compared and clustered based on the conformational similarities and root-mean-square positional deviation (rmsd). The numbers of runs were adjusted to 30 for all ligands. Rms... | [] |
21,195 | Binary synthetic template oligonucleotide positive control for in-house diagnostic real-time RT-PCR | null | dx.doi.org/10.17504/protocols.io.yxjfxkn | null | Ian Mackay, Judy Northill | TITLE: Binary synthetic template oligonucleotide positive control for in-house diagnostic real-time RT-PCR
AUTHORS: Ian Mackay, Judy Northill
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol details how to make and use a pair of synthetic template oligonucleotides (STOs) for use as real... | ["[Overview]\nThis protocol describes the design and use of a binary positive control system for use in clinical biospecimen testing. An earlier version of this method was previously published, as was this more recent version [Ref.1, Ref.2] The end products avoid the need to handle infectious wild-type virus or rely on... |
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