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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70,820 | C1 - redesign | 2 | null | https://www.protocols.io/view/c1-redesign-chect3aw | Maria Gul | TITLE: C1 - redesign
AUTHORS: Maria Gul
[DESCRIPTION]
Lorem ipsum dolor sit amet, consectetuer adipiscing elit. Integer in sapien. Praesent id justo in neque elementum ultrices. Cras elementum. Sed ac dolor sit amet purus malesuada congue. Nunc auctor. Quis autem vel eum iure reprehenderit qui in ea voluptate velit es... | [] |
52,632 | Reconstitution of Parkin ubiquitin ligase activity using mouse and human mitochondria | 1 | dx.doi.org/10.17504/protocols.io.bxmypk7w | https://www.protocols.io/view/reconstitution-of-parkin-ubiquitin-ligase-activity-bxmypk7w | Odetta Antico, Alban Ordureau, Michael Stevens, J. Wade Harper, Miratul M. K. Muqit | TITLE: Reconstitution of Parkin ubiquitin ligase activity using mouse and human mitochondria
AUTHORS: Odetta Antico, Alban Ordureau, Michael Stevens, J. Wade Harper, Miratul M. K. Muqit
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Analysis of Parkinson’s linked genes PINK1 and Parkin has uncovere... | ["[PROCEDURE TO ISOLATE AND CULTURE MOUSE EMBRYONIC FIBROBLASTS-Dissection of E13.5 mouse embryos ◊TIMING 20 min]\nUse sterilized instruments by autoclave or washing them with 70% (vol/vol) ethanol. Dry thoroughly if ethanol is used.", "[PROCEDURE TO ISOLATE AND CULTURE MOUSE EMBRYONIC FIBROBLASTS-Dissection of E13.5 m... |
41,810 | Determination of arsenic ion concentration | 4 | null | https://www.protocols.io/view/determination-of-arsenic-ion-concentration-bk3skyne | Krystal Xia, Leo Jiang | TITLE: Determination of arsenic ion concentration
AUTHORS: Krystal Xia, Leo Jiang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Arsenic is so toxic to insects, bacteria, and mushrooms that it is used as a preservative in wood. For example, copper and arsenic chromate (CCA), a common preservative i... | ["Two plasmids of pET, pET24a(+) -orpf-linker-FMT and pET24a(+) -FMT, were transferred to a kanamycin resistant plate and cultured overnight.", "A single colony was selected and inoculated into LB Culture (containing kanamycin) for overnight Culture.", "The overnight cultured bacterial solution was diluted 1:100 and in... |
28,114 | DNA Gel Electrophoresis | null | dx.doi.org/10.17504/protocols.io.7pshmne | null | NUS iGEM | TITLE: DNA Gel Electrophoresis
AUTHORS: NUS iGEM
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. Load of 6X loading dye into of P product
10 µl
50 µl
?. Mix and load entire volume into 1% agarose gel
?. Load of 1kb or 100bp ladder
10 µl
?. Run gel at 120V for
?. Visualize band under blue light transillumi... | ["Load of 6X loading dye into of P product\n10 µl\n50 µl", "Mix and load entire volume into 1% agarose gel", "Load of 1kb or 100bp ladder\n10 µl", "Run gel at 120V for", "Visualize band under blue light transilluminator"] |
18,039 | Guidelines for Validation of Immunogenicity Analysis of Anti-drug Antibodies | null | dx.doi.org/10.17504/protocols.io.vuxe6xn | null | bello smitu | TITLE: Guidelines for Validation of Immunogenicity Analysis of Anti-drug Antibodies
AUTHORS: bello smitu
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Abstract: </div></div><div class = "text-block">Almost all biopharmaceutical products can cause ce... | [] |
101,522 | Cost-effective Approach for Assessing Chemosensory Response in Parhyale hawaiensis: A Time-to-Event Experiment | 0 | dx.doi.org/10.17504/protocols.io.x54v92rpml3e/v1 | https://www.protocols.io/view/cost-effective-approach-for-assessing-chemosensory-dfds3i6e | Ibrahim Lawan, Dominique MJ Anderson | TITLE: Cost-effective Approach for Assessing Chemosensory Response in Parhyale hawaiensis: A Time-to-Event Experiment
AUTHORS: Ibrahim Lawan, Dominique MJ Anderson
[DESCRIPTION]
Understanding the impact of environmental contaminants on chemosensation is crucial for assessing the ecological fitness of aquatic organisms... | ["[Introduction] Chemosensation plays a crucial role in the survival and ecological interactions of aquatic organisms, enabling them to detect and respond to chemical cues in their environment. This chemical communication is used by crustaceans, including amphipods, for various behaviours such as food location, predato... |
99,453 | 6-OHDA lesion in medial forebrain bundle | 0 | dx.doi.org/10.17504/protocols.io.8epv5r9o4g1b/v1 | https://www.protocols.io/view/6-ohda-lesion-in-medial-forebrain-bundle-ddc522y6 | Santiago Unda, Mihaela Stavarache, Michael G. Kaplitt, Roberta Marongiu | TITLE: 6-OHDA lesion in medial forebrain bundle
AUTHORS: Santiago Unda, Mihaela Stavarache, Michael G. Kaplitt, Roberta Marongiu
[DESCRIPTION]
Lesion of the medial forebrain bundle using 6-OHDA to induce parkinsonian-like deficits in mice.
[GUIDELINES]
Note that sterile technique must be followed during this procedur... | ["[Anesthesia] Weigh mice.", "[Post-surgery Procedure] Close skin with non-absorbable sutures.", "[Post-surgery Procedure] Give meloxicam 2mg/kg subcutaneously immediately after surgery and 24 hours post-surgery.", "[Anesthesia] Administer intraperitoneally a mixture of ketamine (Butler Animal Health Supply) and xylazi... |
92,847 | ROOT-KNOT NEMATODE EGG EXTRACTION | 4 | dx.doi.org/10.17504/protocols.io.eq2lyj5nqlx9/v1 | https://www.protocols.io/view/root-knot-nematode-egg-extraction-c6wpzfdn | Damaris Godinez-Vidal, Scott M Edwards, Simon C Groen | TITLE: ROOT-KNOT NEMATODE EGG EXTRACTION
AUTHORS: Damaris Godinez-Vidal, Scott M Edwards, Simon C Groen
[DESCRIPTION]
Nematodes of the genus Meloidogyne (the root-knot nematodes) are among the most economically damaging plant-parasitic nematodes affecting horticultural and field crops worldwide. Meloidogyne spp. infes... | ["[PREPARATION OF THE LABORATORY SPACE] Wash around the sink with hot tap water and lay brown paper towels on both sides of the sink, covering the work area.", "[PREPARATION OF MATERIALS] Using hot tap water, wash the plastic buckets, the three sieves, the graduated cylinder, and the pair of scissors.", "[PROCEDURE] Cu... |
108,825 | READDI protocol: Crystallisation of CHIKV nsP3 macrodomain | 1 | dx.doi.org/10.17504/protocols.io.j8nlk8qzdl5r/v1 | https://www.protocols.io/view/readdi-protocol-crystallisation-of-chikv-nsp3-macr-dnhz5b76 | Jasmin Aschenbrenner, Peter Marples, Daren Fearon | TITLE: READDI protocol: Crystallisation of CHIKV nsP3 macrodomain
AUTHORS: Jasmin Aschenbrenner, Peter Marples, Daren Fearon
[DESCRIPTION]
The crystallization protocol and buffer conditions used to obtain reproducible Chikungunya Virus NS3 macrodomain crystals suitable for XChem fragment screening.
[GUIDELINES]
N/A
... | ["[Crystallisation experiment] Protein and buffer requirements:\n21.6 µL11 mg/mL \n2.88 mL \n10.08 µL Seeds, dilution 1:100", "[Crystallisation experiment] Dispense 30 µL into SwissCI 3 lens plate reservoir wells using a 100 µl multi-channel pipette.\nDispense 75 278311 mg/mL to each lens using the SPT mosquito.\... |
80,884 | 2023 GenomeTrakr Proficiency Testing exercise (PulseNet Harmonized) | 1 | dx.doi.org/10.17504/protocols.io.e6nvw5m9dvmk/v7 | https://www.protocols.io/view/2023-genometrakr-proficiency-testing-exercise-puls-cs8uwhww | Maria Balkey, Ruth Timme, Julie Haendiges, Tina.Pfefer | TITLE: 2023 GenomeTrakr Proficiency Testing exercise (PulseNet Harmonized)
AUTHORS: Maria Balkey, Ruth Timme, Julie Haendiges, Tina.Pfefer
[DESCRIPTION]
Version Updates
v5: Added links to GalaxyTrakr_PT_exercise_report_2022.xlsx
v6: added 2023 PT strains; edited Steps 1, 2, 4, and 5 to include references to growth ... | ["[Culture Preparation] Salmonella, Escherichia/Shigella, and Listeria Lyophilized cultures:\n\nDay 1\n\nDocument the isolate number(s) and the lyophilized date(s) for your records. Wipe the aluminum cover and outside of the vial with isopropyl alcohol. Using sturdy forceps, aseptically remove the aluminum cover and r... |
35,545 | EtOH Self-Administration | 1 | null | https://www.protocols.io/view/etoh-self-administration-bexzjfp6 | Brent Boomhower, Lani Tieu, Olivier George | TITLE: EtOH Self-Administration
AUTHORS: Brent Boomhower, Lani Tieu, Olivier George
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol outlines in detail the procedure for conducting ethanol self-administration studies (e.g., Pharm) including the use of passive vapor to induce dependence.... | ["[Begin front lever training (Water only)]\nRun 24 animals in an overnight session with only the front lever connected to water and a handful of food added directly into the chamber (see \"Operant Chamber Set-up\" below for specific session instructions).", "[Begin front lever training (Water only)]\nRun the next 24 ... |
46,914 | Understanding the Purpose of Every Nucleotide in the Comirnaty (Pfizer-BioNTech) Vaccine, a Hands-on Activity for Virtual Presentations | 1 | null | https://www.protocols.io/view/understanding-the-purpose-of-every-nucleotide-in-t-br3am8ie | Harley King | TITLE: Understanding the Purpose of Every Nucleotide in the Comirnaty (Pfizer-BioNTech) Vaccine, a Hands-on Activity for Virtual Presentations
AUTHORS: Harley King
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">I was invited to give a STEM-related virtual presentation at a high school. I wanted to ... | ["[Discuss RNA]\nThe role of RNA in biology's central dogma.", "[Discuss RNA]\nThe processing of protecting RNA (5' cap and polyA tail) and its translocation to the cytoplasm.", "[Discuss RNA]\nDNA vs RNA", "[Discuss RNA]\nACTIVITY1.Use a red pen and draw a vertical line at the beginning of the 5’ UTR. This represents ... |
25,315 | Allicin as a Complementary Medicine of Triple/Quadruple Therapy for Helicobacter pylori: A Systemic review and Meta-analysis of Randomized Controlled Trials (protocol) | null | dx.doi.org/10.17504/protocols.io.4ybgxsn | null | Xiaobei Si | TITLE: Allicin as a Complementary Medicine of Triple/Quadruple Therapy for Helicobacter pylori: A Systemic review and Meta-analysis of Randomized Controlled Trials (protocol)
AUTHORS: Xiaobei Si
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Backgrounds: </span><sp... | [] |
25,678 | Total RNA extraction from transgenic flies misexpressing foreign genes to perform Next generation RNA sequencing | null | dx.doi.org/10.17504/protocols.io.5bng2me | null | Abijeet Mehta, Agustin Luz-Madrigal, Jian-Liang Li, Panagiotis A. Tsonis, Amit Singh | TITLE: Total RNA extraction from transgenic flies misexpressing foreign genes to perform Next generation RNA sequencing
AUTHORS: Abijeet Mehta, Agustin Luz-Madrigal, Jian-Liang Li, Panagiotis A. Tsonis, Amit Singh
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-a... | ["Sample collection and StorageTransgenic Drosophila melanogaster were generated by genetivision (https://www.genetivision.com/). Briefly, transgenic flies were generated using microinjection-based ϕC31 integrase mRNA-mediated method. A cloned candidate gene using pUAST-attB plasmid containing both a transgene and dono... |
15,166 | f/2 medium | null | dx.doi.org/10.17504/protocols.io.s26eghe | null | Roscoff Culture Collection | TITLE: f/2 medium
AUTHORS: Roscoff Culture Collection
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Medium to grow most phytoplankton species in particular diatoms.</div></div>
[STEPS]
?. [Prepare using Sigma Aldrich stock]
Filter 1L of old seawater of at least two months on prefilter and 0.2 µm ... | ["[Prepare using Sigma Aldrich stock]\nFilter 1L of old seawater of at least two months on prefilter and 0.2 µm filterHeat seawater during 10/20 min at 100°C (pasteurisation)Let the water cool downUnder laminar flow hood, , add 25 mL of Guillard’s (f/2) Marine Water Enrichment Solution (Sigma-Aldrich G9903)Filter the m... |
85,737 | How to Play Minesweeper | 1 | null | https://www.protocols.io/view/how-to-play-minesweeper-cxyhxpt6 | Cheng Zhang | TITLE: How to Play Minesweeper
AUTHORS: Cheng Zhang
[DESCRIPTION]
Minesweeper is a classic single-player puzzle game that is very fun to play. Let's begin!
[STEPS]
SECTION: Setup
2. Choose a difficulty level according to your experience and preference: Beginner, Intermediate, Expert, or Custom.
SECTION: Setup
1. Laun... | ["[Setup] Choose a difficulty level according to your experience and preference: Beginner, Intermediate, Expert, or Custom.", "[Setup] Launch the Minesweeper application or online game on your computer or mobile device. My favorite website for playing Minesweeper is https://minesweeper.online/.", "[Starting the Game] L... |
43,355 | mr test 19.10 v3 | 1 | null | https://www.protocols.io/view/mr-test-19-10-v3-bnj3mcqn | Maria Guliakina | TITLE: mr test 19.10 v3
AUTHORS: Maria Guliakina
[STEPS]
?. test 1
?. test 2 | ["test 1", "test 2"] |
89,821 | Section 3: Libraries quality control (QC) | 4 | dx.doi.org/10.17504/protocols.io.ewov1q3r7gr2/v1 | https://www.protocols.io/view/section-3-libraries-quality-control-qc-c3x5ypq6 | Ester Kalef-Ezra, Ben Harvey, Katherine Roper, Christos Proukakis | TITLE: Section 3: Libraries quality control (QC)
AUTHORS: Ester Kalef-Ezra, Ben Harvey, Katherine Roper, Christos Proukakis
[DESCRIPTION]
This protocol details quality control of libraries and should be performed after Section 2: NGS library preparation for sequencing.
[STEPS]
SECTION: Libraries quality control (QC)
... | ["[Libraries quality control (QC)] Thaw the libraries on ice.", "[Libraries quality control (QC)] Centrifuge briefly.", "[Libraries quality control (QC)] Quantify the libraries using BR or HS Qubit (depending on the starting material and the amplification cycles).", "[Libraries quality control (QC)] Analyse libraries u... |
69,787 | Transformation_of_Pseudomonas_fluorescens_SBW25_by_Electroporation | 4 | dx.doi.org/10.17504/protocols.io.n2bvj8rxwgk5/v1 | https://www.protocols.io/view/transformation-of-pseudomonas-fluorescens-sbw25-by-cgd3ts8n | Rosemarie Wilton | TITLE: Transformation_of_Pseudomonas_fluorescens_SBW25_by_Electroporation
AUTHORS: Rosemarie Wilton
[DESCRIPTION]
This protocol describes a quick and simple method for transformation of Pseudomonas fluorescens SBW25 by electroporation. The method has also been used successfully with P. fluorescens strains Pf0-1, Pf-5... | ["[Preparation of electrocompetent cells] Using the small (1 µl) end of a sterile Combi Loop, generously streak P. fluorescens SBW25 from a glycerol stock onto LB agar plates and incubate overnight at 30 °C\nAim to streak out cells so that nearly confluent growth is obtained (i.e. NOT single, isolated colonies).\nPrepa... |
92,104 | Global Malaise Trap Project and LIFEPLAN Malaise sampling | 1 | null | https://www.protocols.io/view/global-malaise-trap-project-and-lifeplan-malaise-s-c57gy9jw | Jayme E Sones, Gaia Giedre Banelyte, Jeremy R. deWaard, Arielle M Farrell, Hanna M.K. Rogers, Bess Hardwick, Deirdre Kerdraon, Kate HJ Perez | TITLE: Global Malaise Trap Project and LIFEPLAN Malaise sampling
AUTHORS: Jayme E Sones, Gaia Giedre Banelyte, Jeremy R. deWaard, Arielle M Farrell, Hanna M.K. Rogers, Bess Hardwick, Deirdre Kerdraon, Kate HJ Perez
[DESCRIPTION]
Lifeplan is a global biodiversity monitoring project with the aim of assessing the current... | ["[Malaise trap sampling] Label your bottle clearly with the sample location, placement date and other relevant information. Be aware that ethanol erases most markers; to avoid that you can use a pencil.\n\nNote: For the LIFEPLAN project, this information is collected by scanning a QR code in the LIFEPLAN App.", "[Plac... |
54,159 | Evagreen Dye Fluorescence Verification | 4 | dx.doi.org/10.17504/protocols.io.by5ppy5n | https://www.protocols.io/view/evagreen-dye-fluorescence-verification-by5ppy5n | Chia-Hsien Shih | TITLE: Evagreen Dye Fluorescence Verification
AUTHORS: Chia-Hsien Shih
[DESCRIPTION]
This protocol is to establish the relationship between Evagreen Dye fluorescent intensity and DNA concentration.
[STEPS]
SECTION: Preparation
1. Take 30 µL of 10µM ssDNA (T4 ligation primer) into a new eppendorf
SECTION: Preparatio... | ["[Preparation] Take 30 µL of 10µM ssDNA (T4 ligation primer) into a new eppendorf", "[Preparation] Dilute 10µM ssDNA into 1µM : \nTake 3 µL of 10µM ssDNA and 27 µL RNase-free water into a new eppendorf", "[Preparation] Dilute 1µM ssDNA into 100nM : \nTake 3 µL of 1µM ssDNA and 27 µL RNase-free water into a new eppendo... |
60,560 | Scaffold Mapping Protocol - Version 1.1.0 | 1 | dx.doi.org/10.17504/protocols.io.n2bvj6o35lk5/v2 | https://www.protocols.io/view/scaffold-mapping-protocol-version-1-1-0-b7dqri5w | Mabelle Lin, Sonia Sharma | TITLE: Scaffold Mapping Protocol - Version 1.1.0
AUTHORS: Mabelle Lin, Sonia Sharma
[DESCRIPTION]
The scope of this protocol covers the steps involved in the mapping of image data to organ scaffolds.
[STEPS]
1. Check for the availability of segmentation files for image data.
Ensure the image data has already bee... | ["Check for the availability of segmentation files for image data.\n\nEnsure the image data has already been segmented with MBF software and the MBF XML file is available. If the MBF XML file has not already been uploaded to Pennsieve, advise the investigators to do so. Check the segmentation file to make sure the dat... |
19,114 | Cloning the Class Github Repository | null | dx.doi.org/10.17504/protocols.io.wwiffce | null | Bonnie Hurwitz, Ken Youens-Clark | TITLE: Cloning the Class Github Repository
AUTHORS: Bonnie Hurwitz, Ken Youens-Clark
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>We are going to use Github (http://github.com) to share code examples and assignments with you for the class. We set up a master repository that will get updated... | ["Login to your Github account and choose the \"Settings\" under your menu.", "Select the SSH Keys section on the left (1) and then click on \"New SSH key\" in the upper-right (2).", "Paste the public key (~/.ssh/id_rsa.pub) from above into the \"Key\" on the Github site and give the key a title like \"UA HPC,\" then c... |
92,590 | Whole Gut Transit Time, Fecal Water Content, and Fecal Output | 1 | dx.doi.org/10.17504/protocols.io.36wgq3p1xlk5/v1 | https://www.protocols.io/view/whole-gut-transit-time-fecal-water-content-and-fec-c6nnzdde | Jessica Griffiths, Bryan Yoo, Sarkis Mazmanian | TITLE: Whole Gut Transit Time, Fecal Water Content, and Fecal Output
AUTHORS: Jessica Griffiths, Bryan Yoo, Sarkis Mazmanian
[DESCRIPTION]
This protocol was used in "Peripheral Neuronal Activation Shapes the Microbiome and Alters Gut Physiology"
[STEPS]
SECTION: Experiment Preparation
1. 6% (w/v) carmine red (Sigma-A... | ["[Experiment Preparation] 6% (w/v) carmine red (Sigma-Aldrich, St. Louis, MO) with 0.5% methylcellulose (Sigma-Aldrich)\n was dissolved and autoclaved prior to use.", "[Experiment] Mice were administered C21 (3 mg/kg) intraperitoneally, and subsequently orally\ngavaged with 150 µL of carmine red solution.", "[Experime... |
null | null | null | dx.doi.org/10.17504/protocols.io.uthewj6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Quality indicators for physiotherapy care process of patients with Whiplash-Associated Disorders (WAD):
. steps of clinical reasoning
. number of indicators
. type of indicator
. item measured
. indicator
. level of evidence
. performance target
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.uayesfw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The ability to respond quickly in a flexible and changing environment is advantageous in many settings (Dalley & Robbins, 2017). However, if such impulsive behaviours are chronically expressed they become maladaptive and salient to a number of brain disorders and damaging behavi... | ["Invite your participant to complete the consent form and be ready to respond to any questions.", "You should at the same time add the unique identifier (e.g. RN001 – YOUR initials then the participant number. Each participant should have a different identifier – RN001, RN002 …)", "Login to the testing computer and na... |
51,803 | 20 years survival rate B5701 | 3 | dx.doi.org/10.17504/protocols.io.bwt3peqn | https://www.protocols.io/view/20-years-survival-rate-b5701-bwt3peqn | bogusz.aw | TITLE: 20 years survival rate B5701
AUTHORS: bogusz.aw
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">raw data for PlosOne use</div></div>
[STEPS] | [] |
58,794 | Quality control assessment for microbial genomes: GalaxyTrakr MicroRunQC workflow | 1 | dx.doi.org/10.17504/protocols.io.b5niq5ce | https://www.protocols.io/view/quality-control-assessment-for-microbial-genomes-g-b5niq5ce | Ruth Timme, Sai Laxmi Gubbala Venkata, Maria Balkey, Robyn Randolph, William Wolfgang, Errol Strain | TITLE: Quality control assessment for microbial genomes: GalaxyTrakr MicroRunQC workflow
AUTHORS: Ruth Timme, Sai Laxmi Gubbala Venkata, Maria Balkey, Robyn Randolph, William Wolfgang, Errol Strain
[DESCRIPTION]
PURPOSE: Step-by-step instructions for checking WGS sequence quality. The MicroRunQC workflow, implem... | ["[Account set up] Create a GalaxyTrakr account here: https://account.galaxytrakr.org/Account/Register", "[Account set up] Log into your GalaxyTrakr account: https://galaxytrakr.org", "[Create a new history] Create a new history. \n\nWe recommend creating a new history for each new MiSeq Run and including the flow-cell... |
40,277 | Automation Protocol for Plasmid DNA Extraction from E. coli | 4 | dx.doi.org/10.17504/protocols.io.bjjvkkn6 | https://www.protocols.io/view/automation-protocol-for-plasmid-dna-extraction-fro-bjjvkkn6 | Nina Alperovich, Jane Romantseva, Olga Vasilyeva, David Ross | TITLE: Automation Protocol for Plasmid DNA Extraction from E. coli
AUTHORS: Nina Alperovich, Jane Romantseva, Olga Vasilyeva, David Ross
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Here, we describe a protocol for automated extraction of plasmid DNA from 24 E. coli cultures. The protocol uses a... | ["Pellet cell cultures in 96-well deep-well plate by centrifugation at 3878 g (4500 rpm) for 10 minutes at 23 °C.", "Remove supernatant from the wells containing each cell pellet.", "Resuspend each cell pellet in in 200 µL of Resuspension Buffer; mix 10x by repeated aspiration and dispense.", "Transfer resuspended cell... |
65,179 | FEI Spirit Direct Alignments | 1 | dx.doi.org/10.17504/protocols.io.q26g7478kgwz/v1 | https://www.protocols.io/view/fei-spirit-direct-alignments-cbv3sn8n | Mason Mackey, NCMIR Lab | TITLE: FEI Spirit Direct Alignments
AUTHORS: Mason Mackey, NCMIR Lab
[DESCRIPTION]
The protocol outlines the step-by-step procedure for direct alignment of the FEI Spirit microscope, ensuring optimal performance for electron microscopy. The process includes specimen holder setup, high tension adjustment, and alignment... | ["[Alignment Steps] Beam shift alignment. Go to the cross-over using the “Intensity” knob on the left panel. Cross-over is the smallest beam spot possible. Click “Beam Shift” in the Direct Alignments. Using multifunction (MF) X-Y knobs, adjust to center the beam on the viewing screen. Click “Done” button. Do this after... |
null | null | null | dx.doi.org/10.17504/protocols.io.fypbpvn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Describes how to update files at the Woods Hole Open Access Server - the institutional repository used by BCO-DMO for dataset versioning.</p>
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
67,168 | Fluxactive Complete – User Reviews | 1 | dx.doi.org/10.17504/protocols.io.kqdg3pzy1l25/v1 | https://www.protocols.io/view/fluxactive-complete-user-reviews-cdt8s6rw | belivreport | TITLE: Fluxactive Complete – User Reviews
AUTHORS: belivreport
[DESCRIPTION]
Fluxactive Completeis a finished regular dietary enhancement got from spices and made normally to assist people with treating their prostate issues. Strong fixings are utilized not exclusively to lessen prostate issues yet additionally to i... | [] |
70,961 | Modified persistence (mP) assay | 4 | dx.doi.org/10.17504/protocols.io.81wgb6knylpk/v2 | https://www.protocols.io/view/modified-persistence-mp-assay-chirt4d6 | Eva JP Lievens | TITLE: Modified persistence (mP) assay
AUTHORS: Eva JP Lievens
[DESCRIPTION]
This protocol describes a modified persistence assay, as presented in the manuscript "Life history diversity and signals of trade-offs in a large group of chloroviruses" (Lievens et al., bioRxiv). It is designed to quantify the specific infec... | ["[time point 0 - mP setup] Mix virus solutions at 50000, 5000, 500, or 50 virions/ml.", "[time point 0 - mP setup] In two deep well plates (\"1\" and \"2\"), mix viral solutions so they have a volume of 1.5ml and 50000, 5000, 500, or 50 virions/ml. Avoid reusing tips for virus pipetting; reusing tips leads to lower ac... |
14,588 | IsletCore Equipment Setup for Human Islet Isolation | null | dx.doi.org/10.17504/protocols.io.sg4ebyw | null | Patrick MacDonald, James Lyon, Jocelyn Manning Fox | TITLE: IsletCore Equipment Setup for Human Islet Isolation
AUTHORS: Patrick MacDonald, James Lyon, Jocelyn Manning Fox
[STEPS]
?. [Room setup]
Turn on both biosafety cabinets (BSC) 20 minutes prior to use. Be sure to disinfect the BSC work surfaces with 70% ethanol.Turn on COBE 2991 chiller to 4°C.Turn on chilling re... | ["[Room setup]\nTurn on both biosafety cabinets (BSC) 20 minutes prior to use. Be sure to disinfect the BSC work surfaces with 70% ethanol.Turn on COBE 2991 chiller to 4°C.Turn on chilling recirculating bath set to 4ºC (at least 4 hours prior to isolation start)Turn on centrifuge and set to program 1 (282xg, 4°C, 2 mi... |
40,527 | Immunoblot analysis for immunodetection of HIV proteins. | 4 | dx.doi.org/10.17504/protocols.io.bjtpknmn | https://www.protocols.io/view/immunoblot-analysis-for-immunodetection-of-hiv-pro-bjtpknmn | Angel Justiz-Vaillant | TITLE: Immunoblot analysis for immunodetection of HIV proteins.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Enzyme-Linked Immunosorbent Assay (ELISA) was used for screening while the Western Blot was used for confirmation.</div></div>
[STEPS]
?. Aliquots of 3-5 µ... | ["Aliquots of 3-5 µl of the serum are applied to the gel and run on a protein electrophoresis (SDS-PAGE).", "Gels are transferred to nitrocellulose membranes (Immobilon-Nc, pore size 0.45 µm, during 75 min at 40 mAmps using a semi-dry electroblotter, HEP-1 Model, Owl Scientific Inc).", "The running buffer contains 25mM... |
37,634 | Multidisciplinary provision of food and nutritional care to hospitalised adult in-patients: A scoping review protocol | 1 | dx.doi.org/10.17504/protocols.io.bgzajx2e | https://www.protocols.io/view/multidisciplinary-provision-of-food-and-nutritiona-bgzajx2e | Gladys Yinusa, Janet Scammell, Jane Murphy, Gráinne Ford | TITLE: Multidisciplinary provision of food and nutritional care to hospitalised adult in-patients: A scoping review protocol
AUTHORS: Gladys Yinusa, Janet Scammell, Jane Murphy, Gráinne Ford
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Objective: </span><span>The... | ["[Protocol and Registration]\nThe scoping review protocol will be registered and made publicly available at protocols.io.", "[Eligibility Criteria]\nThe inclusion criteria will be guided by the Population Concept Context (PCC) framework recommended by JBI and will be used to develop the search strategy.29", "[Eligibil... |
90,787 | PCR Protocol Template | 1 | null | https://www.protocols.io/view/pcr-protocol-template-c4wbyxan | Kathleen Pitz, Raissa.meyer | TITLE: PCR Protocol Template
AUTHORS: Kathleen Pitz, Raissa.meyer
[DESCRIPTION]
A protocol template created through the BeBOP project for PCR.
[STEPS]
SECTION: MIOP: Minimum Information about an Omics Protocol
1.
MIOP Term
Value
methodology category
project
purpose
analyses
geographic location... | ["[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\... |
null | null | null | dx.doi.org/10.17504/protocols.io.ke9cth6 | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
85,789 | KAPP-Sen TMC: Dissociation of Pancreatic Islets (non-recovered) Protocol | 1 | null | https://www.protocols.io/view/kapp-sen-tmc-dissociation-of-pancreatic-islets-non-cxz5xp86 | Juliana Alcoforado Diniz, Paul Robson, Dylan Baker, Jessica Garofalo | TITLE: KAPP-Sen TMC: Dissociation of Pancreatic Islets (non-recovered) Protocol
AUTHORS: Juliana Alcoforado Diniz, Paul Robson, Dylan Baker, Jessica Garofalo
[DESCRIPTION]
The dispersed samples were shipped cold from PRODOLABS.
Prior to scRNA-seq, dispersed samples from brain dead donor’s pancreatic acinar
and ducts w... | ["[Abstract] The dispersed samples were shipped cold from PRODOLABS.\nPrior to scRNA-seq, dispersed samples from brain dead donor’s pancreatic acinar\nand ducts were dissociated as follows.", "[Cell Dissociation with TrypLE] NOTE: Before beginning cell dissociation coat all the materials (pipettes, tubes, etc.) with st... |
null | null | null | dx.doi.org/10.17504/protocols.io.d9799m | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
In this protocol, we perform a metabolic profiling of metagenomic datasets using <a href="http://huttenhower.sph.harvard.edu/humann" target="_blank">HUMAnN</a> applied to the 20 samples taxonomically profiled in the other protocols contained in this collection.<br /><br />Once t... | [] |
58,461 | A reproducibility protocol and dataset on the biomedical sentence similarity | 5 | null | https://www.protocols.io/view/a-reproducibility-protocol-and-dataset-on-the-biom-b5b5q2q6 | Alicia Lara Clares, Juan J. Lastra-Díaz, Ana Garcia-Serrano | TITLE: A reproducibility protocol and dataset on the biomedical sentence similarity
AUTHORS: Alicia Lara Clares, Juan J. Lastra-Díaz, Ana Garcia-Serrano
[DESCRIPTION]
This protocol introduces a set of reproducibility resources with the aim of allowing the exact replication of the experiments introduced by our main pa... | ["[Installing Docker on Ubuntu] If Docker is not installed in your machine, instructions below install latest version of Docker CE. For further details, we refer the reader to the official Docker setup page https://docs.docker.com/install/linux/docker-ce/ubuntu/\n\nFirst, we update the system:\n \nWe install the depend... |
null | null | null | dx.doi.org/10.17504/protocols.io.eyubfww | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong>Materials and Buffers</strong></p>
<p>1. Chamber slides or cover slips</p>
<p>2. Fixation solution: 4% Paraformaldehyde, in PBS</p>
<p>3. Permeablization solution: 0.5% Triton X-100 in PBS</p>
<p>4. Antibody dilution solution: 5%FBS in PBS</p>
[STEPS]
?.
?.
?.
?.
... | [] |
33,393 | Guidelines for Using a Salt:Chloroform Wash to Clean Up HMW DNA for PacBio | null | dx.doi.org/10.17504/protocols.io.bcuriwv6 | null | Miguel Flores | TITLE: Guidelines for Using a Salt:Chloroform Wash to Clean Up HMW DNA for PacBio
AUTHORS: Miguel Flores
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol can be used to clean up high-molecular-weight genomic DNA (gDNA) prior to PacBio library preparation. It describes how to use a high-... | ["Bring the volume of HMW DNA up to 200 µL with Elution Buffer (EB) and label it as TUBE 1.", "Add the following reagents to TUBE 1: AB1DNA in EB 200 µL 2 5 M NaCl 100 µL 3 500 mM EDTA, pH 8 \n 2 µL4 PacBio EB (10 mM Tris-HCl, pH 8.5) 198 µL 5 TOTAL 500 µL\nAB1DNA in EB 200 µL 2... |
44,922 | qPercerus | 4 | dx.doi.org/10.17504/protocols.io.bp42mqye | https://www.protocols.io/view/qpercerus-bp42mqye | Robert Loewe, Benedikt Kirchner | TITLE: qPercerus
AUTHORS: Robert Loewe, Benedikt Kirchner
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for qPercerus SARS-CoV-2 Test (attached document is giving more details). </div><div class = "text-block">Final product will be a commercial kit that is consisting of four components (l... | ["Add to reaction tube\n[Lysis Buffer]", "Add Nasopharyngeal or Throat Swab to Lysis Buffer and swivel for to lysate and inactivate virus. Remove and discard the Swab afterwards.\nIf Nasopharyngeal and Throat Swab are available from the same patient, the sensitivity can be increased by using both in one qPercerus re... |
null | null | null | dx.doi.org/10.17504/protocols.io.f47bqzn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol provides the procedure to generate gene calls on your contigs using Prodigal. </p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
43,308 | Assessment of the RNA Chaperone Activity with a Molecular Beacon | 1 | dx.doi.org/10.17504/protocols.io.bnikmccw | https://www.protocols.io/view/assessment-of-the-rna-chaperone-activity-with-a-mo-bnikmccw | Pilar Menendez-Gil, Carlos J. Caballero, Cristina Solano, Alejandro Toledo-Arana | TITLE: Assessment of the RNA Chaperone Activity with a Molecular Beacon
AUTHORS: Pilar Menendez-Gil, Carlos J. Caballero, Cristina Solano, Alejandro Toledo-Arana
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is part 3.2 of the "Fluorescent Molecular Beacons Mimicking RNA Secondary Structures ... | ["[Molecular Beacon Design]\nThe success of this assay lies in an adequate MB design, which is based on two main principles:(1) the presence of an RNA structure targeted by the RNA chaperone under study.(2) fluorescence quenching exerted by a quencher dye (e.g., BHQ_1) on a fluorophore (e.g., FAM), which occurs when bo... |
null | null | null | dx.doi.org/10.17504/protocols.io.n54dg8w | null | null | TITLE: No Title
AUTHORS:
[STEPS]
SECTION: Laminating sample film
?.
SECTION: Laminating sample film
?.
SECTION: Collecting bacteria and counting colonies
?.
SECTION: Collecting bacteria and counting colonies
?.
SECTION: Collecting bacteria and counting colonies
?.
SECTION: The rules of counting
?.
SECTION: The ... | ["[Laminating sample film] {\"blocks\":[{\"key\":\"f4vft\",\"text\":\"Sample films, each consisting of a 4-cm-square section of the respective material, were pasted onto the surface of the respect\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"a05vf\",\"text\":\... |
68,336 | Cell isolation from dorsal mouse skin for single-cell RNA-seq | 4 | dx.doi.org/10.17504/protocols.io.yxmvmn8m9g3p/v1 | https://www.protocols.io/view/cell-isolation-from-dorsal-mouse-skin-for-single-c-ceyqtfvw | Cenk Celik, Stella Yue Ting Lee, Guillaume Thibault | TITLE: Cell isolation from dorsal mouse skin for single-cell RNA-seq
AUTHORS: Cenk Celik, Stella Yue Ting Lee, Guillaume Thibault
[DESCRIPTION]
We identified heterogeneity of the skin cell populations upon Enterococcus faecalis infection.
[STEPS]
SECTION: Enzyme solutions
50. Dispase Working Solution
SECTION: Enzyme ... | ["[Enzyme solutions] Dispase Working Solution", "[Enzyme solutions] Dispase Solution\n\nDissolve 0.5g of in a 50ml of to make 10 mg/mL of Dispase II solution", "[Enzyme solutions] Filter the solution by using a 0.2µm filter", "[Enzyme solutions] Aliquot 1.25mL in tubes and store at -20 °C", "[Enzyme solutions] Collagen... |
106,113 | Freezing Adherent Cell Lines | 0 | dx.doi.org/10.17504/protocols.io.5qpvokxq9l4o/v2 | https://www.protocols.io/view/freezing-adherent-cell-lines-dju94nz6 | Carolina Lopez | TITLE: Freezing Adherent Cell Lines
AUTHORS: Carolina Lopez
[DESCRIPTION]
This protocol describes how to freeze Adherent cells. Examples of these cells are: A549 cells, LLCMK2 cells, and MDCK cells.
[STEPS]
SECTION: Freezing Adherent cells
1.
*Try to freeze cells at the lowest passage possible and confirm the cells ... | ["[Freezing Adherent cells] *Try to freeze cells at the lowest passage possible and confirm the cells are negative for mycoplasma before freezing. \n\nWash flask 2x with sterile 1X PBS.\nAdd 2mL of trypsin/T75. Incubate at 37ºC for 2-3 mins or until cells are detached from the flask.\nAdd 8mL of cell culture media and ... |
91,240 | Burden of RSV in Italian adults: Protocol for a systematic review and meta-analysis | 1 | dx.doi.org/10.17504/protocols.io.5qpvo32odv4o/v1 | https://www.protocols.io/view/burden-of-rsv-in-italian-adults-protocol-for-a-sys-c5cgy2tw | Alexander Domnich, Giovanna Elisa Calabrò | TITLE: Burden of RSV in Italian adults: Protocol for a systematic review and meta-analysis
AUTHORS: Alexander Domnich, Giovanna Elisa Calabrò
[DESCRIPTION]
Globally, respiratory syncytial virus (RSV) is a leading cause of respiratory infections and is responsible for a significant socioeconomic burden in all age group... | ["[Introduction] Together with seasonal influenza, respiratory syncytial virus (RSV) is a\nleading cause of respiratory infections and is responsible for a significant\nsocioeconomic burden in all age groups, especially at the extremes of age [McLaughlin,\n2022; Rafferty, 2022]. Indeed, a recent modelling study [Osei-Y... |
null | null | null | dx.doi.org/10.17504/protocols.io.ixacfie | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Optimised VENTANA BenchMark ULTRA protocol for PD-L1 assay using the concentrate 22C3 antibody.</p>
<p>For the purpose of protocol development 95% of clinical specimens consisted of surgical resection specimens and the remaining 5% were bronchial biopsies and transbronchial m... | [] |
81,366 | Nanostring GeoMx Digital Spatial Profiler (DSP) protocols -- University of Minnesota TMCs | 1 | dx.doi.org/10.17504/protocols.io.36wgqjw33vk5/v1 | https://www.protocols.io/view/nanostring-geomx-digital-spatial-profiler-dsp-prot-ctpwwmpe | Nanostring, Grant Barthel, Laura Niedernhofer, David A Bernlohr | TITLE: Nanostring GeoMx Digital Spatial Profiler (DSP) protocols -- University of Minnesota TMCs
AUTHORS: Nanostring, Grant Barthel, Laura Niedernhofer, David A Bernlohr
[DESCRIPTION]
Applicable Nanostring GeoMx DSP protocols for University of Minnesota
[STEPS]
1. GeoMx DSP Manual Slide Preparation User Manual
2... | ["GeoMx DSP Manual Slide Preparation User Manual", "Quick Guide: GeoMx Manual Slide Preparation: RNA FFPE", "Quick Guide: GeoMx Semi-Automated Slide Preparation: Protein FFPE"] |
60,959 | Prescription patterns of somatostatin analogues in patients with acromegaly and neuroendocrine tumors | 1 | dx.doi.org/10.17504/protocols.io.n92ldz5xov5b/v1 | https://www.protocols.io/view/prescription-patterns-of-somatostatin-analogues-in-b7r7rm9n | Jorge Machado Alba | TITLE: Prescription patterns of somatostatin analogues in patients with acromegaly and neuroendocrine tumors
AUTHORS: Jorge Machado Alba
[DESCRIPTION]
Objective. Acromegaly and neuroendocrine tumors are rare diseases that, under certain conditions, can be treated with somatostatin analogues. The aim was to dete... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.fmmbk46 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?. | [] |
58,438 | Modified Phenol Chloroform Genomic DNA Extraction Protocol from the Christner Lab (University of Florida) | 1 | dx.doi.org/10.17504/protocols.io.b5beq2je | https://www.protocols.io/view/modified-phenol-chloroform-genomic-dna-extraction-b5beq2je | Shelby J. Barnes, Brent Christner, Cameron Thrash | TITLE: Modified Phenol Chloroform Genomic DNA Extraction Protocol from the Christner Lab (University of Florida)
AUTHORS: Shelby J. Barnes, Brent Christner, Cameron Thrash
[DESCRIPTION]
Modified Phenol Chloroform genomic DNA Extraction Protocol from the Christner Lab (University of Florida)
[STEPS]
SECTION: Lysis
1... | ["[Lysis] Start with filtered cells OR spin to get pellet from liquid culture.", "[Lysis] Add 380 uL 1x TE Buffer + 20 uL Lysozyme to sample.", "[Lysis] Incubate for 1 h at 37C.", "[Lysis] Add 60 uL SDS + 30 uL Proteinase K + 110 uL 1x TE Buffer (total volume = 600 uL) to sample.", "[Lysis] Incubate for 2 h at 37C.",... |
63,946 | Eagle Hemp CBD Gummies: What to know – Official News Today! | 1 | dx.doi.org/10.17504/protocols.io.x54v9yoe1g3e/v1 | https://www.protocols.io/view/eagle-hemp-cbd-gummies-what-to-know-official-news-capisdke | viaketoengage | TITLE: Eagle Hemp CBD Gummies: What to know – Official News Today!
AUTHORS: viaketoengage
[DESCRIPTION]
Do you continually feel yourself succumbing to mental and actual wellbeing infirmities? The increment of unfamiliar particles in the encompassing region has made us powerless against different medical problems. To... | [] |
25,721 | Protocolo de avaliação clínica audiológica para crianças com microcefalia | null | dx.doi.org/10.17504/protocols.io.5czg2x6 | null | Klinger Vagner Teixeira da Costa, Luis Pedro Coelho | TITLE: Protocolo de avaliação clínica audiológica para crianças com microcefalia
AUTHORS: Klinger Vagner Teixeira da Costa, Luis Pedro Coelho
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Trata-se de uma ficha de anamneses direcionada para avaliação audiológica em crianças com a síndrome congênita... | [] |
48,885 | Protein extraction of zebrafish and fathead minnow embryos | 2 | dx.doi.org/10.17504/protocols.io.btyvnpw6 | https://www.protocols.io/view/protein-extraction-of-zebrafish-and-fathead-minnow-btyvnpw6 | Laura Langan | TITLE: Protein extraction of zebrafish and fathead minnow embryos
AUTHORS: Laura Langan
[DESCRIPTION]
This protocol describes an optimized protein extraction method for proteomic analyses for zebrafish and fathead minnow embryo's aged ~96 hpf/dpf (species dependent), and wouldn't have been possible without the followi... | [] |
25,090 | Protocol for High Resolution Manometry | 1 | dx.doi.org/10.17504/protocols.io.36wgq9zeolk5/v1 | https://www.protocols.io/view/protocol-for-high-resolution-manometry-4ragv2e | Phil.dinning | TITLE: Protocol for High Resolution Manometry
AUTHORS: Phil.dinning
[DESCRIPTION]
This protocol was submitted on behalf of the authors from the Tache Dinning lab, by the SPARC project. The goal was to create a protocol from a methods section.
[STEPS]
SECTION: Specimen retrieval and initial handling
1.
Specimen re... | ["[Specimen retrieval and initial handling] Specimen retrieval and initial handling\n\nSegments of descending colon (n = 30) or sigmoid colon (n = 4) were removed from 34 patients who underwent elective colorectal surgery (anterior resection) for non-obstructing distal large bowel cancer (n = 31), or recurrent sigmoid ... |
98,297 | CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC | 0 | dx.doi.org/10.17504/protocols.io.kqdg324xpv25/v2 | https://www.protocols.io/view/coda-3d-tissue-reconstruction-pipeline-hubmap-jhu-db8z2rx6 | Kyu Sang Han, Pei-Hsun Wu, Joel Sunshine, Ashley Kiemen, Sashank Reddy, Denis Wirtz | TITLE: CODA: 3D tissue reconstruction pipeline | HuBMAP | JHU-TMC
AUTHORS: Kyu Sang Han, Pei-Hsun Wu, Joel Sunshine, Ashley Kiemen, Sashank Reddy, Denis Wirtz
[DESCRIPTION]
CODA pipeline with 6 parts
[STEPS]
SECTION: Setting up CODA environment and preparing sample dataset
1. dx.doi.org/10.17504/protocols.io.q26g71rp... | ["[Setting up CODA environment and preparing sample dataset] dx.doi.org/10.17504/protocols.io.q26g71rpkgwz/v1", "[Calculate registration on low-resolution tissue images] dx.doi.org/10.17504/protocols.io.kxygxym3dl8j/v1", "[Deep learning multi-labelling of tissue structures using training on manual annotations] dx.doi.o... |
42,310 | Chapter 5: Severe nutritional deficiencies, emaciation, head trauma | 4 | null | https://www.protocols.io/view/chapter-5-severe-nutritional-deficiencies-emaciati-bmjek4je | Kerri Wolter | TITLE: Chapter 5: Severe nutritional deficiencies, emaciation, head trauma
AUTHORS: Kerri Wolter
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the proper treatment for severe nutritional deficiencies, emaciation, and head trauma in vultures.</div></div>
[STEPS]
?. [Body Co... | ["[Body Condition Score]\nScore the body condition of all vultures by feeling the amount of flesh around the keel (breastbone) and rating the bird using a basic scale from 1 to 5. Healthy birds range from 2,5 to 4. Any bird below 2 is considered thin. If a bird is severely emaciated, there may be little if any muscle f... |
49,757 | Sticky Toffee Banana Bread | 1 | dx.doi.org/10.17504/protocols.io.but5nwq6 | https://www.protocols.io/view/sticky-toffee-banana-bread-but5nwq6 | Emma Ganley | TITLE: Sticky Toffee Banana Bread
AUTHORS: Emma Ganley
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A delicious recipe for sticky toffee banana bread. </div><div class = "text-block">Recipe adapted from the BBC Goodfood 2021 calendar.</div><div class = "text-block">**Contains nuts, but you could ... | ["[Baking the Banana Bread]\nPre-heat your oven to 160 C / 140 C fan / Gas mark 3", "[Baking the Banana Bread]\nButter a 900g loaf tin and line with a strip of baking parchment paper.", "[Toffee Sauce]\nMelting/boiling sugar is very very hot - be careful with all subsequent steps for making the toffee sauce", "[Baking ... |
79,923 | Schistosoma mansoni cercariae shedding | 4 | dx.doi.org/10.17504/protocols.io.eq2ly7bbplx9/v1 | https://www.protocols.io/view/schistosoma-mansoni-cercariae-shedding-csatwaen | Sarah K Buddenborg | TITLE: Schistosoma mansoni cercariae shedding
AUTHORS: Sarah K Buddenborg
[DESCRIPTION]
Schistosoma mansoni cercariae can be obtained from infected Biomphalaria glabrata snails. Although infected snails will release (shed) cercariae constantly at low numbers, it is possible to trigger the release of larger quantities ... | ["[Preparing snails for shedding] Place snails into labelled 12- or 24-well plates with one snail per well", "[Shedding snails] Place cover on plate and place snails under LED or fluorescent lighting for up to 2 hours to trigger release of cercariae from the infected snails.", "[Shedding snails] Check snails for sheddi... |
34,455 | Production of AAV Virus by Iodixanol Gradient Ultracentrifugation | null | dx.doi.org/10.17504/protocols.io.bdvxi67n | null | Allen Institute for Brain Science | TITLE: Production of AAV Virus by Iodixanol Gradient Ultracentrifugation
AUTHORS: Allen Institute for Brain Science
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is used to produce AAV of any serotype with high purity and high titer.</div><div class = "text-block"><span style = "font... | [] |
96,717 | Grip Strength | 0 | dx.doi.org/10.17504/protocols.io.3byl4qmoovo5/v1 | https://www.protocols.io/view/grip-strength-dapm2dk6 | Xiaobo Mao, Ramhari Kumbhar, Hanseok Ko, Valina L. Dawson, Ted Dawson | TITLE: Grip Strength
AUTHORS: Xiaobo Mao, Ramhari Kumbhar, Hanseok Ko, Valina L. Dawson, Ted Dawson
[DESCRIPTION]
Use to measure rodent grip strength
[STEPS]
1. Set up grip strength meter on table.
2. Hold the mouse gently by the tail, and place either its forepaws or all paws on the grip strength grid.
3. Gently pul... | ["Set up grip strength meter on table.", "Hold the mouse gently by the tail, and place either its forepaws or all paws on the grip strength grid.", "Gently pull the mouse back until it releases its grasp.", "Record the maximum holding force displayed on the grip strength meter."] |
53,518 | Multiplexing microbial gDNA with SQK-RBK004 rapid kit | 1 | dx.doi.org/10.17504/protocols.io.byhnpt5e | https://www.protocols.io/view/multiplexing-microbial-gdna-with-sqk-rbk004-rapid-byhnpt5e | Ian Boostrom, Maria João Carvalho, Refath Farzana, Edward AR Portal, Kirsty Sands | TITLE: Multiplexing microbial gDNA with SQK-RBK004 rapid kit
AUTHORS: Ian Boostrom, Maria João Carvalho, Refath Farzana, Edward AR Portal, Kirsty Sands
[DESCRIPTION]
Purpose
This protocol is intended to guide users in creating genomic libraries for MinION & GridION sequencing, using Oxford Nanopore’s SQK-RBK004 rapid... | ["[SPRI bead concentration] In the MIDI plate, aliquot gDNA to SPRI beads at a 1:1 ratio. Gently pipette-mix 10 times, then leave the sample at room temperature for 2 minutes.", "[Initial DNA Quantification] Use Qubit fluorometer (or equivalent) to determine concentration of gDNA in samples.\n\nFor all samples with val... |
71,135 | Purification of Plasmid DNA by Miniprep | 1 | dx.doi.org/10.17504/protocols.io.n92ldp97ol5b/v1 | https://www.protocols.io/view/purification-of-plasmid-dna-by-miniprep-chp7t5rn | Georgina Elisa Diego Macías, Ana Belem García González, Irán Alessandra Chaparro Rodríguez, Jair Alexis Gardea Sáenz | TITLE: Purification of Plasmid DNA by Miniprep
AUTHORS: Georgina Elisa Diego Macías, Ana Belem García González, Irán Alessandra Chaparro Rodríguez, Jair Alexis Gardea Sáenz
[DESCRIPTION]
Extraction of Plasmid DNA by Miniprep PureLink T M Quick Plasmid Miniprepa Kits
[STEPS]
1. Centrifuge 1-5 mL of the overnight LB-cu... | ["Centrifuge 1-5 mL of the overnight LB-culture. Remove all medium.", "Add 250 µL Resuspension Buffer (R3) with RNase A to the cell pellet and resuspend the pellet until it is homogeneous", "Add 250 µL Lysis Buffer (L7). Mix gently by inverting the capped tube until the mixture is homogeneous. Do not vortex. Incubate t... |
106,807 | PELSA protocol | 0 | dx.doi.org/10.17504/protocols.io.q26g717x1gwz/v1 | https://www.protocols.io/view/pelsa-protocol-dkix4ufn | Kejia Li, Mingliang Ye | TITLE: PELSA protocol
AUTHORS: Kejia Li, Mingliang Ye
[DESCRIPTION]
This protocol details a step-by-step procedure of PELSA method, a modification-free approach that achieves unprecedented sensitivity in proteome-wide target identification and binding-region determination. Following this procedure, one can determine t... | [] |
47,745 | Protein-A and Protein-LG Sandwich ELISA | 1 | dx.doi.org/10.17504/protocols.io.bsu9nez6 | https://www.protocols.io/view/protein-a-and-protein-lg-sandwich-elisa-bsu9nez6 | Angel Justiz-Vaillant | TITLE: Protein-A and Protein-LG Sandwich ELISA
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This ELISA was used to study the interactions between Staphylococcal protein-A (SpA) and protein-LG (SpLG) with different immunoglobulin preparations from mammalian and avia... | ["This ELISA was used to study the interactions between Staphylococcal protein-A (SpA) and protein-LG (SpLG) with different immunoglobulin preparations from mammalian and avian species. The 96 well microtiter plate was coated overnight at 4°C with 2 µg/µl per well of SpA in carbonate-bicarbonate buffer pH 9.6.", "The p... |
13,650 | PCR algorithm to detect and characterize Neisseria meningitidis carriage isolates in the African meningitis belt | null | dx.doi.org/10.17504/protocols.io.rjsd4ne | null | Olivier Manigart | TITLE: PCR algorithm to detect and characterize Neisseria meningitidis carriage isolates in the African meningitis belt
AUTHORS: Olivier Manigart
[DESCRIPTION]
<h3>Improved methods for the detection and characterization of carried Neisseria meningitidis isolates are needed. We evaluated a multiplex PCR algorithm for ... | [] |
24,050 | Biochemical Measures of Neuropathy - Glutathione Reductase | null | dx.doi.org/10.17504/protocols.io.3qsgmwe | null | Eva Feldman | TITLE: Biochemical Measures of Neuropathy - Glutathione Reductase
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 hyperglyc... | ["[Sample Preparation — Tissue:]\n1. Homogenize the tissue in 5–10 mL of cold assay buffer (i.e., 50 mM potassium phosphate, pH 7.5, 1 mM EDTA) per gram of tissue. (General Equation: μL Buffer = mg Tissue X 10)\n2. Centrifuge at 10,000 x g for 15 minutes at 4°C.\n3. Remove supernatant for assay and store on ice. Sample... |
106,814 | Probe qPCR assay for Charybdis japonicum | 0 | null | https://www.protocols.io/view/probe-qpcr-assay-for-charybdis-japonicum-dki64uhe | Jackson Treece, Gert-Jan Jeunen, Jo-Ann Stanton, Neil Gemmell | TITLE: Probe qPCR assay for Charybdis japonicum
AUTHORS: Jackson Treece, Gert-Jan Jeunen, Jo-Ann Stanton, Neil Gemmell
[DESCRIPTION]
Charybdis japonica or the Asian Paddle Crab is a non-native crab species to Aotearoa, New Zealand. It was first detected in 2000 and has since spread along the eastern Northland coast w... | ["[Master Mix] 10.0 µl SensiFAST Probe 2x Mix \n0.8 µl 10µM Forward primer \n0.8 µl 10µM Reverse primer \n0.2 µl 10µM FAM Probe \n6.2 µl PCR Water\n2.0 µl Template\n20µl total reaction volume", "[Thermal Conditions] 95°C - 3 minutes\n95°C - 15 seconds\n60°C - 30 seconds x45 cycles\n\nQuantStudio 3 (ThermoFisher Scien... |
19,180 | Influenza Whole Genome Sequencing with Integrated Indexing on Oxford Nanopore Platforms | 1 | dx.doi.org/10.17504/protocols.io.kxygxm7yzl8j/v1 | https://www.protocols.io/view/influenza-whole-genome-sequencing-with-integrated-wykffuw | Peter Thielen | TITLE: Influenza Whole Genome Sequencing with Integrated Indexing on Oxford Nanopore Platforms
AUTHORS: Peter Thielen
[DESCRIPTION]
This protocol describes a method for influenza whole-genome sequencing with integrated molecular indexing, which enables a one-step process.
[GUIDELINES]
When processing flu samples, m... | ["[RNA Extraction using MagMAX Viral RNA Isolation Kit] Preparation and Stock Solutions for Viral Isolation using MagMAX Viral RNA Isolation kit\n\nOn the attached spreadsheet, fill out the 'Sample list\" and 'Plate Maps' tab\n\nGo to the 'RNA Isolation Reagents' tab to calculate total reagent amounts. \n\nLysis Buffer... |
83,416 | Minimum Inhibitory Concentration (MIC) and Minimum Bactericidal Concentration (MBC) Assays Using Broth Microdilution Method | 6 | dx.doi.org/10.17504/protocols.io.5qpvo3x6dv4o/v1 | https://www.protocols.click/view/minimum-inhibitory-concentration-mic-and-minimum-b-cvpyw5pw | Tomasz Swebocki, Alexandre Barras, Aleksandra Maria Kocot, magdalena.plotka, rabah.boukherroub | TITLE: Minimum Inhibitory Concentration (MIC) and Minimum Bactericidal Concentration (MBC) Assays Using Broth Microdilution Method
AUTHORS: Tomasz Swebocki, Alexandre Barras, Aleksandra Maria Kocot, magdalena.plotka, rabah.boukherroub
[DESCRIPTION]
The presented protocol outlines a comprehensive assessment of the mini... | ["[Pre-preparation of stock colony] Take the inoculated Petri dish and transfer one colony to a tube with approx.3 mL of fresh MHB.", "[Pre-preparation of stock colony] Incubate the tube for around 180 min (or more, depending on the strain and the size and age of the colony used) at 37 °C.", "[Preparation of diluted st... |
67,369 | https://www.facebook.com/ViaKetoGummiesUK/ | 3 | dx.doi.org/10.17504/protocols.io.ewov1n6eygr2/v1 | https://www.protocols.io/view/https-www-facebook-com-viaketogummiesuk-cd2hs8b6 | vsvsvsvsafd | TITLE: https://www.facebook.com/ViaKetoGummiesUK/
AUTHORS: vsvsvsvsafd
[DESCRIPTION]
https://www.facebook.com/ViaKetoGummiesUK/
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dkn4vd | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is a very simple protocol showing how to extract haemolymph from adult Drosophila melanogaster. (Based on protocols from Sigma Aldrich).
[STEPS]
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12,875 | Large Volume Fungal Genomic DNA Extraction Protocol for PacBio | 1 | dx.doi.org/10.17504/protocols.io.qtjdwkn | https://www.protocols.io/view/large-volume-fungal-genomic-dna-extraction-protoco-qtjdwkn | Jana M U'Ren, Lilly Moore | TITLE: Large Volume Fungal Genomic DNA Extraction Protocol for PacBio
AUTHORS: Jana M U'Ren, Lilly Moore
[DESCRIPTION]
This protocol describes a modified SDS phenol:chloroform method for obtaining high molecular weight DNA from hyphae of filamentous fungi. Resulting DNA can be used for PacBio sequencing. Pure funga... | ["Using sterile mortar and pestle, grind mycelium in liquid nitrogen. If multiple different samples, grind one at a time. Once done place the tissue in -80C and grind the next sample until all are complete and ready to begin the extraction process.", "Quickly add ground mycelium to 50mL Falcon tube that originally held... |
null | null | null | dx.doi.org/10.17504/protocols.io.h9ub96w | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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16,715 | Oral Glucose Tolerance Test in Mouse | null | dx.doi.org/10.17504/protocols.io.ujjeukn | https://www.protocols.io/view/oral-glucose-tolerance-test-in-mouse-ujjeukn | Nancy Smith, Mourad Ferdaoussi, Haopeng Lin, Patrick Macdonald | TITLE: Oral Glucose Tolerance Test in Mouse
AUTHORS: Nancy Smith, Mourad Ferdaoussi, Haopeng Lin, Patrick Macdonald
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol details the oral glucose tolerance test in mice. This is performed on C57Bl6, transgenic SENP1 KO and ZMIZ1 KO mouse mode... | ["[Fasting]\nFasting begins first thing in the morning (around 9am). Fast mice for 4-6 hours before OGTT begins. Transfer mice to clean cage and wire top. Keep water bottles during the fasting period.\nIf using High Fat diet (HFD), save food to give back at the end of the OGTT.mark tails with a sharpie for easier id... |
98,519 | Increasing insulin measurement throughput by fluorescence anisotropy imaging immunoassays | 4 | dx.doi.org/10.17504/protocols.io.eq2lyn4kwvx9/v2 | https://www.protocols.io/view/increasing-insulin-measurement-throughput-by-fluor-dcfx2tpn | Yao Wang, Damilola I. Adeoye, Yue J. Wang, Michael Roper | TITLE: Increasing insulin measurement throughput by fluorescence anisotropy imaging immunoassays
AUTHORS: Yao Wang, Damilola I. Adeoye, Yue J. Wang, Michael Roper
[DESCRIPTION]
Insulin secreted from islets of Langerhans is the main hormone to reduce blood glucose. Examination of insulin secretion patterns at the singl... | ["[Experimental] Chemicals and reagents\n\nSodium chloride, calcium chloride, sodium hydroxide, ethylenediaminetetraacetic acid (EDTA), Tween-20, and bovine serum albumin (BSA) were from EMD Chemicals (San Diego, CA). Dextrose, RPMI 1640, gentamicin, and fetal bovine serum were from Thermo Fisher Scientific (Waltham, M... |
35,997 | NEBExpress Ni Resin Batch Binding Typical Protocol (NEB #S1428) | null | dx.doi.org/10.17504/protocols.io.bfd5ji86 | https://www.protocols.io/view/nebexpress-ni-resin-batch-binding-typical-protocol-bfd5ji86 | New England Biolabs | TITLE: NEBExpress Ni Resin Batch Binding Typical Protocol (NEB #S1428)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>NEBExpress® Ni Resin is an affinity matrix for the isolation and purification of polyhistidine-tagged (His-ta</span><span style = "font-style:ita... | ["[Preparation of Buffers under Denaturing Conditions]\nIf continuing with Denaturing conditions: Bring all three buffers (Lysis/Binding, Wash and Elution Buffers) to a final concentration of or .\n[Urea]\n[Guanidine]\nNotes:1.Crude lysate should be prepared with a lysis buffer without imidazole. To further minimize ... |
57,865 | SOP52v1_TGD_IIDP-HIGISampleProcessing | 4 | null | https://www.protocols.io/view/sop52v1-tgd-iidp-higisampleprocessing-b4rhqv36 | Varsha Rajesh | TITLE: SOP52v1_TGD_IIDP-HIGISampleProcessing
AUTHORS: Varsha Rajesh
[DESCRIPTION]
This workflow details the processing of acinar tissue obtained as part of the HIGI cohort (IIDP), by TGD Lab.
[STEPS]
SECTION: Recieving Samples
1. When acinar samples are received from the various isolation centers, match what is phys... | ["[Recieving Samples] When acinar samples are received from the various isolation centers, match what is physically sent with sample info list sent with package and make sure all samples are accounted for. Take note of the condition of the samples.", "[Recieving Samples] Let isolation center know samples were received ... |
40,832 | His-Spin Protein Miniprep - CHEM 584 | 4 | dx.doi.org/10.17504/protocols.io.bj48kqzw | https://www.protocols.io/view/his-spin-protein-miniprep-chem-584-bj48kqzw | Ken Christensen | TITLE: His-Spin Protein Miniprep - CHEM 584
AUTHORS: Ken Christensen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The His-Spin Protein Miniprep provides researchers with fast His-tagged protein purification. The simplified procedure is based on an innovative protein purification chemistry and c... | ["[His-Spin Protein Miniprep]\nTransfer of His-Affinity Gel to the Zymo-Spin P1 column (make sure the resin is fully resuspended by shaking/vortexing the bottle before pipetting) and place the column into a collection tube.\n250 µl\nUse a 1 ml pipette tip to transfer the His-Affinity Gel.; a 200 μl-size (us... |
41,764 | SARS-CoV-2 Antigen Detection ELISA | 4 | dx.doi.org/10.17504/protocols.io.bk2ckyaw | https://www.protocols.io/view/sars-cov-2-antigen-detection-elisa-bk2ckyaw | Rob Parks, Barton Haynes | TITLE: SARS-CoV-2 Antigen Detection ELISA
AUTHORS: Rob Parks, Barton Haynes
[STEPS]
?. [Materials and Equipment]
Costar 3700 high binding 384 well plates Plate Washer: Biotek 406Plate Reader: Molecular Devices 384plusCorning® 500mL Vacuum Filter/Storage Bottle System, 0.22µm Filter Membrane, Product No. 430769Stir bar... | ["[Materials and Equipment]\nCostar 3700 high binding 384 well plates Plate Washer: Biotek 406Plate Reader: Molecular Devices 384plusCorning® 500mL Vacuum Filter/Storage Bottle System, 0.22µm Filter Membrane, Product No. 430769Stir bar and stir plate.Clean sterile 1L bottles, glass or plasticVarious plastic tubes capab... |
null | null | null | dx.doi.org/10.17504/protocols.io.ei4bcgw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
NYCIII (en-why-see-three) culture media<br />Suitable for the culture of Gardnerella vaginalis
[BEFORE_START]
Heat inacticate your serum. Serum can kill many different types of bacteria.
[STEPS]
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51,055 | Plate Protein Expression on Autoinduction media | 4 | dx.doi.org/10.17504/protocols.io.bv4pn8vn | https://www.protocols.io/view/plate-protein-expression-on-autoinduction-media-bv4pn8vn | Stephane Fadanka, Chiara Gandini | TITLE: Plate Protein Expression on Autoinduction media
AUTHORS: Stephane Fadanka, Chiara Gandini
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The current protocol describes the preparation and use of 2X YT</span><span style = "font-weight:bold;"> </span><span>autoinduction medium for recomb... | ["[Preparation of the Overnight Pre-inoculum]\nGrow culture of desired bacteria strain in LB broth supplemented with the appropriate antibiotic, grow overnight at 37C .\n10 mL\n37 °C", "[Preparation of Auto-induction media]\nPrepare the needed amount of 4xYT autoinduction agar medium", "[Preparation of Auto-induction... |
null | null | null | dx.doi.org/10.17504/protocols.io.ehwbb7e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol provides a method for analysis of the relative abundance of potential antibiotic resistance genes found in the virome. We use the Comprehensive Antibiotic Resistance Database (CARD) as our reference for potential antibiotic resistance genes.
[GUIDELINES]
Required ... | [] |
34,835 | Sterivex RNA extraction | null | dx.doi.org/10.17504/protocols.io.bd9ti96n | null | Ariel Rabines, Rob Lampe, Andrew Allen | TITLE: Sterivex RNA extraction
AUTHORS: Ariel Rabines, Rob Lampe, Andrew Allen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A mostly automated protocol for extraction of total RNA from seawater filtered onto a Sterivex filter (Cat. No. SVGP0150). Reagents come from the Macherey-Nagel NucleoMag RN... | ["[Lysis]\nKeep sterivex on dry ice. In each, remove luer plug and pipette the per sample volume prepared in step 1 into each. For example, if 800 µL MR1 + 14 µL TCEP + 1 µL internal standards were used, add . Dispense quickly as the lysis buffer will freeze upon contact. Replug with luer lock. Place luer-side down int... |
95,911 | Genetic Modification of Human Induced Pluripotent Stem Cells (hiPSCs) by Lentiviral Transduction Protocol | 0 | dx.doi.org/10.17504/protocols.io.n92ldm428l5b/v1 | https://www.protocols.io/view/genetic-modification-of-human-induced-pluripotent-c9wfz7bn | Roshni Jaffery, Ningbo Zheng, Jiakai Hou, Ashley Guerrero, Si Chen, Chunyu Xu, Nicholas A. Egan, Ritu Bohat, Weiyi Peng | TITLE: Genetic Modification of Human Induced Pluripotent Stem Cells (hiPSCs) by Lentiviral Transduction Protocol
AUTHORS: Roshni Jaffery, Ningbo Zheng, Jiakai Hou, Ashley Guerrero, Si Chen, Chunyu Xu, Nicholas A. Egan, Ritu Bohat, Weiyi Peng
[DESCRIPTION]
This is the protocol for the genetic modification of human indu... | ["[Day 1] Grow and culture 293T cell line in 10 cm plates.", "[Day 1] Grow and culture hiPSCs in pre-coated VTN 6 well plates.", "[Day 1] When there are enough 293T cells, seed 5 million 293T cells a 10cm plates in 10mL DMEM\ncomplete media per plasmid of interest.", "[Day 1] Grow overnight at 37 deg C and 5% CO2 until... |
54,712 | CHEM 584--Cloning sgRNA Sequences into lentiCRISPRv2 | 4 | null | https://www.protocols.io/view/chem-584-cloning-sgrna-sequences-into-lenticrisprv-bznyp5fw | Ken Christensen | TITLE: CHEM 584--Cloning sgRNA Sequences into lentiCRISPRv2
AUTHORS: Ken Christensen
[DESCRIPTION]
This protocol describes how to clone your chosen sgRNA sequence into the lentiCRISPRv2 plasmid. A method to validate your cloning is also included here.
[STEPS]
SECTION: Design and Order Guide Sequences
1. Design and ... | ["[Design and Order Guide Sequences] Design and order sgRNA sequence oligonucleotides based on your previously identified target sequences.\n\nOligo 1: 5'-CACCGNNNNNNNNNNNNNNNNNNNN\nOligo 2: 3'- CNNNNNNNNNNNNNNNNNNNNCAAA\n\nImportant Note: Do not include the NGG PAM in your designed oligonucleotides", "[lentiC... |
null | null | null | dx.doi.org/10.17504/protocols.io.u2xeyfn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Metal organics are compounds containing metals and organic ligands, which would give them solubility in organic solvents or volatiles. Chemical compounds of metal organics contain at least one chemical bond between carbon atoms and metals, including alkaline metals, alkaline ear... | [] |
99,695 | Primer design protocol of an endogenous ribosomal gene, based on RNAseq sequencing of the liver of Astyanax lacustris (Teleostei: Characidae) | 0 | dx.doi.org/10.17504/protocols.io.eq2lyw7dmvx9/v1 | https://www.protocols.io/view/primer-design-protocol-of-an-endogenous-ribosomal-ddkp24vn | Jennifer Lima, Giovana Souza Branco, Aline Gomes, Renata Guimarães Moreira | TITLE: Primer design protocol of an endogenous ribosomal gene, based on RNAseq sequencing of the liver of Astyanax lacustris (Teleostei: Characidae)
AUTHORS: Jennifer Lima, Giovana Souza Branco, Aline Gomes, Renata Guimarães Moreira
[DESCRIPTION]
For gene expression studies, endogenous genes are necessary for analysis... | ["[Material] The livers of the Astyanax lacustris (was previously classified as Astyanax altiparanae, Lucena and Soares, 2016), used in this analysis come from an experiment already published and the entire experimental design is detailed in Muñoz-Peñuela et al., (2021).", "[Information about RNAseq] Three livers were ... |
61,398 | RTqPCR of SARS-CoV-2 N1 Target on ABI 7500 Fast Using Promega GoTaq Enviro Wastewater SARS-CoV-2 System V1 | 1 | dx.doi.org/10.17504/protocols.io.rm7vzy52xlx1/v1 | https://www.protocols.io/view/rtqpcr-of-sars-cov-2-n1-target-on-abi-7500-fast-us-b77wrrpe | Amanda Windsor, Tamara Walsky, Padmini Ramachandran, Chris Grim, Maria Hoffmann | TITLE: RTqPCR of SARS-CoV-2 N1 Target on ABI 7500 Fast Using Promega GoTaq Enviro Wastewater SARS-CoV-2 System V1
AUTHORS: Amanda Windsor, Tamara Walsky, Padmini Ramachandran, Chris Grim, Maria Hoffmann
[DESCRIPTION]
This protocol details methods for the preparation of RTqPCR for the CDC's N1 fragment of the n... | ["[Preparation of Standard curve dilutions] Thaw the SARS-CoV-2 (N+E) RNA, 4 × 106 copies/μl, and PMMoV RNA, 4 × 106 copies/μL, on ice. Avoid long exposures to ambient temperature", "[Preparation of Standard curve dilutions] Combine and dilute the SARS-CoV-2 (N+E) and PMMoV RNAs (4 × 106 copies/μL) 100-fold by adding 2... |
51,532 | Modeling acute visceral pain in adult zebrafish | 4 | dx.doi.org/10.17504/protocols.io.bwjkpckw | https://www.protocols.io/view/modeling-acute-visceral-pain-in-adult-zebrafish-bwjkpckw | Fabiano Costa, Denis Rosemberg | TITLE: Modeling acute visceral pain in adult zebrafish
AUTHORS: Fabiano Costa, Denis Rosemberg
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes a reliable procedure for assessing acute pain responses in adult zebrafish (</span><span style = "font-style:italic;">Danio rer... | ["[ACCLIMATIZATION AND BASELINE BEHAVIORAL RECORDINGS ●TIMING ~ 1 h for acclimatization; 6 min per animal]\nTransport animals from their holding facility to the experimental room for acclimation 1 h prior to the experiments. Avoid low- or high density of fish to prevent social isolation or crowding stress (tanks must h... |
63,913 | https://www.facebook.com/ViaKetoCapsuleAvis/ | 1 | dx.doi.org/10.17504/protocols.io.dm6gpb248lzp/v1 | https://www.protocols.io/view/https-www-facebook-com-viaketocapsuleavis-canhsdb6 | roxyhimz | TITLE: https://www.facebook.com/ViaKetoCapsuleAvis/
AUTHORS: roxyhimz
[DESCRIPTION]
Via Keto Capsules Avis(France) – Vous en avez marre de prendre trop de graisse corporelle à cause de votre taux métabolique plus bas ? Votre faible taux métabolique peut bien contribuer à ce que votre corps attire beaucoup de graisse... | ["[Via Keto Capsules France] Via Keto Capsules France Si les habitudes mentionnées ci-dessus ne vous aident en aucune façon, vous pouvez également vous aider de plusieurs produits disponibles sur le marché qui sont 100% sains et puissants.\n\nViaKeto Capsules Après avoir consommé ce produit, vous serez en mesure de com... |
null | null | null | dx.doi.org/10.17504/protocols.io.cqgvtv | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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83,273 | EXPRESSION AND PURIFICATION OF HUMAN p62 (HIS-TEV-mCherry-p62) | 1 | dx.doi.org/10.17504/protocols.io.j8nlkob61v5r/v1 | https://www.protocols.io/view/expression-and-purification-of-human-p62-his-tev-m-cvjhw4j6 | Gabriele Zaffagnini, Elisabeth Holzer | TITLE: EXPRESSION AND PURIFICATION OF HUMAN p62 (HIS-TEV-mCherry-p62)
AUTHORS: Gabriele Zaffagnini, Elisabeth Holzer
[DESCRIPTION]
This protocol describes how to express and purify human p62 tagged N-terminally with HIS and TEV. The expression is performed with E. coli Rosetta pLysS cells. The protein is purified via ... | ["[Expression of p62] Grow E. coli Rosetta pLysS cells in 8 L Luria broth medium at 37 °C until an OD600 nm of 0.8 is reached.", "[Expression of p62] Induce protein expression with 150 micromolar (µM) IPTG for 300 min at 25 °C.", "[Expression of p62] Centrifuge cells at 3000 rcf, 4 °C, 15 min", "[Expression of p62] Asp... |
null | null | null | dx.doi.org/10.17504/protocols.io.ihxcb7n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Haematoxylin Eosin (H&E) staining of mouse intestinal tissue</p>
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.gz7bx9n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The IL-8 ELISA protocol here described was established by Stephan Odenbreit and modified in this form by Luisa F. Jiménez-Soto.</p>
<p>Here are the publications using this protocol:</p>
<p>DOI:<a href="https://doi.org/10.1371/journal.pone.0035341" target="_blank">10.1371/jour... | [] |
18,353 | 37°C heat shock survival assay for C. elegans | null | dx.doi.org/10.17504/protocols.io.v6re9d6 | null | Emily Troemel | TITLE: 37°C heat shock survival assay for C. elegans
AUTHORS: Emily Troemel
[STEPS] | [] |
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