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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94,561 | Purification of OPTN-GST | 1 | dx.doi.org/10.17504/protocols.io.dm6gp3nb8vzp/v1 | https://www.protocols.io/view/purification-of-optn-gst-c8j9zur6 | Elias Adriaenssens | TITLE: Purification of OPTN-GST
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol describes purification of OPTN-GST.
[STEPS]
SECTION: Purification of OPTN-GST
1. To purify OPTN-GST, Clone human OPTN cDNA in a pETDuet-1 vector with an C-terminal GST-tag.
SECTION: Purification of OPTN-GST
2. After the transforma... | ["[Purification of OPTN-GST] To purify OPTN-GST, Clone human OPTN cDNA in a pETDuet-1 vector with an C-terminal GST-tag.", "[Purification of OPTN-GST] After the transformation of the pETDuet-1 vector encoding OPTN-GST in E. coli Rosetta pLysS cells, grow the cells in 2xTY medium at 37 °C until an OD600 of 0.4 and then ... |
26,531 | PBMC Isolation from apheresis collars | null | dx.doi.org/10.17504/protocols.io.56bg9an | null | Girija Goyal, Girija Goyal | TITLE: PBMC Isolation from apheresis collars
AUTHORS: Girija Goyal, Girija Goyal
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Commonly used protocol to isolate peripheral blood mononuclear cells from whole human blood modified here for apheresis collars</div></div>
[STEPS]
?. Acquire collar and ... | ["Acquire collar and make an incision to drain blood into 50mL conical tube.", "Dilute blood product with 2X volume RPMI or PBS. Mix well.", "Slowly layer solution on top of 10 mL density gradient solution.", "Centrifuge at 300 g for 25 minutes at room temperature. Set acceleration and deceleration levels to minimal.\n... |
null | null | null | dx.doi.org/10.17504/protocols.io.k8fcztn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Indirect immunofluorescence infectivity assay for reovirus using LICOR Imaging System</p>
[BEFORE_START]
<p>Plates and reagents:</p>
<p>Corning Black with clear bottom TC treated 96 well plates (Corning #3904)</p>
<p>DRAQ5 #4084 from Cell Signaling</p>
<p>Sapphire 700 #928-4... | [] |
65,887 | DNA extraction (BOMB) | 4 | dx.doi.org/10.17504/protocols.io.n2bvj6mdnlk5/v1 | https://www.protocols.io/view/dna-extraction-bomb-ccj7surn | Tsu-Chun Hung, Yin-Tse Huang | TITLE: DNA extraction (BOMB)
AUTHORS: Tsu-Chun Hung, Yin-Tse Huang
[DESCRIPTION]
DNA extraction (BOMB)
[STEPS]
SECTION: Sample Collection
1. Add 200 µL of 1mm beads to 2ml enppendorf tube
SECTION: Sample Collection
2. Add200 µL of 0.5mm beads to 2ml enppendorf tube
SECTION: Sample Collection
3. Add 225 µL of TE... | ["[Sample Collection] Add 200 µL of 1mm beads to 2ml enppendorf tube", "[Sample Collection] Add200 µL of 0.5mm beads to 2ml enppendorf tube", "[Sample Collection] Add 225 µL of TE buffer to 2ml enppendorf tube", "[Sample Collection] Add 375 µL of lysis buffer to 2ml enppendorf tube", "[Sample Collection] Collect 10-20 ... |
49,561 | Working Alone in the Lab | 1 | dx.doi.org/10.17504/protocols.io.bumznu76 | https://www.protocols.io/view/working-alone-in-the-lab-bumznu76 | Ken Christensen | TITLE: Working Alone in the Lab
AUTHORS: Ken Christensen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Working alone in the laboratory should be avoided; however, trained personnel can work alone in the laboratory if they adhere to the following Standard Operating Procedure (SOP). Students in tra... | [] |
20,283 | U Mass - Leptin | null | dx.doi.org/10.17504/protocols.io.x23fqgn | null | Jason Kim | TITLE: U Mass - Leptin
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 provides the quantification of multiple hormones using multiplexed-Lum... | ["Add 200 μL of Assay Buffer into each well of the plate. Seal and mix on a plate shaker for 10 minutes at room temperature (20-25°C).", "Decant Assay Buffer and remove the residual amount from all wells by inverting the plate and tapping it smartly onto absorbent towels several times.", "Add 10 μL of appropriate matri... |
null | null | null | dx.doi.org/10.17504/protocols.io.mrxc57n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The intention of this protocol is to isolate high molecular weight DNA. This means you should avoid any pipetting without using a wide-bore or cut off pipette tip, vortexing, mixer shakers or anything else which generate a velocity gradient which may shear the DNA. In additio... | [] |
45,473 | Passaging and plating A549 cells | 1 | null | https://www.protocols.io/view/passaging-and-plating-a549-cells-bqm9mu96 | Jcprice | TITLE: Passaging and plating A549 cells
AUTHORS: Jcprice
[STEPS]
?. Remove and discard culture medium, by tipping dish carefully to one side and aspirating the media without disturbing the adherent cells
?. Briefly rinse the cell layer with 1 mL 0.05% (w/v) Trypsin - 53 mM EDTA solution to remove all traces of serum ... | ["Remove and discard culture medium, by tipping dish carefully to one side and aspirating the media without disturbing the adherent cells", "Briefly rinse the cell layer with 1 mL 0.05% (w/v) Trypsin - 53 mM EDTA solution to remove all traces of serum which contains trypsin inhibitor.", "Add 0.5mL of Trypsin-EDTA solut... |
63,234 | Procesador de tejidos | 1 | dx.doi.org/10.17504/protocols.io.6qpvr67zzvmk/v1 | https://www.protocols.io/view/procesador-de-tejidos-b9zar72e | Andrés AHJ Heredia Juyumaya | TITLE: Procesador de tejidos
AUTHORS: Andrés AHJ Heredia Juyumaya
[DESCRIPTION]
Descripción
Procese muestras biológicas desde fijación química hasta infiltración de parafina con el procesador de tejidos centrífugo Thermo Scientific™ STP 120. En carrusel, de sobremesa y compacto, su diseño exclusivo utiliza una fue... | ["[Modo de operación] Colocar los casetes histológicos con las muestras en cesta metálica, procurando dejar la tapa sobre ellos. Una vez hecho esto, levantar la tapa del carrusel pulsando el botón <ARRIBA-ABAJO>.", "Las cestas se sujetan por cuatro puntos. Para colocar la cesta, asegurarse de introducir los cuatro pivo... |
null | null | null | dx.doi.org/10.17504/protocols.io.nywdfxe | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The DNA amount can be measured for each chromosome of the karyotype by image cytometry. Image cytometry (ICM) associates microscopy, digital image and software technologies and has been particularly useful in spatial and densitometric cytological analyses. ICM integrates the... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.nv4de8w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Purpose of this protocol is to create an agarose gel for visualizing and extracting DNA.</p>
[STEPS]
?.
?.
?.
?. | [] |
34,253 | Bright Field Image Capture with Zeiss AxioImager | null | dx.doi.org/10.17504/protocols.io.bdpmi5k6 | null | Allen Institute for Brain Science | TITLE: Bright Field Image Capture with Zeiss AxioImager
AUTHORS: Allen Institute for Brain Science
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the system that is used to capture Z stack images which are reassembled post-processing into 3D reconstructions.</div><div class ... | [] |
88,168 | Purification of NAP1 or GST-NAP1 | 4 | dx.doi.org/10.17504/protocols.io.kqdg3xk41g25/v1 | https://www.protocols.io/view/purification-of-nap1-or-gst-nap1-c2cgyatw | Elias Adriaenssens | TITLE: Purification of NAP1 or GST-NAP1
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol describes purification of GST-NAP1 and unlabelled NAP1.
[STEPS]
SECTION: Purification of NAP1 or GST-NAP1
1. To purify NAP1 or GST-NAP1, synthesize or clone human NAP1 cDNA in a pGEX-4T1 vector with an N-terminal GST tag f... | ["[Purification of NAP1 or GST-NAP1] To purify NAP1 or GST-NAP1, synthesize or clone human NAP1 cDNA in a pGEX-4T1 vector with an N-terminal GST tag followed by a TEV cleavage site (RRID:Addgene_208870).", "[Purification of NAP1 or GST-NAP1] For expression of GST-TEV-NAP1 in E. coli, transform the pGEX-4T1 vector encod... |
null | null | null | dx.doi.org/10.17504/protocols.io.fymbpu6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol describes the procedure for performing a co-assembly of short reads to obtain contigs using the Megahit assembler. This procedure is performed on a node at the UoA HPC due to memory considerations. </p>
[GUIDELINES]
<p><a href="http://rc.arizona.edu/hpc-htc/usi... | [] |
60,314 | QSAR Prediction | 6 | dx.doi.org/10.17504/protocols.io.e6nvwkbn9vmk/v1 | https://www.protocols.io/view/qsar-prediction-b652rg8e | BOC Sciences | TITLE: QSAR Prediction
AUTHORS: BOC Sciences
[DESCRIPTION]
The early linear free-energy approaches developed by Hansch and Free-Wilson have provided a fundamental scientific framework for the quantitative correlation of chemical structure with biological activity and spurred many developments in the field of quantita... | [] |
99,038 | Gradient-index (GRIN) lens implantation surgery in non-human primates | 0 | dx.doi.org/10.17504/protocols.io.e6nvw15w2lmk/v1 | https://www.protocols.io/view/gradient-index-grin-lens-implantation-surgery-in-n-dcx62xre | Adriana Galvan, Thomas Wichmann | TITLE: Gradient-index (GRIN) lens implantation surgery in non-human primates
AUTHORS: Adriana Galvan, Thomas Wichmann
[DESCRIPTION]
These procedures are done in the context of calcium imaging experiments in non-human primates. We inject a solution containing AAV-GCaMP6 into the supplementary motor area (SMA) of the an... | ["[Prepare the animal (assumed to be anesthetized throughout the entire procedure)] Shave the animal’s head.", "[Prepare the animal (assumed to be anesthetized throughout the entire procedure)] Place an endotracheal tube and secure it with umbilical tape.", "[Prepare the animal (assumed to be anesthetized throughout th... |
43,645 | Fungi Permanent Storage | 3 | dx.doi.org/10.17504/protocols.io.bnu5mey6 | https://www.protocols.io/view/fungi-permanent-storage-bnu5mey6 | You Li, Jiri Hulcr | TITLE: Fungi Permanent Storage
AUTHORS: You Li, Jiri Hulcr
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to store and revive ambrosia fungi.</div><div class = "text-block"><span>This protocol is part of the Bark Beetle Mycobiome (BBM) Research Coordination Network. For ... | [] |
62,118 | Fun Drops CBD Gummies - Stay active With Fun Drops CBD Gummies Male Enhancement - 2022 Reviews, Is It Really Work? | 3 | dx.doi.org/10.17504/protocols.io.36wgq7m83vk5/v1 | https://www.protocols.io/view/fun-drops-cbd-gummies-stay-active-with-fun-drops-c-b8werxbe | Fun Drops CBD Gummies | TITLE: Fun Drops CBD Gummies - Stay active With Fun Drops CBD Gummies Male Enhancement - 2022 Reviews, Is It Really Work?
AUTHORS: Fun Drops CBD Gummies
[DESCRIPTION]
Fun Drops CBD Gummies
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.gz5bx86 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a variation of the CagA translocation assay performed in the lab. </p>
<p>The protocol was used in the publication DOI: <a href="https://doi.org/10.1111/cmi.12166" target="_blank">10.1111/cmi.12166</a></p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
65,604 | Cloning gene of interest into attb plasmid for PhiC31 integration | 4 | dx.doi.org/10.17504/protocols.io.5jyl89xy6v2w/v1 | https://www.protocols.io/view/cloning-gene-of-interest-into-attb-plasmid-for-phi-ccbcssiw | Goran Tomic | TITLE: Cloning gene of interest into attb plasmid for PhiC31 integration
AUTHORS: Goran Tomic
[DESCRIPTION]
This protocol describes a simple cloning procedure to insert a gene of interest (GOI) into an attb plasmid to use in combination with PhiC31 integration to generate low-copy integrants.
[STEPS]
1. The vector... | ["The vector is generated in-house from the pX28 vector from Addgene (#46850). Not available from a repository yet, so synthesise/clone your own based on the sequence provided with this protocol.", "Linearise the attb vector with MfeI and XhoI (purify the backbone). Alternatively , PCR-amplify the backbone using high-... |
90,985 | Visualization of RNA using gel electrophoresis method. | 4 | dx.doi.org/10.17504/protocols.io.dm6gp3548vzp/v1 | https://www.protocols.io/view/visualization-of-rna-using-gel-electrophoresis-met-c44hyyt6 | khawla alshuraiqi | TITLE: Visualization of RNA using gel electrophoresis method.
AUTHORS: khawla alshuraiqi
[DESCRIPTION]
For the analysis of RNA samples, polyacrylamide gel electrophoresis (PAGE) is a highly effective technique. Information about the sample composition and the structural integrity of each unique RNA species is provide... | ["For sample preparation, all samples should be at the same initial concentration by diluting samples with nuclease-free water with a total volume of 9ul and 1 ul for loading dye.", "Running buffer preparation (we can reuse it) \nA. From the stock of 50 X prepare 1X by adding 7 ml in 343 ml deionized water.", "Agaro... |
20,415 | U Michigan - Hind Paw Withdrawal for Rodents | null | dx.doi.org/10.17504/protocols.io.x67frhn | null | Eva Feldman | TITLE: U Michigan - Hind Paw Withdrawal for Rodents
AUTHORS: Eva Feldman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This protocol measures and quantifies the pain in rodent hind paw. These measurements can be used... | ["[Set up]\n- Must clean equipment with sporeklenz before entering the animal room\n- All restrainers need to be exclusively used in same room. If restrainer has been in another animal room, it CANNOT be used!\n- The True Tail Temp cannot be used for the paw test. It must be disabled. Press 6000E on keypad of CPU. I... |
null | null | null | dx.doi.org/10.17504/protocols.io.gb6bsre | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A macrophage phagocytosis assay designed for use with recombinant, fluorescently labelled bacteria. This assay was optimised using recombinant GFP-labelled <em>E. coli</em> expressing eukaryotic-like proteins (ELPs) derived from sponge-symbionts.</p>
[STEPS]
?.
?.
?.
?.
... | [] |
32,422 | Sample preparation protocol for hair fiber curvature analysis | 1 | dx.doi.org/10.17504/protocols.io.bbweipbe | https://www.protocols.io/view/sample-preparation-protocol-for-hair-fiber-curvatu-bbweipbe | Tina Lasisi | TITLE: Sample preparation protocol for hair fiber curvature analysis
AUTHORS: Tina Lasisi
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol prepares hair fibers per sample for curvature analysis.</div><div class = "text-block">Diagrams were created with BioRender.com</div><div class = "t... | ["[Dye light hairs (Optional)]", "[Imaging hair samples]\nSet up imaging station.\nFor imaging at this macroscopic scale, we recommend setting up a camera to point down at an elevated stage with a white platform (a white sheet of paper can be used). For each sample, you will need:a Petri dish of IPAWe recommend you g... |
80,567 | Generating Sequencing Depth and Coverage Map for Organelle Genomes | 5 | dx.doi.org/10.17504/protocols.io.4r3l27jkxg1y/v1 | https://www.protocols.io/view/generating-sequencing-depth-and-coverage-map-for-o-cswxwffn | Yang Ni, Jingling Li, Chang Zhang, Chang Liu | TITLE: Generating Sequencing Depth and Coverage Map for Organelle Genomes
AUTHORS: Yang Ni, Jingling Li, Chang Zhang, Chang Liu
[DESCRIPTION]
The success in development of molecular markers, phylogenetic analysis, and genetic engineering relies heavily on high quality organelle genomes. Any errors in the assembl... | ["[Generating Sequencing Depth and Coverage Map for Organelle Genomes] 1. Set up the working environment", "[Generating Sequencing Depth and Coverage Map for Organelle Genomes] 1.1 Download the Miniconda installation script for Python 3.9 by running the following command in the terminal: (add the installation steps for... |
63,413 | Natures One CBD Gummies (PAIN RELIEF) DOES IT TRULY WORK? | 3 | dx.doi.org/10.17504/protocols.io.dm6gpb2rjlzp/v1 | https://www.protocols.io/view/natures-one-cbd-gummies-pain-relief-does-it-truly-b96vr9e6 | H H | TITLE: Natures One CBD Gummies (PAIN RELIEF) DOES IT TRULY WORK?
AUTHORS: H H
[DESCRIPTION]
Natures One CBD Gummiesor ensured monetary counsel. Try to talk with an expert doctor or monetary specialist prior to settling on any buying choice in the event that you use prescriptions or have concerns following the survey ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.irmcd46 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?. | [] |
52,893 | FindingNemo Library 3: KrazyStarFish (KSF) | 1 | dx.doi.org/10.17504/protocols.io.bxv5pn86 | https://www.protocols.io/view/findingnemo-library-3-krazystarfish-ksf-bxv5pn86 | John Tyson, Inswasti Cahyani, Nadine Holmes, Josh Quick, Nicholas Loman, Matthew Loose | TITLE: FindingNemo Library 3: KrazyStarFish (KSF)
AUTHORS: John Tyson, Inswasti Cahyani, Nadine Holmes, Josh Quick, Nicholas Loman, Matthew Loose
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This sub-protocol is designed to prepare library from extracted ultra-high molecular weight (UHMW) D... | ["[Pre Library Prep]\nThis library prep is based on the rapid kit (SQK-RAD004) and using a home-made MuA buffer (see Materials).Input DNA is based on its concentration/amount without requiring prior knowledge on input cell number.", "[DNA Tagmentation]\nIn a 1.5 ml tube (labelled as DNA), gently mix 75 μl DNA (~100 ng/... |
28,678 | Double Digestion of Insert DNA | null | dx.doi.org/10.17504/protocols.io.79ehr3e | null | iGEM Dusseldorf | TITLE: Double Digestion of Insert DNA
AUTHORS: iGEM Dusseldorf
[STEPS]
?. [Double digest of insert DNA]
Combined enzyme volume should not exceed 1/10 of the total reaction volume.For double digestion with two FastDigest restriction enzymes, mix: AB1ComponentAmount210x FastDigest Buffer2 µl3DNA400 ng4FastDigest Enzyme... | ["[Double digest of insert DNA]\nCombined enzyme volume should not exceed 1/10 of the total reaction volume.For double digestion with two FastDigest restriction enzymes, mix: AB1ComponentAmount210x FastDigest Buffer2 µl3DNA400 ng4FastDigest Enzyme 11 µl5FastDigest Enzyme 21 µl6Sterile MilliQ WaterFill up with Sterile ... |
91,876 | Arabidopsis-Microbe interaction seed treatment | 4 | dx.doi.org/10.17504/protocols.io.kqdg394z1g25/v2 | https://www.protocols.io/view/arabidopsis-microbe-interaction-seed-treatment-c5ycy7sw | Tao-Ho Chang | TITLE: Arabidopsis-Microbe interaction seed treatment
AUTHORS: Tao-Ho Chang
[DESCRIPTION]
The treated seeds can grow in medium or bulk soil to determine the impact of novel materials on plants.
[BEFORE_START]
Seed priming is an important method that increases the health of the plant.
[GUIDELINES]
Seed treatment of ... | ["[Seeds sterilisation] The arabidopsis seeds are immersed with 50% bleach (2% Sodium hypochlorite) in 1.5 µL tubes.", "[Seeds sterilisation]", "[Seeds sterilisation] 100 rpm, 10 s, 28 °C", "[Seeds sterilisation] Gently remove the supernatant and leave the seeds in the tube.", "[Seeds sterilisation] The sterile seeds a... |
99,418 | WATER PRODUCTION FOR AWARE (Metals) | 0 | dx.doi.org/10.17504/protocols.io.36wgqn7yogk5/v1 | https://www.protocols.io/view/water-production-for-aware-metals-ddb222qe | Celia Manaia | TITLE: WATER PRODUCTION FOR AWARE (Metals)
AUTHORS: Celia Manaia
[DESCRIPTION]
The protocol summarises the procedures used for analytical control. The protocol describes the Standard Operating Procedure (SOP) for the optimization of advanced tertiary treatment of water, based on a comprehensive quality and risk assess... | ["[Metals] The water production for AWARE main activities includes three stages – disinfection by ultraviolet C radiation (UVC), storage for720 min-1440 min(according to water load and season) and ozonation. The water quality is monitored at these three stages, for the parameters indicated in Figure 1 below.", "[Metals... |
53,978 | MR imaging of the mouse hindlimb musculature (T2 weighted and T2 map) | 4 | null | https://www.protocols.io/view/mr-imaging-of-the-mouse-hindlimb-musculature-t2-we-byx2pxqe | Emily Waters | TITLE: MR imaging of the mouse hindlimb musculature (T2 weighted and T2 map)
AUTHORS: Emily Waters
[DESCRIPTION]
This is a procedure for imaging the musculature in the hind limb of a mouse. The protocol was designed for imaging of edema in mouse models of muscular damage, but could be adapted to other applications.
... | ["[Prepare mouse for imaging] Place mouse in an induction chamber and induce anesthesia using 3% isoflurane and 1 L/min O2. The induction chamber should be placed on a warm water circulating blanket set at 37ºC to maintain the mouse's body temperature. Use a charcoal canister to collect waste gases from the induction c... |
93,868 | High Molecular Weight (HMW) DNA Extraction Protocol for Tissue Sample | 4 | dx.doi.org/10.17504/protocols.io.kqdg3xdrpg25/v1 | https://www.protocols.io/view/high-molecular-weight-hmw-dna-extraction-protocol-c7wkzpcw | Aswini Leela Loganathan | TITLE: High Molecular Weight (HMW) DNA Extraction Protocol for Tissue Sample
AUTHORS: Aswini Leela Loganathan
[DESCRIPTION]
This is an organic extraction protocol used for high molecular DNA extraction for tissue samples. This protocol is suitable for obtaining gDNA for PacBio Sequel IIe library preparation and sequen... | ["[HMW DNA Extraction Method] Lysis the tissue sample.\nAdd 500 µL of lysis buffer to 50 - 150 mg of Sample of sample. Make sure the tissue sample has been finely cut.", "[HMW DNA Extraction Method] Denatures and digest proteins that are subsequently hydrolyzed with Proteinase K. \nAdd 10 µL of Proteinase K and vortex ... |
83,745 | 16S rRNA gene Library Preparation Protocol | 4 | dx.doi.org/10.17504/protocols.io.ewov1qy22gr2/v1 | https://www.protocols.io/view/16s-rrna-gene-library-preparation-protocol-cvz9w796 | dinesh.aggarwal, Katherine L Bellis, Josef Wagner, eh | TITLE: 16S rRNA gene Library Preparation Protocol
AUTHORS: dinesh.aggarwal, Katherine L Bellis, Josef Wagner, eh
[DESCRIPTION]
16S rRNA gene library preparation protocol including the following steps: MPure extraction of Bacterial DNA, Manual 16S indexed primer PCR, library clean up with beads, quibit DNA quantificati... | ["[DNA Extraction using the MPBio MPure-12:] UV the MPure machine before use.", "[DNA Extraction using the MPBio MPure-12:] Remove samples to be extracted from the freezer, to thaw in the fridge (4 °C). \nOnce thawed vortex for 10 s. \nProceed in MSC.", "[DNA Extraction using the MPBio MPure-12:] Pipette mix and remove... |
48,434 | Determination of viable cells by XTT | 4 | null | https://www.protocols.io/view/determination-of-viable-cells-by-xtt-btisnkee | tzhang | TITLE: Determination of viable cells by XTT
AUTHORS: tzhang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the test method for analysis of metabolic activity in various cell lines with colourimetric XTT analysis. It can be used to determine cytotoxicity of various drug comp... | ["Adhere cells to wells1.1 Add a specified amount of cells from stock to each well of the micro-well plate. Each well must have a consistent cell density.1.2 Incubate this plate at 37°C and 5% CO2. Allow cells to adhere to the well plate for 24 hours.1.3 Always include a control of untreated cells and a blank well with... |
null | null | null | dx.doi.org/10.17504/protocols.io.txuepnw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The analysis of gene expression data via RNA sequencing (RNA-Seq) has become a standard method for model and non-model organisms to identify genes of interest associated with a specific stressor of physiological state. More recently, mass spectrometry (MS)-based proteomics start... | ["[Materials] Tissue lysis and total protein extraction\nNote: all buffers in the protocol are made with sequencing grade chemicals and ultrapure water (Milli-Q). Protein low binding tubes are used throughout the protocol. Tissue lysis is performed on ice with ice-cold lysis buffer (to avoid protein degradation)\n \nFo... |
27,212 | Dose response assay for inducible promoters in Synechocystis sp. PCC 6803 | null | dx.doi.org/10.17504/protocols.io.6tkhekw | null | Anna Behle, Pia Saake, Ilka Maria Axmann | TITLE: Dose response assay for inducible promoters in Synechocystis sp. PCC 6803
AUTHORS: Anna Behle, Pia Saake, Ilka Maria Axmann
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Inducible promoters are an important tool for synthetic biology. They enable temporal control of gene expression, as well... | ["[Inoculation of preculture]\nInoculate an appropriate amount of BG11 with your cyanobacterial strain of choice. Include appropriate controls, i.e. an empty vector control. The inoculation volume depends on the number of concentrations to be tested. For example: 6 concentrations x 3 replicates x 5 mL = 90 mL of precul... |
94,932 | Open Field | 4 | null | https://www.protocols.io/view/open-field-c8xuzxnw | daniel.dautan, Per Svenningsson | TITLE: Open Field
AUTHORS: daniel.dautan, Per Svenningsson
[DESCRIPTION]
Behavioral assay for general locomotion in mice.
[STEPS]
1. Habituate naive mice to the room for 60 min.
2. Transfer each mouse to a custom 40 cm x 40 cm dark box, with a clear floor and a light suspended on the center of the apparatus.
4. Afte... | ["Habituate naive mice to the room for 60 min.", "Transfer each mouse to a custom 40 cm x 40 cm dark box, with a clear floor and a light suspended on the center of the apparatus.", "After each test and between each group, clean apparatus thoroughly with 50% ethanol followed by water.", "Analysis: \nCenter of open field... |
25,114 | Biolistic Transformation of Amphidinium | null | dx.doi.org/10.17504/protocols.io.4r2gv8e | null | Isabel Nimmo, Ellen Nisbet, Adrian Barbrook, Chris Howe. | TITLE: Biolistic Transformation of Amphidinium
AUTHORS: Isabel Nimmo, Ellen Nisbet, Adrian Barbrook, Chris Howe.
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>A method to transform the chloroplast of </span><span style = "font-style:italic;">Amphidinium carterae</span><span> using biolist... | ["[To be completed in advance]\nPrepare artificial minicircle (pAmpPSBA) at 1mg ml-1. pAmpPSBA contains a bacterial origin of replication and an ampicillin resistance marker, so transformation and growth using a suitable E. coli strain, followed by a miniprep, is the simplest method to achieve this. pAmpPSBA also conta... |
null | null | null | dx.doi.org/10.17504/protocols.io.cjxupm | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is the protocol for the Gibson Assembly using the Gibson Assembly® Master Mix (E2611).
[GUIDELINES]
<strong>Optimal Quantities<br /><br /></strong>NEB recommends a total of 0.02–0.5 pmols of DNA fragments when 1 or 2 fragments are being assembled into a vect... | [] |
81,372 | 10x Protocols: Visium Fresh Frozen Tissue Optimization -- University of Minnesota TMCs (CG000238 Rev E) | 1 | dx.doi.org/10.17504/protocols.io.bp2l69qxrlqe/v1 | https://www.protocols.io/view/10x-protocols-visium-fresh-frozen-tissue-optimizat-ctp4wmqw | 10x Genomics, Laura J Niedernhofer, David A Bernlohr | TITLE: 10x Protocols: Visium Fresh Frozen Tissue Optimization -- University of Minnesota TMCs (CG000238 Rev E)
AUTHORS: 10x Genomics, Laura J Niedernhofer, David A Bernlohr
[DESCRIPTION]
Protocols from 10x Genomics for Visium Spatial Gene Expression on Fresh Frozen / OCT samples. Completed without CytAssist component.... | ["10x protocol CG000238, Revision E (Tissue Optimization):\n \n For adipose: Determined Tissue permeabilization time = 15 minutes", "Additional protocols/guidelines\n CG000241, Rev D\n CG000240, Rev D\nhttps://www.10xgenomics.com/support/spatial-gene-expression-fresh-frozen"] |
64,902 | Pure Calms CBD Gummies Scam Or Legit? Does it Really Work | 3 | dx.doi.org/10.17504/protocols.io.rm7vzy99xlx1/v1 | https://www.protocols.io/view/pure-calms-cbd-gummies-scam-or-legit-does-it-reall-cbmesk3e | golubs , alena lee, Alena Zhelezova | TITLE: Pure Calms CBD Gummies Scam Or Legit? Does it Really Work
AUTHORS: golubs , alena lee, Alena Zhelezova
[DESCRIPTION]
Pure Calms CBD Gummies United Kingdom (Scam or Legit) Read Expert Reviews!
Official Website - https://pure-calms-cbd-gmmies-uk
https://pure-calms-official-site.clubeo.com/page/pure-calms-cbd-g... | [] |
41,767 | XPRIZE SHINE - Paper-based SARS-CoV-2 Saliva Test | 4 | dx.doi.org/10.17504/protocols.io.bk2fkybn | https://www.protocols.io/view/xprize-shine-paper-based-sars-cov-2-saliva-test-bk2fkybn | Jon Arizti-Sanz, Catherine A. Freije, Chloe K. Boehm, Sameed M. Siddiqui, Allen M. Goodman, Tinna-Solveig F. Kosoko-Thoroddsen, A'Doriann Y. Bradley, Jeremy Johnson, Pardis C. Sabeti, Cameron Myhrvold | TITLE: XPRIZE SHINE - Paper-based SARS-CoV-2 Saliva Test
AUTHORS: Jon Arizti-Sanz, Catherine A. Freije, Chloe K. Boehm, Sameed M. Siddiqui, Allen M. Goodman, Tinna-Solveig F. Kosoko-Thoroddsen, A'Doriann Y. Bradley, Jeremy Johnson, Pardis C. Sabeti, Cameron Myhrvold
[DESCRIPTION]
<div class = "text-blocks"><div class ... | ["[Sample Collection and Viral Lysis]\nExpel approximately one drop of saliva into the sample collection tube and cap the tube. Saliva collection tube contains necessary volume of FastAmp® Viral and Cell Solution.", "[Sample Collection and Viral Lysis]\nMix saliva sample and FastAmp® Viral and Cell Solution by shaki... |
89,279 | Free Floating DAB Staining | 1 | dx.doi.org/10.17504/protocols.io.q26g7pxqqgwz/v1 | https://www.protocols.io/view/free-floating-dab-staining-c3e7yjhn | Ashley Harms, Jhodi Webster | TITLE: Free Floating DAB Staining
AUTHORS: Ashley Harms, Jhodi Webster
[DESCRIPTION]
This protocol describes the procedure for performing 3,3'-Diaminobenzidine (DAB) immunohistochemical staining on free-floating tissue sections. The method is optimized to preserve tissue integrity and enhance antibody penetration by p... | ["[DAY 1] Wash sections 3x5min in TBS", "[DAY 1] Quench sections with solution for 5min at RT\nQuenching solution (10mL – 3% H2O2 in 1XTBS):\n4.5mL TBS \n4.5mL MeOH \n1mL 30% H2O2", "[DAY 1] Wash 2x5min TBS", "[DAY 1] Put sections in antigen retrieval for 30mins at 37C with agitation \nAntigen retrieval in TBS: \n1... |
93,858 | Immunocytochemistry for the characterization of hiPSC to Motor Neuron differentiation | 4 | dx.doi.org/10.17504/protocols.io.6qpvr3zbzvmk/v1 | https://www.protocols.io/view/immunocytochemistry-for-the-characterization-of-hi-c7wazpae | Mallory Wright, ckremitz, William J Buchser | TITLE: Immunocytochemistry for the characterization of hiPSC to Motor Neuron differentiation
AUTHORS: Mallory Wright, ckremitz, William J Buchser
[DESCRIPTION]
This immunocytochemistry protocol is used for the characterization of IPSC differentiation into motor neurons using several biomarkers: neuroepithelial cells (... | ["Remove the medium from your cells", "FIX - Dilute 32% Paraformaldehyde solution to 4% PFA in 1X phosphate-buffered saline (PBS)", "Add 100uL of 4% PFA to each well in the 96-well plate. (1ml if using a 6-well plate). Incubate for 15 min at room temperature.", "Remove the fixative solution and wash with 1XPBS at 100ul... |
65,034 | RNA extraction and quantitative PCR to assay inflammatory gene expression (Provisional unformatted) | 4 | null | https://www.protocols.io/view/rna-extraction-and-quantitative-pcr-to-assay-infla-cbrism4e | OLIVIA HARDING, holzbaur | TITLE: RNA extraction and quantitative PCR to assay inflammatory gene expression (Provisional unformatted)
AUTHORS: OLIVIA HARDING, holzbaur
[DESCRIPTION]
Real-time quantitative PCR (RT-qPCR) is a sensitive assay to determine the production of selected mRNA transcripts in various conditions. We required such an as... | ["- When working with RNA, take caution to keep space clean to avoid sample degradation by RNases. Clear bench space and wipe with RNaseZap. Change gloves often and wear a mask.", "- Use new, sterile supplies of pipet tips and tubes", "- Since RNA is vulnerable to degradation, proceed through the extr... |
39,130 | MethylHiC | 1 | null | https://www.protocols.io/view/methylhic-bif2kbqe | Florian Noack, Boyan Bonev | TITLE: MethylHiC
AUTHORS: Florian Noack, Boyan Bonev
[DESCRIPTION]
Protocol was adapted from current protocols (Lee et al.; 2019; Li et al.; 2019) with major modifications mainly at the library preparation step.
[STEPS]
SECTION: Prepare bisulfite conversion control
1.
NOTE: Control DNA has to prepared only once a... | ["[Prepare bisulfite conversion control] NOTE: Control DNA has to prepared only once and can be reused. \n\nTo prepare methylation controls, mix 8µl of CpG methylated pUC19 DNA (Zymo Research, Cat. N.: D5017) with 8µl of unmethylated lambda DNA (Promega, Cat. N.: D1521) in Covaris microTUBE-15 AFA Beads Screw-Cap tubes... |
42,405 | Making MES Buffers for Protein EDAC Particle Coupling | 6 | dx.doi.org/10.17504/protocols.io.bmndk5a6 | https://www.protocols.io/view/making-mes-buffers-for-protein-edac-particle-coupl-bmndk5a6 | Kenneth Schackart, Kattika Kaarj | TITLE: Making MES Buffers for Protein EDAC Particle Coupling
AUTHORS: Kenneth Schackart, Kattika Kaarj
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to make MES buffers for covalently coupling proteins to carboxylated polystyrene particles via EDAC. Adapted from Bangs ... | ["[Make MES Buffer Bulk]\nCombine: MES free acid. DW.\n12.8 g\n600 mL", "[Make MES Buffer Bulk]\nAdjust to ~6 pH. If pH is low add NaOH, if pH is high add HCl.\nTypically the solution is about . In this case, adding about of NaOH should get you close. If the desired activation buffer pH is lower than , adjust a... |
43,586 | Removing Residual Background | 4 | dx.doi.org/10.17504/protocols.io.bntameie | https://www.protocols.io/view/removing-residual-background-bntameie | Jonathan Houseley, Cristina Cruz | TITLE: Removing Residual Background
AUTHORS: Jonathan Houseley, Cristina Cruz
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Over the past decade a plethora of noncoding RNAs (ncRNAs) have been identified, initiating an explosion in RNA research. Although RNA sequencing methods provide unsurpassed ... | ["[Removing Residual Background]\nWash at in a plastic box on a rocker with copious 0.1× SSC 0.1% SDS for at least .\n0 Room temperature\nSometimes membranes have a residual smeary background that interferes with the signal. This is more common with large membranes or when two membranes are probed in one bottle. If th... |
23,226 | RNAi Plasmid Construction using pFGC5941 | null | dx.doi.org/10.17504/protocols.io.2w2gfge | null | Yaowu Yuan | TITLE: RNAi Plasmid Construction using pFGC5941
AUTHORS: Yaowu Yuan
[STEPS]
?. [Amplifying insert from cDNA or gDNA using Phusion PCR]
Amplify insert from cDNA or gDNA (if the fragment contains no intron) using Phusion PCR
Make TWO reactions of the following in separate tubes: AB1Amount (µL)Reagent24 µL5x Phusion B... | ["[Amplifying insert from cDNA or gDNA using Phusion PCR]\nAmplify insert from cDNA or gDNA (if the fragment contains no intron) using Phusion PCR\n Make TWO reactions of the following in separate tubes: AB1Amount (µL)Reagent24 µL5x Phusion Buffer30.5 µL10 mM dNTPs40.6 µLDMSO51.0 µLTemplate60.2 μlPhusion enzyme711.0 ... |
46,518 | Refining protein structure with DeepRefiner | 5 | null | https://www.protocols.io/view/refining-protein-structure-with-deeprefiner-brnwm5fe | Chris Berndsen | TITLE: Refining protein structure with DeepRefiner
AUTHORS: Chris Berndsen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Post model refinement and structural analysis is a useful later step in homology modeling. DeepRefiner uses deep learning models to optimize a given structure to try to improve ... | ["Navigate to the DeepRefiner server: http://watson.cse.eng.auburn.edu/DeepRefiner/", "Upload your .pdb file where designated and set job parameters. Suggested initial settings are shown below and they can be altered as needed.", "Make note of any parameter changes in a note on this step.", "Press the Run DeepRefiner ... |
91,874 | Protocol for extracting flow hydrograph shape metrics for use in time-series flood hydrology analysis | 5 | dx.doi.org/10.17504/protocols.io.rm7vzxqo8gx1/v1 | https://www.protocols.io/view/protocol-for-extracting-flow-hydrograph-shape-metr-c5yay7se | Amir Mohammad Arash, Kirstie Fryirs, Tim J. Ralph | TITLE: Protocol for extracting flow hydrograph shape metrics for use in time-series flood hydrology analysis
AUTHORS: Amir Mohammad Arash, Kirstie Fryirs, Tim J. Ralph
[DESCRIPTION]
The shape characteristics of flow hydrographs hold essential information for understanding, monitoring and assessing changes in flow and ... | ["[B. Input data preparation] Download the streamflow time series from BoM and WaterNSW.\n\nThe streamflow data at sub-1hour intervals is available from the Australian Bureau of Meteorology (BoM) (Fig 3) and WaterNSW 2023 (Fig 4) Open Access portals.\n\nWaterNSW Website\n \nBoM Website", "[C. Extraction and quantificat... |
57,460 | Guidelines for microneutralization testing of human antibodies to West Nile virus | 4 | dx.doi.org/10.17504/protocols.io.b4cuqsww | https://www.protocols.io/view/guidelines-for-microneutralization-testing-of-huma-b4cuqsww | Anna Nagy, Nikolett Csonka, Mária Takács | TITLE: Guidelines for microneutralization testing of human antibodies to West Nile virus
AUTHORS: Anna Nagy, Nikolett Csonka, Mária Takács
[DESCRIPTION]
West Nile virus (WNV), a mosquito-borne member of the family Flaviviridae, genus Flavivirus is an emerging pathogen, which is endemic in most part of Europe, especia... | ["[Preparation of samples] Tested specimens: human serum, plasma", "[Preparation of samples] Heat inactivation: inactivate all sera to be assayed at 56°C for 30 minutes to limit the effects that complement, or adventitious virus may have on the final results.", "[Preparation of samples] Optional: Filtrate the serum spe... |
53,108 | Collection and preservation of eDNA from marine water samples | 1 | dx.doi.org/10.17504/protocols.io.bx4upqww | https://www.protocols.io/view/collection-and-preservation-of-edna-from-marine-wa-bx4upqww | Ana Ramón-Laca, Abigail Wells, Linda Park | TITLE: Collection and preservation of eDNA from marine water samples
AUTHORS: Ana Ramón-Laca, Abigail Wells, Linda Park
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">This protocol is designed for water collection from Niskin bottles and filtration a... | ["[Filter cups cleaning and assemblage]\nPlace all used small items in a small mesh bag and the filter cups in a large mesh bag in bleach for at least", "[Filter cups cleaning and assemblage]\nRinse the abovementioned items for at least", "[Filter cups cleaning and assemblage]\nAllow to dry on the drying racks", "[Filt... |
41,250 | LessTests | 4 | dx.doi.org/10.17504/protocols.io.bkiakuae | https://www.protocols.io/view/lesstests-bkiakuae | Ruth Polachek, doreen | TITLE: LessTests
AUTHORS: Ruth Polachek, doreen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">LessTests SARS-CoV2 general diagnosis protocol, using LessTests software solution.</div><div class = "text-block">The LessTests method is agnostic to the labware, and has already been demonstrated as suc... | ["Sample collection\nStandard sample collection and transport using swabs", "LessTests Encoder\nDetermines which samples are mixed into each pool.Optimizes pool number and other parameters to achieve best efficiency improvement.", "Pooling using LessTests Method\nAutomated liquid handling workbenchPooling script provid... |
94,480 | Amyloid beta (Aβ) aggregates N-terminal labeling | 1 | dx.doi.org/10.17504/protocols.io.kxygx3dk4g8j/v1 | https://www.protocols.io/view/amyloid-beta-a-aggregates-n-terminal-labeling-c8hqzt5w | Patricia Yuste Checa, F Ulrich Hartl | TITLE: Amyloid beta (Aβ) aggregates N-terminal labeling
AUTHORS: Patricia Yuste Checa, F Ulrich Hartl
[DESCRIPTION]
This protocol details how to efficiently label protein aggregates at the N-terminal using Amyloid beta as example.
[STEPS]
SECTION: Amyloid beta (Aβ) aggregates N-terminal labeling
1. Centrifuge Aβ agg... | ["[Amyloid beta (Aβ) aggregates N-terminal labeling] Centrifuge Aβ aggregates (e.g., 1 mL at 10 micromolar (µM)) at 20000 x g, 10 min, 4 °C.", "[Amyloid beta (Aβ) aggregates N-terminal labeling] Wash the pellet containing the aggregates with 1x PBS pH 7.2.", "[Amyloid beta (Aβ) aggregates N-terminal labeling] Centrifug... |
95,878 | ELISA (enzyme-linked immunosorbent assay) for α-Syn quantification | 0 | dx.doi.org/10.17504/protocols.io.261gedywyv47/v1 | https://www.protocols.io/view/elisa-enzyme-linked-immunosorbent-assay-for-syn-qu-c9vez63e | Jean-Louis Parmasad | TITLE: ELISA (enzyme-linked immunosorbent assay) for α-Syn quantification
AUTHORS: Jean-Louis Parmasad
[DESCRIPTION]
ELISA (enzyme-linked immunosorbent assay) for α-Syn quantification. Useful for analyses of alpha-Synuclein and related proteins in the context of synucleinopathy.
[STEPS]
1. Coat 384-well MaxiSorp plat... | ["Coat 384-well MaxiSorp plates (Nunc, Inc) with capturing antibody (α-Syn, BD Biosciences, 610787) diluted 1:500 in coating buffer (NaHCO3 with 0.2% NaN3, pH9.6) overnight at 4 °C.", "Wash 3 times with PBS.0.05% Tween-20 (PBS-T).", "Block for 1hr at 37 °C in blocking buffer (1.125% fish skin gelatin; PBS-T)", "Load sa... |
65,243 | Myco Nootropic Brain Gummies Reviews (Newest Report) Does This Eliminate “Brain Fog Syndrome”? | 3 | dx.doi.org/10.17504/protocols.io.4r3l2oz23v1y/v1 | https://www.protocols.io/view/myco-nootropic-brain-gummies-reviews-newest-report-cbx3spqn | tomarhousin | TITLE: Myco Nootropic Brain Gummies Reviews (Newest Report) Does This Eliminate “Brain Fog Syndrome”?
AUTHORS: tomarhousin
[DESCRIPTION]
Myco Nootropic Brain Gummies Reviews
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.fmkbk4w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Collection of growth media and protocols to cultivate and harvest spores from several plant pathogens.</p>
<p> </p>
[STEPS]
?. | [] |
98,558 | surveillance of antimicrobial-resistant bacteria causing community-acquired urinary tract infections in low-income countries | 1 | dx.doi.org/10.17504/protocols.io.kqdg3xdneg25/v2 | https://www.protocols.io/view/surveillance-of-antimicrobial-resistant-bacteria-c-dcg62tze | Mtebe Majigo, Stephen Mshana, Erick Komba, Nyambura Moremi, Mecky Matee | TITLE: surveillance of antimicrobial-resistant bacteria causing community-acquired urinary tract infections in low-income countries
AUTHORS: Mtebe Majigo, Stephen Mshana, Erick Komba, Nyambura Moremi, Mecky Matee
[DESCRIPTION]
The protocol intends to assist users in designing a sustainable surveillance program for AMR... | ["TARGET POPULATION AND ENROLMENT CRITERIA\nSampling needs to involve children above two years of age and adults (pregnant and non-pregnant women and men) who are residents of a given surveillance area and passively presenting to a health facility for health care within that same surveillance area to ensure linkage of ... |
27,757 | Fluorescence microscope operation procedure | null | dx.doi.org/10.17504/protocols.io.7cmhiu6 | null | 宏亮 董 | TITLE: Fluorescence microscope operation procedure
AUTHORS: 宏亮 董
[STEPS]
?. Production of temporary fitting
?. Add 15ul Bacterial solution to microslide at the clean workbench.
?. Add cover slide on it.
?. Use of fluorescence microscopy
?. Turn off the light in the room and turn on the microscope mercury lamp.
?. Sele... | ["Production of temporary fitting", "Add 15ul Bacterial solution to microslide at the clean workbench.", "Add cover slide on it.", "Use of fluorescence microscopy", "Turn off the light in the room and turn on the microscope mercury lamp.", "Select the appropriate filter according to the luciferin labeled with the sampl... |
49,795 | Functional and Taxonomic Characterization of sequence data using GhostKOALA | 5 | dx.doi.org/10.17504/protocols.io.buvbnw2n | https://www.protocols.io/view/functional-and-taxonomic-characterization-of-seque-buvbnw2n | Helena Pound, Eric Gann, Steven Wilhelm | TITLE: Functional and Taxonomic Characterization of sequence data using GhostKOALA
AUTHORS: Helena Pound, Eric Gann, Steven Wilhelm
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A method of functional and taxonomic annotation and expression of assembled sequence data using GhostKOALA.</div></div>... | ["Assemble sequences from samples you wish to characterize. Final file should be in .fasta format.", "Extract GFF gene prediction coding sequences from assembly using MetaGeneMark, exporting identified gene sequences as both proteins and nucleotides.", "http://exon.gatech.edu/meta_gmhmmp.cgiWenhan Zhu, Alex Lomsadze an... |
21,947 | Sexual communal motivation in couples coping with low sexual interest/arousal: Associations with sexual well-being and sexual goals | null | dx.doi.org/10.17504/protocols.io.zn3f5gn | null | Jacqueline Hogue, Natalie O. Rosen, Amanda Bockaj, Emily A. Impett, Amy Muise | TITLE: Sexual communal motivation in couples coping with low sexual interest/arousal: Associations with sexual well-being and sexual goals
AUTHORS: Jacqueline Hogue, Natalie O. Rosen, Amanda Bockaj, Emily A. Impett, Amy Muise
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">In this project, we recrui... | ["[Demographics & Main Analyses]\nAll relevant SPSS files (datasets and syntax) are available for download at: https://osf.io/d4s7e/*Use the OSF_sexmot_SIAD.sav datafile until otherwise specified.* Encoding: UTF-8.USE ALL. COMPUTE filter_$=(Role_A=2). VARIABLE LABELS filter_$ 'Role_A=2 (FILTER)'. VALUE LABELS filter_$ ... |
78,543 | Human metagenomics protocols Payami lab | 2 | dx.doi.org/10.17504/protocols.io.4r3l2719pg1y/v1 | https://www.protocols.io/view/human-metagenomics-protocols-payami-lab-cqxpvxmn | Haydeh Payami | TITLE: Human metagenomics protocols Payami lab
AUTHORS: Haydeh Payami
[DESCRIPTION]
This is a collection of protocols that details the entire process of conducting a human microbiome study from start to end. It includes (1) consent form, to enroll subjects with permission to store and share data (2) data collection pr... | [] |
52,308 | SaCas9 protein purification | 1 | dx.doi.org/10.17504/protocols.io.bxbupinw | https://www.protocols.io/view/sacas9-protein-purification-bxbupinw | Fatma Gomaa, Zhu-Hong Li, Roberto Docampo, Virginia Edgcomb | TITLE: SaCas9 protein purification
AUTHORS: Fatma Gomaa, Zhu-Hong Li, Roberto Docampo, Virginia Edgcomb
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify"><span>Developing transfection protocol for </span><span style = "font-style:italic;">Bodo saltan... | ["[SaCas9 protein purification]\nProtocol 1: for SaCas9 protein purification SaCas9 protein was prepared following methods described in Medeiros et al. (Medeiros et al., 2017) with modifications. Briefly, the bacterial expression vector p6XHis_NLS-SaCas9 (Addgene #101086) was transformed into Escherichia coli Rosetta 2... |
91,938 | Nuclei extraction protocol for flow cytometry based genome size estimation | 4 | dx.doi.org/10.17504/protocols.io.e6nvwdq27lmk/v1 | https://www.protocols.io/view/nuclei-extraction-protocol-for-flow-cytometry-base-c52ay8ae | Abhishek Soni, Lena Constantin, Agnelo Furtado, Robert J Henry | TITLE: Nuclei extraction protocol for flow cytometry based genome size estimation
AUTHORS: Abhishek Soni, Lena Constantin, Agnelo Furtado, Robert J Henry
[DESCRIPTION]
Flow cytometry (FCM) is widely opted to estimate genome size in plants. The sample preparations include chopping a fresh plant material in a suitable b... | ["[Reagents] Liquid Nitrogen\nspermidine trihydrochloride (Sigma,catalogue number S2501), \nspermine tetrahydrochloride (Sigma, cat. no. S1141), \nsucrose (Sigma, cat. no. S9378), \nTriton X-100 (Chem Supply, cat. No. TL125-P),\npolyvinylpyrrolidone-360(Sigma, cat. no. PVP360),\nTrizma Base (Sigma, cat. no. T1503), \np... |
72,292 | OpenVent DNA Polymerase Production | 2 | null | https://www.protocols.io/view/openvent-dna-polymerase-production-ciucuesw | Jenny Molloy, Stephane Fadanka, Nadine Mowoh | TITLE: OpenVent DNA Polymerase Production
AUTHORS: Jenny Molloy, Stephane Fadanka, Nadine Mowoh
[DESCRIPTION]
This collection contains the protocols for production, quality control, packaging and use of Beneficial Bio's dehydrated OpenVent DNA Polymerase.
Format: 32 tubes (4x8-tube PCR strips) 20ul of Enz... | [] |
38,781 | Bacterial Culture for Plasmid Extraction | 4 | null | https://www.protocols.io/view/bacterial-culture-for-plasmid-extraction-bh45j8y6 | Hung Liang Pai, Huan Jui Chang | TITLE: Bacterial Culture for Plasmid Extraction
AUTHORS: Hung Liang Pai, Huan Jui Chang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">In this protocol, we present the method of culturing bacteria overnight after transformation. This protocol will typically undergo plasmid extraction and baterial s... | ["[Preparation]\nTurn on the UV light of the laminar flow for to in order to sterilize it.", "[Preparation]\nPrepare LB Media.", "[Preparation]\nAdd 50 mL of LB Media to a 50 mL of centrifuge tube.", "[Preparation]\nAdd 50 μL of chloramphenicol.", "[Protocol]\nUse a toothpick to pick a single colony from a LB agar p... |
107,745 | Social Inequality in Medical Treatment | 0 | dx.doi.org/10.17504/protocols.io.ewov19wy2lr2/v1 | https://www.protocols.io/view/social-inequality-in-medical-treatment-dmf943r6 | Amanda Paust | TITLE: Social Inequality in Medical Treatment
AUTHORS: Amanda Paust
[DESCRIPTION]
Social Inequality in Medical Treatment
Objective: This project investigates the extent and nature of social inequality in potentially inappropriate medication (PIM) among individuals with multimorbidity in two studies.
Study 1: This stud... | ["[Study 1: Economic, cultural, and social inequalities in potentially inappropriate medication: a nationwide survey- and register-based study in Denmark] Background:\nThe number of people living with two or more chronic diseases (multimorbidity) is rapidly increasing, with estimates suggesting that over half of Danes ... |
83,658 | Sterilizer (Consolidated) | 1 | null | https://www.protocols.click/view/sterilizer-consolidated-cvxiw7ke | Rebecca Bennett | TITLE: Sterilizer (Consolidated)
AUTHORS: Rebecca Bennett
[DESCRIPTION]
How to use a Sterilizer/Autoclave (general)
[STEPS]
SECTION: Prepare Autoclave
1. Sign up in advance to use the autoclave.
Turn on autoclave
3. Press the “Jacket” button, to get the jacket pressure up so that the autoclave cycle will take less ti... | ["[Prepare Autoclave] Sign up in advance to use the autoclave.\nTurn on autoclave", "Press the “Jacket” button, to get the jacket pressure up so that the autoclave cycle will take less time.", "[Prepare Autoclave] Make sure that the sterilizer chamber as well as the chamber drain strainer (inside the drain hole near th... |
62,547 | Uncaged Male Enhancement | 3 | dx.doi.org/10.17504/protocols.io.eq2lyn92pvx9/v1 | https://www.protocols.io/view/uncaged-male-enhancement-b9btr2nn | Philipp H | TITLE: Uncaged Male Enhancement
AUTHORS: Philipp H
[DESCRIPTION]
This ancient beverage can and does help bolster health and it can even assist in fat burning and insulin effectiveness.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dqk5uv | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
For <a href="https://www.protocols.io/view/Enumeration-of-virus-particles-in-aquatic-or-sedim-dpy5pv" target="_blank">Enumeration of virus particles in aquatic or sediment samples by epifluorescence microscopy</a> protocol.
[GUIDELINES]
<strong>Preservation of samples (SYBR onl... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ctmwk5 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
We use this process to create our own Luminex assays from standard ELISA reagents.
[BEFORE_START]
Activation buffer (100 mM NaH2PO4, pH 6.3)<br />Coupling buffer (50 mM HEPES, pH 7.4)<br />PBS<br />PBS/1% BSA<br />EDC (N-(3-dimethylaminopropyl)-N'-ethylcarbodiimide)<br />S-NHS ... | [] |
75,802 | Guidelines to conduct RANAS based socio-hydrological (SH) surveys to understand behaviour | 1 | dx.doi.org/10.17504/protocols.io.rm7vzb725vx1/v1 | https://www.protocols.io/view/guidelines-to-conduct-ranas-based-socio-hydrologic-cm92u98e | Soham Adla, Diana Carolina Callejas Moncaleano, Mohammed Faiz Alam, D Daniel, Saket Pande | TITLE: Guidelines to conduct RANAS based socio-hydrological (SH) surveys to understand behaviour
AUTHORS: Soham Adla, Diana Carolina Callejas Moncaleano, Mohammed Faiz Alam, D Daniel, Saket Pande
[DESCRIPTION]
This is a protocol to quantify the determinants of behavioral change (such as technology adoption) in a gener... | ["[Analysing the collected data: conduct statistical analysis] Conduct additional inferential statistical analysis to establish relationships between your IVs and your target behaviour (DV).", "[Identify the research question] Eligibility check 1: \nIs the research question based on underlying human-water interactions?... |
null | null | null | dx.doi.org/10.17504/protocols.io.pradm2e | 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... | [] |
94,948 | Defined medium for Neocallimastigomycota | 4 | dx.doi.org/10.17504/protocols.io.bp2l6x551lqe/v1 | https://www.protocols.io/view/defined-medium-for-neocallimastigomycota-c8yczxsw | Sophia Strobl, Julia Vinzelj, Nico Peer, Diana Young, Akshay Joshi, Rolf Warthmann, Veronika Flad, Urs Baier, Michael Lebuhn, Hans-Joachim Nägele, Sabine M. Podmirseg | TITLE: Defined medium for Neocallimastigomycota
AUTHORS: Sophia Strobl, Julia Vinzelj, Nico Peer, Diana Young, Akshay Joshi, Rolf Warthmann, Veronika Flad, Urs Baier, Michael Lebuhn, Hans-Joachim Nägele, Sabine M. Podmirseg
[DESCRIPTION]
This is the protocol for the completely defined medium base for Neocallimastigomy... | ["Add salt solution I, salt solution II, hemin solution, resazurin solution, and MilliQ water to a cooking pot. \nIf you want to use xylan as a C-source (or other C-sources that don't dissolve well in water), you should add it here as well.", "Heat the mixture and simmer until everything is dissolved and the colour sta... |
86,608 | Blood and Fluid Collection and Processing SOP | 1 | dx.doi.org/10.17504/protocols.io.kxygx33w4g8j/v1 | https://www.protocols.io/view/blood-and-fluid-collection-and-processing-sop-cytqxwmw | John Herndon | TITLE: Blood and Fluid Collection and Processing SOP
AUTHORS: John Herndon
[DESCRIPTION]
This protocol describes the basic processing of blood and urine specimens from surgical resection patients. Blood is obtained for serum, EDTA plasma, and PBMCs. This is a standard protocol that can be adapted to fit most laborator... | ["In general we collect 3 EDTA anticoagulation tubes (purple) and one plain serum tube (red). Collection of the blood usually from a central arterial line or at the time of the IV placement. Urine is collected from Foley catheter and placed into a 50ml centrifuge tube.", "Blood and urine are retrieved from anesthesia i... |
72,988 | Thickness and width of the menisci of adult knee joint, a cadaveric study | 1 | dx.doi.org/10.17504/protocols.io.5qpvor31bv4o/v1 | https://www.protocols.io/view/thickness-and-width-of-the-menisci-of-adult-knee-j-cjh4uj8w | Bv Murlimanju, S Vikram, VANISHRI S. NAYAK, Nandini P Bhat, mangala.pai, Rajanigandha Vadgaonkar, Latha V Prabhu, Sunil S Nayak | TITLE: Thickness and width of the menisci of adult knee joint, a cadaveric study
AUTHORS: Bv Murlimanju, S Vikram, VANISHRI S. NAYAK, Nandini P Bhat, mangala.pai, Rajanigandha Vadgaonkar, Latha V Prabhu, Sunil S Nayak
[DESCRIPTION]
Background:The goal is to determine the thickness and width of the knee joint meniscus ... | ["[Thickness and width of the menisci of adult knee joint: a descriptive cross-sectional observational study in cadavers] Review of Literature\nThe first meniscal allograft transplantation in human was reported by Milachowski and Wirth in 1984 (10). However the concept of meniscal replacement could be traced back to Le... |
91,538 | Preparation of mouse tissue homogenates for RT-QuIC assay | 4 | dx.doi.org/10.17504/protocols.io.e6nvwd2w9lmk/v1 | https://www.protocols.io/view/preparation-of-mouse-tissue-homogenates-for-rt-qui-c5msy46e | arpine.sokratian, andrew.west | TITLE: Preparation of mouse tissue homogenates for RT-QuIC assay
AUTHORS: arpine.sokratian, andrew.west
[DESCRIPTION]
This protocol is designed for a standardized and efficient procedure to homogenize mouse tissue, conducive for RT-QuIC analysis. The process involves treating samples with PBS mixed with Triton-X100, f... | ["Measure the weight of each eppendorf tube using analytical scale and label the tube with assigned number", "Cut a tissue slice (around 100-200 mg) with a disposable blade on a plastic plate lid wrapped in a foil (all on ice), transfer to the Eppendorf protein low-binding tube (with known weight)", "Measure the weight... |
46,314 | Site Directed Mutagenesis 2016 | 4 | null | https://www.protocols.io/view/site-directed-mutagenesis-2016-brgim3ue | Elizabeth Fozo | TITLE: Site Directed Mutagenesis 2016
AUTHORS: Elizabeth Fozo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Site--directed Mutagenesis</div></div>
[STEPS]
?. [DpnI Digest:]
Transfer PCR to Epp tube.
?. [DpnI Digest:]
Remove 2 L from PCR.
?. [DpnI Digest:]
Add 2 L DpnI enzyme to remaining 48L.
... | ["[DpnI Digest:]\nTransfer PCR to Epp tube.", "[DpnI Digest:]\nRemove 2 L from PCR.", "[DpnI Digest:]\nAdd 2 L DpnI enzyme to remaining 48L.", "[DpnI Digest:]\nIncubate 1+ hrs 37ºC (1st digestion).", "[DpnI Digest:]\nAdd another 2 L DpnI enzyme to remaining 48 L (2nd digestion).", "[DpnI Digest:]\nUse PCR purifica... |
46,079 | NPC to Astrocyte Differentiation | 4 | dx.doi.org/10.17504/protocols.io.q26g781qqlwz/v1 | https://www.protocols.io/view/npc-to-astrocyte-differentiation-bq87mzzn | Celeste M M. Karch, Jacob Marsh, Rj Martinez | TITLE: NPC to Astrocyte Differentiation
AUTHORS: Celeste M M. Karch, Jacob Marsh, Rj Martinez
[DESCRIPTION]
Here, we provide a detailed protocol for differentiation of human induced pluripotent stem cell derived neural progenitor cells into astrocytes.
[STEPS]
SECTION: Preparation
1. Prepare astrocyte medium (Sci... | ["[Preparation] Prepare astrocyte medium (ScienCell Astrocyte Medium #1801) by adding FBS, antibiotic, and astrocyte growth supplement to basal media. All components are provided in ScienCell Astrocyte Medium #1801 kit.", "[Preparation] Prior to starting, NPCs are cultured in one well of a six well plate until they rea... |
null | null | null | dx.doi.org/10.17504/protocols.io.kckcsuw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Reliable clinical tests that are capable of measuring resistance are important tools for rehabilitation. An alternative that has increased popularity is the use of elastic tubes, which stand out for being easy to handle, low cost, practicality, and feasibility of use. To anal... | [] |
25,003 | Standard method for microCT-based additive manufacturing quality control 5: witness specimen analysis | null | dx.doi.org/10.17504/protocols.io.4njgvcn | null | Anton du Plessis | TITLE: Standard method for microCT-based additive manufacturing quality control 5: witness specimen analysis
AUTHORS: Anton du Plessis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">MicroCT is a well known technique and is often used for non-destructive analysis of parts produced by additive manufa... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ec9baz6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Viral Informatics Resource for Metagenome Exploration (VIROME) is a bioinformatics pipeline that classifies viral metagenome sequences after searching against annotated reference sequence databases (i.e., UniRef, SEED, ACLAME, COG, GO, KEGG, and PhageSEED) and a custom enviro... | [] |
31,288 | Shenfu Injection as an add-on treatment to improve survival rate of patients after cardiopulmonary resuscitation: a meta-analysis (protocol) | null | dx.doi.org/10.17504/protocols.io.basyiefw | null | Shuo Zhang, Xiaobei Si, Xiao-Han Fan, Lin-Yu Huo | TITLE: Shenfu Injection as an add-on treatment to improve survival rate of patients after cardiopulmonary resuscitation: a meta-analysis (protocol)
AUTHORS: Shuo Zhang, Xiaobei Si, Xiao-Han Fan, Lin-Yu Huo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Objective </... | [] |
83,130 | Astrocyte Isolation and ACM Production | 4 | dx.doi.org/10.17504/protocols.io.261gedp57v47/v1 | https://www.protocols.click/view/astrocyte-isolation-and-acm-production-cve2w3ge | Justin T Savage, Juan Ramirez, Dolores Irala, Cagla Eroglu | TITLE: Astrocyte Isolation and ACM Production
AUTHORS: Justin T Savage, Juan Ramirez, Dolores Irala, Cagla Eroglu
[DESCRIPTION]
Protocol for isolating rat cortical astrocytes and producing astrocyte conditioned media for synaptogenesis assays.
[STEPS]
SECTION: Cortical Astrocyte Isolation (Prep Day)
1. Prepare the fo... | ["[Cortical Astrocyte Isolation (Prep Day)] Prepare the following solutions (enough for 9 pups)\n \n \n Tube Label DPBS # of Aliquots + Additive Notes Lo OVO 36ml 2 2ml aliquot Add 400µl DNase before use Hi OVO 20ml 2 2ml aliquot BSA Buffer 76... |
null | null | null | dx.doi.org/10.17504/protocols.io.p49dqz6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a multiplex PCR-SSP for amplification of the follow SNPs of CR1 gene:</p>
<p>rs3737002;</p>
<p>rs11118131; </p>
<p>rs11118167; </p>
<p>rs17047660</p>
[BEFORE_START]
<p>1- Wear clean gloves;<br />2- Clean pipettes and stand with hypochlorite and 70% alcohol;<br />3- D... | [] |
53,445 | NEBNext® Varskip Short ARTIC SARS-CoV-2 RT-PCR Module E7626 | 4 | dx.doi.org/10.17504/protocols.io.byfdpti6 | https://www.protocols.io/view/nebnext-varskip-short-artic-sars-cov-2-rt-pcr-modu-byfdpti6 | New England Biolabs | TITLE: NEBNext® Varskip Short ARTIC SARS-CoV-2 RT-PCR Module E7626
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol details methods for the NEBNext® ARTIC SARS-CoV-2 RT-PCR Module, NEB #E7626S/L 24/96 reactions. </div><br/><div class = "text-block">cDNA Syn... | ["[cDNA Synthesis]\nGently mix and spin down the LunaScript RT SuperMix reagent. Prepare the cDNA synthesis reaction as described below:COMPONENTVOLUMERNA Sample8 µl\n(lilac) LunaScript RT SuperMix2 µlTotal Volume10 µlFor no template controls, mix the following components: COMPONENTVOLUME(white) Nuclease-free Water8 µl... |
50,491 | Procedure for Seeding Cells on the Disque Platform | 4 | dx.doi.org/10.17504/protocols.io.bvi3n4gn | https://www.protocols.io/view/procedure-for-seeding-cells-on-the-disque-platform-bvi3n4gn | Peter Anthony Jones*, Kisuk Yang*, Jeffrey M Karp | TITLE: Procedure for Seeding Cells on the Disque Platform
AUTHORS: Peter Anthony Jones*, Kisuk Yang*, Jeffrey M Karp
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Advances in treating β cell loss include islet replacement therapies or increasing cell proliferation rate in type 1 and type 2 diabete... | ["DP fabrication1. Disques ( inner diameter) were engraved by laser cutter from thick acrylic sheets. 2. A 1.0μm pore sized-hydrophilic PTFE membrane was attached to the bottom of a Disque using acrylic glue. 3. The reverse side of the membrane was attached to a supporting pedestal engraved by a laser cutter. La... |
62,539 | Keto Max Science Canada - Reviews, Benefits, Side Effects | 1 | dx.doi.org/10.17504/protocols.io.n2bvj6zqwlk5/v1 | https://www.protocols.io/view/keto-max-science-canada-reviews-benefits-side-effe-b9bjr2kn | ketomaxciencecanadas | TITLE: Keto Max Science Canada - Reviews, Benefits, Side Effects
AUTHORS: ketomaxciencecanadas
[DESCRIPTION]
Keto Max Science Canada - Reviews, Benefits, Side Effects
[STEPS]
1. Keto Max Science Canada - Reviews, Benefits, Side Effects
Would you like weight loss to be easier? Do you feel like there's no bone that ... | ["Keto Max Science Canada - Reviews, Benefits, Side Effects\nWould you like weight loss to be easier? Do you feel like there's no bone that works for you in your exercise or eating habits? Would you also say that you're too busy to suppose about eating healthy or working out? Keto Max Science Diet Capsules are the styl... |
59,719 | Useful methods: International survey for duckweed stock cultivation | 1 | null | https://www.protocols.io/view/useful-methods-international-survey-for-duckweed-s-b6jfrcjn | K. Sowjanya Sree, Klaus-J. Appenroth | TITLE: Useful methods: International survey for duckweed stock cultivation
AUTHORS: K. Sowjanya Sree, Klaus-J. Appenroth
[DESCRIPTION]
This protocol details about the international survey for duckweed stock cultivation. It contains protocols from the The International Steering Committee on Duckweed Research and Applic... | ["[Temperature and light conditions of the stock culture room] KJA: 17 °C; 30 μmol m-2 s-1 continuous white light by fluorescence tubes.", "[Temperature and light conditions of the stock culture room] BOG: Room temperature and daylight; in winter additional light for Wolffia and Wolffiella.", "[Temperature and light co... |
null | null | null | dx.doi.org/10.17504/protocols.io.hdcb22w | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
36,333 | Quantitative analysis of enteric neurons containing choline acetyltransferase and nitric oxide synthase immunoreactivities in the submucosal and myenteric plexuses of the porcine colon | 1 | dx.doi.org/10.17504/protocols.io.bfqmjmu6 | https://www.protocols.io/view/quantitative-analysis-of-enteric-neurons-containin-bfqmjmu6 | Maurizio Mazzoni, Filippo Caremoli, Luis Cabanillas, Janira de los Santos, Mulugeta Million, Muriel Larauche, Paolo Clavenzani, Roberto De Giorgio, Catia Sternini | TITLE: Quantitative analysis of enteric neurons containing choline acetyltransferase and nitric oxide synthase immunoreactivities in the submucosal and myenteric plexuses of the porcine colon
AUTHORS: Maurizio Mazzoni, Filippo Caremoli, Luis Cabanillas, Janira de los Santos, Mulugeta Million, Muriel Larauche, Paolo Cla... | ["Tissue Preparation", "Animal care and procedures described in this study were carried out in strict accordance with the National Institutes of Health recommendations for the humane use of animals. The experimental procedures were approved by University of California, Los Angeles (UCLA), Chancellor’s Animal Research C... |
53,622 | Universal, amplicon-based sequencing method for Canine Distemper Virus (CDV) | 1 | null | https://www.protocols.io/view/universal-amplicon-based-sequencing-method-for-can-bykwpuxe | Gábor Tóth, Zsófia Lanszki, Gabor Kemenesi | TITLE: Universal, amplicon-based sequencing method for Canine Distemper Virus (CDV)
AUTHORS: Gábor Tóth, Zsófia Lanszki, Gabor Kemenesi
[DESCRIPTION]
Canine distemper virus is a multihost pathogen wich mostly affects family Caniade (dog, fox, coyote, wolf) but it is also occur in other carnivorous families like Must... | ["[cDNA preparation] Mix the following components in an 0.2mL 8-strip tube;\n\nComponent Volume\n\n50µM random hexamers 1 µL \n10mM dNTPs mix (10mM each) 1 µL\nTemplate RNA 11 µL\nTotal ... |
null | null | null | dx.doi.org/10.17504/protocols.io.n6fdhbn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Data sources: Pubmed, Cochrane, Web of Science, Science Direct, Scopus, and Ovid MD. Searched until 30th April 2017. (chlorhexidine) AND (bacteremia OR bacteraemia) AND (extraction OR removal) were used as key words in a free-text search. Meeting Abstracts published were sear... | [] |
104,667 | Detailed culture protocol for the generation of human polarized cortical assembloids (polCA) | 0 | dx.doi.org/10.17504/protocols.io.4r3l2qyz4l1y/v1 | https://www.protocols.io/view/detailed-culture-protocol-for-the-generation-of-hu-dif34bqn | Camilla Bosone, Sara Elisabetta Barilà, Veronica Krenn, Jürgen A. Knoblich | TITLE: Detailed culture protocol for the generation of human polarized cortical assembloids (polCA)
AUTHORS: Camilla Bosone, Sara Elisabetta Barilà, Veronica Krenn, Jürgen A. Knoblich
[DESCRIPTION]
Cortical organoids generating all major cortical cell types in distinct compartments are widely used to mechanistically s... | ["[Step 3 | Set up of organizer-like embryoid bodies (OrEBs) and elongated organoids] Proceed with the mosaic Organizer Embryoid Body (OrEB) generation as follows (this will be day 0 of the organoid culture).", "[Step 3 | Set up of organizer-like embryoid bodies (OrEBs) and elongated organoids] Treat both CAG>FGF8 and ... |
null | null | null | dx.doi.org/10.17504/protocols.io.kfrctm6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol describe the steps to perform <em>Chlamydomonas reinhardtii</em> fluorescence microscopy.</p>
[BEFORE_START]
<ul>
<li>Culture cells in liquid media</li>
</ul>
[GUIDELINES]
<p>Cells should be cultured to a late log phase to increase cell number for microscopy.<... | [] |
107,383 | Rapid Barcoding Protocol V14 | 0 | dx.doi.org/10.17504/protocols.io.n92ld8ew8v5b/v1 | https://www.protocols.io/view/rapid-barcoding-protocol-v14-dk4x4yxn | Alex Shaw, Shannon Fitz | TITLE: Rapid Barcoding Protocol V14
AUTHORS: Alex Shaw, Shannon Fitz
[DESCRIPTION]
Preparation of DNA for sequencing using the Oxford Nanopore Technologies Rapid Barcoding kit
[STEPS]
1. Thaw kit components at room temperature, spin down briefly using a microfuge and mix by pipetting as indicated by the table below... | ["Thaw kit components at room temperature, spin down briefly using a microfuge and mix by pipetting as indicated by the table below:", "In the 0.2 ml thin-walled PCR tubes or an Eppendorf twin.tec® PCR plate 96 LoBind, mix the following:", "Ensure the components are thoroughly mixed by pipetting and spin down briefly."... |
18,502 | Mint-ChIP3: A low-input ChIP-seq protocol using multiplexed chromatin and T7 amplification | null | dx.doi.org/10.17504/protocols.io.wbefaje | null | Lauren D Walter, Peter van Galen, Bradley E. Bernstein, Charles B Epstein | TITLE: Mint-ChIP3: A low-input ChIP-seq protocol using multiplexed chromatin and T7 amplification
AUTHORS: Lauren D Walter, Peter van Galen, Bradley E. Bernstein, Charles B Epstein
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This is a ChIP-seq protocol that uses native chromatin plus MNase... | ["[Day 1]\nPreliminary StepsPrechill microfuge to 4°C.Thaw the chromatin adapters needed per your experimental design and hold on ice.Prepare the following three master mixes and hold on ice, before taking cells from the freezer.a. 2X MNase/Lysis Mastermix: The following yields a 2X lysis buffer with 60 U MNase per 20 ... |
101,225 | scNT-seq2: single-cell metabolically labelled new RNA tagging sequencing for time-resolved analysis of gene expression in single cells | 0 | dx.doi.org/10.17504/protocols.io.j8nlk8811l5r/v1 | https://www.protocols.io/view/scnt-seq2-single-cell-metabolically-labelled-new-r-de4h3gt6 | Qi Qiu, Fan Li, Dongming Liang, William Gao, Hao Wu | TITLE: scNT-seq2: single-cell metabolically labelled new RNA tagging sequencing for time-resolved analysis of gene expression in single cells
AUTHORS: Qi Qiu, Fan Li, Dongming Liang, William Gao, Hao Wu
[DESCRIPTION]
Single-cell metabolically labeled new RNA tagging sequencing (scNT-Seq) is a droplet microfluidics-bas... | ["[Metabolic labeling] Prepare a 1 M stock solution of 4-thiouridine (4sU) by dissolving the powder in DMSO.", "[Prepare cell suspension] After metabolic labeling, cells were rinsed once with DPBS.", "[Metabolic labeling] For metabolic labeling, the medium was replaced with fresh medium supplemented with nontoxic conce... |
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