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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54,163 | Background control of Gotcha RCA | 4 | dx.doi.org/10.17504/protocols.io.by5tpy6n | https://www.protocols.io/view/background-control-of-gotcha-rca-by5tpy6n | Chia-Hsien Shih | TITLE: Background control of Gotcha RCA
AUTHORS: Chia-Hsien Shih
[DESCRIPTION]
This protocol aims to verify that GotCha design works as expected.
[STEPS]
SECTION: Preparation
1. Add 5 µL of functional beads(Gotcha) into eppendorf
SECTION: Preparation
2. Centrifuge for 15000 rpm, 5 min and remove supernatant. Make... | ["[Preparation] Add 5 µL of functional beads(Gotcha) into eppendorf", "[Preparation] Centrifuge for 15000 rpm, 5 min and remove supernatant. Make sure that eppendorf should put on DynaMag when removing supernatant.", "[Protocol of Control group without miRNA] Add 3 µL of 10X phi29 polymerase reaction buffer into eppend... |
25,634 | Protocollo di Conformità di Riviste Scientifiche all Open Access | null | dx.doi.org/10.17504/protocols.io.5aag2ae | null | Daniele Cavestri, Francesca Mangialardo, Sebastian Barzaghi, Silvio Peroni | TITLE: Protocollo di Conformità di Riviste Scientifiche all Open Access
AUTHORS: Daniele Cavestri, Francesca Mangialardo, Sebastian Barzaghi, Silvio Peroni
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Questo protocollo è stato utilizzato per indagare la legittimità della definizione “Open A... | ["[Creazione tabella]\nCreazione di una tabella di spreadsheet in cui far confluire i dati raccolti durante l'analisi delle riviste.", "[Strutturazione tabella]\nViene creata una tabella di spreadsheet condivisa in cui far confluire i dati raccolti dall'analisi delle riviste. Si consiglia l'utilizzo di un editor collab... |
null | null | null | dx.doi.org/10.17504/protocols.io.rtdd6i6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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?. | ["To determine mtDNA copy number, total DNA was extracted using DNeasy Blood and Tissue Kit (Qiagen #69582).", "The relative fold change of mtDNA copy number was determined by quantitative PCR (qPCR) using a 72 well Rotorgene-3000 (Corbett Research, Cambridge, UK) with Sybr Green (Bio-Rad, CA, USA).", "The mtDNA was qu... |
null | null | null | dx.doi.org/10.17504/protocols.io.utkewkw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
BONCAT is a technique that allows for the visualization and isolation of metabolically active cells from complex environmental enrichments. This is achieved by incubating a sample with synthetic methionine analogs AHA (l-azidohomoalanine) or HPG (l-homopropargylglycine). Instead... | ["[Incubation Set Up (Time required: ~ 1.5 – 2.0 Hours)] {\"blocks\":[{\"key\":\"1r3g6\",\"text\":\" \",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[{\"offset\":0,\"length\":1,\"key\":0}],\"data\":[]},{\"key\":\"a5u3\",\"text\":\"\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\"... |
87,313 | Sanger Tree of Life HMW DNA Extraction: Manual Plant MagAttract v.2/3 | 4 | dx.doi.org/10.17504/protocols.io.dm6gp3z28vzp/v1 | https://www.protocols.io/view/sanger-tree-of-life-hmw-dna-extraction-manual-plan-czhrx356 | Maja Todorovic, graeme oatley, Amy Denton, Caroline Howard | TITLE: Sanger Tree of Life HMW DNA Extraction: Manual Plant MagAttract v.2/3
AUTHORS: Maja Todorovic, graeme oatley, Amy Denton, Caroline Howard
[DESCRIPTION]
This protocol describes the manual extraction of HMW DNA from plant or fungi tissue samples from a variety of species intended for long-read sequencing. It empl... | ["[Sample lysis] Prepare a lysis buffer master mix:\n Phosphate buffered solution (PBS)200 µLProteinase K20 µLRNase A4 µLBuffer AL150 µL", "[Sample lysis] Transfer 50 mg of cryogenically disrupted plant/fungi tissue from each sample to 2 mL microcentrifuge tubes and place on dry ice to keep the samples frozen.", "[Sam... |
70,097 | Protocol for mixed cortical striatal cell culture | 4 | dx.doi.org/10.17504/protocols.io.j8nlkw5y1l5r/v1 | https://www.protocols.io/view/protocol-for-mixed-cortical-striatal-cell-culture-cgprtvm6 | Chuyu Chen, Ciarra Smith, Loukia Parisiadou | TITLE: Protocol for mixed cortical striatal cell culture
AUTHORS: Chuyu Chen, Ciarra Smith, Loukia Parisiadou
[DESCRIPTION]
This protocol describes a optimised protocol for culturing cortical and striatal neurons from postnatal pup brains
[STEPS]
1. Add 500µl of poly-D-lysine solution to each well that will be used ... | ["Add 500µl of poly-D-lysine solution to each well that will be used for plating", "Allow to sit inside the hood for at least 30mins (this plate will stay under the hood until dissection is finished)", "Set BME + supplement and BME+AraC serum in water bath", "Add 1-2ml of BMS alone into 2 wells of a 24-well plate (not ... |
40,450 | Malassezia culture on modified Dixon media | 1 | null | https://www.protocols.io/view/malassezia-culture-on-modified-dixon-media-bjrakm2e | Hao Li, Genevieve Ong, Shirlyn Goh | TITLE: Malassezia culture on modified Dixon media
AUTHORS: Hao Li, Genevieve Ong, Shirlyn Goh
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The protocol describes the procedures to culture Malassezia species in modified Dixon (mDixon) media. It includes the recipe for mDixon, how to start the cult... | ["[Preparation of modified Dixon Broth]\nPlace a magnetic stir bar into an autoclaved beaker with Mili-Q water and turn on the magnetic stirrer.Set the temperature at 60-70ºC Temperature and stirring speed can be adjusted accordingly while preparing the media.", "[Preparation of modified Dixon Broth]\nAdd the following... |
76,317 | Explant Surgery: Chronic recoverable Neuropixels in mice | 1 | dx.doi.org/10.17504/protocols.io.bp2l6113dvqe/v3 | https://www.protocols.io/view/explant-surgery-chronic-recoverable-neuropixels-in-cnr5vd86 | Emily A Aery Jones | TITLE: Explant Surgery: Chronic recoverable Neuropixels in mice
AUTHORS: Emily A Aery Jones
[DESCRIPTION]
This protocol collection explains how to build a low-cost, lightweight system to implant 1 Neuropixels 1.0 probe or 2 Neuropixels 2.0 probes into mice, record during freely moving behavior, then recover the probes... | ["[Prepare mouse] Set O2 flow rate to 1-1.5L/min and isoflurane to 3%. Place mouse in anesthetic chamber.", "[Prepare mouse] When breathing has slowed to 1Hz, move animal to the toothbar. Switch isoflurane from chamber to nosecone. Wait until unresponsive to pedal reflex test, then lower to 1.5% isoflurane.", "[Prepare... |
65,362 | SlimCore Gummies Does it really work? Review After 30 Days Use | 3 | dx.doi.org/10.17504/protocols.io.e6nvwkn8zvmk/v1 | https://www.protocols.io/view/slimcore-gummies-does-it-really-work-review-after-cb3ssqne | SlimCore Gummies | TITLE: SlimCore Gummies Does it really work? Review After 30 Days Use
AUTHORS: SlimCore Gummies
[DESCRIPTION]
MUST CHECK: *Special Discounted Pricing Available For The First 50 Customers Only! (ORDER SlimCore Gummies)
[STEPS] | [] |
24,832 | DNA Quantification | null | dx.doi.org/10.17504/protocols.io.4g8gtzw | null | Addgene The Nonprofit Plasmid Repository | TITLE: DNA Quantification
AUTHORS: Addgene The Nonprofit Plasmid Repository
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol is for DNA quantification. To see the full abstract and additional resources, please visit </span><a href="https://www.addgene.org/protocols/dna-quantificat... | ["Before measuring any samples, be sure to ‘blank’ the spectrophotometer using the solution the DNA is resuspended in, but with no DNA added. 'Blanking' measures the background inherent to the machine and your solvent.", "If using a NanoDrop to measure your samples, place - of mini-prepped DNA onto the pedestal.\n1 µl\... |
30,945 | Ex vivo mouse kidney slice experiment | 1 | dx.doi.org/10.17504/protocols.io.baf9ibr6 | https://www.protocols.io/view/ex-vivo-mouse-kidney-slice-experiment-baf9ibr6 | Wakana Shoda, Naohiro Nomura, Fumiaki Ando, Hideaki Tagashira, Takahiro Iwamoto, Akihito Ohta, Kiyoshi Isobe, Takayasu Mori, Koichiro Susa, Eisei Sohara, Tatemitsu Rai, Shinichi Uchida | TITLE: Ex vivo mouse kidney slice experiment
AUTHORS: Wakana Shoda, Naohiro Nomura, Fumiaki Ando, Hideaki Tagashira, Takahiro Iwamoto, Akihito Ohta, Kiyoshi Isobe, Takayasu Mori, Koichiro Susa, Eisei Sohara, Tatemitsu Rai, Shinichi Uchida
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protoco... | ["Make an incision then cut the skin from the bottom to the top of the mice followed the abdominal line with the round side of the scissors.", "Mice were deep anesthetized.", "Cut the lateral skin to give free access to the abdomen.", "With your finger, displace the intestine to the right, who should see the kidney.", ... |
61,401 | Purify 247 Keto Gummies | 3 | dx.doi.org/10.17504/protocols.io.j8nlkk32dl5r/v1 | https://www.protocols.io/view/purify-247-keto-gummies-b77zrrp6 | H Shi | TITLE: Purify 247 Keto Gummies
AUTHORS: H Shi
[DESCRIPTION]
Health care reform adds various taxes on health care that insurance companies will have to collect and pay, but they're just going to pass it right through to us, the consumer.
[STEPS] | [] |
61,923 | PNA Synthesis | 6 | dx.doi.org/10.17504/protocols.io.eq2lyne9pvx9/v1 | https://www.protocols.io/view/pna-synthesis-b8qbrvsn | Cathy Miller | TITLE: PNA Synthesis
AUTHORS: Cathy Miller
[DESCRIPTION]
Peptide nucleic acid is one of the more important oligonucleotide mimics. Although PNA has a significant change in structure relative to oligonucleotides, the binding between PNA and complementary nucleic acids still follows the principle of base complementary ... | [] |
52,954 | FindingNemo Extraction 2: Phenol-free Method | 1 | dx.doi.org/10.17504/protocols.io.bxx2ppqe | https://www.protocols.io/view/findingnemo-extraction-2-phenol-free-method-bxx2ppqe | Inswasti Cahyani, John Tyson, Nadine Holmes, Josh Quick, Nicholas Loman, Matthew Loose | TITLE: FindingNemo Extraction 2: Phenol-free Method
AUTHORS: Inswasti Cahyani, John Tyson, Nadine Holmes, Josh Quick, Nicholas Loman, Matthew Loose
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This is a sub-protocol designed to extract/isolate ultra-high molecular weight (UHMW) DNA to obtai... | ["[UHMW DNA Extraction]\nThis protocol is adapted from Monarch® HMW DNA Extraction Kit for Cells & Blood.\nEither SDS (anionic surfactant) or CTAB (cationic surfactant) can be used in the lysis buffer. Providing alternative surfactants in the lysis buffer may help with different cell systems that require different bioc... |
52,592 | Bellueur Skin cream - Does (Bellueur Skin) Is Really Works Or Scam In Canada? | 1 | dx.doi.org/10.17504/protocols.io.bxkqpkvw | https://www.protocols.io/view/bellueur-skin-cream-does-bellueur-skin-is-really-w-bxkqpkvw | health | TITLE: Bellueur Skin cream - Does (Bellueur Skin) Is Really Works Or Scam In Canada?
AUTHORS: health
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><a href="https://www.healthpills24x7.com/order-bellueur-cream" style = "text-decoration:underline;color:blue;cursor:pointer;"><span style = ":;font-we... | ["Product Name:Bellueur Skin creamOfficial Website: CLICK HERE TO BUY FROM OFFICIAL WEBSITEBellueur Skincare is an Essential Facial Moisturizer Cream that includes organic and natural ingredients. The product is high in peptides and collagen, which help to firm up the skin and make it more elastic. It helps to smoo... |
35,409 | A protocol for massively parallel diagnosis and genome sequencing of SARS-CoV-2 | null | dx.doi.org/10.17504/protocols.io.betrjem6 | null | Leigh Monahan, Kay Anantanawat, Joyce To, Aaron Darling | TITLE: A protocol for massively parallel diagnosis and genome sequencing of SARS-CoV-2
AUTHORS: Leigh Monahan, Kay Anantanawat, Joyce To, Aaron Darling
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Managing the current COVID-19 pandemic requires diagnostic testing at an unprecedented scale. Howeve... | ["[Preparation of barcoded beads for RNA capture]\nWash of streptavidin-coated Dynabeads™ MyOne™ C1 magnetic beads as per the manufacturer’s instructions:\nThe first stage in our workflow is the preparation of bead-bound DNA probes that will facilitate subsequent viral RNA capture, cDNA synthesis and multiplex PCR to ... |
77,630 | Preparation and transformation of electrocompetent cells | 4 | null | https://www.protocols.io/view/preparation-and-transformation-of-electrocompetent-cp26vqhe | Andreas Sagen | TITLE: Preparation and transformation of electrocompetent cells
AUTHORS: Andreas Sagen
[DESCRIPTION]
A protocol for electroporation of E. coli. Other bacteria may work, with optimization of transformation buffer and settings.
[STEPS]
SECTION: Preparation of GYT medium
1. In a sterile flask, add 400 mL distilled water... | ["[Preparation of GYT medium] In a sterile flask, add 400 mL distilled water", "[Preparation of cells] Inoculate 500 mL of prewarmed LB medium from 25 mL overnight E. coli culture. Incubate at 37 °C and 300 rpm. Measure OD every 20 minutes, until OD600=0.4", "[Transformation] Pre-chill cuvettes on ice for 5 min, and pr... |
62,540 | RMX Male Enhancement - Best For Long Lasting In Bed (From 3 inches to Over 7 Inches)Your Women Loved It! | 3 | dx.doi.org/10.17504/protocols.io.5qpvob78zl4o/v1 | https://www.protocols.io/view/rmx-male-enhancement-best-for-long-lasting-in-bed-b9bkr2kw | RMX Male Enhancement | TITLE: RMX Male Enhancement - Best For Long Lasting In Bed (From 3 inches to Over 7 Inches)Your Women Loved It!
AUTHORS: RMX Male Enhancement
[DESCRIPTION]
RMX Male Enhancement
[STEPS] | [] |
36,915 | Imaging Mass Cytometry Modality Overview | null | dx.doi.org/10.17504/protocols.io.bgatjsen | https://www.protocols.io/view/imaging-mass-cytometry-modality-overview-bgatjsen | Michelle Daniel, Marda Jorgensen | TITLE: Imaging Mass Cytometry Modality Overview
AUTHORS: Michelle Daniel, Marda Jorgensen
[STEPS]
?. Process donor organs into samples for analysis. Lymph Node: dx.doi.org/10.17504/protocols.io.bbgnijvehttps://drive.google.com/drive/my-driveThymus: dx.doi.org/10.17504/protocols.io.bbgmiju6Spleen: dx.doi.org/10.17504/... | ["Process donor organs into samples for analysis. Lymph Node: dx.doi.org/10.17504/protocols.io.bbgnijvehttps://drive.google.com/drive/my-driveThymus: dx.doi.org/10.17504/protocols.io.bbgmiju6Spleen: dx.doi.org/10.17504/protocols.io.bc3kiykw", "Register organ donor, organs received, and common coordinate region informa... |
64,443 | Keto Tone Reviews: (2020 Update) SCAM or Legit Product, Where to Buy? | 3 | dx.doi.org/10.17504/protocols.io.4r3l2opw4v1y/v1 | https://www.protocols.io/view/keto-tone-reviews-2020-update-scam-or-legit-produc-ca63shgn | healthshead | TITLE: Keto Tone Reviews: (2020 Update) SCAM or Legit Product, Where to Buy?
AUTHORS: healthshead
[DESCRIPTION]
You want to get a natural, safe solution that really works. If you're like me then you know how hard it can be to find an all-in-one keto supplement that actually keeps your body in ketosis. That's why I'm... | [] |
70,756 | Characterization of the VKORC1 and CYP2C9 genotypes | 1 | dx.doi.org/10.17504/protocols.io.kxygx9edzg8j/v1 | https://www.protocols.io/view/characterization-of-the-vkorc1-and-cyp2c9-genotype-chcct2sw | Mirsada Causevic, Edin Begic | TITLE: Characterization of the VKORC1 and CYP2C9 genotypes
AUTHORS: Mirsada Causevic, Edin Begic
[DESCRIPTION]
Vitamin K antagonists are anticoagulants which represent widely prescribed drugs for prevention and treatment of thromboembolic disorders.
The molecular target of these drugs is vitamin K epoxide reductase ... | ["[Genomic DNA extraction] Patients' whole blood was collected in ethylenediaminetetraacetic acid (EDTA)-containing tubes and stored at -20°C until use. Genomic DNA extraction from the human whole blood, that is, leukocytes, was carried out according to the protocol described by Subbarayan PR and colleagues (doi: 10.21... |
66,580 | High resolution respirometry of isolated mitochondria from adult Octopus maya (Class: Cephalopoda) systemic heart | 1 | dx.doi.org/10.17504/protocols.io.kxygxzb2zv8j/v1 | https://www.protocols.io/view/high-resolution-respirometry-of-isolated-mitochond-cc9usz6w | Ana Karen Meza-Buendia, Omar Emiliano Aparicio-Trejo, Fernando Díaz, Claudia Caamal-Monsreal, José Pedraza-Chaverri, Carolina Álvarez-Delgado, Kurt Paschke, Carlos Rosas | TITLE: High resolution respirometry of isolated mitochondria from adult Octopus maya (Class: Cephalopoda) systemic heart
AUTHORS: Ana Karen Meza-Buendia, Omar Emiliano Aparicio-Trejo, Fernando Díaz, Claudia Caamal-Monsreal, José Pedraza-Chaverri, Carolina Álvarez-Delgado, Kurt Paschke, Carlos Rosas
[DESCRIPTION]
Mitoc... | ["[Isolation of mitochondria from the systemic heart of adult octopus] Starve octopus before the isolation experiment.", "[Isolation of mitochondria from the systemic heart of adult octopus] Sacrifice an adult Octopus maya specimen (about 1 kg) previously anesthetized with 3% alcohol and quickly remove the systemic h... |
60,116 | Effectiveness of exercise therapy and self-management education to improve physical activity levels in patients with acute exacerbations of chronic obstructive pulmonary disease: protocol of a systematic review and meta-analysis | 1 | dx.doi.org/10.17504/protocols.io.q26g74pz8gwz/v2 | https://www.protocols.io/view/effectiveness-of-exercise-therapy-and-self-managem-b6xurfnw | Koki Yamamoto, Mami Takayama, Tadayoshi Nonoyama, Yusuke Kon, Yoshiki Saimon, Takashi Kitagawa | TITLE: Effectiveness of exercise therapy and self-management education to improve physical activity levels in patients with acute exacerbations of chronic obstructive pulmonary disease: protocol of a systematic review and meta-analysis
AUTHORS: Koki Yamamoto, Mami Takayama, Tadayoshi Nonoyama, Yusuke Kon, Yoshiki Sa... | [] |
84,787 | Multifiber Array Fabrication | 1 | dx.doi.org/10.17504/protocols.io.n2bvj3x6wlk5/v1 | https://www.protocols.click/view/multifiber-array-fabrication-cw2txgen | Mai-Anh Vu, mwhowe | TITLE: Multifiber Array Fabrication
AUTHORS: Mai-Anh Vu, mwhowe
[DESCRIPTION]
We have developed a multi-fiber photometry approach to monitor dopamine release with sub-millimeter spatial resolution and sub-second temporal resolution at over 50 locations simultaneously throughout the striatum in awake, behaving mice exp... | ["[Fabrication steps] Cut fibers into several ~3 cm pieces using the ThorLabs fiber scribe", "[Fabrication steps] Secure the grid to the Helping Hands using one of the clamps and paper tape", "[Fabrication steps] Under the microscope, load fibers into the desired holes in the first row of the grid. The design of these ... |
46,877 | Strike one hundred to educate one: measuring efficiency of collective sanctions experimentally | 3 | dx.doi.org/10.17504/protocols.io.brz5m786 | https://www.protocols.io/view/strike-one-hundred-to-educate-one-measuring-effici-brz5m786 | Philipp CHAPKOVSKIY | TITLE: Strike one hundred to educate one: measuring efficiency of collective sanctions experimentally
AUTHORS: Philipp CHAPKOVSKIY
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">In this paper, we test if sanctions applied to an entire group for the free-riding of one of its members can increase the... | [] |
82,674 | Correlation of serum interleukin-6 levels and neutrophil-lympocyte ratio in the severity of COVID-19 | 1 | dx.doi.org/10.17504/protocols.io.rm7vzbworvx1/v1 | https://www.protocols.click/view/correlation-of-serum-interleukin-6-levels-and-neut-cuyswxwe | Tenri Esa Budu | TITLE: Correlation of serum interleukin-6 levels and neutrophil-lympocyte ratio in the severity of COVID-19
AUTHORS: Tenri Esa Budu
[DESCRIPTION]
Background:Interleukin-6 (IL-6) is a pro-inflammatory cytokine that is produced at varying levels in patients with coronavirus disease 2019 (COVID-19). The neutrophil–lympho... | ["[The Research Protocol : Correlatioan of interleukin-6 Levels and Neutrophil-lymphocyte ratio in the severity of COVID-19] The research protocol consisted of subject allocation, research flow, laboratory examination, method analysis\nSubject Allocation\n Research subjects who met the inclusion criteria were divided i... |
null | null | null | dx.doi.org/10.17504/protocols.io.iypcfvn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?. | [] |
83,144 | Mitochondrial Genome Assembly and Annotation | 5 | dx.doi.org/10.17504/protocols.io.kqdg3xeqqg25/v1 | https://www.protocols.io/view/mitochondrial-genome-assembly-and-annotation-cvfgw3jw | zehnpjr | TITLE: Mitochondrial Genome Assembly and Annotation
AUTHORS: zehnpjr
[DESCRIPTION]
This is a step by step protocol for assembling invertebrate mitochondrial genomes, annotating the genomes , publishing the genomes and then step by step protocol for making a phylogenetic tree using the data from the mitochondrial genom... | ["[Novoplasty v4.3.1] After QC, we ran our illumina short reads through a program called Novoplasty v.4.3.1. for mitochondrial genome assembly. \n \nNext you want to upload a seed and a reference file. The seed is where you would want the assembler to start assembling the program. I used the COI of an already published... |
46,236 | in situ Hi-C | 1 | null | https://www.protocols.io/view/in-situ-hi-c-brd4m28w | Florian Noack, Jeisimhan Diwakar, Boyan Bonev | TITLE: in situ Hi-C
AUTHORS: Florian Noack, Jeisimhan Diwakar, Boyan Bonev
[DESCRIPTION]
Protocol was adapted from the HiC 2.0 protocol (Belaghzal et al.; 2018).
[STEPS]
SECTION: Cell fixation
1. Resuspend dissociated cells in PBS to reach a maximal cell concentration of 2x106 cells/ml and add freshly prepared 2% Fo... | ["[Cell fixation] Resuspend dissociated cells in PBS to reach a maximal cell concentration of 2x106 cells/ml and add freshly prepared 2% Formaldehyde solution to reach a final concentration of 1%. Incubate for 10 minutes at RT with slow rotation.", "[Cell fixation] Add 2.0M glycine solution (Invitrogen, Cat. N.: 155270... |
60,500 | Next Generation Sequencing of HIV-1 Drug Resistant Mutations | 4 | dx.doi.org/10.17504/protocols.io.bp2l618k5vqe/v1 | https://www.protocols.io/view/next-generation-sequencing-of-hiv-1-drug-resistant-b7burinw | Brenna M McGruder Rawson | TITLE: Next Generation Sequencing of HIV-1 Drug Resistant Mutations
AUTHORS: Brenna M McGruder Rawson
[DESCRIPTION]
The Florida Department of Health's Bureau of Public Health Laboratories in Jacksonville has developed a protocol for the Next Generation Sequencing (NGS) of HIV, primarily for the purpose of drug-resista... | ["[RNA Extraction] RNA Extraction has been verified using the following methods", "[RNA Extraction] Qiagen QIAmp Viral RNA Mini Kit (DSP or RUO)\nhttps://www.qiagen.com/us/products/diagnostics-and-clinical-research/sample-processing/qiaamp-viral-rna-kits/", "[RNA Extraction] Thermofisher MagMAX Viral/Pathogen II (MVP I... |
64,403 | Natures Stimulant CBD Gummies Benefits,Ingredients,side effects and Is it legitor Does it Really Work Shark TankReviews [HOAX OR SCAM]{Update 2022}-, What To Know Before Using It?? | 1 | dx.doi.org/10.17504/protocols.io.14egn7yqmv5d/v1 | https://www.protocols.io/view/natures-stimulant-cbd-gummies-benefits-ingredients-ca5tsg6n | ajit | TITLE: Natures Stimulant CBD Gummies Benefits,Ingredients,side effects and Is it legitor Does it Really Work Shark TankReviews [HOAX OR SCAM]{Update 2022}-, What To Know Before Using It??
AUTHORS: ajit
[DESCRIPTION]
The upgrade has been mixed into other enhancements to increase its flavor and accessibility. Each fla... | ["Natures Stimulant CBD Gummies\n\n➢Product Name —Natures Stimulant CBD Gummies\n\n➢Main benefits —Helps to reduce stress, anxiety, and depression\n➢Ingredients — Hemp Extract\n➢ Location —United States\n➢Dosage ... |
26,557 | U Michigan - Podocyte Counting And Density Analysis | null | dx.doi.org/10.17504/protocols.io.565g9g6 | null | Jeff Hodgin, Jharna Saha | TITLE: U Michigan - Podocyte Counting And Density Analysis
AUTHORS: Jeff Hodgin, Jharna Saha
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This protocol is used to stain and count podocyte nuclei in mouse glomeruli f... | ["Protocol 1: Podocyte Nuclei Staining with Wilms’Tumor-1 (WT-1) Protein:1) Bake slides for 10 minutes at 60ºC if it is not baked previously 2) Wash 2x in xylene for 5 minutes 3) Wash 2x in 100% EtOH for 3 minutes 4) Wash 1x in 95% EtOH for 3 minutes 5) Wash 1x in 70% EtOH for 3 minutes 6) Rinse with dH²O 7) Place in P... |
93,353 | Yeast transformation | 4 | dx.doi.org/10.17504/protocols.io.8epv5xp65g1b/v1 | https://www.protocols.io/view/yeast-transformation-c7ehzjb6 | is Sparrow | TITLE: Yeast transformation
AUTHORS: is Sparrow
[DESCRIPTION]
Protocol was obtained from Ulschan Bathe and Kristen Van Geller from UF on May 2023 and optimized by myself.
This protocol is a variation on the highly efficient LiAc/SS/PEG method from Gietz et al., 2007 DOI: 10.1038/nprot.2007.13
[STEPS]
SECTION: Prep
1... | ["[Prep] 2 days before yeast transformation, start 3mL pre-culture of your yeast strain in appropriate selective media. Growth in SC is fine for this step.", "[Prep] If the DNA to be transformed is for integration, linearize your plasmid the night before and store in the fridge or freezer the morning of the transformat... |
17,554 | Intradermal coinfection of mice ears with L. major IA-2 and Staphylococcus aureus Newman strain | null | dx.doi.org/10.17504/protocols.io.vdse26e | null | Tiffany Borbon, Corey Parlet, Gwendolyn Clay, Mary E. Wilson | TITLE: Intradermal coinfection of mice ears with L. major IA-2 and Staphylococcus aureus Newman strain
AUTHORS: Tiffany Borbon, Corey Parlet, Gwendolyn Clay, Mary E. Wilson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Cutaneous coinfection of bacteria with </span><span style = "font-style:i... | [] |
33,923 | Dephosphorylation of 5´-ends of DNA using CIP (M0290) | 1 | dx.doi.org/10.17504/protocols.io.bddbi22n | https://www.protocols.io/view/dephosphorylation-of-5-ends-of-dna-using-cip-m0290-bddbi22n | New England Biolabs | TITLE: Dephosphorylation of 5´-ends of DNA using CIP (M0290)
AUTHORS: New England Biolabs
[DESCRIPTION]
Protocol for Dephosphorylation of 5´-ends of DNA using CIP in Restriction Enzyme Reaction. Uses the Calf Intestinal Alkaline Phosphatase (CIP - M0290).
[GUIDELINES]
Dephosphorylation of 5' -ends of DNA in Restr... | ["Prepare a 20 µL reaction as follows:\n DNA 1 pmol of DNA ends* CutSmart® Buffer (10X) 2 μl CIP 1 unit H2O, purified to 20 μl**", "Incubate at 37 °C for 30 min.", "Purify DNA by gel purification, spin-column (NEB #T1020 or NEB #T1030) or phenol extraction."] |
59,926 | Endosomal and lysosomal immunoprecipitation for proteomics, lipidomics, and TEM | 4 | dx.doi.org/10.17504/protocols.io.ewov14pjyvr2/v2 | https://www.protocols.io/view/endosomal-and-lysosomal-immunoprecipitation-for-pr-b6rwrd7e | Hankum Park, Frances V Hundley, J. Wade Harper | TITLE: Endosomal and lysosomal immunoprecipitation for proteomics, lipidomics, and TEM
AUTHORS: Hankum Park, Frances V Hundley, J. Wade Harper
[DESCRIPTION]
Previous studies have developed methods for isolation of lysosomes, mitochondria, and peroxisomes from non-denaturing extracts. Here we describe an approach for p... | ["[Lysosomal immunoprecipitation (Lyso-IP) for organelle proteomics] Seed 293 cells or 293EL cells expressing TMEM192-3xHA and 3xFLAG-EEA1 in 15-cm dishes, with one dish per replicate. Creation of the 293EL cells is described in protocol dx.doi.org/10.17504/protocols.io.byi7puhn.", "[Lysosomal immunoprecipitation (Lyso... |
72,539 | Organoid Immunohistochemistry on Ventana Benchmark XT | 1 | null | https://www.protocols.io/view/organoid-immunohistochemistry-on-ventana-benchmark-ci33ugqn | gustavo.parfitt, kristen.whitney | TITLE: Organoid Immunohistochemistry on Ventana Benchmark XT
AUTHORS: gustavo.parfitt, kristen.whitney
[DESCRIPTION]
Organoid Immunohistochemistry on Ventana Benchmark XT
[STEPS]
SECTION: Immunohistochemistry of organoid sections
1. Fix organoids in 10% NBF for 15-30 minutes.
SECTION: Immunohistochemistry of organoid... | ["[Immunohistochemistry of organoid sections] Fix organoids in 10% NBF for 15-30 minutes.", "[Immunohistochemistry of organoid sections] Prepare paraffin-embedded blocks on tissue processer.", "[Immunohistochemistry of organoid sections] Cut 5μm sections from FFPE (formalin-fixed paraffin-embedded) blocks using microto... |
48,616 | Cell counting with a haemocytometer (with mouse bone marrow example) | 1 | dx.doi.org/10.17504/protocols.io.btqgnmtw | https://www.protocols.io/view/cell-counting-with-a-haemocytometer-with-mouse-bon-btqgnmtw | Thomas Ashhurst, Darren A. Cox, Adrian L. Smith, Nicholas J. C. King | TITLE: Cell counting with a haemocytometer (with mouse bone marrow example)
AUTHORS: Thomas Ashhurst, Darren A. Cox, Adrian L. Smith, Nicholas J. C. King
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Cell counting is a critical step to determine the number of live leukocytes (white blood cells, WB... | ["[Counting cells]\nTake 10 µL of this mixture and load onto the haemocytometer.", "[Calculate concentration]\nCalculate cells/sample using the following formula:", "[Calculate concentration]\nDetermine required cell numbers and distribute into plateCalculate volume containing the required cell numbers: Vreq = (Creq /... |
88,491 | Drosophila Locomotion Protocol | 4 | dx.doi.org/10.17504/protocols.io.4r3l226p4l1y/v1 | https://www.protocols.io/view/drosophila-locomotion-protocol-c2njydcn | Mel Feany | TITLE: Drosophila Locomotion Protocol
AUTHORS: Mel Feany
[DESCRIPTION]
This protocol is used to assay the locomotion of flies as a screening tool.
[STEPS]
SECTION: Day -10: Set up crosses
1. Set up fly crosses as needed.
SECTION: Day 0-6: Collect progeny
2. ~10 days after setting up the crosses, progeny will begin t... | ["[Day -10: Set up crosses] Set up fly crosses as needed.", "[Day 0-6: Collect progeny] ~10 days after setting up the crosses, progeny will begin to eclose. Once daily, collect those that are desired, discarding any undesired genotypes. Flies should be collected in vials with 9-14 flies per vial. \n \n6 replicates per ... |
28,802 | iPSC editing with TALENs | null | dx.doi.org/10.17504/protocols.io.8dahs2e | null | Ruilin Tian, Jason Hong, Martin Kampmann | TITLE: iPSC editing with TALENs
AUTHORS: Ruilin Tian, Jason Hong, Martin Kampmann
[STEPS]
?. [Pre-coating 6 well plate]
Pre-coat 6 well plate with Matrigel (diluted 1:50 with Knockout DMEM) by adding to each well.
1 ml
?. [Passaging and Plating iPSC Cells]
Grow iPSCs until they are ~ 85 % confluent in one well of a 6... | ["[Pre-coating 6 well plate]\nPre-coat 6 well plate with Matrigel (diluted 1:50 with Knockout DMEM) by adding to each well.\n1 ml", "[Passaging and Plating iPSC Cells]\nGrow iPSCs until they are ~ 85 % confluent in one well of a 6 well plate or larger format.", "[Passaging and Plating iPSC Cells]\nRemove old medium an... |
50,342 | Adverse Events (Part 8 of Safety and Efficacy of Imatinib for Preserving Beta-Cell Function in New-onset Type 1 Diabetes Mellitus) | 1 | dx.doi.org/10.17504/protocols.io.bveen3be | https://www.protocols.io/view/adverse-events-part-8-of-safety-and-efficacy-of-im-bveen3be | Stephen.Gitelman , Jeffrey A. Bluestone | TITLE: Adverse Events (Part 8 of Safety and Efficacy of Imatinib for Preserving Beta-Cell Function in New-onset Type 1 Diabetes Mellitus)
AUTHORS: Stephen.Gitelman , Jeffrey A. Bluestone
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is Part 8 of "Safety and Efficacy of Imatinib for Preserving... | [] |
28,509 | Quantifying Biogenic Silica (bSi) Deposition Rates Adapted Method & Fluorescence Reading (PDMPO) via Fluorometer | null | dx.doi.org/10.17504/protocols.io.735hqq6 | null | Brittany Zepernick, Matthew Saxton, Steven Wilhelm | TITLE: Quantifying Biogenic Silica (bSi) Deposition Rates Adapted Method & Fluorescence Reading (PDMPO) via Fluorometer
AUTHORS: Brittany Zepernick, Matthew Saxton, Steven Wilhelm
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This method can be used to assess and quantify the rate of silica depos... | [] |
19,272 | Immunohistochemical classification of sensory and autonomic neurons projecting to the lower urinary tract in rats [keast-001] | null | dx.doi.org/10.17504/protocols.io.w3gfgjw | null | Janet Keast, Peregrine Osborne | TITLE: Immunohistochemical classification of sensory and autonomic neurons projecting to the lower urinary tract in rats [keast-001]
AUTHORS: Janet Keast, Peregrine Osborne
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This collection describes the procedures required to label, visualise, characte... | [] |
80,838 | Analysis of qualitative data, Statistical Analysis and Health Economic Analysis | 1 | dx.doi.org/10.17504/protocols.io.e6nvwjrbdlmk/v1 | https://www.protocols.io/view/analysis-of-qualitative-data-statistical-analysis-cs7ewhje | Kajiru Gad Kilonzo, Stefanie J. Krauth, Jo Halliday, Clive Kelly, Stefan Siebert, Gloria Temu, Christopher Bunn, Nateiya M Yongolo, Sally Wyke, Emma McIntosh, Blandina Mmbaga | TITLE: Analysis of qualitative data, Statistical Analysis and Health Economic Analysis
AUTHORS: Kajiru Gad Kilonzo, Stefanie J. Krauth, Jo Halliday, Clive Kelly, Stefan Siebert, Gloria Temu, Christopher Bunn, Nateiya M Yongolo, Sally Wyke, Emma McIntosh, Blandina Mmbaga
[DESCRIPTION]
This protocol details analysis of ... | ["[Analysis of qualitative data] REA data will be analysed using a constant-comparison method (34) to build up a preliminary classificatory scheme of the different kinds of joint pain reported in the community. Observation and documentary evidence will be used to situate the scheme.", "[Analysis of qualitative data] In... |
68,996 | Trans-cardiac perfusion of neonatal mice and immunofluorescence of the whole body | 4 | dx.doi.org/10.17504/protocols.io.bp2l61ow5vqe/v1 | https://www.protocols.io/view/trans-cardiac-perfusion-of-neonatal-mice-and-immun-cfmctk2w | Andrea Pérez Arévalo, Anne-Kathrin Lutz, Ekaterina Atanasova, Tobias M. Böckers | TITLE: Trans-cardiac perfusion of neonatal mice and immunofluorescence of the whole body
AUTHORS: Andrea Pérez Arévalo, Anne-Kathrin Lutz, Ekaterina Atanasova, Tobias M. Böckers
[DESCRIPTION]
Whole animal perfusion is a well-established method that has been used for the past decades in multiple research fields. Partic... | ["[Preparation of solutions and material] Prepare 20mL of formaldehyde solution by dissolving 4% w/v Paraformaldehyde (PFA, Sigma-Aldrich, 15127-500G) in Phosphate Buffered Saline without calcium and magnesium (PBS-/-, Gibco, 14190250). Stir until the powder is dissolved. Adjust the pH to 7.4 and filter the solution us... |
43,653 | Running Gels: Electrophoresis Gel Procedure | 3 | dx.doi.org/10.17504/protocols.io.bnvdme26 | https://www.protocols.io/view/running-gels-electrophoresis-gel-procedure-bnvdme26 | Demian F Gomez, Andrew J. Johnson, You Li | TITLE: Running Gels: Electrophoresis Gel Procedure
AUTHORS: Demian F Gomez, Andrew J. Johnson, You Li
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to run electrophoresis gels at the UF Forest Entomology Lab.</div><div class = "text-block"><span>This protocol is part of... | [] |
94,211 | pH-Dependent Adsorption of Chemicals by Biochar (Adsorption Edges) | 1 | null | https://www.protocols.io/view/ph-dependent-adsorption-of-chemicals-by-biochar-ad-c79bzr2n | joshua.padilla | TITLE: pH-Dependent Adsorption of Chemicals by Biochar (Adsorption Edges)
AUTHORS: joshua.padilla
[DESCRIPTION]
This is a protocol for determining the pH-dependent adsorption of chemicals by biochar. The resulting product is a plot of adsorbed concentration, or adsorbed fraction of added sorbate, as a function of pH. ... | ["[Prepared Materials Before Starting] Print out \"Adsorption Edge - Lab Notes Template\" (Lab Notes).", "[Prepared Materials Before Starting] Prepare 100 mL of 10 mM stock solution of Cd (Cd Stock Solution):\nWeigh out 0.1833 g of CdCl2 and quantitatively transfer to 100 mL volumetric flask using BGE. Add about 50 mL ... |
85,310 | Co-immunoprecipitation using GFP-trap | 1 | dx.doi.org/10.17504/protocols.io.6qpvr36o2vmk/v1 | https://www.protocols.click/view/co-immunoprecipitation-using-gfp-trap-cxi6xkhe | Dan Dou, Erika Holzbaur | TITLE: Co-immunoprecipitation using GFP-trap
AUTHORS: Dan Dou, Erika Holzbaur
[DESCRIPTION]
Here, we describe performing co-immunoprecipitation experiments in HEK293 cells using GFP-trap beads
[STEPS]
1. See "Protocol: HEK293 cell culture for co-immunoprecipitation experiments" for preceding culture and transfection.... | ["See \"Protocol: HEK293 cell culture for co-immunoprecipitation experiments\" for preceding culture and transfection. For the present study, HEK cells were transfected with EGFP-tagged bait proteins. Prey proteins were either endogenous or transfected with HA- or SNAP-tags.", "Prepare wash buffer:", "Prepare lysis buf... |
107,099 | Fluorescent Gelatin Degradation Assay to Evaluate EVh Action in TME Cells | 0 | null | https://www.protocols.io/view/fluorescent-gelatin-degradation-assay-to-evaluate-dkt34wqn | Bianca Cruz Pachane, Heloisa Sobreiro Selistre de Araujo | TITLE: Fluorescent Gelatin Degradation Assay to Evaluate EVh Action in TME Cells
AUTHORS: Bianca Cruz Pachane, Heloisa Sobreiro Selistre de Araujo
[DESCRIPTION]
The fluorescent gelatin degradation assay is a method to study cell invasion by detecting gelatinase activity in vitro upon epifluorescence microscopy analysi... | ["[Fluorescent Gelatin Coating] Open a new 96-well black plate under sterile conditions and label groups in technical triplicates to contain a vehicle (PBS) control (i.e., untreated cells in OptiMEM) and the EVh-treated group (i.e., EVh-treated cells in OptiMEM) for each cell line.", "[Fluorescent Gelatin Coating] Expe... |
63,159 | Delay Discounting Measured Using a Sequential Patch Depletion Procedure | 4 | dx.doi.org/10.17504/protocols.io.n92ldzqnnv5b/v1 | https://www.protocols.io/view/delay-discounting-measured-using-a-sequential-patc-b9wxr7fn | Keita Ishiwari, Paul Meyer, David Dietz, Jerry B Richards, Gabriel J. Barrero, Abraham Palmer, Oksana Polesskaya | TITLE: Delay Discounting Measured Using a Sequential Patch Depletion Procedure
AUTHORS: Keita Ishiwari, Paul Meyer, David Dietz, Jerry B Richards, Gabriel J. Barrero, Abraham Palmer, Oksana Polesskaya
[DESCRIPTION]
Running Delay Discounting experiment in Rats
[STEPS]
SECTION: Animals
1. Rats are housed in same-... | ["[Animals] Rats are housed in same-sex pairs in plastic laboratory cages (42 cm × 22 cm × 20 cm) lined with bedding (Aspen Shavings) and maintained in a reverse light-dark cycle (lights on from 19:00 to 07:00 hours) in a temperature (22 ± 1°C) and humidity (approximately 55 ± 5%) controlled colony.", "[Animals] Rats a... |
95,136 | Mitochondrial DNA base editing in HEK293T cells | 1 | dx.doi.org/10.17504/protocols.io.yxmvm3rnol3p/v1 | https://www.protocols.io/view/mitochondrial-dna-base-editing-in-hek293t-cells-c858zy9w | Nicole Lake, Kaiyue Ma, Justin Cohen, Monkol Lek | TITLE: Mitochondrial DNA base editing in HEK293T cells
AUTHORS: Nicole Lake, Kaiyue Ma, Justin Cohen, Monkol Lek
[DESCRIPTION]
This protocol is for the transfection of mitochondrial-targeted DddA-derived cytosine base editors (DdCBE), and their subsequent selection, in HEK293T cells. This uses a dual plasmid system, w... | ["[Plating of the HEK293T Cells] Plating of", "[Plating of the HEK293T Cells] The day before transfection, trypsinize and count the cells.", "[Plating of the HEK293T Cells] In a , plate 150000 cells per well in 1 mL per well of complete HEK media ( with 10 % volume without antibiotics).", "[Transfection of DdCBE Pl... |
41,604 | Qbiotix SARS-CoV-2 protocol | 1 | dx.doi.org/10.17504/protocols.io.bkvckw2w | https://www.protocols.io/view/qbiotix-sars-cov-2-protocol-bkvckw2w | vito | TITLE: Qbiotix SARS-CoV-2 protocol
AUTHORS: vito
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Qbiotix has developed novel nucleic acid assays and sample preparation procedures to improve global microbial detection standards and rapidly/inexpensively test high volume of samples. Qbiotix aims to e... | ["1- collect saliva vial in a collection deviprovided by Qbiotix\n1 mL", "2- open vial and scan barcode in a temperature laboratory with temperature between 18 and 25 degrees Celsius.", "3- dispense sample to single well in plate with a standard pipette\n250 µl", "4- dispense of magnetic bead solution in well with... |
63,832 | Cómo hacer un protocolo nuevo | 1 | dx.doi.org/10.17504/protocols.io.6qpvr6myzvmk/v2 | https://www.protocols.io/view/c-mo-hacer-un-protocolo-nuevo-cajyscpw | Anita Broellochs, Lenny Teytelman, Alexei Stoliartchouk, Gabriel Gasque | TITLE: Cómo hacer un protocolo nuevo
AUTHORS: Anita Broellochs, Lenny Teytelman, Alexei Stoliartchouk, Gabriel Gasque
[DESCRIPTION]
Este protocolo describe cómo crear un nuevo protocolo en protocols.io.
[BEFORE_START]
Todas los cambios que realice en el protocolo se guardarán automáticamente.
[GUIDELINES]
prot... | ["[Comenzando nuevo protocolo] Haga clic en el ícono + en la esquina superior derecha para abrir el menú principal y seleccione 'New protocol'.", "[Adición de descripción de protocolo] Añada un titulo. Este será el nombre de su protocolo.", "[Adición de descripción de protocolo] Añada un resumen (abstract). Esta deberí... |
61,322 | Phylogenetic classification of bacterial populations using a combined analysis of core SNPs and the presence/absence of accessory genes | 5 | dx.doi.org/10.17504/protocols.io.x54v9y13mg3e/v1 | https://www.protocols.io/view/phylogenetic-classification-of-bacterial-populatio-b75irq4e | Jared Johnson, Chris Curtin, Joy Waite-Cusic | TITLE: Phylogenetic classification of bacterial populations using a combined analysis of core SNPs and the presence/absence of accessory genes
AUTHORS: Jared Johnson, Chris Curtin, Joy Waite-Cusic
[DESCRIPTION]
Whole genome sequencing-based typing methods have become the gold standard for phylogenetic classifications ... | ["[Downloading required scripts] Download scripts from https://github.com/johnjare/panaroo_scripts.", "[Genome assembly and quality check:] Assemble bacterial genomes using Unicycler (https://github.com/rrwick/Unicycler). The standard input for Illumina-only assemblies is shown.", "[Genome assembly and quality check:] ... |
44,778 | Rehabilitation Protocol for Conservative Treatment of Knee Osteoarthritis | 1 | dx.doi.org/10.17504/protocols.io.bpyimpue | https://www.protocols.io/view/rehabilitation-protocol-for-conservative-treatment-bpyimpue | Luisa Mululo, Fabricio Loures | TITLE: Rehabilitation Protocol for Conservative Treatment of Knee Osteoarthritis
AUTHORS: Luisa Mululo, Fabricio Loures
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Exercise guidelines for lower limbs for patients included in the multi-professional ambulatory for conservative treatment for knee ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.srzed76 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol explores how to download datasets from the HMP portal, either from a sample id number.</p>
[STEPS]
?.
?. | [] |
36,608 | Measurement of Mouse Atherosclerotic Lesion Size: En Face Analysis of Aortic Lesions | null | dx.doi.org/10.17504/protocols.io.bfy8jpzw | https://www.protocols.io/view/measurement-of-mouse-atherosclerotic-lesion-size-e-bfy8jpzw | Chia-Hua Wu, Deborah A Howatt, Alan Daugherty, Hong Lu | TITLE: Measurement of Mouse Atherosclerotic Lesion Size: En Face Analysis of Aortic Lesions
AUTHORS: Chia-Hua Wu, Deborah A Howatt, Alan Daugherty, Hong Lu
[STEPS]
?. DISSECT AORTASThe SOP of the Daugherty/Lu laboratory requires training by either Deborah Howatt or a designated personnel prior to starting a project, ... | ["DISSECT AORTASThe SOP of the Daugherty/Lu laboratory requires training by either Deborah Howatt or a designated personnel prior to starting a project, irrespective of previous experience in other laboratories. 1.\tCut open the thoracic cavity of anesthetized mouse, draw blood from the right ventricle if plasma or ser... |
91,145 | Metabarcoding Fecal Swabs or Stomach Contents for Fish and Crustaceans using 2-PCR protocol and Illumina MiSeq | 4 | dx.doi.org/10.17504/protocols.io.ewov1qxokgr2/v1 | https://www.protocols.io/view/metabarcoding-fecal-swabs-or-stomach-contents-for-c49hyz36 | Eldridge Wisely | TITLE: Metabarcoding Fecal Swabs or Stomach Contents for Fish and Crustaceans using 2-PCR protocol and Illumina MiSeq
AUTHORS: Eldridge Wisely
[DESCRIPTION]
This protocol describes a method to metabarcode a 170bp region of the mitochondrial16S rRNA gene of crustaceans and a 163-185bp region of the mitochondrial 12S rR... | ["[Prepare Primers] Order metabarcoding primers with diversity spacers and Illumina overhang sequences (Illumina, 2013): (Miya et al., 2015): \nTCGTCGGCAGCGTCAGATGTGTATAAGAGACAGNNNNGTCGGTAAAACTCGTGCCAGC\n \n (Miya et al., 2015): GTCTCGTGGGCTCGGAGATGTGTATAAGAGACAGNNNNCATAGTGGGGTATCTAATCCCAGTTTG\n\n Berry et al., 201... |
20,658 | Case - Plasma Insulin Measurement by ELISA | null | dx.doi.org/10.17504/protocols.io.yesftee | null | Henri Brunengraber | TITLE: Case - Plasma Insulin Measurement by ELISA
AUTHORS: Henri Brunengraber
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Mouse Insulin ELISA kit is used for the non radioactive quantification of insulin in mouse p... | ["Protocol:\n1. Plasma or serum are isolated from mice fasted or after glucose injection. Heparin or EDTA coated tubes are acceptable for plasma fractionation.\n2. Insulin is measured according to the manufacturer’s directions.", "Manufacturer's Protocol below:MOUSE INSULIN ELISA KIT 96-Well Plate (Cat. #10-1247-01)", ... |
84,893 | Gut prep of intestinal immune cells | 4 | dx.doi.org/10.17504/protocols.io.ewov1q42ogr2/v1 | https://www.protocols.click/view/gut-prep-of-intestinal-immune-cells-cw55xg86 | Connor Monahan | TITLE: Gut prep of intestinal immune cells
AUTHORS: Connor Monahan
[DESCRIPTION]
This protocol details the procedure of purification of immune cells from the mouse small intestine.
[STEPS]
SECTION: Procedure
1.
Cut out the entire small intestine – from stomach to caecum.
SECTION: Procedure
2. Place in ice cold ... | ["[Procedure] Cut out the entire small intestine – from stomach to caecum.", "[Procedure] Place in ice cold PBS, move on to the next mouse.", "[Procedure] Continue removing all fat and connective tissue.", "[Procedure] Cut out the Peyer’s patches.", "[Procedure] Cut open the intestine longitudinally.", "[Procedure] Pla... |
9,474 | Binary HPLC method fot determination of 4-hydroxybenzoic acid (4-HBA), chlorogenic acid (CGA), quercetin (QUE), and salicilic acid (SAL) | 1 | dx.doi.org/10.17504/protocols.io.mhac32e | https://www.protocols.io/view/binary-hplc-method-fot-determination-of-4-hydroxyb-mhac32e | Mariusz Krzysztof Janczur, Emilio González Camarena | TITLE: Binary HPLC method fot determination of 4-hydroxybenzoic acid (4-HBA), chlorogenic acid (CGA), quercetin (QUE), and salicilic acid (SAL)
AUTHORS: Mariusz Krzysztof Janczur, Emilio González Camarena
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>We cut 1 g of each sample in such way tha... | ["[Extraction of secondary metabolites ]\nWe cut 1 g of each sample in such way that it contained the cuticle from one side of the sample. We homogenized it with 35 ml of the methanol 100%, and left them in ultrasonic 6 l bath during 30 min at room temperature.\n[methanol]\n[methanol]", "[Filtration of mobile phases]\n... |
25,163 | RNA Isolation from Plant Tissue Protocol 13: Trizol/RNAqueous Midi-Kit | null | dx.doi.org/10.17504/protocols.io.4tjgwkn | null | null | TITLE: RNA Isolation from Plant Tissue Protocol 13: Trizol/RNAqueous Midi-Kit
AUTHORS:
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Implemented by: Megan Rolf and Toni M. Kutchan</div><div class = "text-block">This protocol is based on a combination of two methods: The Trizol method described by... | ["Quickly weigh out of frozen tissue and place in a pre-chilled mortar containing liquid nitrogen.\n3 g", "Grind the sample into fine powder without allowing it to thaw.", "Add the sample into a 50 ml centrifuge tube containing of extraction buffer (10 ml buffer/g tissue).\n30 ml", "Vortex for , then incubate at for... |
42,313 | Chapter 7: Poison treatment | 4 | null | https://www.protocols.io/view/chapter-7-poison-treatment-bmjhk4j6 | Kerri Wolter | TITLE: Chapter 7: Poison treatment
AUTHORS: Kerri Wolter
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol outlines the steps to take in the event of a likely poisoning incident of multiple vultures.</div></div>
[STEPS]
?. If you attend the site of a likely poisoning incident, i.e. seve... | ["If you attend the site of a likely poisoning incident, i.e. several birds dead or ill around a carcass, consider and respect the site as a ‘crime scene’. It is imperative to avoid any damage to evidence as this is vital information in bringing any future legal action against a suspect.", "Contact the local law enforc... |
null | null | null | dx.doi.org/10.17504/protocols.io.gqcbvsw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>GreenGlo ™, 20,000X in Water, is a non-carcinogenic and non-toxic alternative to Ethidium bromide used for the detection of nucleic acids in agarose gels. It is as sensitive as Ethidium bromide. There is no toxic DMSO as GreenGlo ™ is supplied in water. <br /> <br />GreenGlo ... | [] |
90,184 | Parallel rapid expression and purification of proteins for crystallography (PREPX): large scale 1 L cultures | 1 | dx.doi.org/10.17504/protocols.io.yxmvm35zbl3p/v1 | https://www.protocols.io/view/parallel-rapid-expression-and-purification-of-prot-c4bgysjw | michael.fairhead | TITLE: Parallel rapid expression and purification of proteins for crystallography (PREPX): large scale 1 L cultures
AUTHORS: michael.fairhead
[DESCRIPTION]
This protocol details the parallel rapid expression and purification of proteins for crystallography (PREPX) at a 1 L culture scale. Recombinant proteins are expre... | ["[Expression] Either transform BL21 (DE3) with the appropriate plasmid OR streak from glycerol stock onto agar plate and incubate 240 min 37 °C*.", "[Expression] Grow 10 mL 240 min in 50 mL tube of each clone in superbroth + 1 % glucose + the appropriate antibiotics.", "[Expression] Use 10 mL to inoculate 1 L AIM-TB (... |
null | null | null | dx.doi.org/10.17504/protocols.io.hf5b3q6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jzncp5e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Calibration procedure for functionally aligning inertial sensors fixed to the shanks, thighs, trunk (e.g. sacrum, sternum), head, arms, and forearms / wrists. The movements were originally designed for analyzing skiing movements where the person is wearing ski boots. However,... | [] |
96,001 | Cost-reducing Nanopore Library Preparation for R10 Ligation Sequencing Kit | 4 | dx.doi.org/10.17504/protocols.io.j8nlkozy5v5r/v1 | https://www.protocols.io/view/cost-reducing-nanopore-library-preparation-for-r10-c9y9z7z6 | Guan Jie Phang | TITLE: Cost-reducing Nanopore Library Preparation for R10 Ligation Sequencing Kit
AUTHORS: Guan Jie Phang
[DESCRIPTION]
Cost-reducing protocols for Nanopore R10 flow cell Ligation Sequencing library construction.
[STEPS]
SECTION: Step1. End-prep
1. In a 200 µL PCR tube, mix the following chemicals:
SECTION... | ["[Step1. End-prep] In a 200 µL PCR tube, mix the following chemicals:", "[Step1. End-prep] Incubate in a thermocycler at 20 °C for 30 min and 65 °C for 30 min. Hold at 4 °C", "[Step2. Adapter ligation] Thaw the Ligation Adapter (LA) and Ligation Buffer (LNB). Vortex and spin down the tubes, and place on ice immediatel... |
50,561 | Integration of a cargo brick | 4 | dx.doi.org/10.17504/protocols.io.bvk9n4z6 | https://www.protocols.io/view/integration-of-a-cargo-brick-bvk9n4z6 | Carolyn Bayer, Maja Rennig, Anja Ehrmann, Morten Norholm | TITLE: Integration of a cargo brick
AUTHORS: Carolyn Bayer, Maja Rennig, Anja Ehrmann, Morten Norholm
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">SEGA, the Standardized Genome Engineering Architecture, is a comprehensive strain collection that enables genome engineering by combining only two r... | ["[preculture and DNA fragment- Day 1]\nPrepare a PCR product of the cargo brick and purify it from an agarose gel.", "[preculture and DNA fragment- Day 1]\nSetup a preculture of the strain with pSIM19 in LB medium supplemented with Spectinomycin and incubate at overnight\n30 33", "[Recombineering- Day 2 ]\nPrepare:"... |
87,432 | Trinity College Botanic Garden long-term monitoring program | 1 | dx.doi.org/10.17504/protocols.io.dm6gpjdedgzp/v2 | https://www.protocols.io/view/trinity-college-botanic-garden-long-term-monitorin-czmgx43w | Midori Yajima, Michelle Murray, Stephen Waldren, Jennifer McElwain | TITLE: Trinity College Botanic Garden long-term monitoring program
AUTHORS: Midori Yajima, Michelle Murray, Stephen Waldren, Jennifer McElwain
[DESCRIPTION]
Botanic gardens hold large, documented, and accessible collections of living plants. These represent unique subsets of taxa from different biogeographical region... | ["[Plant physiology] When\n\nJune, not later than mid-July (end of the growing season).\nMake sure plants are not water stressed, e.g. do not perform measurements after prolonged dry spells.", "[Plant physiology] Leaf selection\n\n1.1.1 Select 3 leaves/ leaflets/ phyllodes (from here on all referred to as leaves) ... |
94,691 | Circulating Interleukin-33 Levels in Obesity and Type 2 Diabetes: A Systematic Review and Meta-Analyses | 1 | dx.doi.org/10.17504/protocols.io.4r3l22k63l1y/v1 | https://www.protocols.io/view/circulating-interleukin-33-levels-in-obesity-and-t-c8qbzvsn | Ghalia Missous, Nicholas Van Panhuys | TITLE: Circulating Interleukin-33 Levels in Obesity and Type 2 Diabetes: A Systematic Review and Meta-Analyses
AUTHORS: Ghalia Missous, Nicholas Van Panhuys
[DESCRIPTION]
This protocol outlines a systematic review with meta-analyses to comprehensively assess Interleukin-33 (IL-33) levels in
individuals with Type 2 Dia... | ["[Background] Obesity and Type 2 Diabetes (T2D) pose substantial global\nhealth challenges, requiring effective interventions [1,2]. While the Interleukin-1 cytokine family,\nspecifically IL-1α and IL-1β, has been extensively studied for its role in\nassociated metabolic dysfunction [3], IL-33, also part of this famil... |
57,927 | Total RNA and DNA from Microalgae (24 samples per day) | 1 | null | https://www.protocols.io/view/total-rna-and-dna-from-microalgae-24-samples-per-d-b4tfqwjn | Yingyu Hu, Zoe V Finkel | TITLE: Total RNA and DNA from Microalgae (24 samples per day)
AUTHORS: Yingyu Hu, Zoe V Finkel
[DESCRIPTION]
Here we describe a protocol for extracting and quantifying bulk RNA and DNA from microalgae, which is adapted from Berdalet E. et al. (2005).
RNA and DNA are extracted from microalgae samples and then quant... | ["[Day 1: Freeze-dry samples] Freeze dry samples and blank filters. Freeze at -80 °C until processed.", "[Day 1: Prepare primary solutions] Turn on UV light in biosafety cabinet for 15 min and clean working surface with decontamination solution.", "[Day 1: Prepare primary solutions] Prepare Tris buffer 5 mM pH 8.0", ... |
85,594 | Human ovarian tissue fixation | 1 | dx.doi.org/10.17504/protocols.io.x54v9pyz1g3e/v1 | https://www.protocols.click/view/human-ovarian-tissue-fixation-cxt2xnqe | hannah.anvari, pooja.devrukhkar, francesca.e.duncan francesca.duncan | TITLE: Human ovarian tissue fixation
AUTHORS: hannah.anvari, pooja.devrukhkar, francesca.e.duncan francesca.duncan
[DESCRIPTION]
Purpose: This protocol is intended for use in fixing human ovarian tissue in a research setting. This protocol supplements the steps detailed in the collection, processing, and long-term sto... | ["[Ovarian tissue fixation for fixed wedges and ovarian explant pieces] Fill 1.5 mL micro centrifuge tube with 1 mL of Modified Davidson’s Solution (Cat. #64133- 50; Electron Microscopy Sciences, Hatfield, PA)", "[Ovarian tissue fixation for fixed wedges and ovarian explant pieces] Add one ovary wedge or all tissue pie... |
28,332 | MojoSort™ Mouse CD45 Nanobeads Protocol - Depletion | null | dx.doi.org/10.17504/protocols.io.7wkhpcw | null | Sam Li | TITLE: MojoSort™ Mouse CD45 Nanobeads Protocol - Depletion
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Product description and procedure summary:</span><span> The cells targeted by the Nanobeads are depleted by incubating your sample with the dir... | ["Prepare cells from your tissue of interest or blood without lysing erythrocytes.", "In the final wash of your sample preparation, resuspend the cells in MojoSort™ Buffer by adding up to 4 mL in a 5 mL (12 x 75 mm) polypropylene tube.Note: Keep MojoSort™ Buffer on ice throughout the procedure.", "Filter the cells with... |
93,178 | Library negative controls (LNCs) prepared on the Bravo NGS Workstation | 3 | dx.doi.org/10.17504/protocols.io.261ged17wv47/v1 | https://www.protocols.io/view/library-negative-controls-lncs-prepared-on-the-bra-c682zhye | Anna Schmidt, Sarah Nagel, Matthias Meyer | TITLE: Library negative controls (LNCs) prepared on the Bravo NGS Workstation
AUTHORS: Anna Schmidt, Sarah Nagel, Matthias Meyer
[DESCRIPTION]
Protocol for the preparation of library negative controls (LNCs) in FluidX tubes using the Bravo NGS Workstation. LNCs are used as part of the library preparation workflow of t... | [] |
76,416 | Calcium chloride transformation buffer | 4 | null | https://www.protocols.io/view/calcium-chloride-transformation-buffer-cnu8vezw | Andreas Sagen | TITLE: Calcium chloride transformation buffer
AUTHORS: Andreas Sagen
[DESCRIPTION]
Calcium chloride (CaCl2) transformation is a laboratory technique in prokaryotic (bacterial) cell biology. The addition of calcium chloride to a cell suspension promotes the binding of plasmid DNA to lipopolysaccharides (LPS). Positivel... | ["[5 M Calcium chloride transformation buffer] Add 40 mL distilled water to a 50 mL tube", "[5 M Calcium chloride transformation buffer] Measure and add 36.7525 g Calcium chloride dihydrate\n\nMaterials:", "[5 M Calcium chloride transformation buffer] Adjust pH to pH 7.4 with concentrated sodium hydroxide or hydrogen c... |
36,557 | Separation and purification of human PBMC from FRESH BLOOD | null | dx.doi.org/10.17504/protocols.io.bfxmjpk6 | https://www.protocols.io/view/separation-and-purification-of-human-pbmc-from-fre-bfxmjpk6 | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: Separation and purification of human PBMC from FRESH BLOOD
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Separation and purification of PBMC from FRESH BLOOD: list... | ["Put the needed amount of blood sampl into a conical tube.\n50 ml", "Add an equal volume of PBS 1X and mix well.\n{\"blocks\":[{\"data\":[],\"depth\":0,\"entityRanges\":[],\"inlineStyleRanges\":[],\"key\":\"7sj4k\",\"text\":\"\",\"type\":\"unstyled\"},{\"data\":[],\"depth\":0,\"entityRanges\":[],\"inlineStyleRanges\... |
75,547 | P3.-PROCEDIMIENTO DE VALORACIÓN DE PREINSCRIPCIONES Y RESOLUCIÓN DE ADMISIÓN | 1 | dx.doi.org/10.17504/protocols.io.eq2ly7eprlx9/v1 | https://www.protocols.io/view/p3-procedimiento-de-valoraci-n-de-preinscripciones-cmz3u78n | cgarcia | TITLE: P3.-PROCEDIMIENTO DE VALORACIÓN DE PREINSCRIPCIONES Y RESOLUCIÓN DE ADMISIÓN
AUTHORS: cgarcia
[DESCRIPTION]
Una vez admitida a trámite cada solicitud de admisión a los programas de doctorado de la EIDUCAM, seguirán el siguiente proceso para su valoración:
[STEPS]
SECTION: P3.-PROCEDIMIENTO DE VALORACIÓN DE PRE... | ["[P3.-PROCEDIMIENTO DE VALORACIÓN DE PREINSCRIPCIONES Y RESOLUCIÓN DE ADMISIÓN] La Secretaría de la EIDUCAM valorará administrativamente cada solicitud, estableciendo contacto con los candidatos cuando las solicitudes no cumplan con las exigencias documentales establecidas, estableciendo plazos para su subsanación en ... |
32,528 | DNA extraction from whole blood using simple salting out procedure | null | dx.doi.org/10.17504/protocols.io.bbzqip5w | null | Birgitt Schuele, Faria Zafar | TITLE: DNA extraction from whole blood using simple salting out procedure
AUTHORS: Birgitt Schuele, Faria Zafar
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The purpose of this protocol is high-molecular weight DNA extraction from whole blood for genetic analyses, including no amplification long-... | ["[Red blood cell lysis]\nIf you use FROZEN blood, start with step-case 'FROZEN blood'. If FRESH blood is used, select step-case 'FRESH blood'.", "[Red blood cell lysis]\nDecant the blood sample into 50 ml conical tube.", "[Red blood cell lysis]\nAdd 1x RBC lysis buffer up to .\n50 ml", "[Red blood cell lysis]\nPlace o... |
90,342 | cDNA Exome Capture v1.0.1 | 4 | null | https://www.protocols.io/view/cdna-exome-capture-v1-0-1-c4geytte | Parse Biosciences, Elisabeth Rebboah | TITLE: cDNA Exome Capture v1.0.1
AUTHORS: Parse Biosciences, Elisabeth Rebboah
[DESCRIPTION]
This protocol describes a modified version of the Parse Biosciences Gene Capture protocol for full-length cDNA meant for both Illumina short read and Oxford Nanopore long read library prep and sequencing. We use Twist Bioscien... | ["[Section 1: Hybridization] 1.1 Prepare cDNA", "[Section 1: Hybridization] Prepare for hybridization with the following checklist:\nFill an ice bucket\nSet a heat block to 65C\nProgram a thermocycler to 95C and set the heated lid to 105C\nEquilibrate SPRI beads (Ampure XP or KAPA Pure Beads) to room temperature for at... |
73,541 | Detection of phospho IRF3 and p65 in PBMCs by flow cytometry | 4 | dx.doi.org/10.17504/protocols.io.e6nvwjdwzlmk/v2 | https://www.protocols.io/view/detection-of-phospho-irf3-and-p65-in-pbmcs-by-flow-cj3duqi6 | Andrea Bausch | TITLE: Detection of phospho IRF3 and p65 in PBMCs by flow cytometry
AUTHORS: Andrea Bausch
[DESCRIPTION]
This protocol describes a method to detect phosphorylated IRF3 and phosphorylated p65 (subunit of NFkB) in PBMCs by flow cytometry. An extracellular staining to identify different immune subsets is followed by an i... | ["[Before start] Prepare DC Medium and pre-warm to 37 °C: \n+ 5% Human Serum \n+ 1% \n+ 1% \n\nPrepare Flow Buffer and cool to 4 °C: \n \n+2% heat inactivated FBS \n+ 2mM \n\nPut an aliquot of Methanol in the freezer and an aliquot of and PBS in the fridge \nCool centrifuge to 4 °C", "[Preparation and stimula... |
21,752 | ddRAD-Seq protocol | null | dx.doi.org/10.17504/protocols.io.zgyf3xw | null | Lara Shepherd | TITLE: ddRAD-Seq protocol
AUTHORS: Lara Shepherd
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. Digest 300ng of DNA with the enzymes Ava11 and Msp1 (New England Biolabs) in a total volume of 30 μl. Perform digestion in a PCR machine at 37˚C for 3 hours, followed by inactivation of the enzymes at 65˚C for ... | ["Digest 300ng of DNA with the enzymes Ava11 and Msp1 (New England Biolabs) in a total volume of 30 μl. Perform digestion in a PCR machine at 37˚C for 3 hours, followed by inactivation of the enzymes at 65˚C for 20 min. Confirm digestion is complete by running 4ul of the digest on a 2% agarose gel.", "Ligate adaptors t... |
75,111 | An experimental medicine study of seasonal influenza vaccination responses in Lymph nodE single-cell Genomics in AnCestrY (LEGACY01) | 2 | null | https://www.protocols.io/view/an-experimental-medicine-study-of-seasonal-influen-cmkfu4tn | Katrina M Pollock, Calliope Dendrou | TITLE: An experimental medicine study of seasonal influenza vaccination responses in Lymph nodE single-cell Genomics in AnCestrY (LEGACY01)
AUTHORS: Katrina M Pollock, Calliope Dendrou
[DESCRIPTION]
This is a collection of protocols of an experimental medicine study of seasonal influenza vaccination responses in Lymph... | [] |
32,587 | Spatial index of urban environment for health | null | dx.doi.org/10.17504/protocols.io.bb3jiqkn | null | Mara Lucia Marques, Dalton Muller Pessoa Filho | TITLE: Spatial index of urban environment for health
AUTHORS: Mara Lucia Marques, Dalton Muller Pessoa Filho
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Purpose: </span><span>The objective was to design an urban index for the identification of urban environment ... | [] |
67,435 | BeLiv Canada – What is The BeLiv | 1 | dx.doi.org/10.17504/protocols.io.n92ldzk3xv5b/v1 | https://www.protocols.io/view/beliv-canada-what-is-the-beliv-cd4js8un | visisharpcan | TITLE: BeLiv Canada – What is The BeLiv
AUTHORS: visisharpcan
[DESCRIPTION]
Glucose particles are loaded with fundamental energy wanted by substantial cells, muscles, tissues and even organs. Yet, as the colloquialism goes, a lot of any great can become hazardous. At the point when there is overabundance glucose in ... | [] |
26,214 | Spot-bleaching of a handful of C. elegans nematode worms | null | dx.doi.org/10.17504/protocols.io.5ueg6te | null | Cristian Riccio | TITLE: Spot-bleaching of a handful of C. elegans nematode worms
AUTHORS: Cristian Riccio
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the spot-bleaching of C. elegans</div></div>
[STEPS]
?. 1. Put a drop (20 to 50 µl) of bleaching solution on the edge of a clean NGM plate... | ["1. Put a drop (20 to 50 µl) of bleaching solution on the edge of a clean NGM plate seeded with E. coli .", "2. Pick several gravid hermaphrodites in the drop. The bleaching solution will kill the contaminants and hermaphrodites but will soak into the plate before the embryos hatch.", "3. The next day the L1 larvae wi... |
92,485 | In vivo reduction of age-dependent neuromelanin accumulation mitigates features of Parkinson’s disease | 2 | dx.doi.org/10.17504/protocols.io.rm7vzbno2vx1/v2 | https://www.protocols.io/view/in-vivo-reduction-of-age-dependent-neuromelanin-ac-c6jdzci6 | Marta Gonzalez-Sepulveda, Joan Compte, Miquel Vila | TITLE: In vivo reduction of age-dependent neuromelanin accumulation mitigates features of Parkinson’s disease
AUTHORS: Marta Gonzalez-Sepulveda, Joan Compte, Miquel Vila
[DESCRIPTION]
Methodological collection for In vivo reduction of age-dependent neuromelanin accumulation mitigates features of Parkinson’s disease
... | [] |
52,982 | Estimate of fractal dimension of rat tissues submitted to experimental protocols | 5 | dx.doi.org/10.17504/protocols.io.bxywppxe | https://www.protocols.io/view/estimate-of-fractal-dimension-of-rat-tissues-submi-bxywppxe | Gabriel Cao PhD | TITLE: Estimate of fractal dimension of rat tissues submitted to experimental protocols
AUTHORS: Gabriel Cao PhD
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Those who are dedicated to the analysis of structural changes in tissues have tried, over time, to seek increasingly "more rigorous" method... | ["Histological sections of 0.3 to 0.5 µm are obtained and stained with hematoxylin and eosin.", "Each histological section is photographed in contiguous and successive fields with a total magnification of 100X, obtaining a certain number of digitized images that constitute the map of the tissue surface under study.", "... |
27,588 | Growth Incremental analysis of thin sections from marine molluscs | null | dx.doi.org/10.17504/protocols.io.67chhiw | null | Niklas Hausmann, Harry K. Robson, Chris Hunt | TITLE: Growth Incremental analysis of thin sections from marine molluscs
AUTHORS: Niklas Hausmann, Harry K. Robson, Chris Hunt
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Annual growth patterns in marine mollusc shells are valuable indicators of t... | ["[Producing thin sections]\nSection oysters following Milner (2001) and using a precision saw with a diamond blade. First section is at the hinge and in direction of growth, the second (optional) section is done to remove unnecessarily long portions of the shell section.Milner, N., 2001. At the Cutting Edge: Using Thi... |
null | null | null | dx.doi.org/10.17504/protocols.io.hw7b7hn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>How to use the muSCOPE BLAST app.</p>
[STEPS]
?.
?.
?.
?.
?.
?. | [] |
53,702 | ADE 2022 Day 2: DNA Extraction | 1 | dx.doi.org/10.17504/protocols.io.yxmvmk4yng3p/v2 | https://www.protocols.io/view/ade-2022-day-2-dna-extraction-bypepvje | Tom Little | TITLE: ADE 2022 Day 2: DNA Extraction
AUTHORS: Tom Little
[DESCRIPTION]
DAY 2: ADE field practical instructions for DNA extraction
[STEPS]
1. You will be assigned a single SEQUENCING IDENTIFIER, a number from 01 to 96. Your tubes must be labelled with this SEQUENCING IDENTIFIER. Write down what SEQUENCING IDENTIFI... | ["You will be assigned a single SEQUENCING IDENTIFIER, a number from 01 to 96. Your tubes must be labelled with this SEQUENCING IDENTIFIER. Write down what SEQUENCING IDENTIFIER you have been assigned. Do not lose this. \nThe protocols set out below generally “work”: that is, the same protocol has been used successf... |
null | null | null | dx.doi.org/10.17504/protocols.io.rwbd7an | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
SECTION: Standard Preparation
?.
SECTION: Standard Preparation
?.
SECTION: Standard Preparation
?.
SECTION: Assay Running
?.
SECTION: Assay Running
?.
SECTION: Assay Running
?. | ["Homogenize 2 larvae in 40uL of lysis buffer (20mM Tris-HCL, pH8.0, 3mM magenesium chloride, 1mM EDTA, 0.02% B-mercaptoethanol, Protease inhibitor and 0.1% Triton X100)", "Centrifuge at 16,000g for 15min at 4 degree celcius and collected the supernatant", "Protein concentration is determined by Bradford Assay", "[Stan... |
99,096 | kpoint Inhibitors Combined with Radiotherapy or Chemoradiotherapy for Advanced Non-Small Cell Lung Cancer: A Systematic Review and Single-Arm Meta-Analysis | 0 | dx.doi.org/10.17504/protocols.io.261ge54njg47/v3 | https://www.protocols.io/view/kpoint-inhibitors-combined-with-radiotherapy-or-ch-dczy2x7w | ran cui, ran cui | TITLE: kpoint Inhibitors Combined with Radiotherapy or Chemoradiotherapy for Advanced Non-Small Cell Lung Cancer: A Systematic Review and Single-Arm Meta-Analysis
AUTHORS: ran cui, ran cui
[DESCRIPTION]
Background: The recent usage of immunotherapy combined with chemoradiotherapy has improved survival in advanced non-... | ["[steps] Develop a research question and hypothesis:Clearly define the research question and hypothesis for the meta-analysis, focusing on the efficacy and safety of concurrent immune checkpoint inhibitors combined with radiotherapy or chemoradiotherapy for advanced non-small cell lung cancer.", "[steps] Register the ... |
40,916 | Emotional Control Program | 3 | dx.doi.org/10.17504/protocols.io.bj7ukrnw | https://www.protocols.io/view/emotional-control-program-bj7ukrnw | Sebastião Santos1,2 | TITLE: Emotional Control Program
AUTHORS: Sebastião Santos1,2
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Emotions are part of our daily lives, they are the first stage of our learning, they are the first source of knowledge. Emotions and cognition are closely linked. And in this genesis it wil... | [] |
101,300 | OSU TriState SenNet Normal Donor Heart Acceptance Criteria | 0 | dx.doi.org/10.17504/protocols.io.bp2l62255gqe/v1 | https://www.protocols.io/view/osu-tristate-sennet-normal-donor-heart-acceptance-de6u3hew | Sean D. Stacey, Brenda F. Reader, Lorena Rosas, Victor Peters, Ana L. Mora, Mauricio Rojas | TITLE: OSU TriState SenNet Normal Donor Heart Acceptance Criteria
AUTHORS: Sean D. Stacey, Brenda F. Reader, Lorena Rosas, Victor Peters, Ana L. Mora, Mauricio Rojas
[DESCRIPTION]
This protocol describes the criteria required for the inclusion of human heart specimens from healthy “normal” organ donors in the Comprehe... | ["[Inclusion Criteria] The donor is authorized for research by Lifeline of Ohio, Central Ohio’s organ procurement agency, 18-80 years of age, negative for HCV, HBV, HIV, and has no active COVID-19 infection. The whole heart is procured by Lifeline of Ohio and the biorepository then provides the de-identified heart to t... |
85,502 | Co-culture leukemia high-content image analysis using supervised machine learning | 5 | dx.doi.org/10.17504/protocols.io.rm7vzxy52gx1/v1 | https://www.protocols.click/view/co-culture-leukemia-high-content-image-analysis-us-cxq6xmze | Hayden L Bell | TITLE: Co-culture leukemia high-content image analysis using supervised machine learning
AUTHORS: Hayden L Bell
[DESCRIPTION]
This protocol describes a non-informatics based approach to high-content image analysis of acute leukemia cells in co-culture with mesenchymal stromal cells (MSCs) using supervised machine lear... | ["[Training a supervised machine learning model (semantic segmentation)] Open the Ilastik software and load the BaseProject.ilp project.", "[Training a supervised machine learning model (semantic segmentation)] In the Input Data tab, load several different images (up to ~10) for training which are representative of dif... |
48,086 | Auto-Block Plus Tester | 1 | null | https://www.protocols.io/view/auto-block-plus-tester-bs7wnhpe | William Brigman, Paul Shumaker | TITLE: Auto-Block Plus Tester
AUTHORS: William Brigman, Paul Shumaker
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Previous Auto-Block Digester protocols developed by Aprel Ellison and Paul Shumaker</div></div>
[STEPS]
?. [DAY 1]
Number the digestion tubes accordingly.
?. [DAY 1]
Pipette 5mL (li... | ["[DAY 1]\nNumber the digestion tubes accordingly.", "[DAY 1]\nPipette 5mL (liquids) or weigh 0.15g (solids) into digestion tubes (always include at the end of the samples 2 blanks and 2 standards– see “standard section” for more detail)(Up to 50 samples + 2 standards + 2 blanks = 54 total)", "[DAY 2]\nOpen the “Operat... |
56,749 | Bogus Experimental Workflow | 1 | dx.doi.org/10.17504/protocols.io.b3nmqmc6 | https://www.protocols.io/view/bogus-experimental-workflow-b3nmqmc6 | Abby Moore | TITLE: Bogus Experimental Workflow
AUTHORS: Abby Moore
[DESCRIPTION]
This is a bogus workflow that demos a sequence of resources that cover sample prep, data acquisition and data processing.
[BEFORE_START]
This is what you should know before you start ....
[GUIDELINES]
These are my guidelines ....
[STEPS]
SECTION... | ["[Sample prep] Bogus Sample Prep Protocol", "[Data acquisition] Bogus Data Acquisition Protocol", "[Data data processing] Hello World Jupyter Notebook"] |
72,352 | Vector Linearization | 4 | null | https://www.protocols.io/view/vector-linearization-civ8ue9w | Felipe FE Edaes | TITLE: Vector Linearization
AUTHORS: Felipe FE Edaes
[DESCRIPTION]
Protocol for the linearization of a previously obtained vector.
[GUIDELINES]
Add phosphatase to remove phosphate, which remains from the end of linear vectors, thus preventing cells from relinearizing the vectors.
[STEPS]
SECTION: Measure DNA Concen... | ["[Measure DNA Concentration of the Plasmid] Use 1.0 µL to 1.5 µL of the elution buffer (used to elute the DNA) as blank.", "[Measure DNA Concentration of the Plasmid] Measure blank once to confirm the accuracy.", "[Measure DNA Concentration of the Plasmid] To measure DNA sample, add 1-1.5 µL", "Considering that 1 μg ... |
102,188 | General Setup and Takedown Procedures for Rodent Neurosurgery | 4 | dx.doi.org/10.17504/protocols.io.kqdg392o7g25/v2 | https://www.protocols.io/view/general-setup-and-takedown-procedures-for-rodent-n-df2k3qcw | Avalon Amaya, Jackie Swapp, Ali Williford, Robert E Howard | TITLE: General Setup and Takedown Procedures for Rodent Neurosurgery
AUTHORS: Avalon Amaya, Jackie Swapp, Ali Williford, Robert E Howard
[DESCRIPTION]
This protocol describes the pre-operative setup and post-operative take-down procedures utilized for rodent stereotaxic neurosurgical procedures.
[BEFORE_START]
Notice... | ["[Prepare Surgical Station for Surgery (all procedures)] Disinfect the surgical area.", "[Prepare Surgical Station for Surgery (all procedures)] Spray area for the surgical drape with PREempt and let sit for at least 5 min.", "[Prepare Surgical Station for Surgery (all procedures)] Spray all other surfaces - surgical ... |
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