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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93,453 | A/Ci method using Dynamic Assimilation Technique | 1 | dx.doi.org/10.17504/protocols.io.8epv5xpj4g1b/v1 | https://www.protocols.io/view/a-ci-method-using-dynamic-assimilation-technique-c7hmzj46 | Mauricio Tejera-Nieves, Luke M. Gregory, Aaron Saathoff, Berkley J. Walker | TITLE: A/Ci method using Dynamic Assimilation Technique
AUTHORS: Mauricio Tejera-Nieves, Luke M. Gregory, Aaron Saathoff, Berkley J. Walker
[DESCRIPTION]
The net CO2 assimilation (A) response to intercellular CO2concentration (Ci) is a fundamental measurement in photosynthesis and plant physiology research. Here, we o... | ["[Prepare LI-6800 for measurements] Check instrument chemicals and run warm-up test", "Follow LICOR Start up checklist before clamping the LI-6800 into the first leaf.", "Run warm-up test on an empty and closed chamber\nStart Up > Warmup Tests > Select Warmup Test from dropdown menu > Start", "[Clamp onto your first l... |
null | null | null | dx.doi.org/10.17504/protocols.io.rr2d58e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The unfolding dynamics of the vocal expression of emotions are crucial for the decoding of the emotional state of an individual. In this study, we analyzed how much information is needed to decode a vocally expressed emotion using affect bursts, a gating paradigm, and linear ... | ["[Select recordings from the GEneva Multimodal Emotion Portrayals (GEMEP)] {\"blocks\":[{\"key\":\"6ev6d\",\"text\":\"Five emotions were selected for this study: anger, disgust, fear, joy, and sadness. These emotions are thought to show discrete forms of expression in the face and voice. Surprise was excluded from thi... |
81,454 | Manual SP3 digestion and clean-up of protein lysates | 1 | dx.doi.org/10.17504/protocols.io.261ge3zeyl47/v1 | https://www.protocols.io/view/manual-sp3-digestion-and-clean-up-of-protein-lysat-ctsnwnde | ronan.ocualain | TITLE: Manual SP3 digestion and clean-up of protein lysates
AUTHORS: ronan.ocualain
[DESCRIPTION]
SP3 bead preparation of samples for MS analysis
Compatible with a wide range of buffer and detergent types.
[BEFORE_START]
Bead preparation:
Both types of Cytiva Carboxylate SpeedBeads are shipped at 50 mg/mL concentrati... | ["[SP3 bead preparation] Briefly vortex the 1:1 bead mixture and place the tube on a magnetic stand for two minutes to collect the beads.", "[SP3 protein clean-up] Check the pH of the sample is in the range of pH 7.0 to pH 8.5 for optimal binding by measuring an aliquot on pH paper.", "[SP3 protein clean-up] Add washed... |
55,337 | BIND&MODIFY: Long-range single-molecule mapping of chromatin modification in eukaryotes | 4 | dx.doi.org/10.17504/protocols.io.b2ahqab6 | https://www.protocols.io/view/bind-amp-modify-long-range-single-molecule-mapping-b2ahqab6 | Zhe Weng, Fengying Ruan, Weitian Chen, Zhe Xie, Yeming Xie, Chen Zhang, Zhichao Chen, Juan Wang, Yuxin Sun, Yitong Fang, Mei Guo, Yiqin Tong, Yaning Li, Chong Tang | TITLE: BIND&MODIFY: Long-range single-molecule mapping of chromatin modification in eukaryotes
AUTHORS: Zhe Weng, Fengying Ruan, Weitian Chen, Zhe Xie, Yeming Xie, Chen Zhang, Zhichao Chen, Juan Wang, Yuxin Sun, Yitong Fang, Mei Guo, Yiqin Tong, Yaning Li, Chong Tang
[DESCRIPTION]
Here we describe a powerful metho... | ["[Bind cells or nuclei to Concanavalin A-coated beads] Gently vortex and resuspend the ConA beads slurry, 10ul of the ConA beads would be enough for 5x105 cells. The following is for 4 samples.", "[Bind primary antibody] Quick spin the tube to remove the liquid from the cap. Place the tube on a magnetic stand to clear... |
103,341 | Study Protocol for a Mixed Method, Three-Arm Cluster Randomized Comparative Trial Testing the Impact of Culturally Aware Mentoring Interventions on Research Mentors and Graduate Training Programs | 0 | dx.doi.org/10.17504/protocols.io.3byl493zogo5/v1 | https://www.protocols.io/view/study-protocol-for-a-mixed-method-three-arm-cluste-dg6m3zc6 | Ellyssa Eiring, Angela Byars-Winston, Stephanie C. House, You-Geon Lee, Richard McGee, Remi F. Jones, Sylvia Hurtado, Amanda Carrasco | TITLE: Study Protocol for a Mixed Method, Three-Arm Cluster Randomized Comparative Trial Testing the Impact of Culturally Aware Mentoring Interventions on Research Mentors and Graduate Training Programs
AUTHORS: Ellyssa Eiring, Angela Byars-Winston, Stephanie C. House, You-Geon Lee, Richard McGee, Remi F. Jones, Sylvi... | [] |
45,835 | test | 1 | null | https://www.protocols.io/view/test-bqzjmx4n | Maria Guliakina | TITLE: test
AUTHORS: Maria Guliakina
[STEPS]
?. test | ["test"] |
86,384 | In situ immunoglobulin A (IgA) detection in formalin-fixed, paraffin-embedded (FFPE) pig tissues | 4 | dx.doi.org/10.17504/protocols.io.yxmvm32d9l3p/v1 | https://www.protocols.io/view/in-situ-immunoglobulin-a-iga-detection-in-formalin-cykqxuvw | Jayne E Wiarda, Crystal Loving | TITLE: In situ immunoglobulin A (IgA) detection in formalin-fixed, paraffin-embedded (FFPE) pig tissues
AUTHORS: Jayne E Wiarda, Crystal Loving
[DESCRIPTION]
An immunohistochemistry (IHC) staining protocol for in situ identification of IgA in pig tissue.
[BEFORE_START]
Starting specimens:
Starting samples = FFPE ... | ["[Baking] Before starting the assay: \nPreheat a dry oven to 60℃ \nLoad slides for assay into vertical slide rack\n\nBaking\nBake slides 20 min 60℃\n\nWhile slides bake:\nPrepare 0.05% PBS-T (can store at RT up to 1 month)", "[Deparaffinizing & Rehydrating] Immediately before deparaffinizing:\n-Add ~200 mL xylenes... |
null | null | null | dx.doi.org/10.17504/protocols.io.i9tch6n | null | null | TITLE: No Title
AUTHORS:
[BEFORE_START]
<p>When open vials and bottles, you should make sure that the contents of these are not contaminated<br />with ATP. </p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
100,307 | DNA Extraction - Qiagen BioSprint® 96 Workstation using the Biosprint 96 tissue protocol UIBK eWHALE | 0 | dx.doi.org/10.17504/protocols.io.q26g71p83gwz/v1 | https://www.protocols.io/view/dna-extraction-qiagen-biosprint-96-workstation-usi-dd7t29nn | Lauren Rodriguez, Bettina Thalinger | TITLE: DNA Extraction - Qiagen BioSprint® 96 Workstation using the Biosprint 96 tissue protocol UIBK eWHALE
AUTHORS: Lauren Rodriguez, Bettina Thalinger
[DESCRIPTION]
This DNA extraction protocol is used in Rodriguez et al., 2024 (in prep) for the extraction of environmental DNA from samples collected in the North-Eas... | ["[Lyse sample] Smith-Root Filters", "[Lyse sample] Label 2 mL tube for each (+ control)", "[Lyse sample] Remove filter housing from the plastic bag. The yellow half of the filter should be facing the bottom of the bag. Use an Erlenmeyer flask to hold the filter upright while the filter is being opened.", "[Lyse sam... |
null | null | null | dx.doi.org/10.17504/protocols.io.eyfbftn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?. | [] |
31,808 | MCM Chromatin flow cytometry for cell cycle | null | dx.doi.org/10.17504/protocols.io.bba8iihw | null | Jacob Matson, Jean Cook | TITLE: MCM Chromatin flow cytometry for cell cycle
AUTHORS: Jacob Matson, Jean Cook
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Chromatin flow cytometry for MCM loading cell cycle analysis, adaptable to any antibody measurements by chromatin flow cytometry.</div></div>
[STEPS] | [] |
45,863 | CalculatingGenerationTime | 4 | null | https://www.protocols.io/view/calculatinggenerationtime-bq2fmybn | Elizabeth Fozo | TITLE: CalculatingGenerationTime
AUTHORS: Elizabeth Fozo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Calculation of generation times (doubling times)</div></div>
[STEPS]
?. [Steps]
Plot your OD 600 versus time so that you know that you are in EXPONENTIAL PHASE to calculate GENERATION TIMES
?. [... | ["[Steps]\nPlot your OD 600 versus time so that you know that you are in EXPONENTIAL PHASE to calculate GENERATION TIMES", "[Steps]\nGrow ON of strain of interest in appropriate media", "[Steps]\nIn the morning, check the culture(s) under the scope to verify pure culture. Dilute the ON into the appropriate media.", "[S... |
76,021 | An improved digestion and analysis procedure for silicon in plant tissue | 6 | dx.doi.org/10.17504/protocols.io.ewov1o3e7lr2/v1 | https://www.protocols.io/view/an-improved-digestion-and-analysis-procedure-for-s-cngvvbw6 | Noah Langenfeld, Bruce Bugbee | TITLE: An improved digestion and analysis procedure for silicon in plant tissue
AUTHORS: Noah Langenfeld, Bruce Bugbee
[DESCRIPTION]
Silicon (Si) in plant tissues reduces abiotic and biotic stress, but it is incorporated as silica (SiO2), which is difficult to solubilize for analysis. We modified an oven-induced tissu... | ["[Sample preparation] Triple rinse a 50-mL polyethylene screw-cap centrifuge tube with 100 millimolar (mM) sodium hydroxide.", "[Sample preparation] Triple rinse the 50-mL polyethylene screw-cap centrifuge tube with distilled water.", "[Sample preparation] Dry the tube and cap with a clean paper towel.", "[Sample prep... |
22,890 | SPARC Serotonin 2B Receptor (5-HT2BR) Immunohistochemistry Protocol in Rat Tissues Labeled with Cholera Toxin B-fragment | null | dx.doi.org/10.17504/protocols.io.2kigcue | null | Elisa Gonzalez-Rothi, Yasin Seven, Latoya Allen, Marissa Ciesla, Gordon Mitchell | TITLE: SPARC Serotonin 2B Receptor (5-HT2BR) Immunohistochemistry Protocol in Rat Tissues Labeled with Cholera Toxin B-fragment
AUTHORS: Elisa Gonzalez-Rothi, Yasin Seven, Latoya Allen, Marissa Ciesla, Gordon Mitchell
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the immuno... | ["Day 1: primary antibodies required:5-HT2BR: Mouse anti-5-HT2BR (SantaCruz Biotechnology #C-6; SC-376878)Cholera toxin B-fragment: Goat anti-CT-B (Millipore #227040)", "Place 40um transverse spinal cord sections into 1xPBS in 12 well cell culture plates", "5x washes in 1xPBS for 5 minutes each at room temperature", "... |
25,886 | DIFFERENTIATION OF i3NEURONS (Basic Protocol 5) | null | dx.doi.org/10.17504/protocols.io.5h6g39e | null | Michael S. Fernandopulle, Ryan Prestil, Christopher Grunseich, Chao Wang, Li Gan, Michael E. Ward | TITLE: DIFFERENTIATION OF i3NEURONS (Basic Protocol 5)
AUTHORS: Michael S. Fernandopulle, Ryan Prestil, Christopher Grunseich, Chao Wang, Li Gan, Michael E. Ward
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the rapid and robust differentiation of cortical neurons from hiPS... | ["[Day 0]\nCoat a new 15-cm tissue culture dish to be used for differentiation with to of Matrigel solution, tilting to ensure coverage of entire surface area. Place in incubator for to prior to beginning dissociation and re-plating.\n7 ml\n9 ml\n37 °C\nMatrigel can be re-used once or twice after 30-min incubation... |
68,485 | Overview of scRNA-seq of Human Knee Meniscus | 4 | dx.doi.org/10.17504/protocols.io.dm6gpb7p5lzp/v1 | https://www.protocols.io/view/overview-of-scrna-seq-of-human-knee-meniscus-ce5dtg26 | molmer, Martin Lotz | TITLE: Overview of scRNA-seq of Human Knee Meniscus
AUTHORS: molmer, Martin Lotz
[DESCRIPTION]
The overview provides sub-protocols for each step required to complete scRNA-seq from human knee meniscus.
[STEPS]
1. Tissue Acquisition
dx.doi.org/10.17504/protocols.io.6qpvr614zvmk/v1
2. Tissue Quality Control
dx.doi.org/... | ["Tissue Acquisition\ndx.doi.org/10.17504/protocols.io.6qpvr614zvmk/v1", "Tissue Quality Control\ndx.doi.org/10.17504/protocols.io.n2bvj695nlk5/v1", "Single-Cell Isolation\ndx.doi.org/10.17504/protocols.io.n2bvj6k7blk5/v1", "cDNA Library Preparation\ndx.doi.org/10.17504/protocols.io.e6nvwkw32vmk/v1", "Data Processing a... |
79,288 | Sistema de categorías para el estudio de la eficacia escolar | 1 | dx.doi.org/10.17504/protocols.io.5qpvor18dv4o/v2 | https://www.protocols.io/view/sistema-de-categor-as-para-el-estudio-de-la-eficac-crnyv5fw | Carla Ortiz-de-Villate, Javier Rodríguez-Santero, Juan Jesus Torres-Gordillo | TITLE: Sistema de categorías para el estudio de la eficacia escolar
AUTHORS: Carla Ortiz-de-Villate, Javier Rodríguez-Santero, Juan Jesus Torres-Gordillo
[DESCRIPTION]
Sistema de categorías para el estudio de la eficacia escolar. Se ha calculado su confiabilidad y concordancia entre investigadores en nuestra investig... | [] |
34,390 | Procuring Parts for Algal Shaker | null | dx.doi.org/10.17504/protocols.io.bdtwi6pe | null | Jakub Nedbal | TITLE: Procuring Parts for Algal Shaker
AUTHORS: Jakub Nedbal
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This page describes in detail the procurement of parts required for building the orbital shaker. The components can be sourced from four types of suppliers.</div><div class = "text-block"><... | ["Obtain the list of parts and tools required to build and assemble the illuminated orbital shaker by downloading the file:OrbitalShaker_PartsList.xlsxThe content of the above spreadsheet are discussed in the steps below.", "It should be possible to convert any orbital shaker by adding the illuminator and a raised cl... |
69,297 | CUT and RUN | 1 | dx.doi.org/10.17504/protocols.io.j8nlkwb8dl5r/v1 | https://www.protocols.io/view/cut-and-run-cfwrtpd6 | anita.adami | TITLE: CUT and RUN
AUTHORS: anita.adami
[DESCRIPTION]
This protocols describe how to perform CUT&RUN on human brain tissue (frozen)
[STEPS]
SECTION: Sample extraction
1. Flash-freeze postmortem brain tissue
SECTION: Sample extraction
2. Sample 50 mg - 100 mg from human brain tissue and store at -80 °C until use
SEC... | ["[Sample extraction] Flash-freeze postmortem brain tissue", "[Sample extraction] Sample 50 mg - 100 mg from human brain tissue and store at -80 °C until use", "[CUT&RUN] Activate ConA-coat magnetic beads (Epicypher) by washing twice in bead binding buffer [20 mM HEPES pH 7.5, 10 mM KCl, 1 mM CaCl, 1 mM MnCl2]. Pla... |
48,023 | Helicase-like transcription factor-deletion from the tumor microenvironment in a cell line-derived xenograft model of colorectal cancer reprogrammed the human transcriptome-S-nitroso-proteome to promote inflammation and redirect metastasis | 4 | dx.doi.org/10.17504/protocols.io.bs5xng7n | https://www.protocols.io/view/helicase-like-transcription-factor-deletion-from-t-bs5xng7n | Rebecca A Helmer, Raul Martinez-Zaguilan, Gurvinder Kaur, Lisa A Smith, Jannette M Dufour, Beverly Chilton | TITLE: Helicase-like transcription factor-deletion from the tumor microenvironment in a cell line-derived xenograft model of colorectal cancer reprogrammed the human transcriptome-S-nitroso-proteome to promote inflammation and redirect metastasis
AUTHORS: Rebecca A Helmer, Raul Martinez-Zaguilan, Gurvinder Kaur, Li... | ["[Materials and Methods]\nReagents and kits\n\t\t\t\t\t\t\t .justify:after {\n\t\t\t\t\t\t\t content: \"\";\n\t\t\t\t\t\t\t display:inline-block;\n\t\t\t\t\t\t\t width: 100%;\n\t\t\t\t\t\t\t }\n\t\t\t\t\t\t\tAbcam (Cambridge, MA) was the source of the following antibodies: mouse monoclonal (ab22506) to S100... |
77,531 | CRISPR/Cas9 in vitro assembled gene deletion protocol for Coccidioides posadasii | 4 | dx.doi.org/10.17504/protocols.io.q26g7y663gwz/v1 | https://www.protocols.io/view/crispr-cas9-in-vitro-assembled-gene-deletion-proto-cpx3vpqn | Bridget M. Barker, Ashley Itogawa, Heather Mead, Austin Blackmon, mitchellbryant | TITLE: CRISPR/Cas9 in vitro assembled gene deletion protocol for Coccidioides posadasii
AUTHORS: Bridget M. Barker, Ashley Itogawa, Heather Mead, Austin Blackmon, mitchellbryant
[DESCRIPTION]
This protocol was developed to use CRISPR/Cas9 technology to delete genes in Coccidioides posadasii. This methodology is useful... | ["Prepare all needed reagents, prepare RNP complex, prepare protoplasts on ice, warm GYES agar plates to 30C, warm 60% PEG to room temperature: see materials list for recipes and ordering information.", "Place 1.5 ml microcentrifuge tube(s) containing protoplasts and other supplies needed in BSC.\n A.Keep protop... |
96,103 | Qiagen QIAprep Spin Miniprep for cosmids from metagenomic library | 0 | dx.doi.org/10.17504/protocols.io.14egn35k6l5d/v1 | https://www.protocols.io/view/qiagen-qiaprep-spin-miniprep-for-cosmids-from-meta-c94fz8tn | Bonnie Evans | TITLE: Qiagen QIAprep Spin Miniprep for cosmids from metagenomic library
AUTHORS: Bonnie Evans
[DESCRIPTION]
Taken from QIAprep Miniprep Handbook (see attachment). Isolating cosmids from metagenomic clones for sequencing or transformations.
[BEFORE_START]
Add the provided RNase A solution to Buffer P1 before use. Use... | ["[Grow bacterial culture overnight] Make up 15 mg/mL tetracycline hydrochloride in water.", "[Grow bacterial culture overnight] Dilute 1/1000 in LB broth (final conc. 15 ug/mL).", "[Grow bacterial culture overnight] Aliquot 10 mL tetracycline LB into 50 mL Falcon tubes.", "[Grow bacterial culture overnight] Using a s... |
94,274 | SOP FOR MESOSCALE DISCOVERY ASSAYS | 4 | dx.doi.org/10.17504/protocols.io.rm7vzxd98gx1/v1 | https://www.protocols.io/view/sop-for-mesoscale-discovery-assays-c8bazsie | Malu G Tansey | TITLE: SOP FOR MESOSCALE DISCOVERY ASSAYS
AUTHORS: Malu G Tansey
[DESCRIPTION]
SOP FOR MESOSCALE DISCOVERY ASSAYS
[STEPS]
SECTION: Before Beginning:
1. Verify that all the kit contents are present in your order. Go through the included documentation to ensure all reagents were provided, and see which diluents are us... | ["[Before Beginning:] Verify that all the kit contents are present in your order. Go through the included documentation to ensure all reagents were provided, and see which diluents are used for which purpose during the assay.", "[Before Beginning:] Get out all reagents to come to room temperature. If you’re using a fre... |
48,719 | Laboratory Protocols | 4 | dx.doi.org/10.17504/protocols.io.bttpnnmn | https://www.protocols.io/view/laboratory-protocols-bttpnnmn | Lyda Pilar Salamanca-Cardozo, María-Jesus Pinazo, Lluis Armadans-Gil., Sandra Helena Suescun-Carrero | TITLE: Laboratory Protocols
AUTHORS: Lyda Pilar Salamanca-Cardozo, María-Jesus Pinazo, Lluis Armadans-Gil., Sandra Helena Suescun-Carrero
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify"><span style = "font-weight:bold;">Objective.</span><span>To e... | ["The reference diagnostic strategy utilized in the present study is based on conventional serological tests suggested by the National Parasitology Reference Laboratory of the National Health Institute (Instito Nacional de Salud, or INS) of Colombia, and is routinely used in the CD monitoring program of the LDSP. All s... |
50,221 | Binding of Rab29 to the LRRK2 Armadillo domain by Microscale Thermophoresis | 1 | dx.doi.org/10.17504/protocols.io.ewov14mn7vr2/v1 | https://www.protocols.io/view/binding-of-rab29-to-the-lrrk2-armadillo-domain-by-bvamn2c6 | Edmundo Vides, Suzanne Pfeffer | TITLE: Binding of Rab29 to the LRRK2 Armadillo domain by Microscale Thermophoresis
AUTHORS: Edmundo Vides, Suzanne Pfeffer
[DESCRIPTION]
Microscale thermophoresis (MST) is a powerful tool to measure the affinities of interactions between proteins. We present here our method for determining the binding of Rab29 GTPa... | ["[Buffer exchange isolated Proteins] Buffer: 50mM Hepes pH 8, 100mM NaCl, 5mM MgCl2, 20µM GTP, 0.2mM TCEP, 5% glycerol\n\nUse either a Nanotemper “A-Column” provided in labeling kit or (our preference) 0.5 ml Zeba Spin column 7MWCO. Twist off bottom of column and loosen cap.\nPrespin column: Centrifuge at 4°C 1500xG f... |
35,131 | Fruit fly potato culture media | null | dx.doi.org/10.17504/protocols.io.bei3jcgn | null | Jorge Frias, Nelson Simões | TITLE: Fruit fly potato culture media
AUTHORS: Jorge Frias, Nelson Simões
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Potato-based medium for culture of Drosophila melanogaster. </div></div>
[STEPS]
?. Dissolve all following ingredients in 1.1 L of distilled water:-12.9 g Dried yeast;-1 g White... | ["Dissolve all following ingredients in 1.1 L of distilled water:-12.9 g Dried yeast;-1 g White sugar;-40 g Instant mashed potato flakes;-10 g Agar;-0.875 g Ascorbic acid;", "Boil everything for 15 minutes.", "Let it cool down to 60ºC and add 8.5 mL of 10% Nipagin solution.", "Mix well and fill about 1/4 of your prefer... |
38,361 | Kinase-activity tagged (KAT) western blotting | 4 | dx.doi.org/10.17504/protocols.io.bhpzj5p6 | https://www.protocols.io/view/kinase-activity-tagged-kat-western-blotting-bhpzj5p6 | Masumi Eto, Shuichi Katsuki, Yoshinori Tanaka, Kosuke Takeya | TITLE: Kinase-activity tagged (KAT) western blotting
AUTHORS: Masumi Eto, Shuichi Katsuki, Yoshinori Tanaka, Kosuke Takeya
[STEPS]
?. [PROCEDURE]
Experiment is conducted at room temperature unless noted.
?. [PROCEDURE]
Preparation of Laemmli Gel and Laemmli samples using a conventional method.
?. [PROCEDURE]
Running t... | ["[PROCEDURE]\nExperiment is conducted at room temperature unless noted.", "[PROCEDURE]\nPreparation of Laemmli Gel and Laemmli samples using a conventional method.", "[PROCEDURE]\nRunning the SDS-PAGE with the samples (10-50µg of total lysates) and colored Mw marker and run electrophoresis.", "[PROCEDURE]\nPreparation... |
23,927 | Proteomic mapping of ER-PM junctions in living HEK293 cells | null | dx.doi.org/10.17504/protocols.io.3kxgkxn | null | Lian He, Yue-He Ding, Peng Tan, Ji Jing, Meng-Qiu Dong, Yubin Zhou | TITLE: Proteomic mapping of ER-PM junctions in living HEK293 cells
AUTHORS: Lian He, Yue-He Ding, Peng Tan, Ji Jing, Meng-Qiu Dong, Yubin Zhou
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Specialized junctional sites that connect the plasma membran... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.spnedme | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol describes how to deliver ribonucleoprotein (RNP) complexes that consist of purified Cas9 nuclease duplexed with chemically modified synthetic single guide RNA (sgRNA) to immortalized adherent cells or suspension cells. RNP delivery is accomplished using the Lonza 4... | ["[Pre-Nucleofection - Seed Cells] {\"blocks\":[{\"key\":\"bi9u4\",\"text\":\"Subculture cells 2 days before nucleofection and seed cells in an appropriately sized vessel so that they are 70-80% confluent on the day of transfection. Each nucleofection reaction will require ~1.5 x 105 cells.\\n \",\"type\":\"unstyled\",... |
73,852 | Iodine-starch sweating assay | 4 | dx.doi.org/10.17504/protocols.io.bp2l69d1klqe/v2 | https://www.protocols.io/view/iodine-starch-sweating-assay-ckc4usyw | Fanglin Lu | TITLE: Iodine-starch sweating assay
AUTHORS: Fanglin Lu
[DESCRIPTION]
This protocol outlines the procedure for assessing the sudomotor function in mice under restraint stress and under systemic pilocarpine stimulation. Both two kinds of sweating assays were based on the iodine-starch reaction.
[BEFORE_START]
Check i... | ["[Restraint stress-induced sweating] The mouse is immobilized in a self-made restraint tube.", "[Restraint stress-induced sweating] Apply 10% povidone–iodine solution to the plantar surface of bilateral hind paws with a cotton bud. Once dry, coat the skin surface with a suspension of 100% starch–castor oil.", "[Restra... |
89,166 | The Treadmill-Based Tripping Perturbation | 1 | dx.doi.org/10.17504/protocols.io.ewov1o8k7lr2/v2 | https://www.protocols.io/view/the-treadmill-based-tripping-perturbation-c3bnyime | Hui-Ting Shih, Robert Gregor, Szu-Ping Lee | TITLE: The Treadmill-Based Tripping Perturbation
AUTHORS: Hui-Ting Shih, Robert Gregor, Szu-Ping Lee
[DESCRIPTION]
The protocol utilized a side-by-side split-belt instrumented treadmill to simulate a trip-like perturbation. Compared to previously published methodologies, this new protocol is focused on delivering the... | ["[The Treadmill-Based Tripping Perturbation] Turn on VICON motion capture system and open “Vicon Nexus\".", "[The Treadmill-Based Tripping Perturbation] Make sure the force platforms are enabled and available.", "[The Treadmill-Based Tripping Perturbation] Turn on Bertec treadmill and open “Bertec treadmill\". A tread... |
45,479 | Counting Cells with a Hemocytometer | 1 | null | https://www.protocols.io/view/counting-cells-with-a-hemocytometer-bqnfmvbn | JCPrice | TITLE: Counting Cells with a Hemocytometer
AUTHORS: JCPrice
[STEPS]
?. Clean hemocytometer and cover slip
?. Dilute the resuspended cells 1:4 in fresh complete mediaOptional: Instead of media stain suspended cells with Trypan Blue (100 uL of cells 400 dye). The digital microscopes in C230 don't usually require the T... | ["Clean hemocytometer and cover slip", "Dilute the resuspended cells 1:4 in fresh complete mediaOptional: Instead of media stain suspended cells with Trypan Blue (100 uL of cells 400 dye). The digital microscopes in C230 don't usually require the Trypan Blue stain", "Fill hemocytometer with 10 ul each side cell suspen... |
85,133 | Automated combinatorial media preparation | 1 | dx.doi.org/10.17504/protocols.io.81wgbx7eylpk/v1 | https://www.protocols.io/view/automated-combinatorial-media-preparation-cxdmxi46 | Tijana Radivojevic, Matthew Incha, vblayroger, Apostolos Zournas, Stephen Tan, Hector Garcia Martin | TITLE: Automated combinatorial media preparation
AUTHORS: Tijana Radivojevic, Matthew Incha, vblayroger, Apostolos Zournas, Stephen Tan, Hector Garcia Martin
[DESCRIPTION]
Media optimization is a critical, and often overlooked, process which is essential to obtain the titers, rates and yields needed for commercial via... | ["[Calculate stock concentrations] Input: \ntotal volume of the culture (we use 1500 µL as total volume)\nstandard media recipe (e.g. )\n\nRun the notebook A_Find_Stock_Concentrations.ipynb.", "[Required equipment/labware] Destination plate:\n\n \n \n\nWater plate:\n \n\nSource plate (with stock components):", "[Choos... |
107,937 | Quick estimation of molecular weight from gel images with an ImageJ macro, MolecularWeightEstimator | 0 | dx.doi.org/10.17504/protocols.io.4r3l2qrk4l1y/v2 | https://www.protocols.io/view/quick-estimation-of-molecular-weight-from-gel-imag-dmm94496 | Kenji Ohgane | TITLE: Quick estimation of molecular weight from gel images with an ImageJ macro, MolecularWeightEstimator
AUTHORS: Kenji Ohgane
[DESCRIPTION]
This protocol shares an ImageJ macro that enables easy and quick estimation of molecular weights from gel electrophoresis images, including the agarose gel electrophoresis for ... | ["[Installation of MolecularWeightEstimator macro into ImageJ] Download the macro file (\"_MolecularWeightEstimator.ijm\") anywhere in your local disk.", "[Installation of MolecularWeightEstimator macro into ImageJ] Start ImageJ.", "[Installation of MolecularWeightEstimator macro into ImageJ] From the menu bar, select ... |
71,136 | Double Digestion | 1 | dx.doi.org/10.17504/protocols.io.yxmvm2k5og3p/v1 | https://www.protocols.io/view/double-digestion-chp8t5rw | Georgina Elisa Diego Macías, Ana Belem García González, Irán Alessandra Chaparro Rodríguez, Jair Alexis Gardea Sáenz | TITLE: Double Digestion
AUTHORS: Georgina Elisa Diego Macías, Ana Belem García González, Irán Alessandra Chaparro Rodríguez, Jair Alexis Gardea Sáenz
[DESCRIPTION]
Protocol for a Double Digestion with EcoRI & PstI
[STEPS]
2. Add2 µL of 10X Buffer (Anza)
1. Add the following material in a Eppendorf tube of 0.2 µL
3.... | ["Add2 µL of 10X Buffer (Anza)", "Add the following material in a Eppendorf tube of 0.2 µL", "1 µL of EcoRI (Anza)", "1 µL of PstI (Anza)", "Add the necessary uL of DNA for a concentration of25 ng", "Fill with H2Oultra pure up to 20 µL", "Incubate for600 min at 37°C in a thermocycler"] |
11,060 | Environmental DNA (eDNA) extraction using Qiagen DNeasy Blood and Tissue Kit | null | dx.doi.org/10.17504/protocols.io.n2udgew | null | Kristine Walz, Kevan Yamahara, Reiko Michisaki, Francisco Chavez | TITLE: Environmental DNA (eDNA) extraction using Qiagen DNeasy Blood and Tissue Kit
AUTHORS: Kristine Walz, Kevan Yamahara, Reiko Michisaki, Francisco Chavez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Nucleic acids extraction from the filters using the Qiagen DNeasy Blood and Tissue Kit with s... | ["[Preparation]\nNucleic acids were extracted from the filters using the Qiagen DNeasy Blood and Tissue Kit with some modifications to the manufacturer’s protocol.", "[Preparation]\nPrior to extraction, 0.5 mm and 0.1 mm glass beads (BioSpec Products) were ashed at 500 °C for 5 hours.", "[Preparation]\nBead tubes: 0.25... |
67,390 | Green Earth CBD Gummies Reviews | 1 | dx.doi.org/10.17504/protocols.io.36wgq782xvk5/v1 | https://www.protocols.io/view/green-earth-cbd-gummies-reviews-cd26s8he | jehey | TITLE: Green Earth CBD Gummies Reviews
AUTHORS: jehey
[DESCRIPTION]
Your endocannabinoid framework, or ECS, controls everything from unwinding to resting, eating, and, surprisingly, mental capabilities.
[STEPS]
SECTION: Green Earth CBD Gummies Reviews
1. ➢ Product Name — Green Earth CBD Gummies
➢ Composition—Natura... | ["[Green Earth CBD Gummies Reviews] ➢ Product Name — Green Earth CBD Gummies\n➢ Composition—Natural Organic Compound\n➢ Side-Effects —NA\n➢ Price — ($0.1)\n➢ Availability—Online\n➢ Rating: —⭐⭐⭐⭐⭐\n➢Official Website– https://reviewbylogix.online/xhoq\n\n \n\n\nWhat are Green Earth CBD Gummies?\nGreen Earth CBD Gummies i... |
74,184 | UPitt TriState SenNet TMC Tissue Collection | 4 | dx.doi.org/10.17504/protocols.io.yxmvm294og3p/v1 | https://www.protocols.io/view/upitt-tristate-sennet-tmc-tissue-collection-ckpguvjw | Marta Bueno, Lanping Guo, Ricardo Pineda, John Sembrat, koenigshoffm, Oliver Eickelberg | TITLE: UPitt TriState SenNet TMC Tissue Collection
AUTHORS: Marta Bueno, Lanping Guo, Ricardo Pineda, John Sembrat, koenigshoffm, Oliver Eickelberg
[DESCRIPTION]
This document outlines the tissue sampling of lung and heart specimens at the TriState SenNet TMC Biospecimen Core at the University of Pittsburgh, as part o... | ["[Preparation] Remove specimen from shipping or storage container.", "[Preparation] Place specimen inside the hood over dissection table and photograph prior to sampling.", "[Preparation] Select the sites from which samples will be collected, annotate and mark (if serial sampling is done)", "[Preparation] For lung:\nP... |
68,129 | Determination of edits in CRISPR-edited cell lines by sequencing | 1 | dx.doi.org/10.17504/protocols.io.8epv59yx5g1b/v1 | https://www.protocols.io/view/determination-of-edits-in-crispr-edited-cell-lines-cer9td96 | Thanh Ngoc Nguyen | TITLE: Determination of edits in CRISPR-edited cell lines by sequencing
AUTHORS: Thanh Ngoc Nguyen
[DESCRIPTION]
This protocol details the procedure of determination of edits in CRISPR-edited cell lines by sequencing.
[STEPS]
SECTION: Procedure
1. Harvest the CRISPR-edited cells that need to be sequenced and the cont... | ["[Procedure] Harvest the CRISPR-edited cells that need to be sequenced and the control parental cells.", "[Procedure] Amplify the region of interest (CRISPR-target region) via PCR using primers obtained when designing CRISPR construct.", "[Procedure] Run a 1 % DNA agarose gel to check if the PCR has worked.", "[Proced... |
28,899 | Starch Concentration Protocol | null | dx.doi.org/10.17504/protocols.io.8gbhtsn | null | Victor Rodriguez | TITLE: Starch Concentration Protocol
AUTHORS: Victor Rodriguez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The aim of this protocol is to extract and analyze the starch content of a plant in order to gain data into its metabolism and photosynthetic properties. </div></div>
[STEPS]
?. [Pigment E... | ["[Pigment Extraction]\nWeigh out of plant sample to be tested and add it to a 200ml beaker.\n0.25 g", "[Pigment Extraction]\nAdd of to the test tube.\n20 ml", "[Pigment Extraction]\nLet the sample/acetone suspension sit in a 200 ml beaker filled with distilled water and heat water until the of starts to boil.", "[Pi... |
48,740 | Precision Cut Lung Slices (PCLS) | 4 | null | https://www.protocols.io/view/precision-cut-lung-slices-pcls-btucnnsw | Morrisey Lab | TITLE: Precision Cut Lung Slices (PCLS)
AUTHORS: Morrisey Lab
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Precision Cut Lung Slices (PCLS) : Cutting PCLS Protocol March</span></div></div>
[STEPS] | [] |
86,475 | Olfactory Organoids | 4 | dx.doi.org/10.17504/protocols.io.14egn33zzl5d/v1 | https://www.protocols.io/view/olfactory-organoids-cypjxvkn | Alp Ozgun, Priya Suman, Josée Coulombe, Julianna Tomlinson, Earl G. Brown, John M. Woulfe, Michael G. Schlossmacher | TITLE: Olfactory Organoids
AUTHORS: Alp Ozgun, Priya Suman, Josée Coulombe, Julianna Tomlinson, Earl G. Brown, John M. Woulfe, Michael G. Schlossmacher
[DESCRIPTION]
This protocol enables obtaining 3D matrix-embedded olfactory organoids from KRT5+ olfactory horizontal basal cells. Resulting samples consist of hydrogel... | ["Lift olfactory basal cells from the culture surface by rinsing with dPBS and adding cold accutase. Incubate at 37 °C for up to 15 minutes.", "Add HBC medium equal to the volume of accutase and transfer the cells into a falcon tube. Centrifuge at 350 x g for 4 minutes and discard the supernatant. Resuspend cells in 2 ... |
109,479 | Permanent specimen preparation by protargol staining | 0 | dx.doi.org/10.17504/protocols.io.q26g71or9gwz/v1 | https://www.protocols.io/view/permanent-specimen-preparation-by-protargol-staini-dn6f5hbn | Marek Valt, Michael Kotyk | TITLE: Permanent specimen preparation by protargol staining
AUTHORS: Marek Valt, Michael Kotyk
[DESCRIPTION]
Protargol staining according to the protocol by Bodian (Bodian 1936) and later modified by Nie (Nie 1950), further optimized for staining of small flagellates.
[STEPS]
SECTION: Protargol staining optimized for... | ["[Protargol staining optimized for a small flagellates, used for staining of Solarion arienae.] Mix 1 μm of culture sediment with a drop of sterile egg albumin, on a coverslip. \nFor Solarion arienae, egg albumin was not diluted to achieve better adherence to the cells to coverslip.", "[Protargol staining optimized fo... |
47,710 | Finding insertion sequence mobilization events with ISCompare. | 5 | dx.doi.org/10.17504/protocols.io.bst6nere | https://www.protocols.io/view/finding-insertion-sequence-mobilization-events-wit-bst6nere | Ezequiel G. Mogro, Nicolas Ambrosis, Mauricio Lozano | TITLE: Finding insertion sequence mobilization events with ISCompare.
AUTHORS: Ezequiel G. Mogro, Nicolas Ambrosis, Mauricio Lozano
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Insertion sequences (ISs) are small transposable elements composed only... | ["[Introduction]\nBacteria accessory genome is composed, in its majority, of mobile genetic elements (MGE). MGEs are grouped into two classes: plasmids and bacteriophages, and transposable elements (TEs) (Siguier et al., 2014). Among the TEs, Insertion sequences (ISs) are the smallest, being only formed by a transposas... |
41,008 | Adapter ligation with AMII v2 | 1 | null | https://www.protocols.io/view/adapter-ligation-with-amii-v2-bkaqksdw | Josh Quick | TITLE: Adapter ligation with AMII v2
AUTHORS: Josh Quick
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a subprotocol for performing adapter ligation with AMII</div></div>
[STEPS]
?. In a new Eppendorf tube set up the following AMII adapter ligation reaction. AB1ComponentVolume2Barcoded a... | ["In a new Eppendorf tube set up the following AMII adapter ligation reaction. AB1ComponentVolume2Barcoded amplicon pool30 µL3NEBNext Quick Ligation Reaction Buffer (5X)10 µL4Adapter Mix (AMII)5 µL5Quick T4 DNA Ligase5 µL6Total50 µL\n1.5 µl\nAB1ComponentVolume2Barcoded amplicon pool30 µL3NEBNext Quick Ligation Reactio... |
24,368 | Extraction and purification of viruses from stream biofilms | null | dx.doi.org/10.17504/protocols.io.32qgqdw | null | Meriem Bekliz, Hannes Peter | TITLE: Extraction and purification of viruses from stream biofilms
AUTHORS: Meriem Bekliz, Hannes Peter
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This series of sequential protocols can be used to extract and purify viruses from stream biofilm samples for metagenomic analysis. We compared each... | ["[Before Starting]\nPreparations\n\t\t\t\t\t\t\t .justify:after {\n\t\t\t\t\t\t\t content: \"\";\n\t\t\t\t\t\t\t display:inline-block;\n\t\t\t\t\t\t\t width: 100%;\n\t\t\t\t\t\t\t }\n\t\t\t\t\t\t\t- 200 x TE Buffer: 2M Tris-HCl (pH 8.5) + 0.2M EDTA.- 1 x TE buffer: 10 mM Tris + 1 mM EDTA (pH 8.0).- 10 x DN... |
null | null | null | dx.doi.org/10.17504/protocols.io.uvgew3w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol refers to LVL 1 cloning with the Marburg Collection
[GUIDELINES]
This protocol refers to LVL 1 cloning with the Marburg Collection
[STEPS]
SECTION: Reaction Setup on ice
?.
SECTION: Reaction Setup on ice
?.
SECTION: Reaction Setup on ice
?.
SECTION: Reaction S... | ["[Reaction Setup on ice] Add 1 µL, 37.5 ng of 5’Connector plasmide.", "[Reaction Setup on ice] Add 1 µL, 37.5 ng of Promoter plasmide.", "[Reaction Setup on ice] Add 1 µL, 37.5 ng of RBS plasmide.", "[Reaction Setup on ice] Add 1 µL, 37.5 ng of CDS plasmide.", "[Reaction Setup on ice] Add 1 µL, 37.5 ng of Terminator p... |
82,375 | Quantifying the LAMP1 positive puncta | 4 | dx.doi.org/10.17504/protocols.io.14egn2pb6g5d/v1 | https://www.protocols.click/view/quantifying-the-lamp1-positive-puncta-cupfwvjn | Narayana Yadavalli, Shawn M. Ferguson | TITLE: Quantifying the LAMP1 positive puncta
AUTHORS: Narayana Yadavalli, Shawn M. Ferguson
[DESCRIPTION]
This is describes quantifying the LAMP1 positive puncta.
[STEPS]
SECTION: Quantifying the LAMP1 positive puncta
1. Select cells of interest with similar shapes and without saturation, and isolate single ROI.
SECT... | ["[Quantifying the LAMP1 positive puncta] Select cells of interest with similar shapes and without saturation, and isolate single ROI.", "[Quantifying the LAMP1 positive puncta] Apply auto threshold to total stacks of the images.", "[Quantifying the LAMP1 positive puncta] Estimate the number of LAMP1 positive vesicles ... |
95,223 | Multi-parameter confocal TCSPC spectroscopy analysis | 1 | dx.doi.org/10.17504/protocols.io.eq2lyjkwqlx9/v1 | https://www.protocols.io/view/multi-parameter-confocal-tcspc-spectroscopy-analys-c88xzzxn | Amber Yanas | TITLE: Multi-parameter confocal TCSPC spectroscopy analysis
AUTHORS: Amber Yanas
[DESCRIPTION]
The following outlines the analysis of data generated by multi-parameter confocal time-correlated single photon counting (TCSPC) microscopy and spectroscopy (MicroTime-200; PicoQuant, GmbH).
[STEPS]
SECTION: Conversion of .... | ["[Conversion of .ptu to .hdf5]", "[Conversion of .ptu to .hdf5] Use program: PQ_To_hdf5_All.ipynb", "[Conversion of .ptu to .hdf5] Enter pathname and run all to convert files from .ptu to .hdf5", "[Conversion of .ptu to .hdf5] A new folder will be created with these hdf5 files \na. Hint – convert to hdf5 in bulk t... |
null | null | null | dx.doi.org/10.17504/protocols.io.swvefe6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
70,255 | Nucleoside analysis with liquid chromatography–tandem mass spectrometry (LC–MS/MS) | 1 | dx.doi.org/10.17504/protocols.io.q26g7yrq1gwz/v1 | https://www.protocols.io/view/nucleoside-analysis-with-liquid-chromatography-tan-cguptwvn | Peter Thuy-Boun | TITLE: Nucleoside analysis with liquid chromatography–tandem mass spectrometry (LC–MS/MS)
AUTHORS: Peter Thuy-Boun
[DESCRIPTION]
This protocol details the detection of modified nucleosides using LC–MS/MS
[STEPS]
SECTION: Chromatography
1. Perform online separation of nucleoside mixtures using a liquid chromatography... | ["[Chromatography] Perform online separation of nucleoside mixtures using a liquid chromatography (LC) setup paired to a mass spectrometer.", "[Mass spectrometry] Acquire data using a mass spectrometer capable of MS/MS experiments (we used a Thermo LTQ Orbitrap XL outfitted with an API source, below are recommended set... |
81,758 | Nuclei Isolation from Flash Frozen Ovarian Tissue using Sucrose Gradient | 4 | dx.doi.org/10.17504/protocols.io.6qpvr4jb2gmk/v1 | https://www.protocols.click/view/nuclei-isolation-from-flash-frozen-ovarian-tissue-ct36wqre | Hong Lou, Ramya Balasubramanian, Jacqueline Maher, Veronica Gomez-Lobo | TITLE: Nuclei Isolation from Flash Frozen Ovarian Tissue using Sucrose Gradient
AUTHORS: Hong Lou, Ramya Balasubramanian, Jacqueline Maher, Veronica Gomez-Lobo
[DESCRIPTION]
High-throughput single-nuclei RNA sequencing (snRNAseq) can profile nuclear gene expression of various cell types within the ovary. In contrast ... | ["[Ovarian Tissue Preparation] In our current protocol, immediately after unilateral oophorectomy in the operating room, a 1-2 mm transverse section of the ovary (salami cut) is performed in order to include both cortex and medulla.\n\nRecommended weight of ovarian tissue per sample: 30-50 mg\nGoal number of nuclei per... |
92,734 | Counting Cells Using Cellaca MX using AO/PI | 4 | dx.doi.org/10.17504/protocols.io.bp2l6xz85lqe/v2 | https://www.protocols.io/view/counting-cells-using-cellaca-mx-using-ao-pi-c6s6zehe | Ksenija Sabic | TITLE: Counting Cells Using Cellaca MX using AO/PI
AUTHORS: Ksenija Sabic
[DESCRIPTION]
The purpose of this protocol is provide instructions on how to operate the Cellaca MX cell counter for single cell suspensions and determine viability using AO/PI Staining Solution. You can simultaneously assay up to 24 samples.
[... | ["[Prepare Software] On the Desktop, double-click the Matrix icon to launch the software.\n\nThe instrument will run through a startup sequence that includes connecting to the database and\ninitializing all the calibrations.", "[Sample Preparation & Counting] Obtain a Nexcelom Counting Plate (12x2 orientation). See... |
63,318 | TrimLab Keto Gummies Reviews - The Way to Natural and Rapid Weight Loss! | 4 | dx.doi.org/10.17504/protocols.io.36wgq7ex3vk5/v1 | https://www.protocols.io/view/trimlab-keto-gummies-reviews-the-way-to-natural-an-b93wr8pe | Trimlab Keto Gummies | TITLE: TrimLab Keto Gummies Reviews - The Way to Natural and Rapid Weight Loss!
AUTHORS: Trimlab Keto Gummies
[DESCRIPTION]
Trimlab Keto Gummies
[STEPS]
1. In the event that corpulence is negatively affecting your life and you are putting on weight quickly, then, at that point, you really want notto take worry about... | ["In the event that corpulence is negatively affecting your life and you are putting on weight quickly, then, at that point, you really want notto take worry about it any longer. An astounding item is hanging around for your salvage called TrimLab Keto Gummies which guarantees to make you thin and manage with no expens... |
null | null | null | dx.doi.org/10.17504/protocols.io.icqcavw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Please contact Dr. Steven Wilhelm (wilhelm@utk.edu) for additional information regarding this protocol.</p>
<p> </p>
<p>Modified from <span style="color: #222222; font-family: inherit; font-size: small;">Csaky</span><span style="color: #222222; font-family: inherit; font-size... | [] |
45,491 | A Combined Cell-Free Protein Synthesis and Fluorescence-Based Approach to Investigate GPCR Binding Properties | 2 | dx.doi.org/10.17504/protocols.io.bqntmven | https://www.protocols.io/view/a-combined-cell-free-protein-synthesis-and-fluores-bqntmven | Anne Zemella, Theresa Richter, Lena Thoring, Stefan Kubick | TITLE: A Combined Cell-Free Protein Synthesis and Fluorescence-Based Approach to Investigate GPCR Binding Properties
AUTHORS: Anne Zemella, Theresa Richter, Lena Thoring, Stefan Kubick
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Fluorescent labeling of de novo synthesized proteins is in particul... | [] |
22,026 | The Role of protein modification patterns in cancer and diabetes | null | dx.doi.org/10.17504/protocols.io.zrif54e | null | Cathy Miller | TITLE: The Role of protein modification patterns in cancer and diabetes
AUTHORS: Cathy Miller
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><a style = "text-decoration:underline;color:blue;cursor:pointer;"><span style = ":;">Post-translational modification</span></a><span> (PTM) refers to the cova... | [] |
98,855 | Fluorescence assay for Enterovirus coxsackievirus A16 2A protease activity measurement | 1 | dx.doi.org/10.17504/protocols.io.q26g7186qgwz/v1 | https://www.protocols.io/view/fluorescence-assay-for-enterovirus-coxsackievirus-dcsf2wbn | Charline Giroud, oleg.fedorov | TITLE: Fluorescence assay for Enterovirus coxsackievirus A16 2A protease activity measurement
AUTHORS: Charline Giroud, oleg.fedorov
[DESCRIPTION]
This protocol details the fluorescence assay for Enterovirus coxsackievirus A16 (CVA16) 2A protease activity measurement. This method is intended to measure the activity of... | ["[CVA16 2A protease IC50 Measurement] Add 50 µLof 2x protein 0.5 micromolar (µM) solution to each well containing the compounds to be tested previously dispensed onto the plate.", "[CVA16 2A protease IC50 Measurement] Incubate the mix for 60 min at Room temperature and initiate the enzymatic reaction by the addition o... |
null | null | null | dx.doi.org/10.17504/protocols.io.nntdden | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?. | [] |
33,291 | iNeuron pre-differentiation & differentiation protocol | null | dx.doi.org/10.17504/protocols.io.bcrjiv4n | null | Merissa Chen, Nina Draeger, Martin Kampmann, Kun Leng, Emmy Li, Connor Ludwig, Gregory Mohl, Avi Samelson, Sydney Sattler, Ruilin Tian | TITLE: iNeuron pre-differentiation & differentiation protocol
AUTHORS: Merissa Chen, Nina Draeger, Martin Kampmann, Kun Leng, Emmy Li, Connor Ludwig, Gregory Mohl, Avi Samelson, Sydney Sattler, Ruilin Tian
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes thedifferentiation of ... | ["[Culture iPSCs]\n{\"blocks\":[{\"data\":[],\"depth\":0,\"entityRanges\":[],\"inlineStyleRanges\":[],\"key\":\"facnv\",\"text\":\"This protocol explains general culture and maintenance of the WTc11 iPSC cell line. \",\"type\":\"unstyled\"}],\"entityMap\":[]}", "[Days -3-0: Pre-differentiation]\nMake N2 Pre-differentia... |
29,626 | BAM Alignment to CP018802 for Submission to GenBank | null | dx.doi.org/10.17504/protocols.io.862hzge | null | Gregory Harhay | TITLE: BAM Alignment to CP018802 for Submission to GenBank
AUTHORS: Gregory Harhay
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Create BAM Alignment FIles including necessary tags that designate library info for submission into the Sequence Read Archive (SRA) at NCBI. Parking the BAM file... | ["[Software Requirements]\nor another read mapper such as BowTie2", "[Download genome from GenBank]\nhttps://www.ncbi.nlm.nih.gov/nuccore/CP018802.1", "[Align reads in each sequencing run to reference (CP018802)]\nNine PacBio CCS libraries were mapped to CP018802L.17494L.17495L.17836L.18256_1L.18256_2L.18257L.19770L.19... |
29,222 | Plate cell – SELEX | null | dx.doi.org/10.17504/protocols.io.8sehwbe | null | Claudia Troncone Clemente | TITLE: Plate cell – SELEX
AUTHORS: Claudia Troncone Clemente
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Aptamers are short single-stranded oligonucleotide (DNA or RNA) molecules with the ability to bind to other molecules with high affinity and specificity. Nowadays, aptamers are used as biosen... | ["[DAY 1]\nPreparation of the inoculum", "[DAY 1]\nMicrotiter plate functionalization", "[DAY 2]\nGrowing and harvesting cells", "[DAY 2]\nSELEX INITIAL ROUND: Exposure and Screening", "[DAY 1]\nIn 1mL of LB liquid medium, resuspend the E. coli cells.Incubate it at 37 °C overnight with constant shaking at 180 rpm in a ... |
63,077 | Fiber Photometry (Mouse) | 4 | dx.doi.org/10.17504/protocols.io.b9udr6s6 | https://www.protocols.io/view/fiber-photometry-mouse-b9udr6s6 | Alexandra Nelson | TITLE: Fiber Photometry (Mouse)
AUTHORS: Alexandra Nelson
[DESCRIPTION]
This protocol describes the procedure for fiber photometry in awake behaving mice. It includes details on the surgical implantation of fibers.
[STEPS]
1. Surgery.
2. Habituation.
Habituate the mouse to tethering and the behavioral chamber for... | ["Surgery.", "Habituation.\nHabituate the mouse to tethering and the behavioral chamber for 30 minutes/day for two days prior to starting testing sessions.", "Computer and optical setup.", "Testing. \nThese steps are specific to the type of experiment you are running. For a simple pharmacological experiment, e.g. injec... |
90,905 | High-Throughput Multiplex Live-Cell Imaging of iPSC-derived neurons | 4 | dx.doi.org/10.17504/protocols.io.8epv5xdq5g1b/v1 | https://www.protocols.io/view/high-throughput-multiplex-live-cell-imaging-of-ips-c4zzyx76 | james.evans | TITLE: High-Throughput Multiplex Live-Cell Imaging of iPSC-derived neurons
AUTHORS: james.evans
[DESCRIPTION]
Live-cell high-throughput imaging of multiplexed dyes to reveal organelle dynamics (nucleus, mitochondria and lysosomes) in live iPSC-derived neurons.
[STEPS]
1. Live-cell multiplexed imaging was performed i... | ["Live-cell multiplexed imaging was performed in 96-well plates (PerkinElmer). Cortical neurons were plated at a density of 20,000 - 40,000 cells/well after at least 50 days of neural induction. Neurons were then maintained until imaging (>70 days) with twice weekly feeding.", "Cells were then washed with Hank’s balanc... |
65,911 | PEGylation Analysis and Method Verification | 6 | null | https://www.protocols.io/view/pegylation-analysis-and-method-verification-cckxsuxn | BOC Sciences | TITLE: PEGylation Analysis and Method Verification
AUTHORS: BOC Sciences
[DESCRIPTION]
BOC Sciences provides comprehensive PEGylation analysis services in terms of qualitative assessment, quantitative assessment and in vivo & in vitro characterization.
After PEGylation, conjugates will show changes in physiochem... | [] |
89,629 | Immunohistochemistry Protocol for Free-floating Fixed Tissue | 1 | dx.doi.org/10.17504/protocols.io.8epv5x3mdg1b/v1 | https://www.protocols.io/view/immunohistochemistry-protocol-for-free-floating-fi-c3r5ym86 | Jeffrey Kordower, Yaping Chu | TITLE: Immunohistochemistry Protocol for Free-floating Fixed Tissue
AUTHORS: Jeffrey Kordower, Yaping Chu
[DESCRIPTION]
Immunohistochemistry protocol for staining free-floating fixed tissue in the Kordower Laboratory.
[GUIDELINES]
HISTO- NOTES:
Primate tissue staining dishes use 100 mLsolution per dish
Rodent tissue ... | ["[DAY 1 (4 hrs)] Wash sections (6 x 10 min) in Dilution Media (DM) (0.2 Molarity (M)TBS plus 0.05 % volumeTriton X-100).", "[DAY 1 (4 hrs)] Endogenous peroxidase inhibition (20 min). 0.1 Molarity (M) Sodium meta-periodate in TBS.\n100 mL 0.2 Molarity (m)Tris-buffered saline (TBS)\n2.13 g Sodium meta-periodate", "[DAY ... |
80,496 | Biospecimen Collection Protocol | 4 | dx.doi.org/10.17504/protocols.io.bp2l696wklqe/v1 | https://www.protocols.io/view/biospecimen-collection-protocol-csuqwevw | Creative Bioarray | TITLE: Biospecimen Collection Protocol
AUTHORS: Creative Bioarray
[DESCRIPTION]
A wide variety of specimen types may be collected for storage, depending on availability and study goals, such as tissues that from autopsy and transplant, cell lines, and so on.
[GUIDELINES]
A wide variety of specimen types may be collec... | ["Serum. Coagulate whole blood at room temperature (20-25°C) for 20-30 min; 1,000 x g at room temperature for 10 min; then collect supernatant, or optionally use a serum separator. If the sample is hyperlipidemic, first centrifuge at 2-8°C 10,000 x g for 10 min to separate out the lower serum layer.\nPlasma. Choose cit... |
28,486 | Toehold testing/ PURE system protein production | null | dx.doi.org/10.17504/protocols.io.73ehqje | null | Junyan Qian | TITLE: Toehold testing/ PURE system protein production
AUTHORS: Junyan Qian
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Our Toehold switches are tested using NEB PURExpress and OnePot PURE system (our own cell-free protein expression system, search OnePot for detailed protocols). Our goal is to ... | ["Take a clean 384-well micro plate, mark the using wells on the plastic cover, when finished put the cover underneath the micro plate, the marks should be seen though the wells, so it reduces the risk of miss pipetting.", "Make OnePot premix, an supplemental step if using OnePot system and having experiments more than... |
28,024 | gDNA Extraction with QuickExtract | null | dx.doi.org/10.17504/protocols.io.7kyhkxw | https://www.protocols.io/view/gdna-extraction-with-quickextract-7kyhkxw | Eric Danner | TITLE: gDNA Extraction with QuickExtract
AUTHORS: Eric Danner
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This uses the Quick Extract solution to rapidly obtain gDNA. </div><div class = "text-block">I found this protocol on-line written by Patrick Hsu but can no longer find the original link. Th... | ["[Pellet Cells]\nCount cells if you want gDNA concentration.The quick extract interferes with the nanodrop and so quantification of gDNA is easier by adding a known volume to a known about of cells. 2N human cell = 6 pg gDNA-> 100ng is 16,000 cells. (32k alleles)For 100ul of 50ng/ul: 8,000,000 cells re-suspend in 1... |
30,360 | Modified protocol to improve Bodo saltans yield in culture. | 1 | dx.doi.org/10.17504/protocols.io.9vyh67w | https://www.protocols.io/view/modified-protocol-to-improve-bodo-saltans-yield-in-9vyh67w | Zhu-Hong Li, Fatma Gomaa, Virginia Edgcomb, Roberto Docampo | TITLE: Modified protocol to improve Bodo saltans yield in culture.
AUTHORS: Zhu-Hong Li, Fatma Gomaa, Virginia Edgcomb, Roberto Docampo
[DESCRIPTION]
This protocol is a modified version to improve the yield of Bodo saltans cell density in culture. The original protocol is: https://www.protocols.io/view/bodo-saltans-cu... | ["Prepare the bacteria-Bodo saltans medium as described in the protocol （https://www.protocols.io/view/bodo-saltans-culture-protocol-sh6eb9e）.", "Collect Bodo cells from a T25 tissue culture flask by centrifugation at 1200 x g for 6 minutes. After removing the supernatant, add deionized water to resuspend the pelleted ... |
72,044 | Preparing Reads for Stranded Mapping | 1 | dx.doi.org/10.17504/protocols.io.5qpvon2zzl4o/v7 | https://www.protocols.io/view/preparing-reads-for-stranded-mapping-cikkucuw | David A Eccles | TITLE: Preparing Reads for Stranded Mapping
AUTHORS: David A Eccles
[DESCRIPTION]
This protocol is for preparing long reads for stranded mapping, as an intermediate step for additional protocols:
Aligning strand-oriented sequences to a transcriptome for transcript / gene counting
Aligning strand-oriented sequences to ... | ["[Barcode Demultiplexing] Demultiplex reads as per protocol Demultiplexing Nanopore reads with LAST.\n\nI usually inspect the barcode_counts.txt file, and delete any barcodes that I'm not interested in:\n \n\nIf demultiplexing has been done correctly, then the following command should produce output without errors:\n ... |
90,597 | Waveform characteristics in thoracic paravertebral space: a prospective observational study | 1 | dx.doi.org/10.17504/protocols.io.14egn3mxpl5d/v2 | https://www.protocols.io/view/waveform-characteristics-in-thoracic-paravertebral-c4qdyvs6 | Amorn Vijitpavan, Sivaporn Termpornlert, Pattika Subsoontorn, Lalinthip Vareesunthorn | TITLE: Waveform characteristics in thoracic paravertebral space: a prospective observational study
AUTHORS: Amorn Vijitpavan, Sivaporn Termpornlert, Pattika Subsoontorn, Lalinthip Vareesunthorn
[DESCRIPTION]
Background: With increased use of thoracic paravertebral block (TPVB) in thoracic surgery, many faced the chall... | ["[Protocol for the study: Waveform characteristics in thoracic paravertebral space: a prospective observational study] Anesthesiology residents or fellows at Ramathibodi Hospital obtained\npreoperative information and provided informed consent. The inclusion criteria\nwere an age of 18 to 80 years and an American Soci... |
28,543 | asdsda | null | dx.doi.org/10.17504/protocols.io.747hqzn | null | Mikhail Murzin | TITLE: asdsda
AUTHORS: Mikhail Murzin
[STEPS]
?. | [] |
86,929 | Sanger Tree of Life Wet Laboratory Protocol Collection | 2 | dx.doi.org/10.17504/protocols.io.8epv5xxy6g1b/v1 | https://www.protocols.io/view/sanger-tree-of-life-wet-laboratory-protocol-collec-cy5rxy56 | Amy Denton, Halyna Yatsenko, Jessie Jay, kh, Caroline Howard | TITLE: Sanger Tree of Life Wet Laboratory Protocol Collection
AUTHORS: Amy Denton, Halyna Yatsenko, Jessie Jay, kh, Caroline Howard
[DESCRIPTION]
This is the collection of Sanger Tree of Life Wet Laboratory protocols used for the generation of reference level genome assemblies.
This collection currently contains pr... | [] |
7,290 | Seedling vigor | null | dx.doi.org/10.17504/protocols.io.jc2ciye | null | Zhenbin Hu, Geoff Morris | TITLE: Seedling vigor
AUTHORS: Zhenbin Hu, Geoff Morris
[DESCRIPTION]
<ul>
<li>Select five plots as standard: 1 (weakest) - 5 (strongest), then other plots will be scored based on the similar with which standard plot.</li>
<li>Seedling vigor is based on the size of seedling, greenness, uniformity</li>
<li>Score each p... | ["[Identify Standard Plots]\nGo through the field and identify five plots to use as standards that represent scores ranging from 1 to 5", "[Visit each plot]\nGo through the field to do seedling vigor phenotyping by compare the seedling with the standard plot", "[Score Plants]\nAssign a score between 1 and 5 to each plo... |
27,997 | Isolation of peripheral blood mononuclear cells | null | dx.doi.org/10.17504/protocols.io.7j5hkq6 | null | Devi Oktafiani | TITLE: Isolation of peripheral blood mononuclear cells
AUTHORS: Devi Oktafiani
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Peripheral blood mononuclear cells (PBMCs) are chiefly lymphocytes and monocytes. PBMCs are separated from the whole blood by a density gradient centrifugation method usin... | ["Freshly blood collected in EDTA tube", "Ficoll Histopaque (Sigma- Aldrich, catalog number: 10771; Sterile PBS", "Collect 4 ml of human venous blood sample in EDTA tube and mix well by gently inverting the tube several times.", "Take 5 ml of Ficoll Histopaque in a 15 ml centrifuge tube.", "Gently layer the blood on th... |
null | null | null | dx.doi.org/10.17504/protocols.io.ubhesj6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
How we measure the gradient of he density of 19th century post offices along North American rivers in our paper Armenter, Roc, Miklós Koren and Dávid K Nagy. “Bridges”
Method relies on maximum likelihood formula in Zhao, M., and M. Xie. 1996. “On Maximum Likelihood Estimation ... | ["[Select relevant sample of points close to linear feature] {\"blocks\":[{\"key\":\"cbfp5\",\"text\":\"Create a polygon around your linear feature by extending it a D distance either circularly or by parallel shift\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\... |
98,463 | Food Security And Self Sufficiency Program In Mo’orea | 0 | dx.doi.org/10.17504/protocols.io.n2bvjnykbgk5/v1 | https://www.protocols.io/view/food-security-and-self-sufficiency-program-in-mo-o-dcd72s9n | Nohea Rodriguez | TITLE: Food Security And Self Sufficiency Program In Mo’orea
AUTHORS: Nohea Rodriguez
[DESCRIPTION]
This research aims to investigate the impact of food dependency on local livelihoods in Mo’orea in terms of nutrition and food accessibility. Through a culturally sensitive and community-based diet program (The Mo'orea ... | ["[The Mo'orea Diet Program] Interview communities throughout Mo’orea for insight on food consumption patterns, barriers to accessing local foods, and perceptions of policy interventions.", "[The Mo'orea Diet Program] Identify key Tahitian foods and dietary practices that can be incorporated into current diet... |
99,806 | Production of AAV Virus by Iodixanol Gradient Ultracentrifugation | 1 | dx.doi.org/10.17504/protocols.io.dm6gpr8pdvzp/v4 | https://www.protocols.io/view/production-of-aav-virus-by-iodixanol-gradient-ultr-ddp625re | Allen Institute for Brain Science | TITLE: Production of AAV Virus by Iodixanol Gradient Ultracentrifugation
AUTHORS: Allen Institute for Brain Science
[DESCRIPTION]
This protocol is used to produce AAV of any serotype with high purity and high titer.
Note: Research reported in this publication was supported by the National Institute Of Mental Health o... | [] |
30,848 | Anti-BrdU Staining Using 70% Ethanol and 2N HCl | null | dx.doi.org/10.17504/protocols.io.bac8iazw | null | Sam Li | TITLE: Anti-BrdU Staining Using 70% Ethanol and 2N HCl
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Note: We offer two protocols here depending on what your experiment requires. Ethanol treatment is usually harsher toward any other fluors or fluorescent proteins that may be presen... | ["Pulse actively dividing cells with BrdU (in vitro, cell culture media can be pulsed by adding 10-40µM of BrdU for 1-2 hours).", "Harvest cells and centrifuge for 5 minutes at 1200-1500 rpm (200-300xg).", "Wash cells in 1x PBS (PBS, 10x Concentrate, Cat. No. 926201) and centrifuge for 5 minutes at 1200-1500 rpm (200-3... |
55,613 | DNA extraction from concrete | 1 | dx.doi.org/10.17504/protocols.io.b2i5qcg6 | https://www.protocols.io/view/dna-extraction-from-concrete-b2i5qcg6 | Anders Kiledal, Julia A Maresca | TITLE: DNA extraction from concrete
AUTHORS: Anders Kiledal, Julia A Maresca
[DESCRIPTION]
This is a protocol for extracting DNA from concrete, based on the protocol developed by L. S. Weyrich, et al. for extraction of DNA from ancient calcified dental plaque. We have scaled it up for larger sample sizes and made som... | ["[Sample Grinding] Wash sample holder and puck of the ring and puck mill with soap and hot water. Rinse thoroughly and dry.", "[Sample Grinding] Rinse sample holder and puck 2x with 95% ethanol.", "[Sample Grinding] Sterilize sample holder and puck under germicidal UV light for 40 min.", "[Sample Grinding] Roughly bre... |
null | null | null | dx.doi.org/10.17504/protocols.io.kbgcsjw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><span lang="EN-US" style="margin: 0px; line-height: 200%; font-family: 'Arial',sans-serif; font-size: 10pt;">ADAMTS5, the main aggrecanase</span><span lang="EN-US" style="margin: 0px; line-height: 200%; font-family: 'Arial',sans-serif; font-size: 10pt;">, is a protein that ap... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ethbej6 | null | null | TITLE: No Title
AUTHORS:
[BEFORE_START]
Autodigest Proteinase K, 25 mg/mL, at 37°C 60 min prior to use<br />Heat RNAse A, 10 mg/mL, at 80°C 10 min prior to use
[GUIDELINES]
<strong>MATERIALS:</strong> <br /><br /> 1) NC64A chlorella<br /> 2) Sterile 500 mL flasks<br /> 3) MBBM<br /> 4) 50 mM NaHPO<sub>4</sub>, pH 7.... | [] |
70,340 | Live-cell imaging: Reactive oxygen species (Superoxide) | 1 | dx.doi.org/10.17504/protocols.io.5qpvor55zv4o/v1 | https://www.protocols.io/view/live-cell-imaging-reactive-oxygen-species-superoxi-cgxctxiw | gurvir.virdi, mineechoi | TITLE: Live-cell imaging: Reactive oxygen species (Superoxide)
AUTHORS: gurvir.virdi, mineechoi
[DESCRIPTION]
This protocol contains the instruction for measuring superoxide using dihydroethidium (HEt) which allows the rate of superoxide generation to be measured which is present as the ratio of the oxidized form of t... | ["Cells are washed 1x in HBSS", "They are then incubated with 2 µM dihydroethidium (HEt; Thermo Fisher Scientific) made up in HBSS.", "Immediately after adding HEt, a field of view is found and confocal microscopy is started.", "The recording is performed using an epi-fluorescence inverted microscope equipped with 20x... |
97,417 | 2024 GenomeTrakr Proficiency Testing exercise (PulseNet Harmonized) | 1 | dx.doi.org/10.17504/protocols.io.e6nvw5m9dvmk/v8 | https://www.protocols.io/view/2024-genometrakr-proficiency-testing-exercise-puls-dbdh2i36 | Maria Balkey, Ruth Timme, Julie Haendiges, Tina Lusk Pfefer | TITLE: 2024 GenomeTrakr Proficiency Testing exercise (PulseNet Harmonized)
AUTHORS: Maria Balkey, Ruth Timme, Julie Haendiges, Tina Lusk 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 gro... | ["[Culture Preparation] Salmonella and Escherichia 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 rubber stopper from th... |
79,196 | Study Protocol: The Genetic Markers of Chronic Postsurgical Pain | 1 | null | https://www.protocols.io/view/study-protocol-the-genetic-markers-of-chronic-post-crj4v4qw | Stephan Frangakis | TITLE: Study Protocol: The Genetic Markers of Chronic Postsurgical Pain
AUTHORS: Stephan Frangakis
[DESCRIPTION]
This study will investigate the association of genetic variation with chronic postsurgical pain. Patient data will come from two single-center prospective observational cohorts, the Michigan Genomics Initia... | ["[Abstract] This study will investigate the association of genetic variation with chronic postsurgical pain. Patient data will come from two single-center prospective observational cohorts, the Michigan Genomics\nInitiative (MGI)1 and the Analgesic Outcome Study (AOS). We will employ a discovery genome-wide associatio... |
21,173 | Chlorophyll Extraction in Cyanobacteria | null | dx.doi.org/10.17504/protocols.io.ywvfxe6 | null | Nicolas Schmelling | TITLE: Chlorophyll Extraction in Cyanobacteria
AUTHORS: Nicolas Schmelling
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol should be used for chlorophyll extraction in cyanobacteria. The equation for calculating the exact chlorophyll content can be found at the end of this document.</d... | ["Take 1 ml sample of your cyanobacteria culture and spin it down at 14,000 rpm for 5 min.", "Discard 0.9 ml of the supernatant. Resuspend the pellet in the remaining 100 µl.", "Add 0.9 ml of 100% methanol to the sample and mix thoroughly by vortexing.", "Incubate the samples in the dark for 30 min at 4 °C in the fridg... |
52,517 | Latest Instagram Marketing Techniques For 2021 | 3 | dx.doi.org/10.17504/protocols.io.bxidpka6 | https://www.protocols.io/view/latest-instagram-marketing-techniques-for-2021-bxidpka6 | Amit kumar | TITLE: Latest Instagram Marketing Techniques For 2021
AUTHORS: Amit kumar
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Instagram began as an image-sharing website. Now it is a huge social media platform that can help businesses get more leads and g... | [] |
21,337 | Yale - Magnesium | null | dx.doi.org/10.17504/protocols.io.y3zfyp6 | null | John Stack, Gary Cline | TITLE: Yale - Magnesium
AUTHORS: John Stack, Gary Cline
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Procedure used to determine the concentration of magnesium in blood, serum, and plasma. Magnesium is measured as t... | ["Calibrate Cobas for Magnesium analysis by running the Magnesium Calibrator and a Water Blank.", "Sample handling as performed by the Cobas Mira Plus a) Pipette 4 µL of sample into a cuvette slot. b) Add 350 µL of Magnesium Reagent. c) Mixture is incubated at 37ºC for 10 minutes d) Absorbance is measured a... |
39,684 | Protocol for Electronic von Frey | 1 | null | https://www.protocols.io/view/protocol-for-electronic-von-frey-bizckf2w | Lani Tieu, Lauren Smith, Olivier George | TITLE: Protocol for Electronic von Frey
AUTHORS: Lani Tieu, Lauren Smith, Olivier George
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The von Frey method measures mechanical sensitivity and allodynia. This protocol outlines the procedure for assessing the mechanical sensitivity threshold in rats ... | ["[Von Frey Setup]\nRemove metal grid and clear boxes off the elevated platform", "[Von Frey Setup]\nPlace touch stimulator on testing surface and remove the needle cap", "[Von Frey Setup]\nPlace the metal grid back on the legs making sure the grid does not touch the needle", "[Von Frey Setup]\nPlace the clear boxes ba... |
37,759 | 5 uM DAPI cell staining solution | 1 | dx.doi.org/10.17504/protocols.io.bg47jyzn | https://www.protocols.io/view/5-um-dapi-cell-staining-solution-bg47jyzn | Allen Institute for Brain Science | TITLE: 5 uM DAPI cell staining solution
AUTHORS: Allen Institute for Brain Science
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is used for preparation of 5 µM DAPI cell staining solution that is applicable for staining adult mouse brain sections.</div><div class = "text-block"><spa... | [] |
94,559 | Cell Viability Assessment | 4 | dx.doi.org/10.17504/protocols.io.n92ldmd9ol5b/v1 | https://www.protocols.io/view/cell-viability-assessment-c8j7zurn | Bo Am Seo, Valina L. Dawson, Ted M. Dawson, Hanseok Ko | TITLE: Cell Viability Assessment
AUTHORS: Bo Am Seo, Valina L. Dawson, Ted M. Dawson, Hanseok Ko
[DESCRIPTION]
Assess neuronal viability.
[STEPS]
1.
Stain neurons with Hoechst 33342 (7 micromolar (µM)) and propidium iodide (PI) (2 micromolar (µM)) (Invitrogen) at 37 °C for 5 min.
2. Capture images by a microsco... | ["Stain neurons with Hoechst 33342 (7 micromolar (µM)) and propidium iodide (PI) (2 micromolar (µM)) (Invitrogen) at 37 °C for 5 min.", "Capture images by a microscope and dead cells are automatically counted by Axiovision 4.6 software (Carl Zeiss).", "Subject background signals of the control group intensity.", "Calcu... |
51,538 | Expression of MicroRNA-34c in different grades of Oral squamous cell carcinoma versus normal oral mucosa (Ex-Vivo Study) | 1 | dx.doi.org/10.17504/protocols.io.bwjspcne | https://www.protocols.io/view/expression-of-microrna-34c-in-different-grades-of-bwjspcne | Marwa Refaat Mahmoud, Shaymaa Omar Zayed, Shaimaa Ali Hamouda | TITLE: Expression of MicroRNA-34c in different grades of Oral squamous cell carcinoma versus normal oral mucosa (Ex-Vivo Study)
AUTHORS: Marwa Refaat Mahmoud, Shaymaa Omar Zayed, Shaimaa Ali Hamouda
[DESCRIPTION]
The relevance of miRNAs in cancer was related to the changes in expression patterns and recurrent ampl... | [] |
53,547 | Seawater sampling for environmental DNA metabarcoding - rocky intertidal habitats | 1 | dx.doi.org/10.17504/protocols.io.eq2lypymplx9/v1 | https://www.protocols.io/view/seawater-sampling-for-environmental-dna-metabarcod-byijpucn | Mary McElroy | TITLE: Seawater sampling for environmental DNA metabarcoding - rocky intertidal habitats
AUTHORS: Mary McElroy
[DESCRIPTION]
This protocol describes the collection of 1-L seawater samples from rocky intertidal habitats for environmental DNA (eDNA) metabarcoding. This protocol was optimized for sampling long-term rocky... | ["Wearing gloves, attach a 1L bottle to the sampling pole.", "Remove the cap and submerge the bottle in seawater at your sampling location. Be careful not to stir up sand or sediment in shallow areas. Fill the bottle completely and rinse once with seawater. Discard this rinse on the shore or sufficiently away from the ... |
null | null | null | dx.doi.org/10.17504/protocols.io.sabeaan | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Zebrafish, and other small teleosts, are used as experimental models to evaluate human pathologies, including those linked to oxidative and nitrosative stress, inflammation, and nitric oxide signaling. The protocol presents an optimized technique to quantify nitrite levels, i... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.gc3bsyn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Adapted from http://merenlab.org/2016/06/22/anvio-tutorial-v2/</p>
[BEFORE_START]
<p>The goal of this tutorial is to provide a brief overview of the anvi’o workflow for the analysis of assembly-based shotgun metagenomic data. Throughout this tutorial you will primarily learn... | [] |
62,258 | Extra Burn Keto challenge For Weight loss | 1 | dx.doi.org/10.17504/protocols.io.6qpvr6roovmk/v1 | https://www.protocols.io/view/extra-burn-keto-challenge-for-weight-loss-b82sryee | Keto Burn DX | TITLE: Extra Burn Keto challenge For Weight loss
AUTHORS: Keto Burn DX
[DESCRIPTION]
Extra Burn Keto challenge For Weight loss
[STEPS]
SECTION: Extra Burn Keto challenge For Weight loss
1. Extra Burn Keto is a breakthrough product that has been dubbed the finest weight loss alternative of the year. It contains natu... | ["[Extra Burn Keto challenge For Weight loss] Extra Burn Keto is a breakthrough product that has been dubbed the finest weight loss alternative of the year. It contains natural mixes that are helpful to the body and assist the user in achieving improved fitness in a matter of weeks. Several users have provided evidence... |
28,232 | Nerve Conduction Velocity Tests | null | dx.doi.org/10.17504/protocols.io.7tghnjw | null | Eva Feldman | TITLE: Nerve Conduction Velocity Tests
AUTHORS: Eva Feldman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">To confirm the presence of diabetic neuropathy, nerve conduction velocity (NCV) studies are performed. The ani... | ["[Settings:]\n♦ Motor tests o Duration .02 ms o Range 25 mA o low frequency filter 1 Hz o High frequency filter 10 kHz o Sensitivity 1 mV o Time 2 ms/div♦ Sensory test o Duration .02 ms o Range 25 mA o low frequency filter 1 Hz o High frequency filter 10 kHz o Sensitivity 50 μV o Time... |
90,666 | QUINT Workflow Appendix | 4 | dx.doi.org/10.17504/protocols.io.36wgq3e6klk5/v1 | https://www.protocols.io/view/quint-workflow-appendix-c4siywce | Michael X. Henderson | TITLE: QUINT Workflow Appendix
AUTHORS: Michael X. Henderson
[DESCRIPTION]
This protocol contains additional details for the modified QUINT workflow.
[STEPS]
SECTION: QuPath: Setting Stain Vectors
1. Draw a small rectangle over a characteristic DAB or hematoxylin stain.
SECTION: QuPath: Setting Stain Vectors
2. On Im... | ["[QuPath: Setting Stain Vectors] Draw a small rectangle over a characteristic DAB or hematoxylin stain.", "[QuPath: Setting Stain Vectors] On Image tab, double-click the Stain you would like to set. Click Yes on the prompt.", "[QuPath: Setting Stain Vectors] Give the new settings a unique name (Project ID). Click OK."... |
null | null | null | dx.doi.org/10.17504/protocols.io.hikb4cw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Bioinformatic approach to identifying over-represented motifs in the region framing the start codon (25 bp up and downstream) for genes annotated in the three sequenced Labyrinthulomycete genomes (<em>Aurantiochytrium limacinum, Schizochytrium aggregatum, and Aplanochytrium k... | [] |
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