id float64 1.55k 110k ⌀ | title stringlengths 1 256 ⌀ | template_id float64 0 6 ⌀ | doi stringlengths 39 49 ⌀ | url stringlengths 40 92 ⌀ | authors stringlengths 1 933 ⌀ | protocol_text stringlengths 34 1.08M | steps_list stringlengths 2 269k |
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null | null | null | dx.doi.org/10.17504/protocols.io.ngzdbx6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This collection contains our main protocols for performing CITE-seq and Cell Hashing, specifically on <a href="http://mccarrolllab.com/dropseq/" target="_blank">Drop-seq</a> or <a href="https://www.10xgenomics.com/single-cell/" target="_blank">10x Genomics single cell 3′ v2 c... | [] |
83,541 | NEBNext Ultra II Ligation Module (NEB # E7595) for NEBNext Ultra II End Repair/dA Tailing Module (NEB #E7546) | 1 | dx.doi.org/10.17504/protocols.io.kxygxmbnkl8j/v2 | https://www.protocols.click/view/nebnext-ultra-ii-ligation-module-neb-e7595-for-neb-cvtvw6n6 | jbonnevie | TITLE: NEBNext Ultra II Ligation Module (NEB # E7595) for NEBNext Ultra II End Repair/dA Tailing Module (NEB #E7546)
AUTHORS: jbonnevie
[DESCRIPTION]
This module is part of the Ultra™ II workflow, and is optimized for use with the NEBNext®Ultra II End Repair/dA-Tailing Module (NEB #E7546), for Illumina®-compatible lib... | ["[Ligation/End Prep] Add the following products directly to the End Prep Reaction Mixture:\n \n* Mix the Ultra II Ligation Master Mix by pipetting up and down several times prior to adding to the reaction.\n** The NEBNext adaptor is provided in the NEBNext Oligo kit options, which can be found at www.neb.com/oligos.",... |
null | null | null | dx.doi.org/10.17504/protocols.io.es9beh6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
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?. | [] |
86,923 | SW-2 SWAB PROCESSING | 4 | dx.doi.org/10.17504/protocols.io.eq2lyjjkrlx9/v1 | https://www.protocols.io/view/sw-2-swab-processing-cy5jxy4n | REDI-NET Consortium | TITLE: SW-2 SWAB PROCESSING
AUTHORS: REDI-NET Consortium
[DESCRIPTION]
This protocol details procedures for total nucleic acid extraction from swab samples.
[BEFORE_START]
BEFORE START
Pre-cool the Bullet Blender by adding dry ice into the cooling compartment and running the cooling program.
Clean the work surfaces... | ["[1. SAMPLE LYSIS] Add 500 µL of ATL-DX buffer and 20 µL Proteinase K to the bead tubes prepared in Step 4 of Before Start section under the Guidelines & Warning tab.", "[1. SAMPLE LYSIS] Place the sample swab in the bead tube with ATL buffer and Proteinase K. Use sterile scissors to carefully cut off the swab heads o... |
106,607 | Single-cell RNA sequencing from human dorsal root ganglion | 0 | dx.doi.org/10.17504/protocols.io.4r3l2qpr4l1y/v1 | https://www.protocols.io/view/single-cell-rna-sequencing-from-human-dorsal-root-dkcp4svn | Ishwarya Sankaranarayanan, Juliet M Mwirigi, Joesph B Lesnak, Muhammad Saad Yousuf, Theodore Price | TITLE: Single-cell RNA sequencing from human dorsal root ganglion
AUTHORS: Ishwarya Sankaranarayanan, Juliet M Mwirigi, Joesph B Lesnak, Muhammad Saad Yousuf, Theodore Price
[DESCRIPTION]
This protocol describes how to extract single cells from dorsal root ganglia sourced from human organ donors and perform single-cel... | ["[Harvesting and isolating single cell from human dorsal root ganglia] The extracted DRGs are transferred to a sterile petri dish on ice, where they are carefully trimmed using forceps and Bonn scissors to remove connective tissue, fat, spinal, and peripheral nerve processes. The dural layers (perineurium and epineuri... |
52,130 | CODEX Imaging Setup and Processing Experiment Protocol | 4 | dx.doi.org/10.17504/protocols.io.261ge472ov47/v1 | https://www.protocols.io/view/codex-imaging-setup-and-processing-experiment-prot-bw6aphae | Kavya.Anjani , Miguel.Rivera , Zoltanlaszik | TITLE: CODEX Imaging Setup and Processing Experiment Protocol
AUTHORS: Kavya.Anjani , Miguel.Rivera , Zoltanlaszik
[DESCRIPTION]
CODEX system is the combination of an (1) oligo-nucleotide based antibody labeling-detection technique, (2) a microfluidics instrument coupled with an inverted microscope capable of whol... | ["[Imaging Setup] Launch the CODEX Instrument Management Software and enter cycle, marker id and exposure time information. Minimize the window.", "[Imaging Setup] Place the plate with the CODEX-tagged dyes in its designated place in the instrument.", "[Imaging Setup] Clean any dried buffer on the bottom of the stained... |
null | null | null | dx.doi.org/10.17504/protocols.io.swxeffn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Are sentiments apartments decisively the especially alteration. Thrown shy denote ten ladies though ask saw. Or by to he going think order event music. Incommode so intention defective at convinced. Led income months itself and houses you. After nor you leave might share cour... | [] |
55,519 | dsDNA quantification using Sybr Green I | 4 | null | https://www.protocols.io/view/dsdna-quantification-using-sybr-green-i-b2f7qbrn | James JN Kitson | TITLE: dsDNA quantification using Sybr Green I
AUTHORS: James JN Kitson
[DESCRIPTION]
This is a simple protocol that uses Sybr Green 1 and a microplate reader to quantify dsDNA concentrations in unknown samples. This is best suited for situations where a high number of samples need to be quantified (e.g. normalisation... | ["[Part 1 - Make a dilution series of a Lambda DNA standard:] Using NEB lambda DNA (item N3011S) 10 ng/μl dsDNA standard in TE (20ul of 500ng/μl lambda DNA + 980 μl of TE).\nTE =10 mM Tris HCI, 1 mM EDTA, pH 8", "[Part 1 - Make a dilution series of a Lambda DNA standard:] Serially dilute this as below:\n \t\t\... |
23,999 | Biochemical Measures of Neuropathy - (H2) DCFDA | null | dx.doi.org/10.17504/protocols.io.3n7gmhn | null | Eva Feldman | TITLE: Biochemical Measures of Neuropathy - (H2) DCFDA
AUTHORS: Eva Feldman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">Oxidative stress is highly correlated with the metabolic changes caused by hyperglycemia. Incre... | ["[Assay Preparation:]\nSet up plate layout in AscentFL software. Choose DCFDA.sed and fill in your layout. Save your file as DCxxxxxx.sed with xxxxxx being the date in yy/mm/dd format.", "[Assay Preparation:]\nTreat cells per experimental paradigm.", "[Assay Preparation:]\n15-30 minutes prior to reading, add 3.23 µL o... |
101,864 | Mouse Lung Digestion | 1 | dx.doi.org/10.17504/protocols.io.5qpvok9z9l4o/v1 | https://www.protocols.io/view/mouse-lung-digestion-dfqg3mtw | gagandeep kaur, Irfan Rahman | TITLE: Mouse Lung Digestion
AUTHORS: gagandeep kaur, Irfan Rahman
[DESCRIPTION]
The objective of this protocol is to digest the mouse lungs to perform scRNA analyses
[STEPS]
SECTION: Lung Tissue Dissociation
2.
Immediately transfer the tubes to MACS Tissue Dissociator and run user-defined program named m_lung_01_02 ... | ["[Lung Tissue Dissociation] Immediately transfer the tubes to MACS Tissue Dissociator and run user-defined program named m_lung_01_02 for mouse lungs and m_heart_01.01 for mouse heart.", "[Lung Tissue Dissociation] 1) Mince tissue finely, place into 50ml GentleMACS C-tube with liberase enzymatic cocktail a. Fo... |
80,438 | ARIAS: An AR-based interactive advertising system | 3 | null | https://www.protocols.io/view/arias-an-ar-based-interactive-advertising-system-csswwefe | wantchoosejoy | TITLE: ARIAS: An AR-based interactive advertising system
AUTHORS: wantchoosejoy
[DESCRIPTION]
ARIAS is an AR-based advertising system, it can be manipulated by gestures interactively.
[STEPS] | [] |
37,290 | Traditional Chinese Medicine as add-on treatment of triple/quadruple therapy for Helicobacter pylori infection: an overview of systematic reviews and meta-analyses (Protocol) | null | dx.doi.org/10.17504/protocols.io.bgnijvce | https://www.protocols.io/view/traditional-chinese-medicine-as-add-on-treatment-o-bgnijvce | Xiaobei Si, Shuai Wang, Chun-Lian Lai, De-Ying Bi, Yu Lan | TITLE: Traditional Chinese Medicine as add-on treatment of triple/quadruple therapy for Helicobacter pylori infection: an overview of systematic reviews and meta-analyses (Protocol)
AUTHORS: Xiaobei Si, Shuai Wang, Chun-Lian Lai, De-Ying Bi, Yu Lan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><sp... | [] |
61,312 | Illumina MiSeq Dual-barcoded Two-step PCR Amplicon Sequencing Protocol | 1 | dx.doi.org/10.17504/protocols.io.yxmvmnppbg3p/v1 | https://www.protocols.io/view/illumina-miseq-dual-barcoded-two-step-pcr-amplicon-b748rqzw | Jana M. U'Ren, A. Elizabeth Arnold | TITLE: Illumina MiSeq Dual-barcoded Two-step PCR Amplicon Sequencing Protocol
AUTHORS: Jana M. U'Ren, A. Elizabeth Arnold
[DESCRIPTION]
Background Information
High throughput amplicon sequencing is an extremely sensitive technique. The lab environment is full of airborne bacterial and fungal cells as well as bacter... | ["[DNA QUANTIFICATION] For best results, first quantify DNA extractions using a PicoGreen assay with a fluorometer (e.g., Qubit). If possible, normalizing all DNA pools to a standard level (e.g., 5-10 ng/ul) prior to PCR1 ensures more consistent amplification across samples.\n \nFor soils, IBEST recommends using 100 ng... |
28,942 | Latex beads behavior assay | null | dx.doi.org/10.17504/protocols.io.8hnht5e | null | Jorge Fernández | TITLE: Latex beads behavior assay
AUTHORS: Jorge Fernández
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for testing latex beads agreggation after resuspension in different buffers. It allows determining how beads storage conditions can influence their ability to move freely trhough a mem... | ["[Latex Beads Resuspension]\nCentrifugate 4 different aliquots of 40 μL 2.5 %wt. latex bead stock suspension at 15.000 rpm for 3 minutes. After centrifugation remove the supernatat slowly.", "[Latex Beads Resuspension]\nResuspend the beads in 100 μL of the four different buffers: distilled water, PBS-T, Bicarbonate Bu... |
48,343 | Nucleic Acid Extraction, Amplification and Library Construction for Viral Metagenomic Sequencing. | 1 | null | https://www.protocols.io/view/nucleic-acid-extraction-amplification-and-library-btfxnjpn | Jing-Zhe (Ginger) Jiang, Hong-Ying Wei | TITLE: Nucleic Acid Extraction, Amplification and Library Construction for Viral Metagenomic Sequencing.
AUTHORS: Jing-Zhe (Ginger) Jiang, Hong-Ying Wei
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span> This protocol is a continuation of the previous protocol (</span><a href="https://dx.doi.org... | ["[Viral DNA/RNA Extraction]\nNow, the supernatant from step 13 of below protocol is ready, We will use HP Viral DNA/RNA Kit (Omega Bio-Tek, Norcross, GA, USA) to extract both the viral DNA and RNA sitimutaniously.\n{\"blocks\":[{\"key\":\"tks2\",\"text\":\"\\u00a0This is a protocol especielly for the isolation of Vira... |
86,198 | Analysing mitochondrial oxygen consumption using the Seahorse XFe96 analyzer | 4 | null | https://www.protocols.io/view/analysing-mitochondrial-oxygen-consumption-using-t-cyewxtfe | Louise Uoselis | TITLE: Analysing mitochondrial oxygen consumption using the Seahorse XFe96 analyzer
AUTHORS: Louise Uoselis
[DESCRIPTION]
Protocol for analysing mitochondrial oxygen consumption using the Seahorse XFe96 analyzer
[STEPS]
SECTION: Day 1
1. Seed cells in 10 cm plates aiming for a confluency of ~80-90% at the time of tre... | ["[Day 1] Seed cells in 10 cm plates aiming for a confluency of ~80-90% at the time of treatment", "[Day 1] Add 200 µL of Seahorse XFe calibrant solution to each well of a Seahorse (Agilent) cartridge plate, and incubate at 37 °C in a CO2-free incubator", "[Day 2] Isolate mitochondria (see previously published protoc... |
29,501 | Extraction of Oxycodone from Rat Brain for Mass Spec Analysis | 1 | null | https://www.protocols.io/view/extraction-of-oxycodone-from-rat-brain-for-mass-s-825hyg6 | Sierra Simpson, Olivier George | TITLE: Extraction of Oxycodone from Rat Brain for Mass Spec Analysis
AUTHORS: Sierra Simpson, Olivier George
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:center"><span style = "font-weight:bold;">Extraction of Oxycodone from Rat Brain for Mass Spec Anal... | ["[Brain Homogenization]\nBrains are snap-frozen upon harvest and are stored in -80C until ready for processing.Thaw out the tissue slowly on ice for 5-10 minutes, once thawed place the brain on a sterile dish and mince the entire brain using a fresh razor blade.", "[Brain Homogenization]\nAdd ~20- 40mg minced tissue t... |
38,954 | SOLUTION- 04 - Wash solution (RPMI/FBS) for PBMC | 3 | dx.doi.org/10.17504/protocols.io.biaikace | https://www.protocols.io/view/solution-04-wash-solution-rpmi-fbs-for-pbmc-biaikace | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: SOLUTION- 04 - Wash solution (RPMI/FBS) for PBMC
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[STEPS] | [] |
82,502 | In Situ Imaging of N-Glycans by MALDI Imaging Mass Spectrometry of Formalin-Fixed Paraffin-Embedded Tissue | 1 | dx.doi.org/10.17504/protocols.io.36wgqj2j5vk5/v2 | https://www.protocols.click/view/in-situ-imaging-of-n-glycans-by-maldi-imaging-mass-cutewwje | Xiaowei Lu, Richard R. Drake, Thomas W. Powers, Kim Norris-Caneda, Anand S. Mehta, Peggi M. Angel, Sean C. Bendall, Michael Angelo | TITLE: In Situ Imaging of N-Glycans by MALDI Imaging Mass Spectrometry of Formalin-Fixed Paraffin-Embedded Tissue
AUTHORS: Xiaowei Lu, Richard R. Drake, Thomas W. Powers, Kim Norris-Caneda, Anand S. Mehta, Peggi M. Angel, Sean C. Bendall, Michael Angelo
[DESCRIPTION]
Glycosylation of cell surface, secreted, and circul... | ["[Dewax] You can either use MIBI stain dewax_protocol or the protocol in Drake's published protocol. Here we adapted Drake's protocol into our oven settings in R139.", "[Antigen Retrieval (AR)] The purpose of antigen retrieval is to breakup the cross linking between the amino side chain of lysines and make the tissue ... |
null | null | null | dx.doi.org/10.17504/protocols.io.uazesf6 | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
102,682 | TrpB passaging protocol | 0 | dx.doi.org/10.17504/protocols.io.6qpvr8p3plmk/v1 | https://www.protocols.io/view/trpb-passaging-protocol-dgh23t8e | is Sparrow | TITLE: TrpB passaging protocol
AUTHORS: is Sparrow
[DESCRIPTION]
Instructions for passaging the evolving TrpB populations using the OrthoRep system for continuous directed evolution.
Protocol developed from Rix et al., 2020 and optimized in Burgess lab.
Special thanks to Vincent Hu for his aid in troubleshooting.
[S... | ["[Growth conditions] TrpB evolution-ready strains should be grown in SC -UL with shaking at 220 RPM at 30 °C\nThe first growth should be done at 100 micromolar (µM) Trp, then move on to 37 micromolar (µM) Trp. It may be a good idea to passage the cells in the same condition for a few times regardless of final OD to he... |
87,728 | hsqc_metab.nan | 5 | dx.doi.org/10.17504/protocols.io.5jyl8pd2dg2w/v1 | https://www.protocols.io/view/hsqc-metab-nan-czwqx7dw | NAN KB, John Glushka, Mario Uchimiya, Saraa Al Jawad, Christopher Esselman, Leandro I Ponce, Laura Morris, Arthur Edison | TITLE: hsqc_metab.nan
AUTHORS: NAN KB, John Glushka, Mario Uchimiya, Saraa Al Jawad, Christopher Esselman, Leandro I Ponce, Laura Morris, Arthur Edison
[DESCRIPTION]
This is a protocol for running the Bruker pulse program "hsqcetgpsisp2".
[BEFORE_START]
This protocol assumes:
Your sample is loaded, locked, tuned for ... | ["[Create a new dataset]", "[Create a new dataset] A new window opens. On the right top bar, select\nSource = /opt/NAN_METAB/par\n \nIn the list, select the one you want to use:\n\nFor serum and plasma samples:\nHSQC_br600_serum.par: Parameter set using an acquisition mode \"traditional planes\"\nHSQC_NUS_br600_serum.p... |
null | null | null | dx.doi.org/10.17504/protocols.io.tvaen2e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Factors influencing nutritional practices among mothers
[STEPS]
SECTION: Senegal raw data
?. | ["[Senegal raw data] {\"blocks\":[{\"key\":\"4patm\",\"text\":\"Nutritional knowledge, attitudes and practices of lactating women\\u00a0in Senegal\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"6ppdi\",\"text\":\" \",\"type\":\"unstyled\",\"depth\":0,\"inlineS... |
46,605 | 16s rDNA gene amplification protocol | 4 | dx.doi.org/10.17504/protocols.io.brrmm546 | https://www.protocols.io/view/16s-rdna-gene-amplification-protocol-brrmm546 | Nataly Ruiz Quinones, Cristian Daniel Asmat Ortega, Rene Flores Clavo | TITLE: 16s rDNA gene amplification protocol
AUTHORS: Nataly Ruiz Quinones, Cristian Daniel Asmat Ortega, Rene Flores Clavo
[STEPS]
?. [Master mix preparation]
In a polypropylene tube, mix the following reagents for the final volume of 25 μL per reaction
?. [Master mix preparation]
Add 2.5 μL of 10X Taq buffer (final c... | ["[Master mix preparation]\nIn a polypropylene tube, mix the following reagents for the final volume of 25 μL per reaction", "[Master mix preparation]\nAdd 2.5 μL of 10X Taq buffer (final concentration 1X)", "[Master mix preparation]\nAdd 0.75 μL of MgCl2 (50 mM) (final concentration 2.5 mM)", "[Master mix preparation]... |
69,614 | CTAB DNA Extraction Protocol for Mollusks | 4 | dx.doi.org/10.17504/protocols.io.e6nvwjpr2lmk/v1 | https://www.protocols.io/view/ctab-dna-extraction-protocol-for-mollusks-cf8ntrve | Lavanya M Vythalingam, Tim Regan, Tim Bean, Carolina Peñaloza | TITLE: CTAB DNA Extraction Protocol for Mollusks
AUTHORS: Lavanya M Vythalingam, Tim Regan, Tim Bean, Carolina Peñaloza
[DESCRIPTION]
This is a comprehensive CTAB extraction protocol intended for DNA extraction of mollusks. It includes detailed methodology and several reagent preparation.
[STEPS]
SECTION: Method
1.
... | ["[Method] Slice tissue sample using a clean, sterile scalpel. Put sample into a 1.5 ml tube with 400 µL .", "[Method] Add 10 µL 20 mg/mL and invert tube to mix.", "[Method] Incubate at 50 °C for 60 minutes until lysed (or longer depending on tissue thickness). Invert tube occasionally to mix sample.", "[Method] Ad... |
null | null | null | dx.doi.org/10.17504/protocols.io.ptmdnk6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A protocoll outlining the Preperation and transformation of electro-competent cells for <em>Vibrio natriegens</em></p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p> </p>
<p>Preparation of electrocompetent cells... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.esqbedw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
For use in <a href="https://www.protocols.io/view/CviJI-Purification-From-IL-3A-Virus-Infected-NC64A-er3bd8n" target="_blank">CviJI Purification From IL-3A Virus Infected NC64A Chlorella</a>.
[STEPS]
?.
?.
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.e23bggn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Protocols for Anti-BrdU Staining Using DNAse with Surface and Fluorescent Proteins</p>
<p>and Anti-BrdU Staining Using 70% Ethanol and 2N HCl</p>
[STEPS]
?. | [] |
69,396 | Protocol of a systematic review and meta-analysis: Post-exercise hypotension after aquatic exercises on elderly | 1 | dx.doi.org/10.17504/protocols.io.bp2l69k3rlqe/v1 | https://www.protocols.io/view/protocol-of-a-systematic-review-and-meta-analysis-cfzutp6w | Tassia Sisconeto, Igor Mariano, Caroline Pereira Garcês, Ana Carolina Kanitz, Guilherme Morais Puga | TITLE: Protocol of a systematic review and meta-analysis: Post-exercise hypotension after aquatic exercises on elderly
AUTHORS: Tassia Sisconeto, Igor Mariano, Caroline Pereira Garcês, Ana Carolina Kanitz, Guilherme Morais Puga
[DESCRIPTION]
Arterial hypertension (AH) is a chronic non-communicable disease of a mul... | ["[Abstract] Arterial hypertension (AH) is a chronic non-communicable disease of a multifactorial nature characterized by a consistent increase in blood pressure and is considered the main risk factor for the development of cardiovascular diseases. With aging, more than 70% of the elderly have AH. Aquatic exercise prov... |
26,445 | Lab Handbook Template | null | dx.doi.org/10.17504/protocols.io.53mg8k6 | null | Samuel Mehr | TITLE: Lab Handbook Template
AUTHORS: Samuel Mehr
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>[Imported from </span><a href="https://twitter.com/samuelmehr/status/1139733291899080705" style = "text-decoration:underline;color:blue;cursor:pointer;"><span style = ":;">this</span></a><span> th... | [] |
66,347 | BridPort Health Liver Support (Shocking!) Does Bridport Health Really Works? | 3 | dx.doi.org/10.17504/protocols.io.eq2lynrnevx9/v1 | https://www.protocols.io/view/bridport-health-liver-support-shocking-does-bridpo-cc2jsycn | BridPort Health Liver Support | TITLE: BridPort Health Liver Support (Shocking!) Does Bridport Health Really Works?
AUTHORS: BridPort Health Liver Support
[DESCRIPTION]
Order Now! Bridport Health Liver Support Only Visiting Official Website
[STEPS] | [] |
107,675 | Processing wastewater samples for bacterial & viral targets enrichment | 0 | dx.doi.org/10.17504/protocols.io.4r3l2qb7pl1y/v2 | https://www.protocols.io/view/processing-wastewater-samples-for-bacterial-amp-vi-dmd3428n | Victor Mabasa | TITLE: Processing wastewater samples for bacterial & viral targets enrichment
AUTHORS: Victor Mabasa
[DESCRIPTION]
This wastewater sample processing protocol by the Wastewater Genomics Syndicate at the National Institute of Communicable Diseases (NICD) is designed to enrich bacteria and viruses from the settled s... | ["[Sample Collection & Handling] Using correct personal protective equipment (PPE), collect a 1 000 mL grab wastewater sample from each location in a sterile bottle and transfer them to the laboratory in a cold chain (keep in a lab fridge at 4°C). it is important to proceed to the next step within the next 23 hours... |
99,555 | Simultaneous detection of miRNA and mRNA at the single-cell level in plant tissues (v2) | 4 | dx.doi.org/10.17504/protocols.io.q26g714e8gwz/v1 | https://www.protocols.io/view/simultaneous-detection-of-mirna-and-mrna-at-the-si-ddgb23sn | Chi-Chih Wu | TITLE: Simultaneous detection of miRNA and mRNA at the single-cell level in plant tissues (v2)
AUTHORS: Chi-Chih Wu
[DESCRIPTION]
Detecting the simultaneous presence of a microRNA (miRNA) and a mRNA in a specific tissue can provide support for the prediction that the miRNA regulates the mRNA. Ｗe develop a method that ... | ["Section permeabilization\n \n 1. The slides with sections are taken out the freezer and equilibrated to RT for 40 mins. 2. Permeabilized in 20 ug/ml proteinase k for proper duration 3. Quickly wash in DEPC-PBS 4. Quickly dehydrate the slides in EtOH (50, 70, 99 %) and then air dry 5. Mount ... |
47,333 | Making normal NGM for imaging plates (Cabreiro Lab) | 1 | null | https://www.protocols.io/view/making-normal-ngm-for-imaging-plates-cabreiro-lab-bsgdnbs6 | Saul Moore | TITLE: Making normal NGM for imaging plates (Cabreiro Lab)
AUTHORS: Saul Moore
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">C. elegans is maintained in the laboratory on Nematode Growth Medium (NGM) agar which has been aseptically poured into petri plates. The NGM agar medium can be poured into p... | ["[Pre-Autoclave:]\nBook the autoclave (notebook on top of the machine). Take clean flasks from the glass kitchen. Measure all the pre-autoclave reagents and add to the flask (Use a new weighing boat and spatula for each reagent. Also, the cholesterol is kept in the fridge.) Once water is added mix thoroughly and label... |
null | null | null | dx.doi.org/10.17504/protocols.io.seeebbe | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div title="Page 1">
<div>
<div>
<p>Endo F2 cleaves Asparagine-linked high mannose or biantennary oligosaccharides. It cleaves between the two N-acetylglucosamine residues in the diacetylchitobiose core of the oligosaccharide, generating a truncated sugar molecule with one N-ace... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.kezctf6 | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
41,570 | Isolation, Identification, and Antimicrobial Susceptibility Testing of Streptococcus pneumoniae | 4 | dx.doi.org/10.17504/protocols.io.bkuakwse | https://www.protocols.io/view/isolation-identification-and-antimicrobial-suscept-bkuakwse | Korrie Salsabila, Wisnu Tafroji, Wisiva Tofriska Paramaiswari, Miftahuddin Majid Khoeri, Dodi Safari | TITLE: Isolation, Identification, and Antimicrobial Susceptibility Testing of Streptococcus pneumoniae
AUTHORS: Korrie Salsabila, Wisnu Tafroji, Wisiva Tofriska Paramaiswari, Miftahuddin Majid Khoeri, Dodi Safari
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-style:italic;">St... | ["[Nasopharyngeal Swab Collection]\nNasopharyngeal swab collection follow method as described previously. A flexible nasopharyngeal flocked swab is slowly passed into nasopharynx. The swab should not be resistant before it was reached nasopharynx (NP). The nasopharynx distanced one-half to two-third from nostril to ear... |
96,352 | DOH Workshop Protocol Part 1: Purification of High- Molecular Weight Genomic DNA from Gram-Negative Bacteria (MagAttract HMW DNA) | 0 | dx.doi.org/10.17504/protocols.io.5jyl8p3p8g2w/v1 | https://www.protocols.io/view/doh-workshop-protocol-part-1-purification-of-high-dab82arw | Vesa Qarkaxhija, Bryan Wee, Natalie Ring | TITLE: DOH Workshop Protocol Part 1: Purification of High- Molecular Weight Genomic DNA from Gram-Negative Bacteria (MagAttract HMW DNA)
AUTHORS: Vesa Qarkaxhija, Bryan Wee, Natalie Ring
[DESCRIPTION]
This protocol enables extraction of high-molecular-weight DNA from gram-negative bacterial cultures.
[BEFORE_START]
... | ["[Purification of High- Molecular Weight Genomic DNA from Gram-Negative Bacteria] Pellet 1.5 mL of the Gram negative bacterial cell culture by spinning at 5000 x g for 3 min.", "[Purification of High- Molecular Weight Genomic DNA from Gram-Negative Bacteria] Remove and discard supernatant without disturbing the pellet... |
86,098 | Analysing cellular ATP levels | 4 | null | https://www.protocols.io/view/analysing-cellular-atp-levels-cybsxsne | Louise Uoselis | TITLE: Analysing cellular ATP levels
AUTHORS: Louise Uoselis
[DESCRIPTION]
Protocol for analysis of cellular ATP levels using the Promega Mitochondrial Toxglo Kit
[STEPS]
SECTION: Day 1
1. Seed cells into white opaque walled 96 well plates in 80 µL of media/well, aiming for a confluency of ~80-90% the next day at the... | ["[Day 1] Seed cells into white opaque walled 96 well plates in 80 µL of media/well, aiming for a confluency of ~80-90% the next day at the time of treatment. Fill all surrounding wells with water to prevent evaporation of the experimental samples. Make sure you seed a DMSO treatment control for each sample collection ... |
18,082 | Polymerase Chain Reaction (PCR) - DNA barcoding | null | dx.doi.org/10.17504/protocols.io.vwae7ae | null | Karen Guimaraes | TITLE: Polymerase Chain Reaction (PCR) - DNA barcoding
AUTHORS: Karen Guimaraes
[STEPS] | [] |
69,760 | OPestTL V1.4 -- the Open Pesticide Transition Library | 1 | dx.doi.org/10.17504/protocols.io.4r3l2o5jpv1y/v2 | https://www.protocols.io/view/opesttl-v1-4-the-open-pesticide-transition-library-cgc8tszw | Benjamin Orsburn | TITLE: OPestTL V1.4 -- the Open Pesticide Transition Library
AUTHORS: Benjamin Orsburn
[DESCRIPTION]
Pesticide residue screening is a critical method for environmental and food safety. Today, disjointed libraries of pesticide transitions can make it challenging to develop new methods between instrument vendors. From t... | [] |
95,771 | 605CefT - Resting Medium (no selection) | 4 | null | https://www.protocols.io/view/605ceft-resting-medium-no-selection-c9r3z58n | leiboffs | TITLE: 605CefT - Resting Medium (no selection)
AUTHORS: leiboffs
[DESCRIPTION]
This is part of the Leiboff Lab maize transformation protocol for somatic embryogenesis of B104 immature embryos. This protocol is a combination of Chen et al. 2022 and Kang et al. 2022 with some modifications based on material availability... | ["[Planning] Estimate the volume of 605CefT you will need based on the following:\n\n \n\nMake sure to round up! Check the table below to plan your media", "[Mixing Heat-Stable Ingredients] Retrieve the following heat-stable ingredients:\n605 Medium - Stored in Main Lab, 4C Refrigerator, Top Shelf\nCasin Hydrolysate -... |
54,694 | Roteiro para vídeo-devolutivas de relatórios actigráficos | 1 | dx.doi.org/10.17504/protocols.io.bznep5be | https://www.protocols.io/view/roteiro-para-v-deo-devolutivas-de-relat-rios-actig-bznep5be | Daniel Vartanian | TITLE: Roteiro para vídeo-devolutivas de relatórios actigráficos
AUTHORS: Daniel Vartanian
[DESCRIPTION]
Este protocolo foi criado para a criação de vídeo-devolutivas de relatórios actigráficos relacionados a pesquisas do Grupo Interdisciplinar de Pesquisa em Sono (GIPSO). Ele pode também ser utilizado por qualquer p... | ["[Preparação] Abra uma janela no navegador (Chrome: Ctrl + N) e adicione duas abas (Chrome: Ctrl + T) : uma com o relatório da devolutiva no Google Docs e outra com o Google Jamboard da devolutiva (nesta ordem).", "[Preparação] Caso alguém além de você esteja visualizando o Google Docs ou o Google Jamboard, peça para ... |
29,389 | MICRO-DILUCIÓN EN PLACA PARA LA EVALUACIÓN DE LA ACTIVIDAD ANTIMICROBIANA EN 50 uL | null | dx.doi.org/10.17504/protocols.io.8xmhxk6 | null | Germán Alberto Téllez Ramírez, Lily Johanna Toro, Juliana Franco Castrillon, Diana Carolina Henao, Jhon Carlos Castaño Osorio, Grupo de Inmunología Molecular GYMOL. Universidad del Quindio | TITLE: MICRO-DILUCIÓN EN PLACA PARA LA EVALUACIÓN DE LA ACTIVIDAD ANTIMICROBIANA EN 50 uL
AUTHORS: Germán Alberto Téllez Ramírez, Lily Johanna Toro, Juliana Franco Castrillon, Diana Carolina Henao, Jhon Carlos Castaño Osorio, Grupo de Inmunología Molecular GYMOL. Universidad del Quindio
[DESCRIPTION]
<div class = "t... | ["[Preparación de las bacterias ]\nTome las bacterias a evaluar del banco de células y siga el protocolo de descongelación (siembre en placas de medio selectivo e incube a 37°C por 12-24 horas)Inocule una de las colonias de las bacterias a evaluar en tubos conicos de 15ml con de 2-5ml de caldo de cultivo Muller Hinton ... |
57,426 | Enhanced Qiaseq Direct SARS-CoV-2 kit for Illumina Miseq | 4 | dx.doi.org/10.17504/protocols.io.b4bsqsne | https://www.protocols.io/view/enhanced-qiaseq-direct-sars-cov-2-kit-for-illumina-b4bsqsne | Padmini Ramachandran, Tamara Walsky, Amanda Windsor, Maria Hoffmann, Chris Grim | TITLE: Enhanced Qiaseq Direct SARS-CoV-2 kit for Illumina Miseq
AUTHORS: Padmini Ramachandran, Tamara Walsky, Amanda Windsor, Maria Hoffmann, Chris Grim
[DESCRIPTION]
This SARS-CoV-2 targeted, and rapid viral RNA library preparation and sequencing kit provides an approximately five hour turn-around time from v... | ["[cDNA setup]", "[cDNA setup] Thaw template RNA on ice. Gently yet thoroughly mix, then briefly centrifuge to collect residual liquid from the sides of the tubes and return to ice.", "[cDNA setup] Thaw RP Primer (random hexamer), Multimodal RT Buffer, and nuclease-free water at room temperature (15–25°C).", "[cDNA set... |
null | null | null | dx.doi.org/10.17504/protocols.io.n7pdhmn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div>
<div>
<div>
<div>
<p>This protocol was designed and developed at this laboratory.</p>
<p>The assay specifically targets the 3' UTR region of DENV-4 strains and is designed as a qualitative screening test for human cases of DENV-4 infection, but not for infection due to oth... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.erqbd5w | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong><u>Materials</u>:</strong></p>
<p>1.) NC64A mid-log phase cells, 1-2 X 10<sup>7</sup> cells/ml</p>
<p>2.) PBCV-1 or other virus</p>
<p>3.) liquid nitrogen</p>
<p>4.) spatulas, baked</p>
<p>5.) 2 ml microfuge tubes, sterile, RNAse-free (use gloves w/... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dkx4xm | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol is for whole protein extraction from tissues like kidney, liver ,musscle etc. Histone proteins which are tightly twisted on genomic DNA can also be extracted with this protocol.
[BEFORE_START]
ULTRA-TURRAX Dispenser T10 basis S25 (IKA)<br />Rotating mixer<br />Ben... | [] |
91,925 | Methods from: Multiplex, single-cell CRISPRa screening for cell type specific regulatory elements | 4 | null | https://www.protocols.io/view/methods-from-multiplex-single-cell-crispra-screeni-c5zvy766 | Florence Chardon, Troy McDiarmid | TITLE: Methods from: Multiplex, single-cell CRISPRa screening for cell type specific regulatory elements
AUTHORS: Florence Chardon, Troy McDiarmid
[DESCRIPTION]
CRISPR-based gene activation (CRISPRa) is a promising therapeutic approach for gene therapy, upregulating gene expression by targeting promoters or enhancers ... | ["[Cell Lines and Culture] K562 cell culture\nK562s cells are a pseudotriploid ENCODE Tier I erythroleukemia cell line derived from\na female (age 53) with chronic myelogenous leukemia15. All K562 cells were\ngrown at 37°C, and cultured in RPMI 1640 + L-Glutamine (GIBCO, Cat. No.\n11-875-093) supplemented with 10% feta... |
99,781 | Enzymatic treatment of free floating sections | 0 | dx.doi.org/10.17504/protocols.io.81wgbzyyqgpk/v1 | https://www.protocols.io/view/enzymatic-treatment-of-free-floating-sections-ddpd25i6 | Bryan Killinger | TITLE: Enzymatic treatment of free floating sections
AUTHORS: Bryan Killinger
[DESCRIPTION]
General protocol for enzymatic treatment of free floating brain sections.
[STEPS]
SECTION: Prepare 40 micron thick free floating brain sections for enzymatic treatments.
1. Wash in DM
SECTION: Prepare 40 micron thick free floa... | ["[Prepare 40 micron thick free floating brain sections for enzymatic treatments.] Wash in DM", "[Prepare 40 micron thick free floating brain sections for enzymatic treatments.] Wash in DM", "[Prepare 40 micron thick free floating brain sections for enzymatic treatments.] Wash in DM", "[Equilibrate tissue sections in r... |
57,743 | Passaging of hPSCs grown on MEFs | 4 | dx.doi.org/10.17504/protocols.io.b4mpqu5n | https://www.protocols.io/view/passaging-of-hpscs-grown-on-mefs-b4mpqu5n | Hanqin Li, Oriol Busquets, Steven Poser, Dirk Hockemeyer, Frank Soldner | TITLE: Passaging of hPSCs grown on MEFs
AUTHORS: Hanqin Li, Oriol Busquets, Steven Poser, Dirk Hockemeyer, Frank Soldner
[DESCRIPTION]
This protocol describes the standard procedure of using collagenase to passage human pluripotenct stem cells (hPSCs) on inactivated mouse embryonic fibroblasts (MEFs).
General notes
... | ["Wash hPSCs with DPBS", "Use 1 ml Collagenase solution/well of a 6-well plate.", "Incubate 45 min 37 °C . Watch for edge curling of the colonies as this indicates that collagenase incubation is complete.", "Add 2 ml wash medium to each well.", "Pipette repeatedly with 5 ml pipette to lift colonies, careful not to carr... |
87,249 | Characterization of the VKORC1 -1639G>A (rs9923231) polymorphism-associated genotypes | 1 | dx.doi.org/10.17504/protocols.io.j8nlko8mdv5r/v1 | https://www.protocols.io/view/characterization-of-the-vkorc1-1639g-gt-a-rs992323-czfrx3m6 | Mirsada Causevic, Honours BSc, PhD, Amina Sahbaz, MD, Edin Begic, MD, MA, PhD | TITLE: Characterization of the VKORC1 -1639G>A (rs9923231) polymorphism-associated genotypes
AUTHORS: Mirsada Causevic, Honours BSc, PhD, Amina Sahbaz, MD, Edin Begic, MD, MA, PhD
[DESCRIPTION]
The procoagulant factors (FII, FVII, FIX, FX) and anticoagulant factors (proteins C and S), which play an important role i... | ["[Human, genomic DNA extraction] Approximately 2-3 ml of human 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... |
22,847 | Aichivirus 3C3D RT-PCR | null | dx.doi.org/10.17504/protocols.io.2i7gchn | null | Judy Northill | TITLE: Aichivirus 3C3D RT-PCR
AUTHORS: Judy Northill
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This RT-PCR will detected Aichivirus A from human samples. It spans the junction region of 3C and 3D and is used for genotyping.</div><div style = "text-align :; float : ;"><img style = "" src = "htt... | ["[Oligonucleotide sequences]\nAB1Name \n5'-3'\n2AiV-6213FACTGGGCCACCCTCCAGACG3AiV-7044RGGTTGATTTCAGCTTGGAGTTC\nAB1Name \n5'-3'\n2AiV-6213FACTGGGCCACCCTCCAGACG3AiV-7044RGGTTGATTTCAGCTTGGAGTTC", "[Reaction set-up]\nABC1Reagent\nVol (µL) x1\nFinal reaction concentration\n2Nuclease free water3.6 \n3Primer AiV-6213F (... |
86,505 | Community Treatment Orders for Patients with Psychosis in a London Mental Health Service: A Target Trial Emulation | 1 | null | https://www.protocols.io/view/community-treatment-orders-for-patients-with-psych-cyqhxvt6 | Justin C Yang | TITLE: Community Treatment Orders for Patients with Psychosis in a London Mental Health Service: A Target Trial Emulation
AUTHORS: Justin C Yang
[DESCRIPTION]
Background:
Community Treatment Orders (CTOs) were introduced in the UK through the Mental Health Act 2007, allowing physicians to discharge patients with sever... | ["[Background] Community treatment orders (CTOs), introduced in the United Kingdom through the Mental Health Act 2007, are a legal mechanism by which physicians may discharge patients with serious mental health disorders into the community while providing supervised and compulsory treatment. Evidence to support the eff... |
105,255 | The design and manufacture of massively scalable inertial focusing prototype microfluidic devices | 0 | dx.doi.org/10.17504/protocols.io.n2bvjnrmpgk5/v2 | https://www.protocols.io/view/the-design-and-manufacture-of-massively-scalable-i-di2f4gbn | Thomas Carvell | TITLE: The design and manufacture of massively scalable inertial focusing prototype microfluidic devices
AUTHORS: Thomas Carvell
[DESCRIPTION]
Microfluidics is a rapidly expanding field and microfluidic devices have been used in a variety of biomedical applications such as cell sorting, disease diagnostics and various... | ["[Design of exemplar parts] Open computer-aided design software and ensure 3D-modelling format is\nselected and units are set to millimetres.", "[Design of exemplar parts] Select the rectangle tool and enter x-y coordinates for origin (0, 0). The width is 35 and the height is 70. This generates the ‘device rectangle’.... |
71,230 | iNeuron differentiation from human iPSCs | 1 | dx.doi.org/10.17504/protocols.io.261ge348yl47/v1 | https://www.protocols.io/view/ineuron-differentiation-from-human-ipscs-chs6t6he | Dan Dou, C. Alexander Boecker, Erika L.F. Holzbaur | TITLE: iNeuron differentiation from human iPSCs
AUTHORS: Dan Dou, C. Alexander Boecker, Erika L.F. Holzbaur
[DESCRIPTION]
We adapted a previously-described method (Boecker et al., 2020, 2021; Fernandopulle et al., 2018) for differentiating iPSCs stably expressing mNGN2 at a safe-harbor locus into human excitatory glut... | ["[iNeuron differentiation from human iPSCs] Culture pre-iNeuron iPSCs in a 10 cm dish coated with Growth Factor Reduced Matrigel in Essential 8 media, fed daily.", "[iNeuron differentiation from human iPSCs] After 1440 min, replace all media with fresh Induction Media, containing 2 μg/ml doxycycline but no ROCK inhibi... |
88,787 | A Computational Method for detecting and evaluating Tankyrase-Binding Motifs | 5 | dx.doi.org/10.17504/protocols.io.n2bvj32xplk5/v1 | https://www.protocols.io/view/a-computational-method-for-detecting-and-evaluati-c2xtyfnn | Christopher M. Clements, Samantha X Shellman, Melody H Shellman, Yiqun G. Shellman | TITLE: A Computational Method for detecting and evaluating Tankyrase-Binding Motifs
AUTHORS: Christopher M. Clements, Samantha X Shellman, Melody H Shellman, Yiqun G. Shellman
[DESCRIPTION]
Tankyrases are multifunctional proteins within the poly(ADP-ribose) polymerase family. Known tankyrase binders primarily intera... | ["[Finding and Scoring Potential Canonical and Extended TBMs] Identify the Uniprot code for your protein of interest in the Uniprot database (https://www.uniprot.org/), which is the identifier indicated by the arrow in Figure 1.", "[Finding and Scoring Potential Canonical and Extended TBMs] “Find and Score Motifs!” fun... |
94,392 | DNA isolation from cattle tissues: blood, semen or any kind of tissues, including ear biopsies | 4 | dx.doi.org/10.17504/protocols.io.kqdg3xojeg25/v1 | https://www.protocols.io/view/dna-isolation-from-cattle-tissues-blood-semen-or-a-c8eyztfw | Cecile CG Grohs | TITLE: DNA isolation from cattle tissues: blood, semen or any kind of tissues, including ear biopsies
AUTHORS: Cecile CG Grohs
[DESCRIPTION]
Here we describe a routine method for isolate DNA from different kinds of tissues: commercially available frozen semen straws, blood, ear biopsies, or other tissues.
This protoc... | ["[Lysis] Continue with Qiagen Puregene kit adapted as follow\n\nStep one\nFor semen: \nAdd 500 µLof RLT/TCEP mix\nVortex by pulsing at max speed\nIncubate 5 min on ice\nAdd 500 µL CLS\n\nFor tissues, including ear biopsies:\nAdd 800 µL CLS\nAdd 60 µL Proteinase K\n\nFor blood:\nAdd 5 mL CLS (i.e. the initial blood vol... |
40,927 | Copy of Copy of ELISA for quantification of human C6 in serum or plasma. | 6 | dx.doi.org/10.17504/protocols.io.bj77krrn | https://www.protocols.io/view/copy-of-copy-of-elisa-for-quantification-of-human-bj77krrn | Angel Justiz-Vaillant, Belkis Ferrer-Cosme | TITLE: Copy of Copy of ELISA for quantification of human C6 in serum or plasma.
AUTHORS: Angel Justiz-Vaillant, Belkis Ferrer-Cosme
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. An anti-human C6 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicar... | ["An anti-human C6 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum or plasma. Human C6 present in the serum or plasma binds to antibodies adsorbed into the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buf... |
20,944 | UC Davis - Hydrogen Peroxide | null | dx.doi.org/10.17504/protocols.io.ypqfvmw | null | Peter Havel | TITLE: UC Davis - Hydrogen Peroxide
AUTHORS: Peter Havel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block"><span>
Hydrogen peroxide (H</span><span style = "vertical-align:sub;">2</span><span style = "vertical-align:sub;ve... | ["H2O2 Standard Wells - add 20 µl of standard (tubes A-G) and 10 µl of HPLC-grade water per well in the designated wells on the plate (see Sample Plate Format, Figure 1, page 7).", "Sample Wells - Each sample should have at least two wells that will not contain catalase and two wells that will contain catalase. Add 20 ... |
40,150 | new version 34 | 1 | null | https://www.protocols.io/view/new-version-34-bjfwkjpe | Maria Guliakina | TITLE: new version 34
AUTHORS: Maria Guliakina
[STEPS]
?. test | ["test"] |
100,823 | using a microwave instead of autoclave to sterilize bacterial culture media | 0 | dx.doi.org/10.17504/protocols.io.eq2lywwzmvx9/v1 | https://www.protocols.io/view/using-a-microwave-instead-of-autoclave-to-steriliz-depx3dpn | Joseph Shenekji | TITLE: using a microwave instead of autoclave to sterilize bacterial culture media
AUTHORS: Joseph Shenekji
[DESCRIPTION]
this protocol uses a microwave to sterilize and polymerize culture media for bacterial propagation in 3 minutes, the whole protocol can be done in 15-20 minutes without the need for an autoclave a... | ["[adding the media powder] measure the desired quantity of media powder you want with a sensitive scale, ex: 4 g of inside a heat resistant glass bottle with a lid with proper volume (size 250ml).", "[adding the media powder] add the water you need, preferably distilled but tap water works fine for me, ex:100 mL.", "... |
55,430 | Hippocampal Neuronal Culture | 1 | dx.doi.org/10.17504/protocols.io.b2deqa3e | https://www.protocols.io/view/hippocampal-neuronal-culture-b2deqa3e | Daehun Park, Pietro De Camilli | TITLE: Hippocampal Neuronal Culture
AUTHORS: Daehun Park, Pietro De Camilli
[DESCRIPTION]
This protocol describes the procedure for hippocampal neuronal cultures from new - born mouse pups.
[STEPS]
SECTION: Protocol
1. Coat MatTek dishes with 1.5 mL of PDL solution for 180 min at 37 °C.
SECTION: Protocol
2. Wash dis... | ["[Protocol] Coat MatTek dishes with 1.5 mL of PDL solution for 180 min at 37 °C.", "[Protocol] Wash dishes twice with culture grade water and incubate the dishes at 37 °C for 30 min.", "[Protocol] Wash the dishes one more time and let dry. You can keep the dishes at 4 °C for few weeks (In this case, seal the dishes wi... |
97,985 | Mobility and Gait Markers of Disease and Disease Progression (PPMI Gait) | 0 | dx.doi.org/10.17504/protocols.io.dm6gpzrr1lzp/v1 | https://www.protocols.io/view/mobility-and-gait-markers-of-disease-and-disease-p-dbw92ph6 | Anat Mirelman, PhD | TITLE: Mobility and Gait Markers of Disease and Disease Progression (PPMI Gait)
AUTHORS: Anat Mirelman, PhD
[DESCRIPTION]
The purpose of this study is to test the feasibility and validity of using digital mobility data
for enrichment of the prodromal cohort and to test the validity of digital mobility data to
monito... | ["[PURPOSE OF STUDY] The Parkinson Progression Marker Initiative (PPMI) is a broad program consisting of the primary in-clinic study (PPMI Clinical), as well as other complementary initiatives conducted under the program that will contribute to PPMI’s overarching goal to identify markers of disease progression for use ... |
null | null | null | dx.doi.org/10.17504/protocols.io.esjbecn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
For use in <a href="https://www.protocols.io/view/CviJI-Purification-From-IL-3A-Virus-Infected-NC64A-er3bd8n" target="_blank">CviJI Purification From IL-3A Virus Infected NC64A Chlorella</a>.
[STEPS]
?.
?.
?. | [] |
42,047 | NCBI COI Submission | 1 | dx.doi.org/10.17504/protocols.io.bma7k2hn | https://www.protocols.io/view/ncbi-coi-submission-bma7k2hn | Avery S Hiley | TITLE: NCBI COI Submission
AUTHORS: Avery S Hiley
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for uploading mitochondrial COI sequences to GenBank</div></div>
[STEPS]
?. First and foremost, gather all your COI sequences that need to be uploaded and align them in either Geneious, Mesqui... | ["First and foremost, gather all your COI sequences that need to be uploaded and align them in either Geneious, Mesquite, or using the online MAFFT version 7 server: https://mafft.cbrc.jp/alignment/server/.", "Copy and paste one of your COI sequences into the 'Enter Query Sequence' field on NCBI's Standard Nucleotide B... |
43,331 | Pyrolysis kinetics | 1 | dx.doi.org/10.17504/protocols.io.bnjbmcin | https://www.protocols.io/view/pyrolysis-kinetics-bnjbmcin | Jiaxin Li | TITLE: Pyrolysis kinetics
AUTHORS: Jiaxin Li
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The sensitivity of cells in planktonic cultures to phages was tested in 96-well microtiter plates.</div></div>
[STEPS]
?. A 1:100 dilution of overnight bacterial culture in LB should be prepared and incubat... | ["A 1:100 dilution of overnight bacterial culture in LB should be prepared and incubated at 37°C to reach an optical density of 0.5 at 600 nm (OD600).", "100 µl aliquots of diluted culture were distributed in microplate wells and 100 µl single or mixed phage suspensions (at MOI 10; 1; 0.1 and 0.01) were added.", "Micro... |
null | null | null | dx.doi.org/10.17504/protocols.io.ptndnme | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Phenol/chloroform-based DNA extraction from cells pre-treated with RNase A, lysozyme, proteinase K, and SDS. The protocol was optimized for extracting DNA from <em>Microcystis aeruginosa</em>, but works well for other cyanobacteria.</p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.... | [] |
92,675 | Extraction of Food Items and Analysis with Thin Layer Chromatography (Outreach Activity) | 6 | dx.doi.org/10.17504/protocols.io.14egn3rdml5d/v1 | https://www.protocols.io/view/extraction-of-food-items-and-analysis-with-thin-la-c6rbzd2n | Anna I. Elizondo, Tu M. Ho, Jose G. Urbiola, Kaitlyn Varela, Francis K. Yoshimoto | TITLE: Extraction of Food Items and Analysis with Thin Layer Chromatography (Outreach Activity)
AUTHORS: Anna I. Elizondo, Tu M. Ho, Jose G. Urbiola, Kaitlyn Varela, Francis K. Yoshimoto
[DESCRIPTION]
An experiment was performed where grocery store bought consumer items (i.e. spinach, red cabbage, carrots, tomatoes, t... | ["[Table of Contents: Extraction of Food Items and Analysis with Thin Layer Chromatography] Table of Contents for Extraction of Food Items and Analysis with Thin Layer Chromatography\n\nA. Weigh out items in vials\nB. Dissolve the solid in each vial and prepare TLC chambers\nC. Spot the solutions on each plate and deve... |
71,290 | Paramecium cultures for RNAi | 4 | dx.doi.org/10.17504/protocols.io.36wgqj4kovk5/v1 | https://www.protocols.io/view/paramecium-cultures-for-rnai-chu2t6ye | Ben Jenkins | TITLE: Paramecium cultures for RNAi
AUTHORS: Ben Jenkins
[DESCRIPTION]
Filtering and preparing P. bursaria cultures for downstream RNAi
[STEPS]
SECTION: Choosing culture
1. Use an old culture of Paramecium bursaria (between one and six months old).
# This is to ensure that cultures start from a vegetative growth s... | ["[Choosing culture] Use an old culture of Paramecium bursaria (between one and six months old). \n\n# This is to ensure that cultures start from a vegetative growth stage", "[Filtering] In a sterile flow hood, filter 100mL of P. bursaria culture through a 40um cell strainer (3x). Keep the flow-through.\n\n# This remov... |
null | null | null | dx.doi.org/10.17504/protocols.io.dw47gv | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
For use in "<a href="https://www.protocols.io/view/One-Step-Growth-Curves-for-Cyanophages-dan2dd?editor=true" target="_blank">One-step growth curve for Cyanophage</a>"
[STEPS]
?.
?.
?. | [] |
91,096 | T-3 TICK STORAGE | 4 | dx.doi.org/10.17504/protocols.io.bp2l6xpbzlqe/v1 | https://www.protocols.io/view/t-3-tick-storage-c47yyzpw | REDI-NET Consortium | TITLE: T-3 TICK STORAGE
AUTHORS: REDI-NET Consortium
[DESCRIPTION]
This protocol describes tick storage.
[GUIDELINES]
OBJECTIVE
To outline steps for properly storing field-collected tick samples and nucleic acid samples purified from these ticks.
SUMMARY/SCOPE
The overarching aim of the REDI-NET is to develop a co... | ["[STORAGE PROCEDURE FOR UNTREATED SAMPLE] Cool 96-well microfuge tube racks on ice.", "[STORAGE PROCEDURE FOR UNTREATED SAMPLE] Using permanent markers, label 1.5 ml microfuge tubes with unique sample ID.", "[STORAGE PROCEDURE FOR UNTREATED SAMPLE] Using clean forceps, transfer individual tick into the corresponding p... |
73,373 | PEG-8000/NaCl Size-Selective DNA Precipitation | 4 | null | https://www.protocols.io/view/peg-8000-nacl-size-selective-dna-precipitation-cjv5un86 | Matt S.A. Penney | TITLE: PEG-8000/NaCl Size-Selective DNA Precipitation
AUTHORS: Matt S.A. Penney
[DESCRIPTION]
It is difficult to see in the image (this is heavily diluted gDNA), but this protocol does effectively remove small DNA fragments if you, for example, wanted to remove them prior to preparing Illumina sequencing libraries. I ... | ["[Kicking Out The Small Fragments] 5 µL 5 Molarity (m) \nAdd the appropriate amounts of 5M NaCl and 1X TE to achieve the desired final concentration of salt (see Description for ratios).", "[Kicking Out The Small Fragments] 5 µL 33.5 Mass Percent \nPipette slowly with this step as the solution is very thick. You... |
34,631 | hyRAD (Suchan et al. 2016; Grealy et al.) | 1 | dx.doi.org/10.17504/protocols.io.q26g7bdbqlwz/v1 | https://www.protocols.io/view/hyrad-suchan-et-al-2016-grealy-et-al-bd3fi8jn | Alicia Grealy | TITLE: hyRAD (Suchan et al. 2016; Grealy et al.)
AUTHORS: Alicia Grealy
[DESCRIPTION]
This bench protocol is based on the work of Tomasz Suchan, for performing hyRAD with RNA baits, with some changes.
[BEFORE_START]
Read Suchan et al. (2016)
Also see: dx.doi.org/10.17504/protocols.io.mt2c6qe by George Olah
Stor... | ["[Probe synthesis] Preparation", "[Probe synthesis] Enzymatic digestion", "[Probe synthesis] \"Suit up\" in this order: hair net, nitrile gloves, facemask, coveralls, gumboots, booties, second pair of gloves.", "[Probe synthesis] Adapter ligation", "[Probe synthesis] Prepare the space by decontaminating surfaces with ... |
null | null | null | dx.doi.org/10.17504/protocols.io.rfdd3i6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>DNA (cytosine-5-)-methyltransferase 1 has a role in the establishment and regulation of tissue-specific patterns of methylated cytosine residues. Aberrant methylation patterns are associated with certain human tumors and developmental abnormalities. Two transcript variants en... | [] |
22,572 | Long staining procedure of nuclei in Euplotes crassus using DAPI | null | dx.doi.org/10.17504/protocols.io.2akgacw | null | Rachele Cesaroni | TITLE: Long staining procedure of nuclei in Euplotes crassus using DAPI
AUTHORS: Rachele Cesaroni
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. Pellet Euplotes crassus cells at 400 rcf for 3 minutes, and remove as much supernatant as possible by pipetting.
Both algae and bacteria are autofluorescent. Bet... | ["Pellet Euplotes crassus cells at 400 rcf for 3 minutes, and remove as much supernatant as possible by pipetting.\nBoth algae and bacteria are autofluorescent. Better to have a completely starved Euplotes crassus culture.", "Add 1 ml of 2% PFA in 1X PHEM or 4% PFA in 1X PBS to the cells, and incubate them for 10 minut... |
47,910 | Analysis of ALEX Movies Containing Low-FRET Efficiency Pairs | 5 | null | https://www.protocols.io/view/analysis-of-alex-movies-containing-low-fret-effici-bs2engbe | Clark Fritsch | TITLE: Analysis of ALEX Movies Containing Low-FRET Efficiency Pairs
AUTHORS: Clark Fritsch
[DESCRIPTION]
This protocol is meant to describe the procedure needed to detect and analyze pairs of fluorescently-labeled molecules that generate low-FRET efficiencies that might otherwise difficult to detect using the programs... | ["In NIS-Elements, we record our single-molecule FRET movies with a .nd2 file format. However, to analyze our data we must first convert our movies from .nd2 files to .tiff files.", "To convert your ALEX .nd2 files to .tiff files, first open Fiji / ImageJ. Then go to File and open the ND2_tiff1.ijm program that is prov... |
103,389 | Refractive index adjusted imaging medium: High RI Iodixanol, Iohexol - Yeast | 0 | dx.doi.org/10.17504/protocols.io.3byl4933ogo5/v1 | https://www.protocols.io/view/refractive-index-adjusted-imaging-medium-high-ri-i-dg753zq6 | Mathias Hammer, Ammeret Rossouw, Azra Lari, Ben Montpetit, David Grunwald | TITLE: Refractive index adjusted imaging medium: High RI Iodixanol, Iohexol - Yeast
AUTHORS: Mathias Hammer, Ammeret Rossouw, Azra Lari, Ben Montpetit, David Grunwald
[DESCRIPTION]
This protocol describes the steps to prepare imaging medium for Saccharomyces cerevisiae with high refractive index. This medium is optimi... | ["[Preparation of high refractive index imaging medium with Iodixanol or Iohexol] Compound medium for autoclave", "[Preparation of high refractive index imaging medium with Iodixanol or Iohexol] The medium can be store at the bench for 2 to 3 months.", "[Preparation of high refractive index imaging medium with Iodixano... |
null | null | null | dx.doi.org/10.17504/protocols.io.kw4cxgw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong><u>HBV DNA Real Time Quantification according to ARNS 12187 project</u></strong></p>
<p> </p>
<p>Using the Arrow extractor (NorDiag, Biotrin International, Ireland), DNA was extracted from 240 μl of plasma, pre-treated with10 μl of proteinase K, using the Arrow Viral ... | [] |
95,251 | PCR Protocol Template | 1 | null | https://www.protocols.io/view/pcr-protocol-template-c89tzz6n | Kathleen Pitz, Raïssa Meyer | TITLE: PCR Protocol Template
AUTHORS: Kathleen Pitz, Raïssa Meyer
[DESCRIPTION]
A protocol template created through the BeBOP project for PCR.
Main protocol steps begin below the "Standard Operating Procedure" section.
A detailed description of the BeBOP project and these templates is available here: https://github.... | ["[MIOP: Minimum Information about an Omics Protocol] MIOP Term\nValue\n \nmethodology category\n\n \nproject\n\n \npurpose\n\n \nanalyses\n\n \ngeographic location\n\n \nbroad-scale environmental context\n\n \nlocal environmental context\n\n \nenvironmental medium\n\n \ntarget\n\n \ncreator\n\n \nmaterials required\... |
43,596 | Mapping Exosome–Substrate Interactions In Vivo by UV Cross-Linking | 2 | dx.doi.org/10.17504/protocols.io.bntkmekw | https://www.protocols.io/view/mapping-exosome-substrate-interactions-in-vivo-by-bntkmekw | David Tollervey, Clémentine Delan-Forino | TITLE: Mapping Exosome–Substrate Interactions In Vivo by UV Cross-Linking
AUTHORS: David Tollervey, Clémentine Delan-Forino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes of RNA in eukaryotes and... | [] |
15,168 | Soil extract for algal media | null | dx.doi.org/10.17504/protocols.io.s28eghw | null | Roscoff Culture Collection | TITLE: Soil extract for algal media
AUTHORS: Roscoff Culture Collection
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">How to prepare soil extract</div></div>
[STEPS]
?. Sample 10 g of dry soil from a place that does not contain any pesticide nor pollutant and where you can be sure to be able to c... | ["Sample 10 g of dry soil from a place that does not contain any pesticide nor pollutant and where you can be sure to be able to come back in order to always use the same soil. The soil must be dry because the boiling step will be longer if the soil is not dry.", "Add the 10 g soil to 400ml of milliQ water.", "Boil dur... |
null | null | null | dx.doi.org/10.17504/protocols.io.kzpcx5n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Works requiring taxonomic knowledge face several challenges, such as arduous identification of many taxa and an insufficient number of taxonomists to identify a great deal of collected organisms. Machine learning tools, particularly convolutional neural networks (CNNs), are t... | [] |
21,446 | Growth Incremental analysis of thins sections from marine molluscs | null | dx.doi.org/10.17504/protocols.io.y7efzje | null | Niklas Hausmann, Harry K. Robson, Chris Hunt | TITLE: Growth Incremental analysis of thins 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 ... | ["[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... |
28,165 | Neuropathy Phentoyping Protocols - Insulin Implantation Protocol | null | dx.doi.org/10.17504/protocols.io.7rdhm26 | null | Eva Feldman, Omorodola Abatan | TITLE: Neuropathy Phentoyping Protocols - Insulin Implantation Protocol
AUTHORS: Eva Feldman, Omorodola Abatan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block"><span style = "font-weight:bold;">Phenotyping of Rodents for... | ["Recommended Sites for Insertion: Subcutaneously in dorsal skin (back), neck-region.", "Anesthesia: Rat Intraperitonial injection of .3ml undiluted ketamine- HCl (Ketastet) and xylazine mix (3parts of ketamine to 1 part of xylazine) for an average 350g rat. Mice: Dilute .1ml of ketamine and xylazine mix (3 parts of ke... |
51,951 | SARS-CoV2 genome sequencing protocol (1200bp amplicon "midnight" primer set, using Nanopore Rapid kit) | 1 | dx.doi.org/10.17504/protocols.io.bwyppfvn | https://www.protocols.io/view/sars-cov2-genome-sequencing-protocol-1200bp-amplic-bwyppfvn | Nikki Freed, Olin Silander | TITLE: SARS-CoV2 genome sequencing protocol (1200bp amplicon "midnight" primer set, using Nanopore Rapid kit)
AUTHORS: Nikki Freed, Olin Silander
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">To enable faster, easier sequencing of SARS-COV2 genomes with fewer steps than current methods, we use mul... | ["[cDNA preparation]\nUPDATE March 2021: This protocol is now listed on the Oxford Nanopore Protocols website for 1-24, 1-48 or 1-96 samples using the RBK110.96 kit as the Midnight protocol PCR tiling of SARS-CoV-2 virus with rapid barcoding (SQK-RBK110.96)\" Mix the following components in an 0.2mL 8-strip tube on ice... |
59,932 | CODEX® Multiplexed Imaging | Antibody Conjugation and Validation | 1 | dx.doi.org/10.17504/protocols.io.kxygxzwmzv8j/v1 | https://www.protocols.io/view/codex-multiplexed-imaging-antibody-conjugation-and-b6r4rd8w | Diane Saunders, Conrad Reihsmann, Marcela Brissova, Alvin C. Powers | TITLE: CODEX® Multiplexed Imaging | Antibody Conjugation and Validation
AUTHORS: Diane Saunders, Conrad Reihsmann, Marcela Brissova, Alvin C. Powers
[DESCRIPTION]
This protocol describes the antibody conjugation and validation processes for the CODEX® (now PhenoCycler™) system by Akoya Biosciences. For the comprehens... | ["[Custom Antibody Conjugations] Gather reagents:\n \n \nOligonucleotide barcodes (Akoya Biosciences)\n50 μg each primary antibody to be conjugated (vendor of choice)\n\nⓘ For an overview of the conjugation workflow, see Conjugating CODEX® tags on antibodies of choice (Akoya Biosciences).", "[Custom Antibody Conjugati... |
null | null | null | dx.doi.org/10.17504/protocols.io.jqxcmxn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
56,181 | Protocol to secretome investigation of tumor 3D co-culture model | 1 | dx.doi.org/10.17504/protocols.io.b24vqgw6 | https://www.protocols.io/view/protocol-to-secretome-investigation-of-tumor-3d-co-b24vqgw6 | ANNA MARIA AP FERNANDES, Giulia Carli Mendes, Alex Rosini, Andrea Corazzi Pelosi, Leonardo Maciel, Luísa F Bueno , Lívia Maria F Silva, Rafael F Bredariol, Maycon Giovani Santana, Andreia de Melo Porcari, Denise G. Priolli | TITLE: Protocol to secretome investigation of tumor 3D co-culture model
AUTHORS: ANNA MARIA AP FERNANDES, Giulia Carli Mendes, Alex Rosini, Andrea Corazzi Pelosi, Leonardo Maciel, Luísa F Bueno , Lívia Maria F Silva, Rafael F Bredariol, Maycon Giovani Santana, Andreia de Melo Porcari, Denise ... | ["[2D CELL CULTURE] Use human colon carcinoma (HT-29) and pre-adipocytes cells (3T3-L1) (Banco de Células do Rio de Janeiro (BCRJ; Duque de Caxias, Brazil).", "[EXTRACTION OF SAMPLES] Add an aliquot of iced isopropanol 50 mg to the culture medium 200 µL and maintain at -20 °C, for secretome analysis.", "[LIQUID CHR... |
53,266 | Biolayer Interferometry for DNA-Protein Interactions | 1 | dx.doi.org/10.17504/protocols.io.bx9spr6e | https://www.protocols.io/view/biolayer-interferometry-for-dna-protein-interactio-bx9spr6e | John Barrows, Michael Van Dyke | TITLE: Biolayer Interferometry for DNA-Protein Interactions
AUTHORS: John Barrows, Michael Van Dyke
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Biolayer interferometry (BLI) is a widely utilized technique for determining the interaction dynamics between macromolecules. Most BLI instruments, such... | ["[PCR synthesis of biotinylated DNA probes]\nOur laboratory uses DNA probes derived from the ST2R24 selection template (sequence details can be found at: https://doi.org/10.1371/journal.pone.0159408) to identify the preferred binding sequence of thermophilic transcription factors. The design of related fluorophore-lab... |
20,832 | Standardized immunohistochemical staining used in the Human Protein Atlas | null | dx.doi.org/10.17504/protocols.io.yj8furw | null | Anna Martinez Casals, Cecilia Lindskog | TITLE: Standardized immunohistochemical staining used in the Human Protein Atlas
AUTHORS: Anna Martinez Casals, Cecilia Lindskog
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The Human Protein Atlas provides a map showing the distribution and relative abundance of proteins in the human body. All I... | ["[Deparaffinization]\nDry paraffin sections at room temperature overnight.", "[Deparaffinization]\nBake the paraffin sections fromto at .", "[Deparaffinization]\nXylene incubation: incubate slides in xylene for . incubate slides in xylene for . incuba... |
87,786 | Holistic Review in Graduate Medical Education: Scoping Review Protocol | 1 | dx.doi.org/10.17504/protocols.io.e6nvwdbe7lmk/v1 | https://www.protocols.io/view/holistic-review-in-graduate-medical-education-scop-czyix7ue | Hassan Bazzi, Charles S. Dorris MLIS, Colin E Stewart | TITLE: Holistic Review in Graduate Medical Education: Scoping Review Protocol
AUTHORS: Hassan Bazzi, Charles S. Dorris MLIS, Colin E Stewart
[DESCRIPTION]
Introduction:
Holistic review (HR) is a systematic method of assessing trainees beyond the usual metrics of grades and exam scores that facilitates increased divers... | ["[Introduction] Holistic review (HR) is a systematic method of assessing trainees beyond the usual metrics of grades and exam scores that facilitates increased diversity, better mission alignment, structured consideration of the applicant in context, and is based on sound educational and selection policy and practice.... |
84,919 | KAPP-Sen TMC: Whole Pancreas Preparation | 1 | dx.doi.org/10.17504/protocols.io.4r3l224nql1y/v1 | https://www.protocols.click/view/kapp-sen-tmc-whole-pancreas-preparation-cw6xxhfn | Cristina Aguayo-Mazzucato, Kanako Iwasaki | TITLE: KAPP-Sen TMC: Whole Pancreas Preparation
AUTHORS: Cristina Aguayo-Mazzucato, Kanako Iwasaki
[DESCRIPTION]
Whole pancreas and tissue blocks preparation
[STEPS]
SECTION: Overview
1. All the whole pancreases were procured by the University of Texas Health San Antonio and shipped to Joslin Diabetes Center, Univers... | ["[Overview] All the whole pancreases were procured by the University of Texas Health San Antonio and shipped to Joslin Diabetes Center, University of Harvard Medical. The pancreases were cut into the Head, Body, and Tail of the locations along the guideline (1), cut into 4mm thickness, and placed into order paraffin o... |
94,144 | Rotarod test | 4 | dx.doi.org/10.17504/protocols.io.kqdg3xo81g25/v1 | https://www.protocols.io/view/rotarod-test-c768zrhw | mariangela.massarocenere | TITLE: Rotarod test
AUTHORS: mariangela.massarocenere
[DESCRIPTION]
Protocol to assess motor coordination and balance by using an accelerating rod
[STEPS]
1. Habituate the animal for 1 h to the testing room before the test
10.
2. Place the rat on the elevated rod (47 cm from the floor) rotating at low speed (4 rp... | ["Habituate the animal for 1 h to the testing room before the test", "Place the rat on the elevated rod (47 cm from the floor) rotating at low speed (4 rpm) for at least 30 seconds before the first session of the test", "Place the animal on an accelerating rod from 4 to 40 rpm in 300 s", "Repeat step 3 for 3 times with... |
null | null | null | dx.doi.org/10.17504/protocols.io.e28bghw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The Anti-Neu5Gc Antibody Kit contains the essential monospecific polyclonal chicken IgY antibody, along with a negative control primary antibody to detect the presence of Neu5Gc on glycoconjugates by Western blot (WB). Samples to be evaluated are first subjected to SDS-PAGE, ... | [] |
54,257 | (ILLUMINA MENU) Protocols for SARS-CoV-2 Library Prep with ARTIC Primers, Bioinformatic Analysis, and Database Submission | 2 | null | https://www.protocols.io/view/illumina-menu-protocols-for-sars-cov-2-library-pr-by8rpzv6 | Technical Outreach and Assistance for States Team | TITLE: (ILLUMINA MENU) Protocols for SARS-CoV-2 Library Prep with ARTIC Primers, Bioinformatic Analysis, and Database Submission
AUTHORS: Technical Outreach and Assistance for States Team
[DESCRIPTION]
This collection of protocols covers library preparation and sequencing on Illumina platforms as well as bioinformat... | [] |
82,918 | GST pull down assay | 4 | dx.doi.org/10.17504/protocols.io.36wgqj2xxvk5/v1 | https://www.protocols.io/view/gst-pull-down-assay-cu8ewzte | minghao chen, Xuefeng Ren | TITLE: GST pull down assay
AUTHORS: minghao chen, Xuefeng Ren
[DESCRIPTION]
GST pull down assay
[STEPS]
1. Mix the GST tagged protein and fluorescent protein with 30 μl Glutathione Sepharose beads (Cytiva) at final 1 μM concentration in the buffer of 25 mM HEPES at pH 7.5, 150 mM NaCl, 1 mM MgCl2 and 1 mM TCEP. The ... | ["Mix the GST tagged protein and fluorescent protein with 30 μl Glutathione Sepharose beads (Cytiva) at final 1 μM concentration in the buffer of 25 mM HEPES at pH 7.5, 150 mM NaCl, 1 mM MgCl2 and 1 mM TCEP. The total volume is 200 μl.", "Rocking at 4 °C", "Wash the beads four times, then eluted in 50 μl of buffer wit... |
null | null | null | dx.doi.org/10.17504/protocols.io.qg6dtze | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>This is a short tutorial on how to get started analyzing FASTA files via the command line.</strong></p>
<p> </p>
<p>Code is intended for use on an Ubuntu 16.04 LTS OS, but it may work on other Unix or Unix-like systems.</p>
<p> </p>
<p>Here we will mainly use standard... | [] |
67,464 | EZ Burn Keto Gummies Canada Reviews (Shark Tank Exposed Alert) - Fact Check Before Buying? | 1 | dx.doi.org/10.17504/protocols.io.5qpvobmyxl4o/v1 | https://www.protocols.io/view/ez-burn-keto-gummies-canada-reviews-shark-tank-exp-cd5gs83w | Ez Burn Keto Gummies Canada | TITLE: EZ Burn Keto Gummies Canada Reviews (Shark Tank Exposed Alert) - Fact Check Before Buying?
AUTHORS: Ez Burn Keto Gummies Canada
[DESCRIPTION]
What are EZ Burn Keto Gummies?
Official Website – Click Here
Weight reduction supplement these Gummies advances solid digestion and normal weight reduction. When taken, ... | [] |
65,109 | Concentrated DNA Loading dye stock: User protocol | 4 | null | https://www.protocols.io/view/concentrated-dna-loading-dye-stock-user-protocol-cbtvsnn6 | Stephane Fadanka, Nadine Mowoh | TITLE: Concentrated DNA Loading dye stock: User protocol
AUTHORS: Stephane Fadanka, Nadine Mowoh
[DESCRIPTION]
Beneficial Bio 6X DNA Loading Dye is a premixed loading buffer used to prepare samples for
loading onto agarose and polyacrylamide gels. It contains bromophenol blue and xylene
cyanol dyes for visual trac... | ["[User Protocol] Preparing 1ml of 6x working stock:\n\nVortex or shake the concentrated stock tube for 10 seconds prior to use.\nDilute 1 part of concentrated DNA Loading Dye stock with 9 parts of 20% Trehalose (pipette 100 µL from the concentrated dye stock and add 900 µL of 20 % (v/v)Trehalose to make a 1ml 6x work... |
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