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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null | null | null | dx.doi.org/10.17504/protocols.io.j5zcq76 | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p>Channel 1: Blue light</p>
<p>Channel 2: White/green/red light</p>
[STEPS]
?.
?.
?.
?. | [] |
27,231 | CPEC Protocol | null | dx.doi.org/10.17504/protocols.io.6t7hern | null | N.J. Hillson | TITLE: CPEC Protocol
AUTHORS: N.J. Hillson
[STEPS]
?. Measure the DNA concentration (ng/ml) of each assembly piece.
?. Add 100 ng of the linearized vector backbone and equimolar amounts of the other assembly pieces to a 25 ml total volume assembly reaction mixture as follows:linearized vector backbone (100 ng)+ each a... | ["Measure the DNA concentration (ng/ml) of each assembly piece.", "Add 100 ng of the linearized vector backbone and equimolar amounts of the other assembly pieces to a 25 ml total volume assembly reaction mixture as follows:linearized vector backbone (100 ng)+ each additional assembly piece (to equimolar with backbone)... |
83,209 | Intraperitoneal L-dopa injection in mice | 1 | dx.doi.org/10.17504/protocols.io.81wgbxd51lpk/v1 | https://www.protocols.click/view/intraperitoneal-l-dopa-injection-in-mice-cvhhw336 | natalia.lopezgonzalezdelrey, Zachary Gaertner | TITLE: Intraperitoneal L-dopa injection in mice
AUTHORS: natalia.lopezgonzalezdelrey, Zachary Gaertner
[DESCRIPTION]
Intraperitoneal L-dopa injection in mice
[STEPS]
SECTION: Preparation
1. Mice were acclimated to the room for 60 min
SECTION: L-dopa preparation
2. Prepare the L-dopa mix fresh every day.
Prepare a m... | ["[Preparation] Mice were acclimated to the room for 60 min", "[L-dopa preparation] Prepare the L-dopa mix fresh every day.\nPrepare a master mix of: 12.5mg/kg L-dopa and 12.5mg/kg benserazide dissolved in sterile saline with 0.25% citrate (wt/vol). Calculate grams depending on number of mice to be injected. Using vort... |
53,509 | Recruitments of Sherpa highlanders and non-Sherpa lowlanders | 1 | dx.doi.org/10.17504/protocols.io.byhdpt26 | https://www.protocols.io/view/recruitments-of-sherpa-highlanders-and-non-sherpa-byhdpt26 | Yunden Droma, Masayuki Hanaoka, Masao Ota | TITLE: Recruitments of Sherpa highlanders and non-Sherpa lowlanders
AUTHORS: Yunden Droma, Masayuki Hanaoka, Masao Ota
[DESCRIPTION]
In order to carry out the research project of genetic adaptation to high-altitude hypoxia in Sherpa highlanders, we recruited Sherpa highlanders in Namche Bazaar village at a high altitu... | ["Recruiting Sherpa highlanders in Namche Bazaar village (3,440 m) in the Solu-Khumbu region in Nepal.", "The Sherpas in Namche Bazaar village voluntarily participated in this investigation.", "The Sherpa clan was identified with the Sherpa surname and confirmed by a senior native Sherpa.", "All Sherpas were born and p... |
29,497 | AAV production for Serotypes with Heparin Binding Capabilities | 1 | null | https://www.protocols.io/view/aav-production-for-serotypes-with-heparin-binding-82zhyf6 | Sierra Simpson, Olivier George | TITLE: AAV production for Serotypes with Heparin Binding Capabilities
AUTHORS: Sierra Simpson, Olivier George
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Production of Adeno Associated Virus with Heparin Binding Motifs. Adapted from McClure et. al. </div></div>
[STEPS]
?. [Transfection]
Mix DNA... | ["[Transfection]\nMix DNA in 4.5ml MEM as follow \n62.5 ug AAV plasmid \n\n125 ug pHelper \n\n62.5 ug pAAV DJ \n\nFilter combined plasmids using 0.22 um filter", "[Transfection]\nIn a separate tube mix 350ul PEI in 10.5ml MEM (PEI stock solution is 1mg/ml)", "[Transfection]\nWait 5 min then mix the two solution togethe... |
69,818 | CUT&RUN with Drosophila tissues | 1 | dx.doi.org/10.17504/protocols.io.36wgqj9j5vk5/v1 | https://www.protocols.io/view/cut-amp-run-with-drosophila-tissues-cge2ttge | Kami Ahmad | TITLE: CUT&RUN with Drosophila tissues
AUTHORS: Kami Ahmad
[DESCRIPTION]
We have modified the Cleavage Under Targets and Release Using Nuclease (CUT&RUN) method for epigenomic profiling of histone modifications and chromatin proteins to use dissected Drosophila tissues. In CUT&RUN, cells or tissues are permeabiliz... | ["[Prepare solutions and beads] Prepare a fresh 5% digitonin solution as follows:\n \n\nWeigh out 50 mg digitonin powder in a 2 ml microcentrifuge tube. Boil some water in a small beaker in a microwave oven, and pipette in and out to warm the 1000 μL pipette tip. Pipette the hot water into the tube with the digitonin p... |
99,141 | Wake Forest University Health Sciences Manual of Procedures Biospecimen Collection and Processing V1 | 1 | dx.doi.org/10.17504/protocols.io.3byl49b7ogo5/v1 | https://www.protocols.io/view/wake-forest-university-health-sciences-manual-of-p-dc3d2yi6 | Kim Kennedy, Heather Gregory | TITLE: Wake Forest University Health Sciences Manual of Procedures Biospecimen Collection and Processing V1
AUTHORS: Kim Kennedy, Heather Gregory
[DESCRIPTION]
This includes the methods associated with obtaining muscle, blood, and urine along with demographic, clinical, health, and functional data from younger and old... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.nahdab6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><span style="font-weight: 400;">This protocol is based upon </span><a href="https://www.nature.com/articles/nmeth.4407?WT.feed_name=subjects_gene-expression" target="_blank"><em><span style="font-weight: 400;">Habib, N et al.,</span></em> </a><em><span style="font-weight: 400... | ["{\"blocks\":[{\"key\":\"7fstg\",\"text\":\"Precool all instruments and buffers.\\n\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"8unh4\",\"text\":\" \",\"type\":\"atomic\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[{\"offset\":0,\"length\":1,\"key... |
22,889 | SPARC Serotonin 2A Receptor (5-HT2AR) Immunohistochemistry Protocol in Rat Tissues Labeled with Cholera Toxin B-fragment | null | dx.doi.org/10.17504/protocols.io.2khgct6 | null | Elisa Gonzalez-Rothi, Yasin Seven, Latoya Allen, Marissa Ciesla, Gordon Mitchell | TITLE: SPARC Serotonin 2A Receptor (5-HT2AR) Immunohistochemistry Protocol in Rat Tissues Labeled with Cholera Toxin B-fragment
AUTHORS: Elisa Gonzalez-Rothi, Yasin Seven, Latoya Allen, Marissa Ciesla, Gordon Mitchell
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the immuno... | ["Day 1: primary antibodies required:5-HT2AR: Rabbit anti-5-HT2AR (Immunostar #24288)Cholera toxin B-fragment: Goat anti-CT-B (Millipore #227040)", "Place 40um transverse spinal cord sections into 1xPBS in 12 well cell culture plates", "5x washes in 1xPBS for 5 minutes each at room temperature", "Blocking: place tissu... |
87,455 | Generation of full-length circRNA libraries for Oxford Nanopore long-read sequencing | 1 | dx.doi.org/10.17504/protocols.io.rm7vzy8r4lx1/v3 | https://www.protocols.io/view/generation-of-full-length-circrna-libraries-for-ox-czm7x49n | Steffen Fuchs, Loélia Babin, Elissa Andraos, Chloé Bessiere, Semjon Willier, Johannes H. Schulte, Christine Gaspin, Fabienne Meggetto | TITLE: Generation of full-length circRNA libraries for Oxford Nanopore long-read sequencing
AUTHORS: Steffen Fuchs, Loélia Babin, Elissa Andraos, Chloé Bessiere, Semjon Willier, Johannes H. Schulte, Christine Gaspin, Fabienne Meggetto
[DESCRIPTION]
Circular RNA (circRNA) is a noncoding RNA class with broad implication... | ["[1) Ribodepletion] Ribodepletion", "[1) Ribodepletion] Hybridization and RNaseH treatment\nPrepare the following: thaw 7 µg total RNA on ice", "[1) Ribodepletion] Thaw one aliquot of rRNA depletion oligos on ice", "[1) Ribodepletion] Bring one aliquot of Agencourt RNA Clean XP beads to Room temperature at least 30 mi... |
63,877 | Attention! Condor CBD Gummies Reviews: Does It Really Works! | 3 | dx.doi.org/10.17504/protocols.io.8epv59m4dg1b/v1 | https://www.protocols.io/view/attention-condor-cbd-gummies-reviews-does-it-real-camdsc26 | inopuro , John Ong | TITLE: Attention! Condor CBD Gummies Reviews: Does It Really Works!
AUTHORS: inopuro , John Ong
[DESCRIPTION]
Condor CBD Gummies provide immediate pain relief, making it a much more interesting and wonderful product. Calcium content promotes bone health and healing.
[STEPS] | [] |
52,770 | HyDrop Bead Generation & PCR Barcoding v1.0 | 1 | dx.doi.org/10.17504/protocols.io.bxsapnae | https://www.protocols.io/view/hydrop-bead-generation-amp-pcr-barcoding-v1-0-bxsapnae | Florian De Rop, Suresh Poovathingal, Stein Aerts | TITLE: HyDrop Bead Generation & PCR Barcoding v1.0
AUTHORS: Florian De Rop, Suresh Poovathingal, Stein Aerts
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for producing dissolvable barcoded hydrogel beads used in HyDrop experiments.</div></div>
[STEPS]
?. [Hydrogel bead generation ]
Hydr... | ["[Hydrogel bead generation ]\nHydrogel bead generationHere, we will create an emulsion of acrylamide monomers in a carrier oil containing TEMED. The monomer droplets will polymerise and form hydrogel beads. Ideally, you have a bead stock of around 3 mL of beads before you barcode, but 2 mL can work as well. It is best... |
83,767 | In-silico-based toxicity investigation of natural repellent molecules against the human proteome: A safety profile design | 5 | dx.doi.org/10.17504/protocols.io.4r3l225nql1y/v1 | https://www.protocols.click/view/in-silico-based-toxicity-investigation-of-natural-cv2xw8fn | Anagha S Setlur, Chandrashekar K, Vartul Panhalkar, Sonia Sharma, Manas Sarkar, Vidya Niranjan | TITLE: In-silico-based toxicity investigation of natural repellent molecules against the human proteome: A safety profile design
AUTHORS: Anagha S Setlur, Chandrashekar K, Vartul Panhalkar, Sonia Sharma, Manas Sarkar, Vidya Niranjan
[DESCRIPTION]
Comprehending the toxicity and other adverse effects of any given set of... | ["[TOXICITY PREDICTIONS] The toxicity predictions for the given set of potential molecules with mosquito repellent activities were first tested via several tools. The detailed description for each is provided below.", "[TOXICITY PREDICTIONS] Protox-II\n\nThis tool predicts the primary toxicity properties of all natural... |
98,133 | MERS-CoV Mpro fluorescence dose response | 1 | dx.doi.org/10.17504/protocols.io.eq2ly7r1rlx9/v4 | https://www.protocols.io/view/mers-cov-mpro-fluorescence-dose-response-db3v2qn6 | Haim Barr, Noa Lahav | TITLE: MERS-CoV Mpro fluorescence dose response
AUTHORS: Haim Barr, Noa Lahav
[DESCRIPTION]
This is a functional, biochemical assay used to identify treatments for viral infectious disease in MERS-CoV 3C-like protease.
Utilizing a direct enzyme activity measurement method, the experiment was performed in a 384-well ... | ["[Prepare 384 Well Plate] PRIME with Assay Buffer by Multi-Drop Combi Tube Dispensing Cassette by selecting the PRIME button on the Combi Dispenser until the tubes are filled completely.", "[Prepare 384 Well Plate] DISPENSE 10 µL to Columns 1 and 23 of assay plate\nNote: These will represent the inhibitor control colu... |
91,900 | noesypr1d_metab.nan | 5 | dx.doi.org/10.17504/protocols.io.x54v9p21pg3e/v3 | https://www.protocols.io/view/noesypr1d-metab-nan-c5y4y7yw | NAN KB, John Glushka, Mario Uchimiya, Saraa Al Jawad, Christopher Esselman, Leandro I Ponce, Laura Morris, Arthur Edison | TITLE: noesypr1d_metab.nan
AUTHORS: NAN KB, John Glushka, Mario Uchimiya, Saraa Al Jawad, Christopher Esselman, Leandro I Ponce, Laura Morris, Arthur Edison
[DESCRIPTION]
This is a protocol for running the Bruker pulse program "noesypr1d".
[BEFORE_START]
This protocol assumes your sample is loaded, locked, tuned, and... | ["[Create a new dataset]", "[Create a new dataset] On the menu bar on TopSpin, click on\nStart → Create Dataset", "[Create noesypr1d experiment file] When Lock, Tune, Shim are complete proceed to the specific protocol for your desired pulseprogram(s).", "[Create a new dataset] A new window opens. On the right top bar, ... |
42,394 | Scale-dependent Fractal Analysis (ver. 0.1) | 5 | dx.doi.org/10.17504/protocols.io.bmm2k48e | https://www.protocols.io/view/scale-dependent-fractal-analysis-ver-0-1-bmm2k48e | Ethan Schaefer | TITLE: Scale-dependent Fractal Analysis (ver. 0.1)
AUTHORS: Ethan Schaefer
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol supports scale-dependent fractal analysis of input geometries by the divider method. Those geometries should be 2D lines (or more precisely, linestrings). For each... | ["Create a Python 2.7 environment.In Anaconda, this can be done with the following command (in Anaconda Prompt):conda create --name py2 python=2.7", "Install the packages listed below:numpyscipymatplotlibgdalNote: gdal can be somewhat challenging to install unless explicitly supported by a distribution. At time of writ... |
72,737 | Aureococcus anophagefferens Virus (AaV)/Floreovirus quantuckensis viral particle count by SYBR Green staining and flow cytometry (CytoFLEX S Flow Cytometer Beckman Coulter) | 1 | dx.doi.org/10.17504/protocols.io.dm6gpj331gzp/v1 | https://www.protocols.io/view/aureococcus-anophagefferens-virus-aav-floreovirus-ci99uh96 | Emily E. Chase, Alex Truchon, Samantha R Coy, Steven W Wilhelm | TITLE: Aureococcus anophagefferens Virus (AaV)/Floreovirus quantuckensis viral particle count by SYBR Green staining and flow cytometry (CytoFLEX S Flow Cytometer Beckman Coulter)
AUTHORS: Emily E. Chase, Alex Truchon, Samantha R Coy, Steven W Wilhelm
[DESCRIPTION]
A method for obtaining viral particle counts of Aureo... | ["[CytoFLEX Experiment Setup] Create a new experiment with sample acquisition settings as follows: \nFSC 500\nSSC 200\nVioSSC 200\nFITC 2000\nPerCP 500\nPB450 40 [placeholder; this could be set for a different dye than Pacific Blue shown here, this will not change the results]\nThreshold: (manual) Violet SSC 3000\n\nSe... |
null | null | null | dx.doi.org/10.17504/protocols.io.c5yy7v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is a guide to prepare PFA from powder. This is useful for PFA Fixation.
[GUIDELINES]
<span style="text-decoration: underline;">Working Dilutions: </span><br /><span style="font-family: Arial,Helvetica,sans-serif;">Thawed aliquots are stable at 4º C for up to 2 weeks.<... | [] |
63,310 | SSNIP-seq: A simple and rapid method for isolation of single-sperm nucleic acid for high-throughput sequencing | 4 | dx.doi.org/10.17504/protocols.io.6qpvr67jbvmk/v1 | https://www.protocols.io/view/ssnip-seq-a-simple-and-rapid-method-for-isolation-b93nr8me | Steve Novakovic, Vanessa Tsui, Tim Semple, Luciano G Martelotto, Davis J Mccarthy, Wayne Crismani | TITLE: SSNIP-seq: A simple and rapid method for isolation of single-sperm nucleic acid for high-throughput sequencing
AUTHORS: Steve Novakovic, Vanessa Tsui, Tim Semple, Luciano G Martelotto, Davis J Mccarthy, Wayne Crismani
[DESCRIPTION]
We developed a simple and reproducible method for the isolation of haploid nu... | ["Procedure\nAll steps must be completed quickly, and samples kept at 4oC at all times. The use of Lo-Bind microcentrifuge tubes is critical to avoid excessive loss of sperm cells or nuclei.\n\nTissue isolation\n1| Sacrifice mice using CO2 or cervical dislocation following local SOPs that have been approved by an a... |
null | null | null | dx.doi.org/10.17504/protocols.io.pmrdk56 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><u>Goal:</u></p>
<p>This document aims to standardize the protocol for latex beads coating with the <em>Mycobacterium leprae</em> phenolic glycolipid “PGL I”. Beads-PGL I coating is used, for example, for cell culture stimulation assays or pull-down experiments.</p>
<p> </p>
... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.q3xdypn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol has been tested by me on human adult colon samples and given good results for scRNAseq. I suggest that you do an enrichment step afterwards, because the dissociation can be quite variable results in terms of the fraction of immune vs non-immune cells that are re... | [] |
63,384 | https://bumppy.com/tm/read-blog/59414 | 3 | dx.doi.org/10.17504/protocols.io.yxmvmnq7og3p/v1 | https://www.protocols.io/view/https-bumppy-com-tm-read-blog-59414-b95yr87w | Stevejonesshom | TITLE: https://bumppy.com/tm/read-blog/59414
AUTHORS: Stevejonesshom
[DESCRIPTION]
According to the association that makes the CBD-embedded chewy desserts the thing is a clever structure that guarantees that clients don't get through the negative symptoms of any prosperity risk at any rate they can get fit and solid... | [] |
27,795 | Single cell RNA sequencing (scRNA-seq) | null | dx.doi.org/10.17504/protocols.io.7dthi6n | null | Edgar Otto, Celine C. Berthier, Paul Hoover | TITLE: Single cell RNA sequencing (scRNA-seq)
AUTHORS: Edgar Otto, Celine C. Berthier, Paul Hoover
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><h2></h2></div><div class = "text-block">Previously, RNA sequencing for whole-genome gene expression analysis could only be performed on whole tissue (bu... | ["[Freezing in Cryostor]\nRemove biopsy frozen in CryoStor solution in a cryovial out of the liquid nitrogen tank. Thaw frozen biopsy in a water bath under constant swirling for 60-90 sec only until biopsy at the bottom is ice-free.\n500 µl\n1.8 ml\n37 °C", "[Thawing and Cell Dissociation]\nTransfer biopsy to plast... |
98,378 | Xeno-free microvasculature-on-a-chip model | 0 | dx.doi.org/10.17504/protocols.io.261ge5obog47/v1 | https://www.protocols.io/view/xeno-free-microvasculature-on-a-chip-model-dcbi2ske | Robert Mertens, Jennifer Schwarzkopf, Katja Meier, André Rosa, Holger Gerhardt, PETER VAJKOCZY, Anja Nitzsche | TITLE: Xeno-free microvasculature-on-a-chip model
AUTHORS: Robert Mertens, Jennifer Schwarzkopf, Katja Meier, André Rosa, Holger Gerhardt, PETER VAJKOCZY, Anja Nitzsche
[DESCRIPTION]
Multicellular, complex human cell-derived models, such as organ-on-a-chip or microvasculature-on-a-chip models offer the opportunity of ... | ["[Seeding cells into the microfluidic chip] Critical: All steps need to be performed under sterile conditions!", "[Culture microvasculature in the microfluidic chip] Critical: All steps need to be performed under sterile conditions!\n\nMedium change (day 0-9)\nRemove medium from all four ports by carefully aspirating ... |
39,909 | DNA Quantification using the Qubit Fluorometer | 4 | dx.doi.org/10.17504/protocols.io.bi8dkhs6 | https://www.protocols.io/view/dna-quantification-using-the-qubit-fluorometer-bi8dkhs6 | Julie Haendiges, Ruth Timme, Padmini Ramachandran, Maria Balkey | TITLE: DNA Quantification using the Qubit Fluorometer
AUTHORS: Julie Haendiges, Ruth Timme, Padmini Ramachandran, Maria Balkey
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This procedure outlines the protocol for quantitation of gDNA for subsequent WGS. </div><div class = "text-block">This docume... | ["[Qubit Working Solution and Sample preparation]\nSet up the required number of Qubit tubes for standards and samples. The Qubit dsDNA assays require two standards for calibration. Although, calibrations do not have to be performed each time it is recommended to perform prior toquantifying samples with critical input ... |
65,262 | DNA Extraction Microbiome Kit - Fecal | 1 | null | https://www.protocols.io/view/dna-extraction-microbiome-kit-fecal-cbynspve | Stephanie Clouser | TITLE: DNA Extraction Microbiome Kit - Fecal
AUTHORS: Stephanie Clouser
[DESCRIPTION]
DNA Extraction of fecal samples with the MagMAX Microbiome Kit from Applied Biosystems.
[STEPS]
SECTION: Before You Begin
1. Prepare your workspace
a. Turn on Biological Safety Cabinet blower, white light, and window alarm.
b. Clea... | ["[Before You Begin] Prepare your workspace\na. Turn on Biological Safety Cabinet blower, white light, and window alarm.\nb. Clean the cabinet with 70% ethanol, including the work surface, walls, and glass.\nc. Lower the sash and run the UV light for 15 minutes. \n \n\nd. Swi... |
41,141 | ELISA for quantification of IL-9 in human serum or plasma. | 6 | dx.doi.org/10.17504/protocols.io.bkevkte6 | https://www.protocols.io/view/elisa-for-quantification-of-il-9-in-human-serum-o-bkevkte6 | Angel Justiz-Vaillant | TITLE: ELISA for quantification of IL-9 in human serum or plasma.
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 c... | ["An anti-human IL-9 coating antibody is adsorbed onto microwells by incubation overnight at 4°C.", "Add 50 µl of human serum. Human IL-9 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 wash to remove unbound proteins.",... |
71,526 | DDNS protocol v2 | 4 | dx.doi.org/10.17504/protocols.io.rm7vzbyyxvx1/v1 | https://www.protocols.io/view/ddns-protocol-v2-ch4et8te | Alex Shaw, Manasi Majumdar, Catherine Troman, Erika Bujaki, Joyce Akello, Aine.OToole, c.ansley, rachel.colquhoun, arshady, khurshida, alammu, Andrew Rambaut, Javier Martin, Nick Grassly | TITLE: DDNS protocol v2
AUTHORS: Alex Shaw, Manasi Majumdar, Catherine Troman, Erika Bujaki, Joyce Akello, Aine.OToole, c.ansley, rachel.colquhoun, arshady, khurshida, alammu, Andrew Rambaut, Javier Martin, Nick Grassly
[DESCRIPTION]
This protocol is an update from the protocol described in the paper "Rapid and sensi... | ["[Nested PCR First Round (PanEV)] Prepare a master mix using the reaction volumes detailed in the table below for the number of samples you have plus negative controls.\n\n\nForward primer: 5'NTR [TGGCGGAACCGACTACTTTGGGTG] (Arita et al. 2015)\n\nReverse Primers: Cre [TCAATACGGTGTTTGCTCTTGAACTG] (Arita et al. 2015)\n ... |
80,898 | A Scoping Review of dating behaviours in typically developing adults | 1 | dx.doi.org/10.17504/protocols.io.rm7vzbp5rvx1/v1 | https://www.protocols.io/view/a-scoping-review-of-dating-behaviours-in-typically-cs9awh2e | Nicholas Behn, Katerina Hilari, Emma Power, Dr Laura Wolford, Victor Piotto | TITLE: A Scoping Review of dating behaviours in typically developing adults
AUTHORS: Nicholas Behn, Katerina Hilari, Emma Power, Dr Laura Wolford, Victor Piotto
[DESCRIPTION]
This protocol details a scoping review of dating behaviours in typically developing adults.
[GUIDELINES]
Overall methods and design/rigor
A sc... | ["[Study Selection] Reviewers will use Covidence to organize their work. Two reviewers will independently screen the titles/abstracts for 20% of studies for inclusion.", "[Study Selection] If Kappa scores are 0.8 or above, one author will continue to review.", "[Study Selection] If Kappa scores are below 0.8, all artic... |
33,284 | ROBOFISH construction | 1 | dx.doi.org/10.17504/protocols.io.bcrciv2w | https://www.protocols.io/view/robofish-construction-bcrciv2w | Lars E. Borm | TITLE: ROBOFISH construction
AUTHORS: Lars E. Borm
[DESCRIPTION]
The ROBOFISH system is designed to do liquid handling, temperature control and imaging. We use it for cyclic RNA detection with Fluorescent in situ Hybridization but it can be used/adapted to perform any experiment that requires these 3 components.
This... | ["[System overview] Please download this schematic overview of the system: \nAll parts of the fluidic system are included and labeled with part numbers.\n\nThe system can dispense arbitrary small volumes to the flow cell that contains the sample. In the top left corner the working of the system is visually explained.... |
38,220 | X-HTDC method for better estimation of particulate phosphorus in microalgae | 6 | null | https://www.protocols.io/view/x-htdc-method-for-better-estimation-of-particulate-bhjkj4kw | Yingyu Hu, Zoe V. Finkel | TITLE: X-HTDC method for better estimation of particulate phosphorus in microalgae
AUTHORS: Yingyu Hu, Zoe V. Finkel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Here we describe a protocol using extra-high temperature dry combustion method (X-HTDC) to estimate particulate phosphorus in microalga... | ["[Prepare standard working solutions]\nKH2PO4 primary standard stock solution (≈ 1 mM)", "[Prepare standard working solutions]\nTransfer about 1 g KH2PO4 into a beaker, cover the beaker with foil", "[Prepare standard working solutions]\nMove KH2PO4 into a vacuum desiccator, allow KH2PO4 to cool to room temperature", "... |
64,398 | Oplexx Keto Reviews How Does It Helps in Weight Loss? | 1 | dx.doi.org/10.17504/protocols.io.rm7vzyqdxlx1/v1 | https://www.protocols.io/view/oplexx-keto-reviews-how-does-it-helps-in-weight-lo-ca5nsg5e | greendolphinummiereviews | TITLE: Oplexx Keto Reviews How Does It Helps in Weight Loss?
AUTHORS: greendolphinummiereviews
[DESCRIPTION]
Oplexx Keto Reviews How Does It Helps in Weight Loss?
[STEPS]
1. Oplexx Keto Reviews How Does It Helps in Weight Loss?
Oplexx Keto Reviews
By following a salutary secret, you may lose 10 pounds in only two... | ["Oplexx Keto Reviews How Does It Helps in Weight Loss?\nOplexx Keto Reviews \nBy following a salutary secret, you may lose 10 pounds in only two weeks. Every time, it’s a healthy and secure option! rotundity is the most incapacitating sickness a person may suffer from. It causes the body to retain a large quantum of f... |
57,170 | DNA extraction from colonial tunicates | 4 | dx.doi.org/10.17504/protocols.io.b33sqqne | https://www.protocols.io/view/dna-extraction-from-colonial-tunicates-b33sqqne | Marta Wawrzyniak, Simon Blanchoud | TITLE: DNA extraction from colonial tunicates
AUTHORS: Marta Wawrzyniak, Simon Blanchoud
[DESCRIPTION]
This protocol has been successfully used with Botrylloides diegensis and was adapted to our needs based on the HotPhenol DNA extraction protocol.
[GUIDELINES]
Change gloves frequently, particularly as the protoc... | ["[Cell Lysis] Add 500 µL of Ph-Ch-IA solution and 350 µL of SDS-Lysis buffer.", "[Cell Lysis] Mix by vortexing at maximum speed for 45 s .", "[Cell Lysis] Cool for 1 minon ice.", "[Cell Lysis] Mix again by vortexing at maximum speed for 45 s.", "[DNA extraction] Centrifuge at Room temperature at maximum speed for 3 mi... |
null | null | null | dx.doi.org/10.17504/protocols.io.evdbe26 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol describes how to recrystallize <span style="font-weight: 400;">dimethylglyoxime in order to purify it for use in measuring total dissolved and labile cobalt using cathodic stripping voltammetry. This procedure makes a 0.1 mol L<sup>-1 </sup>DMG solution.</span>
[S... | [] |
94,577 | SOP for RT (Reverse Transcription) Promega kit | 4 | dx.doi.org/10.17504/protocols.io.8epv5x895g1b/v1 | https://www.protocols.io/view/sop-for-rt-reverse-transcription-promega-kit-c8krzuv6 | Malu G Tansey | TITLE: SOP for RT (Reverse Transcription) Promega kit
AUTHORS: Malu G Tansey
[DESCRIPTION]
SOP for RT (Reverse Transcription) Promega kit
[STEPS]
SECTION: SOP:
2. Prepare per sample:
SECTION: SOP:
3. Heat samples at 70°C for 5 min (prepare mix for step 4).
SECTION: SOP:
4. Snap freeze samples at +4°C or on ice f... | ["[SOP:] Prepare per sample:", "[SOP:] Heat samples at 70°C for 5 min (prepare mix for step 4).", "[SOP:] Snap freeze samples at +4°C or on ice for a minimum of 5 min.", "[SOP:] Prepare RT mix (vol per samples, calculate for all your samples + 1):", "[SOP:] Brief centrifugation.", "[SOP:] RT program", "[SOP:] Add 30 ul... |
44,547 | Super-Resolution Single Molecule FISH at the Drosophila Neuromuscular Junction | 4 | dx.doi.org/10.17504/protocols.io.bprbmm2n | https://www.protocols.io/view/super-resolution-single-molecule-fish-at-the-droso-bprbmm2n | Joshua S. Titlow, Lu Yang, Richard M. Parton, Ana Palanca, Ilan Davis | TITLE: Super-Resolution Single Molecule FISH at the Drosophila Neuromuscular Junction
AUTHORS: Joshua S. Titlow, Lu Yang, Richard M. Parton, Ana Palanca, Ilan Davis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The lack of an effective, simple, and highly sensitive protocol for fluorescent i... | ["[3.1 Larva Neuromuscular Junction Dissection]\nVideo protocols for Drosophila larva dissection are available online [20, 21]. Pin the larva dorsal side up on a 35 mm Petri dish filled half way with Sylgard, by placing pins at the anterior and posterior ends.", "[3.1 Larva Neuromuscular Junction Dissection]\nCover the... |
21,597 | Eye scan pattern | null | dx.doi.org/10.17504/protocols.io.zb5f2q6 | null | Christophe Lounis | TITLE: Eye scan pattern
AUTHORS: Christophe Lounis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The purpose of this study is to evaluate the expertise of certified pilots vs. novice on visual behavior strategies and performances. This study focuses mainly on the visual strategies used in the tra... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dwu7ev | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<span class="cit-title">This protocol is based on one described by Li et al. (2010) and has been modified to work in a college laboratory setting. The protocol is from:<br />James <span class="cit-auth cit-auth-type-author">M. Burnette III</span><span class="cit-sep cit-sep-two-... | [] |
79,751 | PCR on DNA samples (Chlamydomonas spp.) to test annealing temperature for the primers | 1 | null | https://www.protocols.io/view/pcr-on-dna-samples-chlamydomonas-spp-to-test-annea-cr5fv83n | Richard W Lambrecht, Manuela Spagnuolo | TITLE: PCR on DNA samples (Chlamydomonas spp.) to test annealing temperature for the primers
AUTHORS: Richard W Lambrecht, Manuela Spagnuolo
[DESCRIPTION]
Protocol developed to test the annealing temperature of primers (ITS, rbcL and 18S regions).
[STEPS]
SECTION: Initial observations
1. Make sure you had appropriate... | ["[Initial observations] Make sure you had appropriate training/introduction to the laboratories and machines (From Dr. Epp)", "[Initial observations] Book the laboratory benches and machines in advance", "[Initial observations] Respect the rules for each laboratory and the transit between the laboratories", "[Pre-PCR ... |
49,826 | Protein interaction network analysis for Mendelian diseases | 1 | dx.doi.org/10.17504/protocols.io.buwanxae | https://www.protocols.io/view/protein-interaction-network-analysis-for-mendelian-buwanxae | Nikoleta Vavouraki, James E. Tomkins, Eleanna Kara, Henry Houlden, John Hardy, Marcus J. Tindall, Patrick A. Lewis, Claudia Manzoni | TITLE: Protein interaction network analysis for Mendelian diseases
AUTHORS: Nikoleta Vavouraki, James E. Tomkins, Eleanna Kara, Henry Houlden, John Hardy, Marcus J. Tindall, Patrick A. Lewis, Claudia Manzoni
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the steps to use exp... | ["[Generation of PPI network]\nSelect the protein products of genes relevant for disease (seeds).", "[Generation of PPI network]\nUse the selected seeds as input to query the PINOT webtool (Tomkins et al., 2020) [http://www.reading.ac.uk/bioinf/PINOT/PINOT_form.html] or any other webtool that retrieves protein intera... |
86,925 | Assocation of serum galectin-3 levels with survival and cardiovascular disease in dialysis patients: a systematic review and dose-response meta-analysis | 1 | dx.doi.org/10.17504/protocols.io.j8nlkooxxv5r/v1 | https://www.protocols.io/view/assocation-of-serum-galectin-3-levels-with-surviva-cy5mxy46 | Ioannis Bellos, Vassiliki Benetou | TITLE: Assocation of serum galectin-3 levels with survival and cardiovascular disease in dialysis patients: a systematic review and dose-response meta-analysis
AUTHORS: Ioannis Bellos, Vassiliki Benetou
[DESCRIPTION]
The present systematic review and meta-analysis aims to determine the association of serum galectin-3 ... | ["Objective To determine the association of serum galectin-3 levels with survival and cardiovascular disease in patients undergoing maintenance hemodialysis.", "Eligibility criteria The population of the study will consist of adults with diagnosed stage 5 chronic kidney disease, necessitating renal replacement therapy ... |
62,931 | Gorilla Flow Reviews Price Benefits and Buy It! | 1 | dx.doi.org/10.17504/protocols.io.q26g74wp8gwz/v1 | https://www.protocols.io/view/gorilla-flow-reviews-price-benefits-and-buy-it-b9ptr5nn | Gorilla Flow | TITLE: Gorilla Flow Reviews Price Benefits and Buy It!
AUTHORS: Gorilla Flow
[DESCRIPTION]
Gorilla Flow Reviews
[STEPS]
1. Gorilla Flow Review
Gorilla Flow Various men experience issues while performing on the bed due to a shortfall of essentialness and quality. These issues impact your conviction as well as impact ... | ["Gorilla Flow Review\n\nGorilla Flow Various men experience issues while performing on the bed due to a shortfall of essentialness and quality. These issues impact your conviction as well as impact your veneration life. You are not prepared to convey the norm of execution expected by your assistant who prompts relatio... |
27,388 | Tissue Procurement: Fixation with 10% NBF | 1 | dx.doi.org/10.17504/protocols.io.6y4hfyw | https://www.protocols.io/view/tissue-procurement-fixation-with-10-nbf-6y4hfyw | Kerry Wiles | TITLE: Tissue Procurement: Fixation with 10% NBF
AUTHORS: Kerry Wiles
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Excess tissue material, not necessary for patient diagnosis or pathological assessment, is collected under a waiver of consent or from patients who have consented to a research stud... | ["[Procurement]\nResearch samples are to remain on wet ice until dissection occurs. Tissues should never be allowed to desiccate or become contaminated by surrounding tissue or other donors. Therefore, working quickly and safely is critical.", "[Procurement]\nWorking with one anatomic site and tissue type at a time, re... |
null | null | null | dx.doi.org/10.17504/protocols.io.et4beqw | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong>Materials:</strong><br /><br /></p>
<ol>
<li>Virus prep.</li>
<li>Lysing Solution (LS).</li>
<li>5M Sodium Perchlorate (SP).</li>
<li>Mercaptoethanol.</li>
<li>Ethanol 76% & 95%.</li>
<li>Phenol – [Chloroform: isoamyl alcohol (25:1)] in the proportion equal to 1:1 ... | [] |
31,404 | Plasmid Modification by Annealed Oligo Cloning | null | dx.doi.org/10.17504/protocols.io.bawkifcw | null | Addgene the nonprofit plasmid repository | TITLE: Plasmid Modification by Annealed Oligo Cloning
AUTHORS: Addgene the nonprofit plasmid repository
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes plasmid modification by annealed oligo cloning. To see the full abstract and additional resources, please visit the </... | ["[Designing overlapping oligos]\nBriefly, we will design overlapping oligos that once annealed can be cloned directly into the overhangs generated by restriction digest of existing sites in the original vector.To add NdeI, PacI, AscI and MfeI sites between the EcoRI and SalI sites of the vector, we design a top oligo ... |
50,200 | High Molecular Weight DNA Extraction From Leaf Tissue | 4 | null | https://www.protocols.io/view/high-molecular-weight-dna-extraction-from-leaf-tis-bu9ynz7w | Patricia Lu-Irving, Susan Rutherford | TITLE: High Molecular Weight DNA Extraction From Leaf Tissue
AUTHORS: Patricia Lu-Irving, Susan Rutherford
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>A protocol designed for isolation and purification of high molecular weight genomic DNA from ~1g of vascular plant leaf tissue, for linked ... | ["[SPRI bead cleanup]\nPreheat 10mM Tris-HCl, pH 8 to 50°C. Make fresh 70% EtOH.", "[SPRI bead cleanup]\nAdd 1x volume of washed beads to 1x volume of DNA.", "[SPRI bead cleanup]\nIncubate 10 minutes at room temperature, gently inverting the tubes periodically.", "[SPRI bead cleanup]\nTouch spin in desktop centrifuge t... |
49,861 | 3-level sci RNA-Seq with FACS | 1 | dx.doi.org/10.17504/protocols.io.buxdnxi6 | https://www.protocols.io/view/3-level-sci-rna-seq-with-facs-buxdnxi6 | David Fraser Read, Cole Trapnell | TITLE: 3-level sci RNA-Seq with FACS
AUTHORS: David Fraser Read, Cole Trapnell
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol is a variation on "3 level sci RNA-Seq", presented on protocols.io at (</span><a href="https://www.protocols.io/view/sci-rna-seq3-9yih7ue" style = "text-... | ["[Buffer Preparation]\nNuclei Buffer: 10 mM Tris HCl, 10 mM NaCl, 3 mM MgCl2 in nuclease-free waterStore at 4C.", "[Buffer Preparation]\nNuclei suspension buffer (NSB).Prepare at least 1.7 mL per sample, plus 3 mL per RT plate and 1 mL per ligation plate. For every 1 mL. 1 mL Nuclei Buffer (10 mM Tris HCl pH 7.4, 10 m... |
null | null | null | dx.doi.org/10.17504/protocols.io.q8edzte | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A protocol for quantification of circulating microRNA using droplet digital PCR with TaqMan assays.</p>
<p>MicroRNAs are purified from platelet-poor plasma using Nucleospin columns</p>
<p>During the purification step samples are spiked with cel-miR-39 as a mean of technical n... | [] |
64,270 | Data analysis | 1 | dx.doi.org/10.17504/protocols.io.x54v9yowqg3e/v1 | https://www.protocols.io/view/data-analysis-caznsf5e | geoffrey.pages | TITLE: Data analysis
AUTHORS: geoffrey.pages
[DESCRIPTION]
This data analysis was used for the study.
[STEPS]
1. Statistical analysis for PreTPA was performed using ANOVA measures.
Statistical analysis for PostTPA, ReTPA, ModTPA, and bone healing was performed using non-parametric Friedman’s test.
Interobserver v... | ["Statistical analysis for PreTPA was performed using ANOVA measures.\n\nStatistical analysis for PostTPA, ReTPA, ModTPA, and bone healing was performed using non-parametric Friedman’s test.\n\nInterobserver variability was estimated by the standard deviation of the observers’ mean measurements of TPA per dog.\n\nStati... |
101,973 | Dissociation of EBs using Worthington Kit | 0 | dx.doi.org/10.17504/protocols.io.j8nlk8dbxl5r/v1 | https://www.protocols.io/view/dissociation-of-ebs-using-worthington-kit-dftv3nn6 | Niraj Sawarkar, Regine Tipon, Gist Croft | TITLE: Dissociation of EBs using Worthington Kit
AUTHORS: Niraj Sawarkar, Regine Tipon, Gist Croft
[DESCRIPTION]
Dissociation of EBs using papain
[STEPS]
SECTION: Reagent prep
1. Add 32 ml of EBSS to the albumin ovomucoid inhibitor
pipet to dissolve
SECTION: Reagent prep
5. Bring CMF-PBS + Glucose (1 X PBS Ca2+/Mg2... | ["[Reagent prep] Add 32 ml of EBSS to the albumin ovomucoid inhibitor\npipet to dissolve", "[Reagent prep] Bring CMF-PBS + Glucose (1 X PBS Ca2+/Mg2+\nFree) + 12.5 ml of 1M Glucose (Ratio of 1:40)", "[Reagent prep] Add 5 ml of EBSS to a papain vial. Place in a 37°C water bath for 10-15 min mins until the papain is com... |
102,873 | HCR in the larval zebrafish eye | 0 | null | https://www.protocols.io/view/hcr-in-the-larval-zebrafish-eye-dgpz3vp6 | Stephen Carter | TITLE: HCR in the larval zebrafish eye
AUTHORS: Stephen Carter
[DESCRIPTION]
This protocol describes hybridisation chain reaction (HCR) in situs in the eyes of zebrafish larvae >4 dpf. It is broadly the same as the standard protocol from molecular instruments, with modifications to improve staining in the eye. This is... | ["[Sample Preparation] Raise larvae in embryo medium containing 0.003% of 1-phenyl 2-thiourea (PTU) to inhibit pigment development. Alternatively, bleaching with H2O2 can be performed post fixation, however our experience has so far been that better quality images are obtained with PTU-treated fish. \n\nPTU cannot comp... |
52,915 | Myocarditis following mRNA Covid-19 vaccination: a pooled analysis | 1 | dx.doi.org/10.17504/protocols.io.bxwtppen | https://www.protocols.io/view/myocarditis-following-mrna-covid-19-vaccination-a-bxwtppen | Ioannis Bellos | TITLE: Myocarditis following mRNA Covid-19 vaccination: a pooled analysis
AUTHORS: Ioannis Bellos
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Vaccination against SARS-CoV-2 has emerged as the main tool to confront the Covid-19 pandemic. However, concerns were raised about potential adverse effec... | ["Objective To gather current evidence regarding the occurrence of myocarditis associated with vaccination against SARS-CoV-2 (Severe Acute Respiratory Syndrome Coronavirus-2) with mRNA vaccines.", "Study design Systematic review and pooled analysis using individual participant data", "Data sources Medline, Scopus, Web... |
76,922 | Oportunidades perdidas na prevenção e diagnóstico da tuberculose pediátrica; uma revisão de escopo | 1 | dx.doi.org/10.17504/protocols.io.x54v9dwwmg3e/v2 | https://www.protocols.io/view/oportunidades-perdidas-na-preven-o-e-diagn-stico-d-cpc2viye | Daniela Russo | TITLE: Oportunidades perdidas na prevenção e diagnóstico da tuberculose pediátrica; uma revisão de escopo
AUTHORS: Daniela Russo
[DESCRIPTION]
Apesar de sua origem milenar, a tuberculose (TB) continua sendo um importante problema de saúde pública. Na população pediátrica a prevenção e diagnóstico da TB é considerado ... | ["Oportunidades perdidas na prevenção e diagnóstico da tuberculose pediátrica; uma revisão de escopo"] |
43,768 | Copy of Cell preparation for scRNA-Seq from diluted bodily fluids | 1 | null | https://www.protocols.io/view/copy-of-cell-preparation-for-scrna-seq-from-dilute-bnyymfxw | Linas Mazutis, Vaidotas Kiseliovas, Adrienne Boire | TITLE: Copy of Cell preparation for scRNA-Seq from diluted bodily fluids
AUTHORS: Linas Mazutis, Vaidotas Kiseliovas, Adrienne Boire
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify">Efficient isolation of cells from complex bodily fluids is a crucia... | ["[Sample retrieval]\nCollect the bodily fluid following the protocol of choice (e.g. retrieval of cerebrospinal fluid).Typically one could expect to have 3-5 ml of starting fluid.", "[Concentrating cells]\nDivide the fluid from step #1 to microcentrifuge tubes at 0.5 ml per tube.Note: When working with large volume >5... |
53,874 | Full plate & spot test plaque assays + PFU/mL calc. - anaerobic/slow growing bacteria | 4 | dx.doi.org/10.17504/protocols.io.byuspwwe | https://www.protocols.io/view/full-plate-amp-spot-test-plaque-assays-pfu-ml-calc-byuspwwe | Torben Sølbeck Rasmussen | TITLE: Full plate & spot test plaque assays + PFU/mL calc. - anaerobic/slow growing bacteria
AUTHORS: Torben Sølbeck Rasmussen
[DESCRIPTION]
Protocol for plaque assays - either a full plate plaque assay that are more laborious but with high accuracy, or a spot test plaque assay that are for higher throughput but ... | ["[Initial preparation of bacterial culture] Inside anaerobic chamber, spread bacterial culture on an agar plate and incubate under anaerobic conditions (e.g. an incubation jar with an anaerobic sachet) at required temperature until clear colonies appear. All handling during this protocol of the bacteria should be insi... |
64,599 | MDM culture | 4 | dx.doi.org/10.17504/protocols.io.14egn7rzyv5d/v1 | https://www.protocols.io/view/mdm-culture-cbbxsipn | Arpine Sokratian, enquan.xu | TITLE: MDM culture
AUTHORS: Arpine Sokratian, enquan.xu
[DESCRIPTION]
This protocol details the steps for isolation of PBMC from donors’ buffy coat and differentiation protocol into MDM cells. We use this MDM model to investigate the immune cellular uptake and proinflammatory response upon treatment with alpha-synucle... | ["Use the buffy coat transported from Red blood cross center (on ice, ).", "Dilute blood with an equal amount of with 2% Fetal Bovine Serum (PBS + 2% )", "Transfer the blood on top of Lymphoprep™ in the 50-ml", "Centrifuge at 1200 x g for 20 min Room temperature (15 - 25°C), with the brake on. If the blood has ... |
null | null | null | dx.doi.org/10.17504/protocols.io.drc52v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol is from:<br /><br />Hans-W. Ackermann and Mikal Heldal. 2010. Chapter 18: Basic electron microscopy of aquatic viruses. Manual of Aquatic Viral Ecology. Waco, TX:American Society of Limnology and Oceanography. doi:10.4319/mave.2010.978-0-9845591-0-7<br /><br /> Ple... | [] |
19,295 | Vagus Nerve Recordings Using Carbon Fiber Microelectrode Array (CFMA) | 1 | dx.doi.org/10.17504/protocols.io.w37fgrn | https://www.protocols.io/view/vagus-nerve-recordings-using-carbon-fiber-microele-w37fgrn | Ahmad Jiman, Elissa Welle, Paras Patel, David Ratze, Elizabeth Bottorff, Julianna Richie, Zhonghua Ouyang, Dongxiao Yan, John Seymour, Cynthia Chestek, Tim Bruns | TITLE: Vagus Nerve Recordings Using Carbon Fiber Microelectrode Array (CFMA)
AUTHORS: Ahmad Jiman, Elissa Welle, Paras Patel, David Ratze, Elizabeth Bottorff, Julianna Richie, Zhonghua Ouyang, Dongxiao Yan, John Seymour, Cynthia Chestek, Tim Bruns
[DESCRIPTION]
The carbon fiber microelectrode array (CFMA) has demonst... | ["[Potassium Chloride Solution] 0.3 mL of potassium chloride (KCl) solution is prepared at a concentration of 2 mEq/mL.", "[Anesthesia] The animal (Sprague-Dawley female rat) is anesthetised with an intraperitoneal injection of ketamine (90 mg/kg) and xylazine (10 mg/kg). Anesthesia is maintained with a ketamine (30 mg... |
77,731 | A GIS workflow for the identification of corridors of geomorphic river recovery across landscapes | 1 | dx.doi.org/10.17504/protocols.io.n2bvj8625gk5/v2 | https://www.protocols.io/view/a-gis-workflow-for-the-identification-of-corridors-cp6bvran | Danelle Agnew, Bradley Graves, Kirstie Fryirs | TITLE: A GIS workflow for the identification of corridors of geomorphic river recovery across landscapes
AUTHORS: Danelle Agnew, Bradley Graves, Kirstie Fryirs
[DESCRIPTION]
The provision of a simplified GIS workflow to analyse the Open Access NSW River Styles database provides non-technical GIS users in river managem... | ["[A. Preliminary Steps] Combine selected River Styles (RS) datasets.\n\nMerge [Data Management] > Input dataset (selected coastal River Styles polyline feature classes) > Output dataset (Coast_RS).", "[A. Preliminary Steps] Extract freshwater reaches. Using (Coast_RS), select all freshwater reaches, by removing all ti... |
69,464 | A tri-specific killer engager (TriKE) against mesothelin targets NK cells towards lung cancer | 2 | dx.doi.org/10.17504/protocols.io.5qpvorx29v4o/v1 | https://www.protocols.io/view/a-tri-specific-killer-engager-trike-against-mesoth-cf3ytqpw | 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... | [] |
66,348 | Kelly Clarkson CBD Gummies- The Purely Concentrated CBD Product to Lose Pains! | 1 | dx.doi.org/10.17504/protocols.io.bp2l6161rvqe/v1 | https://www.protocols.io/view/kelly-clarkson-cbd-gummies-the-purely-concentrated-cc2ksycw | kellyclarksongummiesread , Cannaleafz CBD Gummies | TITLE: Kelly Clarkson CBD Gummies- The Purely Concentrated CBD Product to Lose Pains!
AUTHORS: kellyclarksongummiesread , Cannaleafz CBD Gummies
[DESCRIPTION]
Kelly Clarkson CBD Gummies- The Purely Concentrated CBD Product to Lose Pains!
[STEPS]
SECTION: Kelly Clarkson CBD Gummies- The Purely Concentrated CBD Prod... | ["[Kelly Clarkson CBD Gummies- The Purely Concentrated CBD Product to Lose Pains! Kelly Clarkson CBD Gummies Reviews- The verity that the true wealth we've is our health is known to numerous, but many know the true meaning of it and realize it in the true sense of the word. What causes so important joint pain is ... |
89,309 | Isolation and culture of primary mouse brain microvascular endothelial cells | 4 | dx.doi.org/10.17504/protocols.io.81wgbx51ylpk/v1 | https://www.protocols.io/view/isolation-and-culture-of-primary-mouse-brain-micro-c3f5yjq6 | barbara | TITLE: Isolation and culture of primary mouse brain microvascular endothelial cells
AUTHORS: barbara
[DESCRIPTION]
Immunofluorescent characterization of BMECs. The isolated BMECs were 95% positive for CD31(red), confirming the epithelial nature of these cells.
[STEPS]
1.
2. Isolation and culture of primary mouse b... | ["Isolation and culture of primary mouse brain microvascular endothelial cells\n\nMouse brain microvascular endothelial cells (BMECs) were prepared from 2-week-old C57BL/6 mice as previously recommended [81]. Mice was soaked in 75% ethanol to disinfect 5 min after the cervical dislocation, then mice brains were removed... |
97,030 | Quantitative targeted metabolomics for ASO mouse model using Biocrates Q500 Platform | 0 | dx.doi.org/10.17504/protocols.io.261ge5pwyg47/v1 | https://www.protocols.io/view/quantitative-targeted-metabolomics-for-aso-mouse-m-daze2f3e | Siamak MahmoudianDehkordi | TITLE: Quantitative targeted metabolomics for ASO mouse model using Biocrates Q500 Platform
AUTHORS: Siamak MahmoudianDehkordi
[DESCRIPTION]
Using Biocrates MxP‱ -Q500 kit (BIOCRATES Life Science AG, Innsbruck, Austria) which is a commercially available targeted metabolomics platforms, we measured 634 metabolites acr... | ["[Sample Preparation] Plasma samples were centrifuged, and the supernatant was used for analysis.", "[Sample Preparation] Brain, colon, and duodenum tissue samples were first suspended in 3 μL ethanol/phosphate buffer per mg tissue wet weight.", "[Sample Preparation] The samples were then sonicated, vortexed and homog... |
null | null | null | dx.doi.org/10.17504/protocols.io.pmjdk4n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Cognitive theories of depression posit that negative schemata constrain how emotional information is attended to, processed and recollected (Beck et al., 1979). Numerous studies have demonstrated an association between acute depression and preferential processing of negat... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ihjcb4n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The kit is designed for the isolation of human memory CD8 T cells from PBMC. Target cells are depleted by incubating the sample with the biotin antibody cocktail followed by incubation with magnetic Streptavidin Nanobeads. The magnetically labeled fraction is retained by the ... | [] |
68,954 | Nuclei isolation from human CNS samples using NUC201 isolation kit from Sigma-Aldrich for 10X single nuclei RNA sequencing | 4 | dx.doi.org/10.17504/protocols.io.261genq1og47/v1 | https://www.protocols.io/view/nuclei-isolation-from-human-cns-samples-using-nuc2-cfj2tkqe | Luise Seeker, Sarah Jäkel, Anna Williams | TITLE: Nuclei isolation from human CNS samples using NUC201 isolation kit from Sigma-Aldrich for 10X single nuclei RNA sequencing
AUTHORS: Luise Seeker, Sarah Jäkel, Anna Williams
[DESCRIPTION]
Because retrieval of an unbiased group of viable cells from post-mortem human CNS is very challenging if not impossible to ... | ["Retrieve cryosectioned tissue (we use 20 micrometre thickness) from freezer and place in Laminar flow hood. Space slides out so that they can thaw and dry. This will take ~ 20 min.", "Prepare three 1.5 ml low binding microcentrifuge tubes (see materials section) per sample and label them.", "Use razor blades (see mat... |
89,214 | Human Adipose Sample Collection Protocol -- University of Minnesota TMCs | 1 | dx.doi.org/10.17504/protocols.io.e6nvwdz3dlmk/v1 | https://www.protocols.io/view/human-adipose-sample-collection-protocol-universit-c3c6yize | Laura J Niedernhofer, David A Bernlohr | TITLE: Human Adipose Sample Collection Protocol -- University of Minnesota TMCs
AUTHORS: Laura J Niedernhofer, David A Bernlohr
[DESCRIPTION]
Collection protocol obtained from the attached BioNet Specimen Procurement Agreement provided by the UMN CTSI Biorepository and Laboratory Services (BLS).
[STEPS]
SECTION... | ["[Preparation] Patient Identification: As soon as a patient is scheduled, the research team will email bionet@umn.edu a completed Specimen Procurement Request Form.", "[Preparation] Patient Consent: Researcher consents. The original signed consent form will be placed in the patient chart and scanned into Epic. BioNet ... |
null | null | null | dx.doi.org/10.17504/protocols.io.pqadmse | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Each P-RANbody consists of a HRP reporter and a nanobody that binds to antigen(s). This is a protocol to stain cells and tissues with P-RANbodies. The method is similar to common immunostaining protocols. However, this protocol focuses on some important tips. </p>
<p> </p>
... | [] |
94,246 | Protocol4_HEK293TCellLysate_WithSerumStarvation.pdf | 1 | dx.doi.org/10.17504/protocols.io.x54v9pnzqg3e/v1 | https://www.protocols.io/view/protocol4-hek293tcelllysate-withserumstarvation-pd-c8aezsbe | angelica.gonzalez | TITLE: Protocol4_HEK293TCellLysate_WithSerumStarvation.pdf
AUTHORS: angelica.gonzalez
[DESCRIPTION]
HEK293TCellLysate_WithSerumStarvation
[STEPS] | [] |
22,024 | Extracting Biological Age from Biomedical Data Using Artificial Intelligence | null | dx.doi.org/10.17504/protocols.io.zrgf53w | null | Cathy Miller | TITLE: Extracting Biological Age from Biomedical Data Using Artificial Intelligence
AUTHORS: Cathy Miller
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Recently, in a research report published in </span><span style = "font-style:italic;">Scientific Reports</span><span>, researchers from inst... | [] |
69,385 | How to design a study flow chart | 1 | null | https://www.protocols.io/view/how-to-design-a-study-flow-chart-cfzhtp36 | Tracey L Weissgerber, René Bernard, Friederike E Kohrs | TITLE: How to design a study flow chart
AUTHORS: Tracey L Weissgerber, René Bernard, Friederike E Kohrs
[DESCRIPTION]
Flow charts can be used in human, animal and in vitro studies, as well as systematic reviews, to illustrate attrition or loss of observation. Flow charts provide a visual overview of the study design, ... | ["[Choose the scenario that best fits your study design] Which scenario describes your study?\n\nScenario 1: Many steps (screening/selection, preparation, experimental) and one group. Common examples of this scenario include systematic reviews or meta-analyses and epidemiological cohort studies.\n Go to Step 2 and fo... |
66,328 | Select Keto(Dragons Den Keto) REVIEWS 2022,BHB Supplement For Insurmountable Success Having Loss Fat Faster! | 4 | dx.doi.org/10.17504/protocols.io.5jyl89z58v2w/v1 | https://www.protocols.io/view/select-keto-dragons-den-keto-reviews-2022-bhb-supp-cczysx7w | SelectKetodiet | TITLE: Select Keto(Dragons Den Keto) REVIEWS 2022,BHB Supplement For Insurmountable Success Having Loss Fat Faster!
AUTHORS: SelectKetodiet
[DESCRIPTION]
Select Keto
[STEPS]
1. Select Keto is a heaviness-loss product called a keto eating regimen tablet. It is to be had in a grouping. These nutritional supplements ... | ["Select Keto is a heaviness-loss product called a keto eating regimen tablet. It is to be had in a grouping. These nutritional supplements will help you obtain ketosis, that could be a metabolic kingdom that reasons your frame to burn fats continuously. You might also word a decrease in your weight.\n\nYou will conti... |
null | null | null | dx.doi.org/10.17504/protocols.io.dev3e5 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
For <a href="https://www.protocols.io/view/Transcriptomics-During-One-Step-Growth-Curves-for-dem3c5" target="_blank">Transcriptomics During One-Step Growth Curves for Cellulophaga Phages protocol</a>.
[STEPS]
?.
?.
?.
?.
?. | [] |
107,066 | How to feed Nellie and Mira (or any two cats) | 0 | null | https://www.protocols.io/view/how-to-feed-nellie-and-mira-or-any-two-cats-dks24wge | Gabriel Rocha | TITLE: How to feed Nellie and Mira (or any two cats)
AUTHORS: Gabriel Rocha
[DESCRIPTION]
My cats Nellie and Mira have developed an annoying habit of wanting to eat different amount of food, at different times. This is the best way to make sure they both eat everything in one go so I don't have to worry about one of t... | ["[Preparing the food mat] Get food mats likely on the floor of the living room and clean leftover food with soap and a scrub", "[Preparing the food mat] Dry the silicone mat, especially the underside to prevent mould growth", "[Preparing the food] Grab wet food can from cabinet above fridge and open the container", "[... |
89,870 | Introducing GolgiTAG to Cells and Immunoprecipitation of Golgi | 4 | dx.doi.org/10.17504/protocols.io.6qpvrdjrogmk/v2 | https://www.protocols.io/view/introducing-golgitag-to-cells-and-immunoprecipitat-c3znyp5e | Rotimi Y. Fasimoye, Dario R. Alessi | TITLE: Introducing GolgiTAG to Cells and Immunoprecipitation of Golgi
AUTHORS: Rotimi Y. Fasimoye, Dario R. Alessi
[DESCRIPTION]
Golgi apparatus is essential to the secretory pathway of the cell and by extension helps to maintain cellular homeostasis. It is the main transportation hub of the cell, where molecules dest... | ["[Packaging GolgiTag and ControlTag construct into lentivirus system]", "[Packaging GolgiTag and ControlTag construct into lentivirus system] Grow 2 dishes of HEK293FT cells to 50-60% confluency in Growth media in 10cm Petri Dish.", "[Packaging GolgiTag and ControlTag construct into lentivirus system] Prepare a transf... |
79,610 | Purification and analysis of SKP1-FBXO7 complexes | 4 | dx.doi.org/10.17504/protocols.io.6qpvr4z4ogmk/v1 | https://www.protocols.click/view/purification-and-analysis-of-skp1-fbxo7-complexes-cry2v7ye | Frank Adolf, Brenda A. Schulman | TITLE: Purification and analysis of SKP1-FBXO7 complexes
AUTHORS: Frank Adolf, Brenda A. Schulman
[DESCRIPTION]
Protocol for the biochemical purification and analysis of SKP1-FBXO7 complexes
[GUIDELINES]
Please wear appropriate PE while performing the experiment.
Please familiarise yourself with the laboratory safety... | ["[Molecular biological methods and protein expression] Grow E.coli cultures in Terrific Broth (TB) medium at 37°C.\nAt OD600 of 0.8, induce expression with 0.5mM IPTG.\nContinue growing the E.coli culture for 16h at 18°C.", "[Analytical size exclusion chromatography (SEC)] Analytical SEC was carried out on an ÄKTApure... |
28,567 | A method for the permeabilization of live Drosophila melanogaster larvae to small molecules and cryoprotectants | null | dx.doi.org/10.17504/protocols.io.75xhq7n | null | Alex Murray, Daniel Palmer, Daimark Bennett, Venkata Dwarampudi, João Pedro de Magalhães1 | TITLE: A method for the permeabilization of live Drosophila melanogaster larvae to small molecules and cryoprotectants
AUTHORS: Alex Murray, Daniel Palmer, Daimark Bennett, Venkata Dwarampudi, João Pedro de Magalhães1
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The larvae of </span><span s... | [] |
80,409 | SARS-COV-2 Main Protease (Mpro) Fluorescence Dose Response | 1 | null | https://www.protocols.io/view/sars-cov-2-main-protease-mpro-fluorescence-dose-re-csrzwd76 | Haim Barr, Noa Lahav | TITLE: SARS-COV-2 Main Protease (Mpro) Fluorescence Dose Response
AUTHORS: Haim Barr, Noa Lahav
[DESCRIPTION]
This is a functional, biochemical assay used to identify treatments for viral infectious disease that target SARS-COV-2 Main Protease (MPro).
Utilizing a direct enzyme activity measurement method, the experi... | ["[Prepare 384 Well Plate] PRIME Multi-Drop Combi Tube Dispensing Cassette with Assay Buffer by selecting the PRIME button on the Combi Dispenser until the tubes are filled completely.", "PRIME Multi-Drop Combi Tube Dispensing Cassette with 10 nanomolar (nM) by selecting the PRIME button on the Combi Dispenser until th... |
99,713 | DiI Labelling with a Paintbrush: a Low-cost Alternative to DiOlistic Labelling in Neurons | 0 | dx.doi.org/10.17504/protocols.io.dm6gpzjr1lzp/v1 | https://www.protocols.io/view/dii-labelling-with-a-paintbrush-a-low-cost-alterna-ddk924z6 | Stephanie J. Huang, Joyce Colussi-Mas, Bart A. Ellenbroek | TITLE: DiI Labelling with a Paintbrush: a Low-cost Alternative to DiOlistic Labelling in Neurons
AUTHORS: Stephanie J. Huang, Joyce Colussi-Mas, Bart A. Ellenbroek
[DESCRIPTION]
DiOlistic labelling is a high-throughput technique commonly used to label neurons in fixed brain tissue using the fluorescent lipophilic carb... | ["[DiI Preparation] Make the DiI stock solution (recipe for 40 mL of0.15 mg/mL)", "[DiI Preparation] Combine the following in a falcon tube.\n 6 mg of DiI crystals\n 40 mL of 100% Ethanol", "[DiI Delivery] Remove the fixed tissue slice from the PBS and place it onto a clean, dry surface (e.g., a glass petri dish or a w... |
71,155 | Protocol of An Indirect Comparison of Efficacy including Histologic Assessment and Safety in Biologic Agents in Ulcerative Colitis: Systematic Review and Network Meta-analysis | 1 | null | https://www.protocols.io/view/protocol-of-an-indirect-comparison-of-efficacy-inc-chqtt5wn | ksun.chae, Yeon Sook Seo, Yun Mi Yu, Min Jung Chang, Junjeong Choi | TITLE: Protocol of An Indirect Comparison of Efficacy including Histologic Assessment and Safety in Biologic Agents in Ulcerative Colitis: Systematic Review and Network Meta-analysis
AUTHORS: ksun.chae, Yeon Sook Seo, Yun Mi Yu, Min Jung Chang, Junjeong Choi
[DESCRIPTION]
Currently, treatment targets of ulcerative col... | ["[Backgroud] Currently, treatment targets of ulcerative colitis (UC) are defined as clinical remission and endoscopic improvement. However, there is debate over whether histologic target should also be considered as an additional treatment target. Multiple studies indicate histologic target as an important prognostic ... |
72,190 | Protocol 2: Culturing Spizellomyces punctatus (Sp) prior to transformation day | 4 | dx.doi.org/10.17504/protocols.io.36wgqjjnxvk5/v1 | https://www.protocols.io/view/protocol-2-culturing-spizellomyces-punctatus-sp-pr-ciq6udze | Sarah M Prostak, Edgar M Medina, Erik Kalinka, Lillian Fritz-Laylin | TITLE: Protocol 2: Culturing Spizellomyces punctatus (Sp) prior to transformation day
AUTHORS: Sarah M Prostak, Edgar M Medina, Erik Kalinka, Lillian Fritz-Laylin
[DESCRIPTION]
In order to increase transformation efficiency, a more synchronous culture of Sp is needed. This process involves subculturing active Sp plate... | ["[Steps] Flood enough active Sp plates each with 1 mL of DS to fit your needs.", "[Steps] Holding the plate at an angle, gently wash the DS over the agar.", "[Steps] Collect all zoospores into a 50 mL conical.", "[Steps] Filter all zoospores into a new 50 mL conical using the sterile 25 mm syringe filter preloaded wit... |
92,644 | Open Field Behavior with head-mount | 1 | dx.doi.org/10.17504/protocols.io.q26g7pnk9gwz/v1 | https://www.protocols.io/view/open-field-behavior-with-head-mount-c6qczdsw | Jonathan Tang | TITLE: Open Field Behavior with head-mount
AUTHORS: Jonathan Tang
[DESCRIPTION]
Mouse behavior testing open field protocol and calibration information for Tang et al 2023.
[GUIDELINES]
Full Calibration Information:
Calibration. To ensure sensor stability within sessions, several approaches were employed.Firs... | ["[Habituation] One-month post-surgery, mice were habituated to head-mounted equipment over 2 days in their home cages.", "[Habituation] On day 1, an actual or mock wireless inertial sensor (~2.5 cm H x 1 cm L x 0.5 cm W with ~ 2.5-3.0 cm antennae, ~1.8 g weight) glued to the 4-position connector (Harwin Inc., M52-0400... |
84,316 | INJECTION MOLDING TECHNIQUE FOR THE BLACK TRIANGLE CLOSURE | 4 | dx.doi.org/10.17504/protocols.io.5qpvo35obv4o/v1 | https://www.protocols.click/view/injection-molding-technique-for-the-black-triangle-cwj4xcqw | Álvaro Ferrando Cascales, Antonio Mendoza Rodriguez, Rubén Agustín-Panadero, José Amengual Lorenzo, Salvatore Sauro, Raúl Ferrando Cascales, Ronaldo Hirata, David Clark | TITLE: INJECTION MOLDING TECHNIQUE FOR THE BLACK TRIANGLE CLOSURE
AUTHORS: Álvaro Ferrando Cascales, Antonio Mendoza Rodriguez, Rubén Agustín-Panadero, José Amengual Lorenzo, Salvatore Sauro, Raúl Ferrando Cascales, Ronaldo Hirata, David Clark
[DESCRIPTION]
The treatment of open gingival embrasures area, also known a... | ["[Description of the technique] Pre-treatment analysis of the gingival embrasure area and selection of the corresponding bioclear black triangle (BT) matrix.", "[Description of the technique] Smoothing and relief of the interdental contact points.", "[Description of the technique] This second step consists of checking... |
42,234 | MAIT Cell Intracellular Cytokine Staining | 4 | dx.doi.org/10.17504/protocols.io.bmg2k3ye | https://www.protocols.io/view/mait-cell-intracellular-cytokine-staining-bmg2k3ye | Timothy S C Hinks, Bonnie van Wilgenburg, Huimeng Wang, Liyen Loh, Marios Koutsakos, Katherine Kedzierska, Alexandra J. Corbett, Zhenjun Chen | TITLE: MAIT Cell Intracellular Cytokine Staining
AUTHORS: Timothy S C Hinks, Bonnie van Wilgenburg, Huimeng Wang, Liyen Loh, Marios Koutsakos, Katherine Kedzierska, Alexandra J. Corbett, Zhenjun Chen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is part 3.5 of the "Study of MAIT Cell Activati... | ["[To analyze MAIT cell frequencies and function during viral infection.]\nPrewarm collagenase media and shaking incubator to .\n37 °C", "[To analyze MAIT cell frequencies and function during viral infection.]\nMice should be euthanized (e.g., using a rising concentration of CO2 with a second method to confirm death)."... |
70,131 | Ensuring accurate co-registration measurement for quality control of Single Point Confocal Laser Scanning Microscopes - V1 | 1 | dx.doi.org/10.17504/protocols.io.q26g7yrj8gwz/v1 | https://www.protocols.io/view/ensuring-accurate-co-registration-measurement-for-cgqttvwn | Aurelien Dauphin, Maria Azevedo, Aidan Boyce, Fabrice Cordelières, Herlinde De Keersmaecker, Frank Eismann, Orestis Faklaris, Hans Fried, David Grunwald, Christian Kukat, Pascal Lorentz, Tobie Martens, Ileana Micu, Roland Nitschke, John Oreopoulos, Allister DA Pattison, Alex L Payne-Dwyer, Vincent VTG Schoonderwoert, C... | TITLE: Ensuring accurate co-registration measurement for quality control of Single Point Confocal Laser Scanning Microscopes - V1
AUTHORS: Aurelien Dauphin, Maria Azevedo, Aidan Boyce, Fabrice Cordelières, Herlinde De Keersmaecker, Frank Eismann, Orestis Faklaris, Hans Fried, David Grunwald, Christian Kukat, Pascal Lor... | ["[Placing the sample on the microscope] Clean the slides with only 70% ethanol prior to imaging.", "[Beads positioning on the coverslip] Using tweezers, remove a clean coverslip from its 100% ethanol storage bath. Carefully remove excess liquid with lens tissue and let the coverslip air dry while resting on another cl... |
null | null | null | dx.doi.org/10.17504/protocols.io.vcze2x6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol describes how to make an egg dechorionator using available lab equipment before describing how to successfully use the egg dechorionator to remove the outer chorion layer from a Drosophila egg.
Egg dechorionation allows cellular analysis, quantitative microinject... | ["[Making the egg dechorionator] {\"blocks\":[{\"key\":\"cgkcv\",\"text\":\"In a fume hood set up a soldering iron and leave for a few mins to heat up. When ready, carefully melt the plastic around the circumference of a 50 mL falcon tube, no more than 2 inches from bottom (fig 1). Discard the bottom of tube. Remove th... |
63,619 | Waimea Field Sampling | 1 | dx.doi.org/10.17504/protocols.io.x54v9jkq1g3e/v2 | https://www.protocols.io/view/waimea-field-sampling-cadbsa2n | Anthony Amend | TITLE: Waimea Field Sampling
AUTHORS: Anthony Amend
[DESCRIPTION]
Detailed Sampling Methods for Waimea Watershed Sampling Project
[STEPS]
1. | [] |
22,895 | SPARC Retrograde Neuroanatomical Tracing of Phrenic Motor Neurons Using Intrapleural Injections of Cholera Toxin B Fragment | null | dx.doi.org/10.17504/protocols.io.2kpgcvn | null | Latoya Allen, Marissa Ciesla, Yasin Seven, Elisa Gonzalez-Rothi, Gordon Pool | TITLE: SPARC Retrograde Neuroanatomical Tracing of Phrenic Motor Neurons Using Intrapleural Injections of Cholera Toxin B Fragment
AUTHORS: Latoya Allen, Marissa Ciesla, Yasin Seven, Elisa Gonzalez-Rothi, Gordon Pool
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the procedu... | ["Anesthesia is induced in a closed chamber (3.5%isoflurane in 100%O2) then transfered to a heated surgical station and anesthesia is maintained via nose cone at 2-2.5%", "Sterilized 25 μL Hamilton syringes with 9.52-mm sterile needles are prepared to administer CtB intrapleurally in rats.", "Cholera toxin B fragment (... |
null | null | null | dx.doi.org/10.17504/protocols.io.mspc6dn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><span lang="en"><span class="">In this protocol, the extraction of naturally occurring as well as heterologously synthesized triterpenes in <em>Synechocystis </em>and <em>R. capsulatus</em> are described</span></span></p>
[BEFORE_START]
<p>Prepare high-quality solvents (opt... | [] |
95,339 | Immunofluorescence staining ASE, vibratome sections | 1 | dx.doi.org/10.17504/protocols.io.n2bvj37zplk5/v1 | https://www.protocols.io/view/immunofluorescence-staining-ase-vibratome-sections-c9cjz2un | eduard.bentea, María Sanchiz Calvo, Veerle Baekelandt | TITLE: Immunofluorescence staining ASE, vibratome sections
AUTHORS: eduard.bentea, María Sanchiz Calvo, Veerle Baekelandt
[DESCRIPTION]
Protocol for performing immunofluorescence staining using antibody signal enhancement (ASE) on vibratome cut brain sections from rats or mice.
[STEPS]
SECTION: Day 1
1. Briefly rinse... | ["[Day 1] Briefly rinse sections in 1/2 PBS + 1/2 AD and mount on Superfrost Plus Slides.", "[Day 1] Air dry slides overnight at room temperature.", "[Day 2] 1X PBS rinse.", "[Day 2] Note: All washes performed in Tissue-Tek Staining Trays, on the wobbler. 100 mL / tray.", "[Day 2] Antigen retrieval step (using Steamer)... |
35,285 | Ruegeria pomeroyi DSS-3 gene annotations - April 2020 | null | dx.doi.org/10.17504/protocols.io.bepvjdn6 | null | Christa Smith, Mary Ann Moran | TITLE: Ruegeria pomeroyi DSS-3 gene annotations - April 2020
AUTHORS: Christa Smith, Mary Ann Moran
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-style:italic;">Ruegeria pomeroyi</span><span> DSS-3 is an alphaproteobacterium isolated in 1998 from coastal Georgia, USA, seawater... | [] |
50,460 | Cell growth and harvest for E. coli-based Cell-free Protein Synthesis | 1 | dx.doi.org/10.17504/protocols.io.bvh4n38w | https://www.protocols.io/view/cell-growth-and-harvest-for-e-coli-based-cell-free-bvh4n38w | Weston Kightlinger | TITLE: Cell growth and harvest for E. coli-based Cell-free Protein Synthesis
AUTHORS: Weston Kightlinger
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Cell-free protein synthesis reactions require cell-free extract derived from rapidly dividing E. coli cells to produce high yields of protein thera... | ["[Cell growth and harvest for E. coli-based Cell-free Protein Synthesis]\nStart a seed culture of E. coli strain and grow in LB media at .\n50 mL\n37 °C", "[Cell growth and harvest for E. coli-based Cell-free Protein Synthesis]\nAdd glucose to 2xYTP media in Tunair flask to obtain 2xYTPG media.\n250 mL\n750 mL", "... |
35,761 | Low Volume Methodology for Nextera DNA Flex Library Prep Kit (96 Samples) | 1 | dx.doi.org/10.17504/protocols.io.be6rjhd6 | https://www.protocols.io/view/low-volume-methodology-for-nextera-dna-flex-librar-be6rjhd6 | Eric Adams, Stephen Wandro, Julio Avelar-Barragan, Andrew Oliver, Katrine Whiteson | TITLE: Low Volume Methodology for Nextera DNA Flex Library Prep Kit (96 Samples)
AUTHORS: Eric Adams, Stephen Wandro, Julio Avelar-Barragan, Andrew Oliver, Katrine Whiteson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol presents a low volume methodology for the Nextera DNA Flex Librar... | ["[Preparation]\nEquilibrate the following reagents at for Bead-Linked Transposomes (BLT)Tagmentation Buffer (TB1)Tagment Stop Buffer (TSB)Tagment Wash Buffer (TWB)Sample Purification Beads (SPB)\n0 Room temperature", "[Preparation]\nThaw the Resuspension Buffer (RSB) and bring to then vortex to mix\n0 Room temperatu... |
92,013 | Modified Arabidopsis Root smRNA FISH Protocol | 4 | dx.doi.org/10.17504/protocols.io.rm7vzyworlx1/v2 | https://www.protocols.io/view/modified-arabidopsis-root-smrna-fish-protocol-c54my8u6 | Susan Duncan, Hans Johansson | TITLE: Modified Arabidopsis Root smRNA FISH Protocol
AUTHORS: Susan Duncan, Hans Johansson
[DESCRIPTION]
Single molecule RNA FISH (smRNA FISH) is an imaging method that labels individual mRNA molecules in cells to facilitate localization and quantitative studies. Here we present a modified protocol for mRNA labelling ... | ["[Plant Growth] Sterilize then sow a row of Col-0 Arabidopsis seeds onto half strength Murashige and Skoog Medium (1/2 MS) near the top of a 10 cm square petri plate.", "[Plant Growth] Stratify the seeds at 4 °Cfor two days.", "[Plant Growth] Take the plate out of the cold and place it vertically in a growth cabinet s... |
49,789 | Cup of tea (polish way) | 1 | null | https://www.protocols.io/view/cup-of-tea-polish-way-buu5nwy6 | tomasz.zielinski , ines.boehm | TITLE: Cup of tea (polish way)
AUTHORS: tomasz.zielinski , ines.boehm
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol is part of the lesson within the </span><a href="https://carpentries-incubator.github.io/fair-bio-practice/" style = "text-decoration:underline;color:blue;cursor... | ["[Preparation of water and tea]\nFill the kettle with over 250mL of water, or until your min fill line and boil the water.", "[Preparation of water and tea]\nIn the meantime prepare your tea bag, unpack it and place it in the transparent glass (or a mug). If the paper tag is present, position it outside of the mug.", ... |
67,463 | Total Health ACV Keto Gummies – ReadThis | 1 | dx.doi.org/10.17504/protocols.io.n2bvj67y5lk5/v1 | https://www.protocols.io/view/total-health-acv-keto-gummies-readthis-cd5fs83n | belivordernow | TITLE: Total Health ACV Keto Gummies – ReadThis
AUTHORS: belivordernow
[DESCRIPTION]
Keto diet has as of late turned into extremely popular with individuals hoping to get in shape, have more energy and for the most part be better. As a guideline, you need to keep away from food sources that are high in carbs as they... | [] |
5,262 | Cas9 RNP nucleofection for CD34+ HSPCs using Lonza 4D Nucleofector | null | dx.doi.org/10.17504/protocols.io.hdnb25e | null | Mark DeWitt | TITLE: Cas9 RNP nucleofection for CD34+ HSPCs using Lonza 4D Nucleofector
AUTHORS: Mark DeWitt
[STEPS]
?.
?. [Prepare RNP mix]
?. Add Cas9 to sgRNA slowly while swirling pipette tip, should take 30s to 1 minute.
?.
?. Count cells using hemacytometer.
?. For each nucleofection, pipette 200k cells into a 15 mL conical... | ["[Prepare RNP mix]", "Add Cas9 to sgRNA slowly while swirling pipette tip, should take 30s to 1 minute.", "Count cells using hemacytometer.", "For each nucleofection, pipette 200k cells into a 15 mL conical.\nFor replicates, you can multiply the amount of cells and RNP mix as needed and mix in a single tube before ele... |
36,599 | A protocol for rapid western-blot: shorten the time to 1-3 hours | null | dx.doi.org/10.17504/protocols.io.bfyxjpxn | https://www.protocols.io/view/a-protocol-for-rapid-western-blot-shorten-the-time-bfyxjpxn | Zhichao Zhao Shenao Biotechnology Company, wang jiang | TITLE: A protocol for rapid western-blot: shorten the time to 1-3 hours
AUTHORS: Zhichao Zhao Shenao Biotechnology Company, wang jiang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Western blot (WB) is a classical and powerful tool to detect the level of interested protein from among a mixture o... | [] |
74,730 | RNA cleanup with magnetic beads | 4 | dx.doi.org/10.17504/protocols.io.261ge3e17l47/v1 | https://www.protocols.io/view/rna-cleanup-with-magnetic-beads-ck8iuzue | Dominik Buchner | TITLE: RNA cleanup with magnetic beads
AUTHORS: Dominik Buchner
[DESCRIPTION]
This protocol describes cleaning up RNA extracts with carboxylated magnetic beads and a PEG-NaCl buffer. It can also be used for volume reduction of a sample or buffer exchange after enzymatic reactions (e.g. DNAse treatment).
[BEFORE_STA... | ["Shake the RNA cleanup solution until the beads are homogeneously resuspended", "To 100 µL add 200 µL in a 1.2 mL Deep Well Storage Plate", "To bind the RNA to the beads shake at", "Place the plate on a magnet to pellet the beads for 5 min or until the mixture appears clear", "Discard the supernatant by pipetting", "... |
44,753 | CELL COUNT- 01 - Manual cell count with Trypan Blue | 4 | dx.doi.org/10.17504/protocols.io.bpxrmpm6 | https://www.protocols.io/view/cell-count-01-manual-cell-count-with-trypan-blue-bpxrmpm6 | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: CELL COUNT- 01 - Manual cell count with Trypan Blue
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Published work using this protocol:</div><div class = "text-block... | ["Use Trypan Blue solution for checking cell viability.Mix of cell suspention with an equal amount of Trypan Blue solution (dilution factor = 2).\n10 µl\n{\"blocks\":[{\"key\":\"ekvmp\",\"text\":\"This recepe is used in the following protocols:\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRang... |
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