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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39,864 | Preparing Annotated Spectra from MaxQuant Output in xiSpec | 5 | null | https://www.protocols.io/view/preparing-annotated-spectra-from-maxquant-output-i-bi6ykhfw | Ed Emmott | TITLE: Preparing Annotated Spectra from MaxQuant Output in xiSpec
AUTHORS: Ed Emmott
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Annotated spectra can be required to highlight specific features of interest, or for providing in supplementary data in support of peptide and PTM identification/local... | ["Open the MaxQuant evidence.txt file for the spectra of interest. This is located within the folder of the maxquant output.", "Find the relevent row. Key data are the peptide sequence, z, Rawfile name and MS_MSScanNumber. Other columns may be useful depending on your need (e.g. Score, PIF, PEP).", "Navigate to /combi... |
84,055 | Fungal DNA Isolation with PowerPlant Pro DNA Isolation Kit (MO BIO) | 4 | null | https://www.protocols.click/view/fungal-dna-isolation-with-powerplant-pro-dna-isola-cwbxxapn | Nimalka M Weerasuriya | TITLE: Fungal DNA Isolation with PowerPlant Pro DNA Isolation Kit (MO BIO)
AUTHORS: Nimalka M Weerasuriya
[DESCRIPTION]
This is a slightly modified MOBIO PowerPlant Pro DNA Isolation Kit for Bennett Plant Pathology.
Technical information:
Toll free 1-800-606-6246, or 1-760-929-9911 Email: technical@mobio.com Website... | ["[Preamble] Begin this extraction protocol after growing Pythium or other fungal isolates on 1/2-strength PDA or full-strength PDA (recommended) for 5-7 days.", "[Detailed Protocol] Check Solution PD2 for precipitates, if precipitated, warm at 37 °C - 55 °C until dissolved. Add 50 µLof Solution PD2.", "[Detailed Proto... |
24,482 | TDT Sandwich: An Open Source Dry Heat System for Characterizing the Thermal Resistance of Microorganisms | null | dx.doi.org/10.17504/protocols.io.36agrae | null | Soon Kiat Lau, Jeyamkondan Subbiah | TITLE: TDT Sandwich: An Open Source Dry Heat System for Characterizing the Thermal Resistance of Microorganisms
AUTHORS: Soon Kiat Lau, Jeyamkondan Subbiah
[STEPS]
?. [Thermocouple assembly]
The materials needed for assembling one thermocouple assembly are listed below. For brevity, the components will be referred to ... | ["[Thermocouple assembly]\nThe materials needed for assembling one thermocouple assembly are listed below. For brevity, the components will be referred to by the designators defined in the bill of materials (https://osf.io/z79jy/) and annotated in the picture below. T1: 1 ea. PFA-insulated thermocouple, type T, 40\" lo... |
80,058 | Deposition of matrix using an M5 TM sprayer for high resolution MALDI analysis | 1 | dx.doi.org/10.17504/protocols.io.yxmvmnzmbg3p/v2 | https://www.protocols.io/view/deposition-of-matrix-using-an-m5-tm-sprayer-for-hi-cse2wbge | Martin Dufresne, Angela Kruse, Jamie Allen, Danielle Gutierrez, Jeff Spraggins | TITLE: Deposition of matrix using an M5 TM sprayer for high resolution MALDI analysis
AUTHORS: Martin Dufresne, Angela Kruse, Jamie Allen, Danielle Gutierrez, Jeff Spraggins
[DESCRIPTION]
This protocol describes the use of an HTX M5 TM sprayer to deposit small molecule matrices onto tissue sections for high resolutio... | ["[Autofluorescence Scan] Remove slides from freezer and place in desiccator for 30 min", "[Autofluorescence Scan] Collect autofluorescence scan using a Zeiss AxioScan Z1: Pre-IMS Autofluorescence Microscopy", "[TM Sprayer Setup] Set nitrogen flow to 8 psi. turn on TM sprayer.", "[TM Sprayer Setup] Open HTX software", ... |
61,149 | Plate Protein Expression on Autoinduction media | 4 | dx.doi.org/10.17504/protocols.io.q26g78n91lwz/v3 | https://www.protocols.io/view/plate-protein-expression-on-autoinduction-media-b7x5rpq6 | Stephane Fadanka, Chiara Gandini | TITLE: Plate Protein Expression on Autoinduction media
AUTHORS: Stephane Fadanka, Chiara Gandini
[DESCRIPTION]
The current protocol describes the preparation and use of 2X YT autoinduction medium for recombinant protein expression on Petri dishes. This protocol allows for reproducible and time effective expression ex... | ["[Preparation of the Overnight Pre-inoculum] Grow culture of desired bacteria strain from glycerol stock or a single colony in 10 mL LB broth supplemented with the appropriate antibiotic, grow overnight in an incubator shaking at .", "[Preparation of Auto-induction media] Prepare the needed amount of 4xYT autoinduc... |
91,379 | Assembly and sterilization of EcoFAB 2.0 for plant growth experiments | 4 | dx.doi.org/10.17504/protocols.io.q26g7p693gwz/v1 | https://www.protocols.io/view/assembly-and-sterilization-of-ecofab-2-0-for-plant-c5gty3wn | Peter Andeer, Vlastimil Novak | TITLE: Assembly and sterilization of EcoFAB 2.0 for plant growth experiments
AUTHORS: Peter Andeer, Vlastimil Novak
[DESCRIPTION]
The following instructions are for the sterilization, and assembly of EcoFAB 2.0 for studying small plants and their microbiomes during growth.
[STEPS]
SECTION: Notes on materials
2. The g... | ["[Notes on materials] The gaskets sometimes have an odor due to the manufacturing process. It is recommended to remove any plastic coatings from the gasket and wash it with alcohol (ethanol or isopropanol) and then purified water and then allow them to sit out in a well-ventilated area (e.g., biological safety cabinet... |
76,180 | Lagash Archaeological Survey and Recording System (LASRS) - Creating Collection Forms with ArcGIS Field Maps | 5 | dx.doi.org/10.17504/protocols.io.kxygx9o3zg8j/v1 | https://www.protocols.io/view/lagash-archaeological-survey-and-recording-system-cnmuvc6w | Paul C. Zimmerman | TITLE: Lagash Archaeological Survey and Recording System (LASRS) - Creating Collection Forms with ArcGIS Field Maps
AUTHORS: Paul C. Zimmerman
[DESCRIPTION]
By carefully creating a mobile GIS data collection routine for ArcGIS Field Maps, in-field collection of archaeological survey data can be sped up significantly. ... | ["[Create the Field Maps Project] Log into your ArcGIS Online account with the web browser of your choice.", "[Create the Field Maps Project] Click the waffle (grid of dots) menu in the upper right, and select Field Maps.", "[Create the Field Maps Project] Click the New map button.", "[Create the Field Maps Project] Na... |
87,337 | Quantifying ecosystem service provider interactions via bulk sample DNA metabarcoding | 4 | dx.doi.org/10.17504/protocols.io.dm6gp3zq8vzp/v1 | https://www.protocols.io/view/quantifying-ecosystem-service-provider-interaction-czihx4b6 | Jordan P Cuff, James JN Kitson, darren.evans | TITLE: Quantifying ecosystem service provider interactions via bulk sample DNA metabarcoding
AUTHORS: Jordan P Cuff, James JN Kitson, darren.evans
[DESCRIPTION]
This protocol is designed for extracting DNA from pan trap-collected invertebrates for biomonitoring and community metabarcoding to identify and quantify ecos... | ["[Preparation and homogenisation of samples] Vortex each sample to mix and incubate at 37 °C overnight (12-16 hours).", "[DNA extraction and purification] Add all of the sample solution (~ 600 μL) to a well in a 96-well silica membrane spin-column plate and cover with a breathable seal.", "[DNA extraction and purifica... |
26,155 | C. elegans bleaching solution preparation | null | dx.doi.org/10.17504/protocols.io.5sjg6cn | null | Cristian Riccio | TITLE: C. elegans bleaching solution preparation
AUTHORS: Cristian Riccio
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The </span><span style = "font-style:italic;">C. elegans</span><span> bleaching solution is used for several purposes: </span></div><div class = "text-block"><span>- destro... | ["Add 42 ml DEPC water to a 50 ml Falcon tube.", "Add 3 ml 10 M NaOH", "Add 5 ml sodium hypochlorite solution", "See relevant protocol for details but 6 ml of bleaching solution for 5 minutes on a vortex in 14 ml tubes should be sufficient to dissolve worms and spare eggs.", "The bleaching solution can be kept at room ... |
97,513 | CODA (part 5): nuclear coordinate generation | HuBMAP | JHU-TMC | 0 | dx.doi.org/10.17504/protocols.io.dm6gpz8z8lzp/v1 | https://www.protocols.io/view/coda-part-5-nuclear-coordinate-generation-hubmap-j-dbgh2jt6 | Kyu Sang Han, Pei-Hsun Wu, Joel Sunshine, Ashley Kiemen, Sashank Reddy, Denis Wirtz | TITLE: CODA (part 5): nuclear coordinate generation | HuBMAP | JHU-TMC
AUTHORS: Kyu Sang Han, Pei-Hsun Wu, Joel Sunshine, Ashley Kiemen, Sashank Reddy, Denis Wirtz
[DESCRIPTION]
In this section, generate nuclear coordinates on the
high-resolution H&E images through color deconvolution and identification
of two-dimensi... | ["[Nuclear coordinate generation] generate a mosaic image containing tiles from nine randomly chosen high-resolution images. This will be the image used to optimize the parameters for the cell detection algorithm. Given the path to the high-resolution images, the function will randomly choose nine files (filenames can ... |
null | null | null | dx.doi.org/10.17504/protocols.io.ng2dbye | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Este protocolo describe los pasos para la recolección de hongos descomponedores de madera. Este protocolo fue elaborado bajo la guía de Daniela Torres (Fundación Fungi, http://www.ffungi.org) e información recolectada online.</p>
<p> </p>
[GUIDELINES]
<p>Se recomienda realiz... | [] |
55,461 | Transformation Protocol ATMT Trichoderma atroviride | 4 | null | https://www.protocols.io/view/transformation-protocol-atmt-trichoderma-atrovirid-b2edqba6 | José Manuel Villalobos-Escobedo | TITLE: Transformation Protocol ATMT Trichoderma atroviride
AUTHORS: José Manuel Villalobos-Escobedo
[DESCRIPTION]
This is the protocol for the transformation of conidia by Agrobacterium to perform the BarSeq technique in Trichoderma atroviride, which is reported by Villalobos-Escobedo et al., 2023.
[STEPS]
SECTION: D... | ["[DAY 1:] Inoculate 3 plates of Trichoderma @ 27 °C Grow them for 4 days", "[DAY 3] Make liquid agro induction media (ABI) \n\nFor 100 transformations 5 mL of ABI are needed, water is autoclaved and all others are filtered and sterilized \n200 mL to wash, 200 mL to resuspend (grow)\n\nMIX AND FILTER INSIDE HOOD\n\n \n... |
29,000 | Transmission assay Cicadella viridis | null | dx.doi.org/10.17504/protocols.io.8jghujw | null | Niels Appelman | TITLE: Transmission assay Cicadella viridis
AUTHORS: Niels Appelman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is used to determine whether Cicadella viridis can transmit a bacterium of interest.</div></div>
[STEPS]
?. [Pre-preparation]
Make an o/n culture of the bacteria for whi... | ["[Pre-preparation]\nMake an o/n culture of the bacteria for which you wish to test transmission.", "[Pre-preparation]\nCapture the insects required in the experiment.", "[Pre-preparation]\nUV sterilise the following: a.1 PCR tube tray b.2 x N PCR tubes c.2 X N pieces of 1 * 16 cm green tape (reference) ... |
null | null | null | dx.doi.org/10.17504/protocols.io.eipbcdn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol outlines the analysis used for intra and interpersonal diversity of the virome and whole metagenome using the Bray Curtis dissimilarity metric. We visualize the differences as bar plots and calculate the statistical significance of the differences using a t-test. B... | [] |
84,040 | Sterilizer (Consolidated) | 1 | null | https://www.protocols.click/view/sterilizer-consolidated-cwbgxajw | rebecca.bennett | TITLE: Sterilizer (Consolidated)
AUTHORS: rebecca.bennett
[DESCRIPTION]
How to use a Sterilizer/Autoclave (general) for the Bennett Lab.
[STEPS]
SECTION: Prepare Autoclave
1. Sign up in advance to use the autoclave.
Turn on autoclave.
3. Press the “Jacket” button, to get the jacket pressure up so that the autoclave c... | ["[Prepare Autoclave] Sign up in advance to use the autoclave.\nTurn on autoclave.", "Press the “Jacket” button, to get the jacket pressure up so that the autoclave cycle will take less time.", "[Prepare Autoclave] Make sure that the sterilizer chamber as well as the chamber drain strainer (inside the drain hole near t... |
56,680 | Bogus Sample Prep Protocol | 1 | dx.doi.org/10.17504/protocols.io.b3kgqktw | https://www.protocols.io/view/bogus-sample-prep-protocol-b3kgqktw | Abby Moore | TITLE: Bogus Sample Prep Protocol
AUTHORS: Abby Moore
[DESCRIPTION]
This is a bogus protocol for assessing protocol development.
Here, I'll use the citation component to refer to a publication that might influence protocol development.
[BEFORE_START]
This is what you should know before you start the protocol ... | ["[This is my first section] Chill to °C . \n\nI used the reagent and temperature components in this step.", "[This is my first section] Combine 1 µL and 1 µL . \n\nI used the amount and reagent components in this step.", "[This is my first section] Centrifuge the using the following parameters 27000 rcf, 2 mi... |
109,132 | BIT495 PGS Individual Project Protocol | 0 | dx.doi.org/10.17504/protocols.io.kxygxy65zl8j/v1 | https://www.protocols.io/view/bit495-pgs-individual-project-protocol-dntk5ekw | Joslene Morgan | TITLE: BIT495 PGS Individual Project Protocol
AUTHORS: Joslene Morgan
[DESCRIPTION]
This protocol is designed for sequencing DNA from human organ tissue samples. The information obtained from sequencing can then be used for various clinical applications.
[STEPS]
SECTION: Obtain sample from the field and preserve it (... | ["[Obtain sample from the field and preserve it (1)]", "[Obtain sample from the field and preserve it (1)] Cut organ tissue into 4-6 mm diameter pieces", "[Obtain sample from the field and preserve it (1)] Prepare DMSO-salt solution", "[Obtain sample from the field and preserve it (1)] 20% DMSO", "[Obtain sample from t... |
91,092 | Rock Sample Photogrammetry | 1 | dx.doi.org/10.17504/protocols.io.kqdg3xy67g25/v1 | https://www.protocols.io/view/rock-sample-photogrammetry-c47uyznw | Lucas L Evart | TITLE: Rock Sample Photogrammetry
AUTHORS: Lucas L Evart
[DESCRIPTION]
This information product has been peer reviewed and approved for publication by the U.S. Geological Survey." Refer to https://www.usgs.gov/office-of-science-quality-and-integrity/fundamental-science-practices/faq/195-are-USGS-scientists-allowed-to-... | ["[Sample Preparation and Instrument Operation] Sample Preparation\nEnsure the sample to be imaged does not exceed the maximum rated capacity of the turntable (i.e., 100 kg or ~220 lbs.) or the size of the visible area in the light box. Also, ensure the sample will not scrape the sides of the light box as it rotates.",... |
55,384 | Cell Interaction by Multiplet sequencing (CIM-seq) | 1 | dx.doi.org/10.17504/protocols.io.b2byqapw | https://www.protocols.io/view/cell-interaction-by-multiplet-sequencing-cim-seq-b2byqapw | Nathanael Andrews, Jason T. Serviss, Natalie Geyer (Karolinska Institute Stockholm), Agneta B. Andersson, Ewa Dzwonkowska, Iva Šutevski, Rosan Heijboer, Ninib Baryawno (Karolinska Institute Stockholm), Marco Gerling, Martin Enge | TITLE: Cell Interaction by Multiplet sequencing (CIM-seq)
AUTHORS: Nathanael Andrews, Jason T. Serviss, Natalie Geyer (Karolinska Institute Stockholm), Agneta B. Andersson, Ewa Dzwonkowska, Iva Šutevski, Rosan Heijboer, Ninib Baryawno (Karolinska Institute Stockholm), Marco Gerling, Martin Enge
[DESCRIPTION]
Single ... | ["[Prepare Lysis buffer] Prepare Lysis Buffer:\n \nNOTE: Reagents are prepared on ice, working quickly. ERCC is stored in single-use aliquots at -80 °C, thawed on ice and added last.\n\n 1H201.31Inhibitor0.05ERCC (1:600000)0.0510% Triton0.0410mM dNTP0.5100uM dT0.05Total2\nAdd 2 µL lysis buffer mix to each well. Cover ... |
25,936 | gRNA design and cloning into Loop L2 plasmids (L2_gRNA-Cas9-CsA and L2_gRNA-CsA plasmids) | null | dx.doi.org/10.17504/protocols.io.5jqg4mw | null | Eftychis Frangedakis, marta tomaselli, Susana Sauret-Gueto | TITLE: gRNA design and cloning into Loop L2 plasmids (L2_gRNA-Cas9-CsA and L2_gRNA-CsA plasmids)
AUTHORS: Eftychis Frangedakis, marta tomaselli, Susana Sauret-Gueto
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol explains how to design clone the guide RNA (gRNA) sequence into the L2 pl... | ["gRNA oligo designOrder two oligos that contain the forward and reverse guide sequence plus the overhangs necessary for ligation (highlighted with bold) into L2_gRNA-CAs9-CsA or L2_gRNA-CsA plasmids: oligo F: 5’- TCG-NNNNNNNNNNNNNNNNNNNN-gt 3’oligo R: 5’-AAAac-NNNNNNNNNNNNNNNNNNNN-3’Note: Standard de-salted oligos ar... |
98,603 | American Beech Tissue Collection for DNA | 4 | dx.doi.org/10.17504/protocols.io.14egn6z7ml5d/v1 | https://www.protocols.io/view/american-beech-tissue-collection-for-dna-dcij2ucn | Michelle Neitzey, Karl Fetter, Jill Wegrzyn | TITLE: American Beech Tissue Collection for DNA
AUTHORS: Michelle Neitzey, Karl Fetter, Jill Wegrzyn
[DESCRIPTION]
Steps for collecting tissue from American Beech trees for DNA analysis. The Plant Computational Genomics lab is conducting a landscape genomics study of climate adaptation in the American Beech This proto... | ["[Introduction] This protocol is intended for field collection of leaf tissue for the American Beech landscape genomics project sponsored by the Plant Computation Genomics lab at the University of Connecticut. The goal of the project is to identify climate adapted genomic variation for seed banking and potential use i... |
43,664 | Nuclei isolation from human lung using douncing for snATAC-seq | 4 | dx.doi.org/10.17504/protocols.io.bnvqme5w | https://www.protocols.io/view/nuclei-isolation-from-human-lung-using-douncing-fo-bnvqme5w | Center for Epigenomics UCSD | TITLE: Nuclei isolation from human lung using douncing for snATAC-seq
AUTHORS: Center for Epigenomics UCSD
[STEPS] | [] |
102,324 | Sinai SCENT TMC - Bronchoscopy Lung Collection | 0 | dx.doi.org/10.17504/protocols.io.bp2l628yrgqe/v1 | https://www.protocols.io/view/sinai-scent-tmc-bronchoscopy-lung-collection-df6u3rew | Monica Kraft, Santos Bermejo | TITLE: Sinai SCENT TMC - Bronchoscopy Lung Collection
AUTHORS: Monica Kraft, Santos Bermejo
[DESCRIPTION]
Cellular senescence is a stress-response, as well as a critical component of cell fate during development, repair, resilience, and normal aging. Deepening and broadening our investigations into cellular senescenc... | ["[Goal and Objective] This project aims to collect, handle, store, and allocate normal healthy lung tissues and biofluids for constructing cellular senescence maps according to the standards established by the Steering Committee of the SenNet consortium. It seeks to identify senescent cell differences across the body,... |
96,469 | Inducing Plasmolysis in Root Hair Cell Membranes: A Sensitive Assay for Studying Cell Membrane Physiology | 0 | dx.doi.org/10.17504/protocols.io.ewov1qe37gr2/v1 | https://www.protocols.io/view/inducing-plasmolysis-in-root-hair-cell-membranes-a-dafv2bn6 | Antonino Michel Lecona Jiménez, Manoj-Kumar Arthikala, Kalpana Nanjareddy | TITLE: Inducing Plasmolysis in Root Hair Cell Membranes: A Sensitive Assay for Studying Cell Membrane Physiology
AUTHORS: Antonino Michel Lecona Jiménez, Manoj-Kumar Arthikala, Kalpana Nanjareddy
[DESCRIPTION]
Plasmolysis, a fundamental phenomenon in plant physiology, occurs when plant cells are exposed to a hypertoni... | ["[Preparation of solutions] Prepare a 100 ml NaCl solution at a concentration of 150 mM, following the instructions outlined in the materials section of this protocol.", "[Induction of plasmalysis] Replace sterile water with 10 ml of a 150 mM NaCl solution, ensuring complete coverage of the plant root tissue.", "[Micr... |
null | null | null | dx.doi.org/10.17504/protocols.io.g36byre | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?. | [] |
36,609 | SPARC Cat surgery Day 0 | 1 | dx.doi.org/10.17504/protocols.io.bfy9jpz6 | https://www.protocols.io/view/sparc-cat-surgery-day-0-bfy9jpz6 | Brett Hanzlicek, Ben Abelson, Margot Damaser | TITLE: SPARC Cat surgery Day 0
AUTHORS: Brett Hanzlicek, Ben Abelson, Margot Damaser
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol for cat surgery to expose the badder for inactive device insertion.</div></div>
[STEPS]
?. [Animal Prep and catheter placement]
Cat is anesthetized an... | ["[Animal Prep and catheter placement]\nCat is anesthetized and abdomen is shaved by the Cleveland Clinic vet team. The cat is then moved into the surgery room and attached to monitors by the vet team.", "[Animal Prep and catheter placement]\nDrape cat and perform betadine scrub on abdomen and genitals.", "[Animal Pre... |
65,035 | Image processing to investigate NEMO recruitment and involvement in mitophagy and inflammatory signaling (Provisional unformatted) | 4 | null | https://www.protocols.io/view/image-processing-to-investigate-nemo-recruitment-a-cbrjsm4n | OLIVIA HARDING, holzbaur | TITLE: Image processing to investigate NEMO recruitment and involvement in mitophagy and inflammatory signaling (Provisional unformatted)
AUTHORS: OLIVIA HARDING, holzbaur
[DESCRIPTION]
Beautiful images are not sufficient to robustly characterize and interrogate a cellular mechanism. In order to show recruitment o... | ["- This protocol addresses multiple image analysis pipelines used in the corresponding manuscript to investigate NEMO and its role in mitophagy", "- We developed several methods for quantitative analysis with our varying experiments Equipment/software", "- ImageJ/FIJI", "- Ilastik", "- D... |
73,132 | Proximity Ligation Assay to Detect Transcription-Replication Conflicts in Yeast | 4 | dx.doi.org/10.17504/protocols.io.kxygx93rzg8j/v1 | https://www.protocols.io/view/proximity-ligation-assay-to-detect-transcription-r-cjnkumcw | Rebecca E Brown, Catherine H Freudenreich | TITLE: Proximity Ligation Assay to Detect Transcription-Replication Conflicts in Yeast
AUTHORS: Rebecca E Brown, Catherine H Freudenreich
[DESCRIPTION]
Replication and transcription machineries can come into conflict with each other when spatial and temporal separation of these processes are not possible. We present a... | ["[Preparation of Poly-L-Lysine Coated Slides] Prepare poly-L-lysine coated polytetrafluoroethylene (PTFE) slide to ensure that yeast cells adhere to slide:\n\nNOTE: Slides should be prepared either day of or day before proximity ligation assay protocol is started.\n\nNOTE: Be sure not to touch the wells of the slide f... |
72,357 | Uniaxial Bias Extension Test on Woven Engineering Fabrics | 1 | dx.doi.org/10.17504/protocols.io.81wgbyy93vpk/v1 | https://www.protocols.io/view/uniaxial-bias-extension-test-on-woven-engineering-ciwdufa6 | Nimrekha Kahavita, Philip Harrison | TITLE: Uniaxial Bias Extension Test on Woven Engineering Fabrics
AUTHORS: Nimrekha Kahavita, Philip Harrison
[DESCRIPTION]
This protocol describes the process of preparing test specimens, conducting tests, and analysing results for a uniaxial bias extension test on woven engineering fabrics both with and without anti-... | ["[Experimental setup]", "[Results and Discussion]", "[Attachments] To demonstrate the tests, videos and the corresponding still frames of the UBE test both with and without the AWP are provided. The reader is invited to download and analyse the videos and still frames, as described above. Your analysis can then be com... |
65,542 | Generating a low-copy overexpression cell line using PhiC31 integration | 4 | dx.doi.org/10.17504/protocols.io.36wgq71kxvk5/v1 | https://www.protocols.io/view/generating-a-low-copy-overexpression-cell-line-usi-cb9esr3e | Goran Tomic | TITLE: Generating a low-copy overexpression cell line using PhiC31 integration
AUTHORS: Goran Tomic
[DESCRIPTION]
This is an in-house adaptation of the commerically available Jump-In system by Thermo. It generates clones with a lower overexpression level than those generated by lentivirial delivery and can be carried... | ["Day 1: Use a 6-well plate (0.15x10^6 cells per well). Incubate for 24-48 hours. Transfect if the well is 70-90% confluent.", "Day 2: Make DNA-Lipofectamine™ 3000 complexes in serum-free medium such as Opti-MEM™ Reduced Serum Medium. \n\nFor a 6 well plate: 2.5 ug of DNA + 125 uL Opti-MEM + 5 uL P3000 reagent (2 uL/ug... |
53,822 | Proteomics workflow for whole cell lysate, endosome, and lysosome fractions | 4 | dx.doi.org/10.17504/protocols.io.bys6pwhe | https://www.protocols.io/view/proteomics-workflow-for-whole-cell-lysate-endosome-bys6pwhe | Hankum Park, Frances V Hundley, J. Wade Harper | TITLE: Proteomics workflow for whole cell lysate, endosome, and lysosome fractions
AUTHORS: Hankum Park, Frances V Hundley, J. Wade Harper
[DESCRIPTION]
We present a protocol for sample preparation for LC-MS analysis of whole cell lysates and for lysosomal and endosomal fractions purified by Lyso-IP and Endo-IP. Pro... | ["[Whole cell global proteomics] Seed each cell line in one 15cm dish (293 or 293 cells stably expressing TMEM192-HA and FLAG-EEA1). At ~80% confluency, collect cells by scraping in DPBS", "[Whole cell global proteomics] At ~80% confluency, harvest cells on ice by scraping in 2-3 mL DPBS and pellet at 1,000xg for 2 mi... |
null | null | null | dx.doi.org/10.17504/protocols.io.jyycpxw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Training of subjects and execution of flintknapping sessions followed a written protocol strictly followed by a skilled tutor. The general protocol is presented as well as its treatment-specific variants.</p>
[STEPS] | [] |
107,439 | Brain infiltrating leukocytes (BILs) extraction | 0 | dx.doi.org/10.17504/protocols.io.n2bvjnmzbgk5/v1 | https://www.protocols.io/view/brain-infiltrating-leukocytes-bils-extraction-dk6p4zdn | Alexandra Kazanova, Nathalia Oliveira, samantha.gruenheid | TITLE: Brain infiltrating leukocytes (BILs) extraction
AUTHORS: Alexandra Kazanova, Nathalia Oliveira, samantha.gruenheid
[DESCRIPTION]
This protocol details the extraction of brain infiltrating leukocytes (BILs).
[STEPS]
SECTION: Procedure (work as fast and as gentle as possible):
1. Prior to sacking the mice, prepa... | ["[Procedure (work as fast and as gentle as possible):] Prior to sacking the mice, prepare 15 mL conical tubes with 3 mL RPMI and weigh each tube.", "[Procedure (work as fast and as gentle as possible):] Inject mice with 200 µL of aCD45-FITC solution IP.", "[Procedure (work as fast and as gentle as possible):] Sac mice... |
null | null | null | dx.doi.org/10.17504/protocols.io.fevbje6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?. | [] |
50,634 | Microfluidic Chip Production v1.1 | 1 | dx.doi.org/10.17504/protocols.io.bvpin5ke | https://www.protocols.io/view/microfluidic-chip-production-v1-1-bvpin5ke | Florian De Rop, Stein Aerts, Suresh Poovathingal | TITLE: Microfluidic Chip Production v1.1
AUTHORS: Florian De Rop, Stein Aerts, Suresh Poovathingal
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for producing microfluidic chips used in HyDrop experiment.</div></div>
[STEPS]
?. [Microfluidic Chip Preparation]
PDMS Chip productionPouring ... | ["[Microfluidic Chip Preparation]\nPDMS Chip productionPouring and baking of PDMS", "[Microfluidic Chip Preparation]\nRemove PDMS slab from mold and tape over features to prevent dust accumulation Puncture inlet holes with 1 mm biopsy needles. Perform this action while holding the PDMS chip on your PDMS mat to prevent ... |
91,026 | MBA DTOL - DNA extraction and barcoding of Marine Metazoans | 4 | null | https://www.protocols.io/view/mba-dtol-dna-extraction-and-barcoding-of-marine-me-c45syy6e | Rebekka Uhl | TITLE: MBA DTOL - DNA extraction and barcoding of Marine Metazoans
AUTHORS: Rebekka Uhl
[DESCRIPTION]
This document provides a guide to the protocols used by the Marine Biological Association for DNA extraction and barcoding of marine metazoans sampled for the Darwin Tree of Life project. The selection of organisms d... | ["[DNA Barcoding: Ascidians] Reference: Adapted from Salonna et al., 2021 \nSalonna, M., Gasparini, F., Huchon, D., Montesanto, F., Haddas-Sasson, M., Ekins, M., McNamara, M., Mastrototaro, F. and Gissi, C., 2021. An elongated COI fragment to discriminate botryllid species and as an improved ascidian DNA barcode. Scien... |
null | null | null | dx.doi.org/10.17504/protocols.io.dw67hd | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocols is from:<br />Alexandre Paix, et al. (2014) <a href="http://www.genetics.org/content/198/4/1347.full" target="_blank">Scalable and Versatile Genome Editing Using Linear DNAs with Microhomology to Cas9 Sites in Caenorhabditis elegans</a>. <em>Genetics <span class="... | [] |
62,819 | Setting a sequencing run with a nanopore MinION and the Rapid Sequencing gDNA kit (SQK-RAD004) | 4 | dx.doi.org/10.17504/protocols.io.4r3l2oy53v1y/v1 | https://www.protocols.io/view/setting-a-sequencing-run-with-a-nanopore-minion-an-b9kbr4sn | Narjol Gonzalez-Escalona | TITLE: Setting a sequencing run with a nanopore MinION and the Rapid Sequencing gDNA kit (SQK-RAD004)
AUTHORS: Narjol Gonzalez-Escalona
[DESCRIPTION]
This protocol is to help in setting up a MinION sequencing run using the rapid sequencing kit from Nanopore (SQK-RAD004). It contains all steps and material need for a s... | ["[Preparation of the DNA Library:] Thaw all reagents in box 1 and 2 of the RAD004 kit.", "[Preparation of the DNA Library:] Prepare the DNA to the suggested concentration of 400 ng total in 7.5 µL, or 54 µL in a 0.2 mL sterile thin-walled PCR tube. Adjust the volume using nuclease-free water. Mix by gently flicking th... |
94,352 | Detection of seeded pathology using tyramide amplification | 1 | dx.doi.org/10.17504/protocols.io.5jyl8pzzdg2w/v1 | https://www.protocols.io/view/detection-of-seeded-pathology-using-tyramide-ampli-c8dqzs5w | Bryan_Killinger, Bryan_Killinger | TITLE: Detection of seeded pathology using tyramide amplification
AUTHORS: Bryan_Killinger, Bryan_Killinger
[DESCRIPTION]
This protocol details the detection of seed pathology using tyramide amplification.
[STEPS]
SECTION: Detection of seeded pathology using tyramide amplification
1. Mount the fixed floating 40-micro... | ["[Detection of seeded pathology using tyramide amplification] Mount the fixed floating 40-micron sections onto gelatin-coated slides and dry at Room temperature 20 min.", "[Detection of seeded pathology using tyramide amplification] Rehydrate the slides in TBST (refer materials section) and digest with proteinase K (P... |
36,996 | Image capture and pre-filtering for 3D photogrammetry of coral colonies | 1 | dx.doi.org/10.17504/protocols.io.bgdcjs2w | https://www.protocols.io/view/image-capture-and-pre-filtering-for-3d-photogramme-bgdcjs2w | Wyatt Million, Carly Kenkel | TITLE: Image capture and pre-filtering for 3D photogrammetry of coral colonies
AUTHORS: Wyatt Million, Carly Kenkel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a protocol for generating images to be used in 3D model building via Agisoft Metashape for coral photogrametry. This will cover ... | ["[The Scaling System ]\nBuilding the Tomahawk The Kenkel lab uses High Density Polyethylene (HDPE) 1/4 inch thick sheets from https://www.usplastic.com/search/?it=item&keyword=hdpe%20sheet to build our 3D photogrammetry scaling system, aka the Tomahawk. HDPE is sturdy and lightweight yet heavy enough to rest on the re... |
66,895 | Condor CBD Gummies 2022 Reviews | 1 | dx.doi.org/10.17504/protocols.io.eq2lynypwvx9/v1 | https://www.protocols.io/view/condor-cbd-gummies-2022-reviews-cdjps4mn | condorcbdfly | TITLE: Condor CBD Gummies 2022 Reviews
AUTHORS: condorcbdfly
[DESCRIPTION]
Condor CBD Gummiesare a focal arrangement that is known to be the most fitting reaction for progression and flourishing. This CBD strategy is useful in overhauling the digestion count and safe design. One can make a sound lean perspective wit... | [] |
28,907 | Splitting p0 (6wp) to p1 (T75) | 1 | dx.doi.org/10.17504/protocols.io.8gjhtun | https://www.protocols.io/view/splitting-p0-6wp-to-p1-t75-8gjhtun | Andrea Argouarch | TITLE: Splitting p0 (6wp) to p1 (T75)
AUTHORS: Andrea Argouarch
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol includes splitting outgrowth of dural cell from a 6 well plate into one T75 flask for expansion. </div></div>
[STEPS]
?. [Preparation]
Turn off UV lights and clean hood with 70% ... | ["[Preparation]\nTurn off UV lights and clean hood with 70% ethanol", "[Clean Up]\nThrow away biohazard materials properly a. 10 cm dishes with glass coverslips should be thrown away in biohazard red sharp container", "[Clean Up]\nClean surgical tools, wear waterproof lab coat and eye protection/PPE a. Brush and... |
56,448 | White Water Ranch Pollinator Enhancement Study Design | 1 | dx.doi.org/10.17504/protocols.io.b3c8qizw | https://www.protocols.io/view/white-water-ranch-pollinator-enhancement-study-des-b3c8qizw | Lauren Ponisio | TITLE: White Water Ranch Pollinator Enhancement Study Design
AUTHORS: Lauren Ponisio
[DESCRIPTION]
Field protocol for Whitewater Ranch wildflower patch enhancement study
[STEPS]
SECTION: Questions
1. Can native, flowering plants succeed (germinate and flower within 1-3 years after seeding) in clearcuts with minimal ... | ["[Questions] Can native, flowering plants succeed (germinate and flower within 1-3 years after seeding) in clearcuts with minimal site prep?\nWhat native shrubs can establish on road edges? \nIs there an interaction between plant success and planting inside burn piles or outside burn piles? \nDoes intraspecific compet... |
66,630 | Select Keto :Reviews, Benefits, Offers, Pros & Cons| Read Full Info Here! | 3 | dx.doi.org/10.17504/protocols.io.261genbkdg47/v1 | https://www.protocols.io/view/select-keto-reviews-benefits-offers-pros-amp-cons-cdbes2je | robbyjams | TITLE: Select Keto :Reviews, Benefits, Offers, Pros & Cons| Read Full Info Here!
AUTHORS: robbyjams
[DESCRIPTION]
select keto
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.cq6vzd | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Western blot running buffer.
[STEPS]
?.
?.
?.
?.
?.
?. | [] |
78,686 | Liposome Synthesis Protocol : Synthesis of cationic liposome nanoparticles using a thin film dispersed hydration and extrusion method. | 6 | dx.doi.org/10.17504/protocols.io.dm6gpjyx1gzp/v2 | https://www.protocols.click/view/liposome-synthesis-protocol-synthesis-of-cationic-cq36vyre | Joanna Carroll, Noah Daly, Julie Rose Mae Mondala, Alancasey, Brijeshtiwari, James F Curtin, Alessandro Cazzolla | TITLE: Liposome Synthesis Protocol : Synthesis of cationic liposome nanoparticles using a thin film dispersed hydration and extrusion method.
AUTHORS: Joanna Carroll, Noah Daly, Julie Rose Mae Mondala, Alancasey, Brijeshtiwari, James F Curtin, Alessandro Cazzolla
[DESCRIPTION]
Nanoparticles are the future of targeted ... | ["[Synthesis of liposomes via thin film dispersed hydration] The thin-film dispersed hydration method can be used to prepare anionic and cationic liposomes and encapsulated liposomes with (fluorescent dyes, bio compounds or drugs). \n\nIn a round bottom pyrex flask (50 ml), add 7 millimolar (mM) of the chosen lipid and... |
74,726 | P9 MODIFICACIÓN PROGRAMAS DOCTORADO | 1 | dx.doi.org/10.17504/protocols.io.rm7vzb6e2vx1/v1 | https://www.protocols.io/view/p9-modificaci-n-programas-doctorado-ck8euzte | cgarcia | TITLE: P9 MODIFICACIÓN PROGRAMAS DOCTORADO
AUTHORS: cgarcia
[DESCRIPTION]
Con el objetivo de adaptar la estructura, contenidos y desarrollo de los programas de doctorado de la EIDUCAM, de forma bianual se pondrán en marcha los mecanismos adecuados para llevar a cabo dicha tarea por parte de los directores de los progr... | ["[P9 MODIFICACIÓN PROGRAMA DOCTORADO] En el mes de febrero de los años impares, se pondrá en marcha este procedimiento.", "[P9 MODIFICACIÓN PROGRAMA DOCTORADO] Teniendo en cuenta el autoinforme y/o informe de seguimiento de cada programa de doctorado realizado por la Comisión de Calidad del Título (CCT) en el mes de m... |
null | null | null | dx.doi.org/10.17504/protocols.io.h6fb9bn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div title="Page 1">
<div>
<div>
<div>
<p>The current study was to compare the effects of high-intensity interval training (HI) to mild-intensity endurance training (ME), combined with a high-fat diet (HFD) or control diet (CD), on metabolic phenotype and serum corticosterone le... | [] |
84,631 | Purification of GST-tagged linear tetra-ubiquitin (4xUb) | 4 | dx.doi.org/10.17504/protocols.io.q26g7pbo1gwz/v1 | https://www.protocols.io/view/purification-of-gst-tagged-linear-tetra-ubiquitin-cwvxxe7n | Elias Adriaenssens | TITLE: Purification of GST-tagged linear tetra-ubiquitin (4xUb)
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol describes purification of GST-tagged linear tetra-ubiquitin (4xUb).
[STEPS]
SECTION: Purification of GST-tagged linear tetra-ubiquitin (4xUb)
1. Linear tetra-ubiquitin fused to GST (GST-4xUb) was cl... | ["[Purification of GST-tagged linear tetra-ubiquitin (4xUb)] Linear tetra-ubiquitin fused to GST (GST-4xUb) was cloned into a pGEX-4T1 vector and is available from Addgene (RRID:Addgene #199779).", "[Purification of GST-tagged linear tetra-ubiquitin (4xUb)] After the transformation of the pGEX-4T1 vector encoding GST4x... |
16,375 | Protocol for use with Purified mRNA or rRNA Depleted RNA and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (E7760, E7765) | null | dx.doi.org/10.17504/protocols.io.t8xerxn | null | New England Biolabs | TITLE: Protocol for use with Purified mRNA or rRNA Depleted RNA and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (E7760, E7765)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The NEBNext Ultra II Directional RNA Library Prep Kit for Illumina contains ... | ["[RNA Fragmentation and Priming]\nPlace the sample in a thermocycler and incubate the sample at following the recommendations in Table 1 below for fragment sizes ~200 nt. Table 1. Suggested fragmentation times based on RIN value of RNA input. ABC1RNA TypeRINFrag. Time2Intact RNA> 715 min @ 94°C3Partially Degraded RN... |
null | null | null | dx.doi.org/10.17504/protocols.io.er9bd96 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The purpose of this protocol is to isolate and characterize viruses that infect <em>P.olseni, P.marinus.</em>
[BEFORE_START]
<div><strong>What you need before you start:</strong></div>
<ul>
<li>UV and sterilize the hood with reagent alcohol. Work with gloves to prevent contamin... | [] |
40,097 | SARS-CoV-2 Illumina MiSeq protocol v.1 | 4 | null | https://www.protocols.io/view/sars-cov-2-illumina-miseq-protocol-v-1-bjd9ki96 | Public Health Ontario | TITLE: SARS-CoV-2 Illumina MiSeq protocol v.1
AUTHORS: Public Health Ontario
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>ARTIC amplicon sequencing protocol adapted from Josh Quick's </span><a href="https://www.protocols.io/view/ncov-2019-sequencing-protocol-v2-bdp7i5rn" style = "text-decor... | ["[cDNA preparation]\nMix the following components:Component Volume50 µM random hexamers 10mM dNTPs mix (10mM each) Total Mastermix volume (template RNA) Tot... |
89,694 | Proteomic Analysis of Human Whole Lung Tissue Using Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) Acquisition by Data-Independent Acquisition (DIA) on an Orbitrap Eclipse Tribrid Mass Spectrometer | 4 | dx.doi.org/10.17504/protocols.io.x54v9p3bpg3e/v1 | https://www.protocols.io/view/proteomic-analysis-of-human-whole-lung-tissue-usin-c3t6ynre | J Bons, J P Rose, M A Watson, B Schilling | TITLE: Proteomic Analysis of Human Whole Lung Tissue Using Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) Acquisition by Data-Independent Acquisition (DIA) on an Orbitrap Eclipse Tribrid Mass Spectrometer
AUTHORS: J Bons, J P Rose, M A Watson, B Schilling
[DESCRIPTION]
Frozen human whole lung tissues were h... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.kh2ct8e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Adapted from Dignam JD, Lebovitz RM, Roeder RG. 1983. <a href="https://www-ncbi-nlm-nih-gov.insb.bib.cnrs.fr/pubmed/6828386" target="_blank">Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei.</a> Nucleic Acids Res. 11(... | [] |
66,715 | Twin Elements CBD Gummies Reviews, Price, Scam & BUY Now! | 1 | dx.doi.org/10.17504/protocols.io.n2bvj6wwwlk5/v1 | https://www.protocols.io/view/twin-elements-cbd-gummies-reviews-price-scam-amp-b-cdd3s28n | wondercbdaid | TITLE: Twin Elements CBD Gummies Reviews, Price, Scam & BUY Now!
AUTHORS: wondercbdaid
[DESCRIPTION]
Twin Elements CBD Gummies- You intend to recover similarly as genuinely feel well beyond anybody's assumptions beforehand! Anyway when you are experiencing consistent ailments, it will in general be difficult to ... | [] |
41,139 | ELISA for quantification of IL-21 in human serum or plasma. | 6 | dx.doi.org/10.17504/protocols.io.bketkten | https://www.protocols.io/view/elisa-for-quantification-of-il-21-in-human-serum-bketkten | Angel Justiz-Vaillant | TITLE: ELISA for quantification of IL-21 in human serum or plasma.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Interleukins (IL) are a type of cytokine first thought to be expressed by leukocytes alone but have later been found to be produced by many other bo... | ["An anti-human IL-21 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C.", "Add 50 µl of human serum. Human IL-21 present in the serum sample binds to antibodies adsorbed to the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buffer and later wash to remove unbound protei... |
58,473 | Measurement of activity-related impedance changes in porcine subdiaphragmatic nerve | 1 | null | https://www.protocols.io/view/measurement-of-activity-related-impedance-changes-b5chq2t6 | Ilya Tarotin, Svetlana Mastitskaya, Enrico Ravagli, Justin D Perkins, David S Holder, Kirill Aristovich | TITLE: Measurement of activity-related impedance changes in porcine subdiaphragmatic nerve
AUTHORS: Ilya Tarotin, Svetlana Mastitskaya, Enrico Ravagli, Justin D Perkins, David S Holder, Kirill Aristovich
[DESCRIPTION]
This experimental protocol covers the preparation and execution of ex-vivo experiments for the meas... | ["Prepare nerve Ringer’s solution. \n\nPlace the glass beaker with 1L of distilled water on the magnetic stirrer, switch the medium speed stirring and put the following ingredients to the water (per 1L): 6.604 g , 0.357 g , 0227 g , 0.163 g ,0.144 g ,2.1 g ,0.901 g .", "Pour the solution into a dedicated reservoir co... |
56,572 | Dual In Situ Hybridization/Immunofluorescence | 4 | null | https://www.protocols.io/view/dual-in-situ-hybridization-immunofluorescence-b3g4qjyw | Michael Henderson | TITLE: Dual In Situ Hybridization/Immunofluorescence
AUTHORS: Michael Henderson
[DESCRIPTION]
This protocol details about the Dual In Situ Hybridization/Immunofluorescence in tissue.
[GUIDELINES]
ACD protocol notes that tissues should be fixed in 10% NBF for 16-32 hours, and embedded in paraffin. Then, sectioned and... | ["[Preparing Tissue (Day 1): Prepare Tissue] Bake slides in a dry oven for 60 min at 60 °C. Use slides within a week.", "[Preparing Tissue (Day 1): Prepare Tissue] De-paraffinize slides in fresh xylenes, then in 100% ethanol.", "[Preparing Tissue (Day 1): Prepare Tissue] Place slides on absorbent paper and dry in the o... |
59,243 | HMW gDNA purification and ONT ultra-long-read data generation v2 | 1 | null | https://www.protocols.io/view/hmw-gdna-purification-and-ont-ultra-long-read-data-b54jq8un | Glennis Logsdon | TITLE: HMW gDNA purification and ONT ultra-long-read data generation v2
AUTHORS: Glennis Logsdon
[DESCRIPTION]
This protocol describes the purification of high-molecular-weight genomic DNA from mammalian cells and the generation of ultra-long (N50 >100 kbp) Oxford Nanopore data using the PromethION. It is based on th... | ["[Cell collection and lysis] Freeze down 2-7 x 10^7 cells as a cell pellet, and store at -80C.", "[Cell collection and lysis] When you are ready to purify the DNA, thaw the cell pellet on ice (usually takes ~30 mins).", "[Cell collection and lysis] While the cells are thawing, add RNAse A to the lysis buffer at a fina... |
21,153 | UC Davis - Running Wheel | null | dx.doi.org/10.17504/protocols.io.yv9fw96 | null | Jennifer Rutkowsky | TITLE: UC Davis - Running Wheel
AUTHORS: Jennifer Rutkowsky
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Voluntary wheel running provides detailed information on the running capacity and activity patterns of control... | ["Acclimation to running wheel cages in running wheel or rodent incubator room (24 hr.)a) In the AM (before 12:00, if possible) standard food rack and water bottles will be filled and placed in running wheel cage. b) Mice will be weighed and their weights recorded on the weight and water/food intake log sheet before be... |
77,416 | Immunocytochemistry of cultured human Medium Spiny Neurons (MSNs) | 1 | dx.doi.org/10.17504/protocols.io.rm7vzb1p2vx1/v1 | https://www.protocols.io/view/immunocytochemistry-of-cultured-human-medium-spiny-cpugvntw | Quyen Do, Richard Wade-Martins | TITLE: Immunocytochemistry of cultured human Medium Spiny Neurons (MSNs)
AUTHORS: Quyen Do, Richard Wade-Martins
[DESCRIPTION]
This protocol describes the immunolabelling of one or several protein targets on PFA-fixed cell culture on glass coverslips.
[GUIDELINES]
Adherent cells are prone to peeling, and hence, add... | ["[Replating human Medium Spiny Neurons (MSNs) onto glass coverslips] Prepare glass coverslips and plates for replating", "[PFA Fixation] Transfer glass coverslips cultured with MSNs matured to relevant experimental timepoints into a 6-well plate.", "[PFA Fixation] Draw a fitting circle enclosing the entire coverslip w... |
null | null | null | dx.doi.org/10.17504/protocols.io.m67c9hn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>In this protocol, we used computer animated stimuli for two mate choice tests of <em>Gambusia affinis</em>, such that stimulus pairs differed only by (a) body size and (b) locomotor activity, but not in other morphological or behavioural traits that could affect mate choice d... | [] |
68,931 | Overall protocol for 2D intact proteoform mapping by MALDI imaging | 1 | dx.doi.org/10.17504/protocols.io.q26g74qn8gwz/v1 | https://www.protocols.io/view/overall-protocol-for-2d-intact-proteoform-mapping-cfjbtkin | Kevin J. Zemaitis, Dusan Velickovic, David J Degnan, Mowei Zhou, Ljiljana.PasaTolic | TITLE: Overall protocol for 2D intact proteoform mapping by MALDI imaging
AUTHORS: Kevin J. Zemaitis, Dusan Velickovic, David J Degnan, Mowei Zhou, Ljiljana.PasaTolic
[DESCRIPTION]
Scope:
An overall protocol outlining several nested sub-protocols for the 2D mapping of intact proteoforms from human tissue by MALDI ima... | ["[Sample sectioning and preparation] Tissue provided from TMCs are either shipped already cryo-sectioned, or shipped as tissue blocks and the preparation of tissues for MALDI imaging is performed similar to as described elsewhere. Once samples have been sectioned, tissue preparation has been outlined within the follow... |
52,236 | Cloning into pSL2680 CRISPR Plasmid - iGEM IISER Pune 2021 | 4 | dx.doi.org/10.17504/protocols.io.bw9kph4w | https://www.protocols.io/view/cloning-into-psl2680-crispr-plasmid-igem-iiser-pun-bw9kph4w | misaal.bedi | TITLE: Cloning into pSL2680 CRISPR Plasmid - iGEM IISER Pune 2021
AUTHORS: misaal.bedi
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol can be used to clone the guide RNA and Homologous Repair Template into the pSL2680 plasmid which was a gift from Himadri Pakrasi (Addgene plasmid # 85... | ["[Cloning the gRNA]\nThe gRNA is to be cloned before the cassette into the plasmid.", "[Day 1]\nTake of LB media with Kanamycin and scratch off some solid culture from the vial and add to the media in a flask. Grow this at\n30 mL\n37 °C", "[Day 2]\nPerform miniprep on the entire culture (since the pSL2680 plasmi... |
25,343 | 01 PCR | null | dx.doi.org/10.17504/protocols.io.4y7gxzn | null | TJUSLS China | TITLE: 01 PCR
AUTHORS: TJUSLS China
[STEPS]
?. Mix the ingredients according to the table belowTemplate 1-30ngSense Primer（10uM） 2.5ulAnti-sense Primer（10uM） 2.5ul5x SuperStar Omni Buffer 5uldNTP（each 2.5mM） 4ulSuperStar Omni DNA Polymerase 1ul10x Enhancer 5ulddH2O up to 50ul
?. Set the PCR instrument Procedure accord... | ["Mix the ingredients according to the table belowTemplate 1-30ngSense Primer（10uM） 2.5ulAnti-sense Primer（10uM） 2.5ul5x SuperStar Omni Buffer 5uldNTP（each 2.5mM） 4ulSuperStar Omni DNA Polymerase 1ul10x Enhancer 5ulddH2O up to 50ul", "Set the PCR instrument Procedure according to the following tablePre-denaturation: 94... |
35,896 | NEBExpress MBP Fusion and Purification System (NEB #E8201) | null | dx.doi.org/10.17504/protocols.io.bfayjifw | https://www.protocols.io/view/nebexpress-mbp-fusion-and-purification-system-neb-bfayjifw | New England Biolabs | TITLE: NEBExpress MBP Fusion and Purification System (NEB #E8201)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The NEBExpress MBP Fusion and Purification System takes advantage of the strong Ptac promoter and the translation initiation signals of maltose bindin... | ["Subclone the gene of interest into the pMAL-c6T vector.", "Grow cells containing the pMAL-c6T fusion plasmid in LB containing ampicillin and 0.2% glucose to an A600 of ~0.5.", "Induce by adding IPTG to a final concentration of .", "Grow for an additional: at OR at OR – at OR at to .\n37 °C\n30 °C\n30 Room temp... |
27,133 | Method of inventory and monitoring of bat fauna in forests by using mist nets | null | dx.doi.org/10.17504/protocols.io.6q5hdy6 | null | Alona Prylutska, Anton Vlaschenko | TITLE: Method of inventory and monitoring of bat fauna in forests by using mist nets
AUTHORS: Alona Prylutska, Anton Vlaschenko
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The most common approaches for summer bat monitoring in Europe are acoustic recording and captures from roosts. However, the... | ["Choose the period for bats captures. We consider July as the most effective period for mist-netting when young individuals start to fly, but the autumn migration has not started yet.", "Select study plot, about 400-500 ha with different habitats (e.g. lake,river shores, forest edges and closed forest roads). Choose... |
69,843 | Introduction and Lineage Assignment of Assembled Sequences | 1 | null | https://www.protocols.io/view/introduction-and-lineage-assignment-of-assembled-s-cgftttnn | Paul Lorenzo A Gaite, Dr Ritchie Mae T Gamot | TITLE: Introduction and Lineage Assignment of Assembled Sequences
AUTHORS: Paul Lorenzo A Gaite, Dr Ritchie Mae T Gamot
[DESCRIPTION]
As the SARS-CoV-2 pandemic emerged, Philippine Genome Center Mindanao (PGC Mindanao), in collaboration with Project Accessible Genomics and Genomic Epidemiology of COVID in the Philipp... | ["PGC Mindanao Workflow\n\nFigure 1 illustrates the overview of the PGC Mindanao workflow.\n\nThe process starts with sample collection from the patient by swabbing, then subsequent processing and transport of the sample to PGC Mindanao. This was followed by pre-processing and whole-genome sequencing of the transported... |
27,821 | Modified LSK109 ligation prep with needle shear and bead clean up | null | dx.doi.org/10.17504/protocols.io.7emhjc6 | null | John Tyson | TITLE: Modified LSK109 ligation prep with needle shear and bead clean up
AUTHORS: John Tyson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Modified LSK109 ligation prep using needle shear and bead purification</span></div><div class = "text-block">Using HMW DNA pu... | ["of HMW genomic DNA made up to with EB and sheared with either a 29G or 26G needle using 20 passes. For 26G shear add of EB (10mM Tris-Cl pH8.0) followed by AMPureXP bead solution. For 29G shear add AMPureXP bead solution.\n10 µg\n250 µl\n250 µl\n250 µl\n125 µl\nAfter shearing is a good time to get a reliable DNA ... |
21,851 | aCGH Hybridization & wash | null | dx.doi.org/10.17504/protocols.io.zj3f4qn | null | Hendrik F van Essen | TITLE: aCGH Hybridization & wash
AUTHORS: Hendrik F van Essen
[STEPS]
?. [aCGH Hybridization]
Turn on hybridization oven Turn on heat block Turn on heat block
?. [aCGH Hybridization]
Mix Cy3 and Cy5 samples
?. [aCGH Hybridization]
Mix the following components in 1.5 centrifuge tubes* Cy3/Cy5 gDNA mixture 39 µl*... | ["[aCGH Hybridization]\nTurn on hybridization oven Turn on heat block Turn on heat block", "[aCGH Hybridization]\nMix Cy3 and Cy5 samples", "[aCGH Hybridization]\nMix the following components in 1.5 centrifuge tubes* Cy3/Cy5 gDNA mixture\t\t 39 µl* Cot-1 DNA (1.3 µg/µl)\t\t 5 µl* Agilent 10x blo... |
52,952 | Protocol 1 | 4 | null | https://www.protocols.io/view/protocol-1-bxxypppw | lukasz.lukjaniuk | TITLE: Protocol 1
AUTHORS: lukasz.lukjaniuk
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">ABC</div></div>
[STEPS]
?. [Ekstrakcja]
Add1 in Store in
1 µl
25 Room temperature
?. [Ekstrakcja]
After step 1 rotate
10 33
?. [Ekstrakcja]
AV_2^N
[Buffor]
?. [Ekstrakcja]
?.
?. | ["[Ekstrakcja]\nAdd1 in Store in\n1 µl\n25 Room temperature", "[Ekstrakcja]\nAfter step 1 rotate\n10 33", "[Ekstrakcja]\nAV_2^N\n[Buffor]", "[Ekstrakcja]"] |
69,758 | DAT-TRAP Protocol | 4 | dx.doi.org/10.17504/protocols.io.6qpvr4eo2gmk/v1 | https://www.protocols.io/view/dat-trap-protocol-cgc6tsze | Peter Kilfeather | TITLE: DAT-TRAP Protocol
AUTHORS: Peter Kilfeather
[DESCRIPTION]
This protocol describes the capture of eGFP-L10a-tagged ribosomes and mRNA from DAT-expressing cells in mouse ventral midbrain.
[GUIDELINES]
Prepare all reagents under RNAse-free conditions, preferably with the use of a PCR hood.
[STEPS]
SECTION: Tissu... | ["[Tissue Collection] Prepare all dissection instruments and collection tubes on ice. Set a refrigerated centrifuge to 4 °C. Be prepared to work swiftly, to minimise changes in translation occurring after death. Collection materials should be prepared in an RNase-free manner, to minimise the risk of sample degradation.... |
86,938 | Test_PDF_upload | 1 | null | https://www.protocols.io/view/test-pdf-upload-cy52xy8e | Brian Lee | TITLE: Test_PDF_upload
AUTHORS: Brian Lee
[DESCRIPTION]
This fake NGN2 protocol is an example of just a pdf upload of a process.
[STEPS] | [] |
65,260 | 16S PCR | 4 | null | https://www.protocols.io/view/16s-pcr-cbykspuw | Stephanie Clouser | TITLE: 16S PCR
AUTHORS: Stephanie Clouser
[DESCRIPTION]
A protocol for 16S PCR as outlined by the HUCK Genomics Core.
[STEPS]
SECTION: Before You Begin
1. Prepare your workspace
1. Turn on PCR Clean Hood blower and white light.
2. Clean the cabinet with 70% ethanol, including the work surface, walls, and gla... | ["[Before You Begin] Prepare your workspace\n1. Turn on PCR Clean Hood blower and white light.\n2. Clean the cabinet with 70% ethanol, including the work surface, walls, and glass.\n3. Turn the dial and run the UV light for 15 minutes. \n \n\n4. Once the timer is up a... |
60,845 | Chemical colorectal stimuli for GCaMP6f characterization | 1 | dx.doi.org/10.17504/protocols.io.ewov1n2mogr2/v1 | https://www.protocols.io/view/chemical-colorectal-stimuli-for-gcamp6f-characteri-b7nmrmc6 | Bin Feng | TITLE: Chemical colorectal stimuli for GCaMP6f characterization
AUTHORS: Bin Feng
[DESCRIPTION]
By adopting our developed high-throughput optical recording system, a large scale of dorsal root ganglia (DRG) neurons were recorded and identified from a whole DRG. Based on this custom-built platform, we functionally cha... | ["[Tissue preparation for GCaMP recording] Mice (VGU/GCaMP) 8-14 weeks of age were deeply anesthetized by intraperitoneal and intramuscular injection of a 0.4 mL cocktail of ketamine (120 mg/kg) and xylazine (10 mg/kg).", "[Tissue preparation for GCaMP recording] Mice were then euthanized by perfusion from the left ven... |
80,852 | Small Business Moorea | 1 | dx.doi.org/10.17504/protocols.io.rm7vzbpkrvx1/v2 | https://www.protocols.io/view/small-business-moorea-cs7uwhnw | Clairey Yang | TITLE: Small Business Moorea
AUTHORS: Clairey Yang
[DESCRIPTION]
Sustainability is a hot topic in French Polynesia. For example, the South Pacific Tourism Organization launched a Sustainable Tourism Policy Framework with goals extending to 2030. The Blue Climate Initiative, an ocean-centered environmental program, add... | ["[Defining a Small Business] This project defines a small business as any business that is not part of a larger conglomerate.", "[Defining Industry Type] Outreach will be focused on only food businesses in Moorea. This includes restaurants, snack shacks, grocery stores, food trucks, food producers, and roadside stands... |
45,690 | Spatial mapping and contextualization of axon subtypes innervating the long bones of C3H and B6 mice | 4 | dx.doi.org/10.17504/protocols.io.bqu2mwye | https://www.protocols.io/view/spatial-mapping-and-contextualization-of-axon-subt-bqu2mwye | Erica Scheller, Alec Beeve, Jennifer Brazill, Madelyn Lorenz | TITLE: Spatial mapping and contextualization of axon subtypes innervating the long bones of C3H and B6 mice
AUTHORS: Erica Scheller, Alec Beeve, Jennifer Brazill, Madelyn Lorenz
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Nerves in bone play well-established roles in pain and vasoregulation and ... | ["[Tissue isolation and fixation]\nFully anesthetize mouse by intraperitoneal (IP) injection of ≥ 100 mg/kg ketamine + 10 mg/kg xylazine. Confirm anesthesia has been established to a surgical plane or greater depth by toe-pinch reflex.", "[Tissue isolation and fixation]\nPost-fix tissues in 10% NBF for 24 h at 4 ˚C.", ... |
23,158 | SmartSeq2 for HTP Generation of FACS Sorted Single Cell Libraries | null | dx.doi.org/10.17504/protocols.io.2uwgexe | null | Tabula Muris Consortium, Shayan Hosseinzadeh | TITLE: SmartSeq2 for HTP Generation of FACS Sorted Single Cell Libraries
AUTHORS: Tabula Muris Consortium, Shayan Hosseinzadeh
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Lysis Plate Preparation]
Lysis plates were created by dispensing 0.4 μl lysis buffer into 384-well hard-shell PCR plates (Bio- Rad ... | ["[Lysis Plate Preparation]\nLysis plates were created by dispensing 0.4 μl lysis buffer into 384-well hard-shell PCR plates (Bio- Rad HSP3901) using a Tempest liquid handler (Formulatrix). 96-well lysis plates were also prepared with 4 μl lysis buffer. All plates were sealed with AlumaSeal CS Films (Sigma-Aldrich Z722... |
55,943 | Fungal DNA extraction for Nanopore sequencing | 4 | dx.doi.org/10.17504/protocols.io.b2vfqe3n | https://www.protocols.io/view/fungal-dna-extraction-for-nanopore-sequencing-b2vfqe3n | Eri Ogiso-Tanaka, Hiyori Itagaki, Muneyuki Ohmae, Tsuyoshi hosoya, Kentaro Hosaka | TITLE: Fungal DNA extraction for Nanopore sequencing
AUTHORS: Eri Ogiso-Tanaka, Hiyori Itagaki, Muneyuki Ohmae, Tsuyoshi hosoya, Kentaro Hosaka
[DESCRIPTION]
This protocol is intended for extraction of high molecular weight DNA from fungal samples.
[BEFORE_START]
Cut the tip of the pipette man tips in advan... | ["The frozen mycelium samples are ground to fine powders using a mortar and pestle in liquid nitrogen to avoid raising the temperature of the samples for high molecular weight DNA extraction.", "Add 20 mL of pre-warmed (60 °C) lysis buffer with 800 µL ProteinaseK (FUJIFILM Wako Pure Chemical Co., Ltd. Japan) and 50 µL ... |
53,179 | Install WSL and VSCode on Windows 10 | 1 | dx.doi.org/10.17504/protocols.io.bx63prgn | https://www.protocols.io/view/install-wsl-and-vscode-on-windows-10-bx63prgn | Kenneth Schackart | TITLE: Install WSL and VSCode on Windows 10
AUTHORS: Kenneth Schackart
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to install Ubuntu, WSL, and connect to WSL with VS Code on Windows 10. By the end you should have a working version of Ubuntu and WSL. VS Code will be a... | ["[Install Ubuntu]\nGo to the Microsoft Store and install a version of Ubuntu.\nHit Windows key, type \"Store\", select Microsoft Store. Search for Ubuntu. Installing a version that ends with LTS means it is Long term stable. I recommend one of those versions.", "[Enable WSL]\nOpen Windows Powershell as Administrator.\... |
105,230 | SNA (Synthetic Nutrient Deficient) Agar for Identification fungi | 0 | dx.doi.org/10.17504/protocols.io.261ge5jkjg47/v1 | https://www.protocols.io/view/sna-synthetic-nutrient-deficient-agar-for-identifi-dizn4f5e | Gabriela Paredes | TITLE: SNA (Synthetic Nutrient Deficient) Agar for Identification fungi
AUTHORS: Gabriela Paredes
[DESCRIPTION]
SNA (Spezieller Nährstoffarmer Agar), or Synthetic Nutrient Deficient Agar, is a specialized culture medium designed for the identification and study of fungi such as Fusarium and Cylindrocarpon. This medium... | ["[Dissolve SNA Components:] In a 1-liter Erlenmeyer flask, dissolve the following components in 1 liter of distilled water (dH2O):\n1 g of KH2PO4 (Potassium dihydrogen phosphate)\n1 g of KNO3 (Potassium nitrate)\n0.5 gof MgSO4·7H2O (Magnesium sulfate heptahydrate)\n0.5 gof KCl (Potassium chloride)\n0.2 gof Glucose\n... |
20,630 | Adult Mouse Spleen Dissociation (On ice) | null | dx.doi.org/10.17504/protocols.io.ydwfs7e | null | Andrew Potter | TITLE: Adult Mouse Spleen Dissociation (On ice)
AUTHORS: Andrew Potter
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol used to dissociate adult (8-10 wk) mouse spleen into single cells. Attained >95% viability, a variety of cell sizes, and ~10 million cells from 12 mg tissue.</div></div>
[... | ["[Isolate Tissue]\nUsing sterile forceps, transfer spleen to petri dish on ice. Remove excess DPBS using pipet. Chop whole spleen coarsely for 45 sec using razor blade on petri dish on ice until a fine paste. Manipulate tissue with forceps while mincing with razorblade to thoroughly break up.\n[mince on ice]", "[First... |
null | null | null | dx.doi.org/10.17504/protocols.io.rkqd4vw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p> Potentiometric titrationis can be used to determine the effective content of general chemical . The method offers many advantages, including simplicity, speed, easier end-point determination and more accurate results.</p>
[GUIDELINES]
<p>Composite platinum (Pt) electrode... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jx6cpre | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol is for extracting RNA from 25 mm filters and can be used with filters stored in RNAlater for preservation. This protocol has been tested with 0.22 μm pore size Durapore filters. Custom synthesized RNA transcript standards are added at the time of extraction and are... | [] |
99,991 | Mouse Brain Perfusion and Flash Freezing | 1 | dx.doi.org/10.17504/protocols.io.j8nlkodr6v5r/v2 | https://www.protocols.io/view/mouse-brain-perfusion-and-flash-freezing-ddvx267n | Allen Institute | TITLE: Mouse Brain Perfusion and Flash Freezing
AUTHORS: Allen Institute
[DESCRIPTION]
This protocol is used for transcardial perfusion with HEPES-Sucrose Cutting Solution (Referred as HEPES hereafter), followed by fast brain dissection and flash freezing.
Note: Research reported in this publication was supported by... | [] |
29,410 | Protocol for Exo-CIP™ Rapid PCR Cleanup (#E1050) | null | dx.doi.org/10.17504/protocols.io.8yahxse | https://www.protocols.io/view/protocol-for-exo-cip-rapid-pcr-cleanup-e1050-8yahxse | New England Biolabs | TITLE: Protocol for Exo-CIP™ Rapid PCR Cleanup (#E1050)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Exo-CIP™ Rapid PCR Cleanup Kit</span><span></span></div><div class = "text-block"><ul style = "list-style-type:disc;"><li style = "c... | ["Transfer of PCR product to a new PCR tube and add of Exo-CIP A and Exo-CIP B respectively. The final volume is .\n5 µl\n1 µl\n7 µl", "Mix thoroughly and briefly centrifuge at .\nCentrifuge: 1000 34", "Incubate the reaction tube for at followed by at .\n37 °C\n80 °C", "Submit or less (in a range of 15-200 fmol... |
66,346 | Prima Weight Loss Pills [EXPOSED SCAM] Work and Truth Exposed | 3 | dx.doi.org/10.17504/protocols.io.x54v9yny1g3e/v1 | https://www.protocols.io/view/prima-weight-loss-pills-exposed-scam-work-and-trut-cc2isyce | Prima Weight Loss Pills Reviews | TITLE: Prima Weight Loss Pills [EXPOSED SCAM] Work and Truth Exposed
AUTHORS: Prima Weight Loss Pills Reviews
[DESCRIPTION]
Prima Weight Loss Pills
[STEPS] | [] |
90,649 | Neuronal transdifferentiation from human primary adult fibroblasts | 4 | dx.doi.org/10.17504/protocols.io.j8nlko6d5v5r/v1 | https://www.protocols.io/view/neuronal-transdifferentiation-from-human-primary-a-c4rzyv76 | Ching-Chieh Chou, Judith Frydman | TITLE: Neuronal transdifferentiation from human primary adult fibroblasts
AUTHORS: Ching-Chieh Chou, Judith Frydman
[DESCRIPTION]
This is a protocol for the direct conversion of human primary fibroblasts into neurons using a combination of transcription factor- and small molecule-based approach. The majority of conver... | ["[Preparation of culture medium and reagents] 1. Fibroblast medium @4°C lasts for 1 month. A total of 500 mL:\n435 ml DMEM (High glucose, GlutaMAX) (Thermo Fisher Scientific) \n50 ml Fetal bovine serum (FBS) (Thermo Fisher Scientific) \n5 ml Penicillin-Streptomycin (Thermo Fisher Scientific) \n5 ml MEM NEAA (100X; The... |
76,898 | SINTBAD-GFP: expression and purification | 4 | dx.doi.org/10.17504/protocols.io.rm7vzb1o8vx1/v1 | https://www.protocols.io/view/sintbad-gfp-expression-and-purification-cpcavise | Justyna Sawa-Makarska, Elias Adriaenssens | TITLE: SINTBAD-GFP: expression and purification
AUTHORS: Justyna Sawa-Makarska, Elias Adriaenssens
[DESCRIPTION]
This protocol describes how to express and purify human SINTBAD tagged C-terminally with eGFP.
[STEPS]
SECTION: Expression
1. To generate GST-TEV-SINTBAD-GFP construct the insect codon optimized SINTBAD ge... | ["[Expression] To generate GST-TEV-SINTBAD-GFP construct the insect codon optimized SINTBAD gene was purchased from GenScript and cloned with respective tags into pFastBac_Dual. Generated construct was used for expression in Sf9 insect cells using the Bac-to-Bac system. The construct Addgene ID: 198035.", "[Expression... |
21,231 | Vandy – Body Composition in conscious mice | null | dx.doi.org/10.17504/protocols.io.yypfxvn | null | Louise Lantier | TITLE: Vandy – Body Composition in conscious mice
AUTHORS: Louise Lantier
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">The minispec Body Composition Analyzer is based on Time Domain NMR. It acquires and analyzes TD-N... | ["Open the Minispec software. (If a popup window appears about Opus, click OK. The window should temporarily show the Opus software, then switch back to Minispec.)", "Log in with user name and password (provided by MMPC staff).", "Click on \"Measure\" .", "If prompted, do the Daily Check with the Daily Check Sample.", ... |
null | null | null | dx.doi.org/10.17504/protocols.io.twcepaw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Introduction
Patients who are critically ill, those who are in need of critical care, can be found all over hospitals. Some, but not all, receive care in ICUs (intensive care units). Medical specialties usually define themselves by organ system, disease process or procedure, how... | ["[Protocol and registration] This protocol will be made publicly available by registering it in protocols.io.", "[Eligibility criteria] All types of documents and articles identified by the search that discuss a definition of critical care, are written in English, and have been published since 2008, and involves only ... |
null | null | null | dx.doi.org/10.17504/protocols.io.g8qbzvw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol is our lab's version of the standard lithium acetate-based transformation protocol originally developed by the Gietz lab (see eg <a href="http://www.nature.com/nprot/journal/v2/n1/abs/nprot.2007.13.html" target="_blank">Gietz and Schiestl 2007</a>).</p>
[BEFORE... | [] |
91,177 | C-SOP-1001: High Molecular Weight DNA (HMW DNA) Extraction from Bacteria using NEB Monarch HMW DNA extraction kit | 4 | null | https://www.protocols.io/view/c-sop-1001-high-molecular-weight-dna-hmw-dna-extra-c5ahy2b6 | Ben Pascoe | TITLE: C-SOP-1001: High Molecular Weight DNA (HMW DNA) Extraction from Bacteria using NEB Monarch HMW DNA extraction kit
AUTHORS: Ben Pascoe
[DESCRIPTION]
The Monarch HMW DNA Extraction Kit for Tissue provides a rapid and reliable process for extracting high molecular weight (HMW), intact genomic DNA from various tiss... | ["[Safety precautions] Prior to initiating the protocol, ensure that all active workbenches are cleaned with 80% ethanol, all relevant personal protective clothing is worn and the work area is prepared for DNA extraction according to local GLP guidelines.", "[Safety precautions] Create an organised bench space by clear... |
43,332 | BACTERIAL ENDOTOXINS | 1 | dx.doi.org/10.17504/protocols.io.bnjcmciw | https://www.protocols.io/view/bacterial-endotoxins-bnjcmciw | Jiaxin Li | TITLE: BACTERIAL ENDOTOXINS
AUTHORS: Jiaxin Li
[STEPS]
?. [Confirmation of the labeled lysate sensitivity]
Confirm in 4 replicates the labeled sensitivity λ, expressed in IU/mL, of the lysate solution prior to use in the test. Confirmation of the lysate sensitivity is carried out when a new lot of lysate is used or wh... | ["[Confirmation of the labeled lysate sensitivity]\nConfirm in 4 replicates the labeled sensitivity λ, expressed in IU/mL, of the lysate solution prior to use in the test. Confirmation of the lysate sensitivity is carried out when a new lot of lysate is used or when there is any change in the test conditions which may ... |
94,877 | PCR reaction of marker regions (a.k.a metabarcodes) | 4 | dx.doi.org/10.17504/protocols.io.8epv5x85jg1b/v1 | https://www.protocols.io/view/pcr-reaction-of-marker-regions-a-k-a-metabarcodes-c8v5zw86 | Abigail Graetz, Benjamin Schwessinger | TITLE: PCR reaction of marker regions (a.k.a metabarcodes)
AUTHORS: Abigail Graetz, Benjamin Schwessinger
[DESCRIPTION]
This protocols is part of the ANU Biosecurity mini-research project #1 "Plant Pathogen Diagnostics: Visuals, subcultures, and genomics".
You will be provided four pots of 3-4 week old wheat plants ... | ["[Week 4: DNA quantification and dilution] The first section describes the quantification of extracted DNA from week 3. Once you know the concentration for each TG you can generate a DNA stock solution at a final concentration of 10 ng/ul. This stock solution for each TG will be used for the following PCR reaction and... |
70,899 | S1_ELISA of sera to detect for antibodies against 2019-nCoV protein (IgG) | 1 | dx.doi.org/10.17504/protocols.io.14egn2z8zg5d/v1 | https://www.protocols.io/view/s1-elisa-of-sera-to-detect-for-antibodies-against-chgtt3wn | jeabchanida Ruchisrisarod | TITLE: S1_ELISA of sera to detect for antibodies against 2019-nCoV protein (IgG)
AUTHORS: jeabchanida Ruchisrisarod
[DESCRIPTION]
ABSTRACT
Antibody assays of IgM, IgG and surrogate isotype independent virus neutralizing antibody (sVNT) targeting receptor binding domain of Severe Acute Respiratory Syndrome Coronavirus... | ["[S1_ELISA of sera to detect for antibodies against 2019-nCoV protein (IgG)] The next day, remove the coating solution as biohazard waste. Wash the plate 5x by filling each well with 150ul of PBST and remove the PBST wash as biohazard waste.", "[S1_ELISA of sera to detect for antibodies against 2019-nCoV protein (IgG)... |
null | null | null | dx.doi.org/10.17504/protocols.io.kdmcs46 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Procedimiento basado en la sedimentación a través de una barrera de densidad de 1,077g/ml dejando en la interfase los PBMCs. </p>
<p> </p>
<p>La realizacion de este protocolo fue posible gracias al apoyo del departamento administrativo de ciencia tecnología e innovacion, Colc... | [] |
25,253 | Cloning of L0 parts into pUAP-ye for Loop typeIIS | null | dx.doi.org/10.17504/protocols.io.4wdgxa6 | null | Eftychis Frangedakis, Susana Sauret-Gueto | TITLE: Cloning of L0 parts into pUAP-ye for Loop typeIIS
AUTHORS: Eftychis Frangedakis, Susana Sauret-Gueto
[STEPS]
?. Design primers as described in the Figure below to add the necessary overhangs for cloning into pUAP-pe and also the overhangs that correspond to the common syntax.
?. DNA parts are PCR amplified from... | ["Design primers as described in the Figure below to add the necessary overhangs for cloning into pUAP-pe and also the overhangs that correspond to the common syntax.", "DNA parts are PCR amplified from the source DNA part (e.g. plasmid DNA or genomic DNA), using a high fidelity DNA polymerase such as Phusion. Use 10 n... |
72,326 | Detection of Equatorial Plasma Bubbles | 5 | dx.doi.org/10.17504/protocols.io.rm7vzbb12vx1/v1 | https://www.protocols.io/view/detection-of-equatorial-plasma-bubbles-civeue3e | swapna.karnam | TITLE: Detection of Equatorial Plasma Bubbles
AUTHORS: swapna.karnam
[DESCRIPTION]
Slant Total Electron Content values from Global Navigation Satellite System are used to detect the Equatorial Plasma Bubbles in the Ionosphere.
[STEPS]
1. Download GPS data from SOPAC website in RINEX format
2. Data is converted from R... | ["Download GPS data from SOPAC website in RINEX format", "Data is converted from RINEX to .cmn format using GPS TEC software", "Calculate ROT and ROTI", "Difference between Evening ROTI and Day time ROTI is calculated", "If the difference exceeds 0.05, then Equatorial Plasma Bubble is Detected"] |
53,766 | Diagnostic accuracy of Watch-peripheral arterial tone for sleep apnea syndrome: protocol for a systematic review and meta-analysis | 1 | dx.doi.org/10.17504/protocols.io.byrepv3e | https://www.protocols.io/view/diagnostic-accuracy-of-watch-peripheral-arterial-t-byrepv3e | Masahiro Ichikawa, Tomoaki Akiyama, Yasushi Tsujimoto, Keisuke Anan, Tadashi Yamakawa, Yasuo Terauchi | TITLE: Diagnostic accuracy of Watch-peripheral arterial tone for sleep apnea syndrome: protocol for a systematic review and meta-analysis
AUTHORS: Masahiro Ichikawa, Tomoaki Akiyama, Yasushi Tsujimoto, Keisuke Anan, Tadashi Yamakawa, Yasuo Terauchi
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><s... | [] |
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