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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52,986 | ChIP-qPCR in human cells | 4 | null | https://www.protocols.io/view/chip-qpcr-in-human-cells-bxy2ppye | Michael Tellier | TITLE: ChIP-qPCR in human cells
AUTHORS: Michael Tellier
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol to perform ChIP-qPCR in human cells. </div></div>
[STEPS]
?. [Day 1]
?. [Day 2]
Chromatin preparationAdd 1% formaldehyde to the cells and mix 10 minutes on a shaker at 20-25 rpm at room... | ["[Day 1]", "[Day 2]\nChromatin preparationAdd 1% formaldehyde to the cells and mix 10 minutes on a shaker at 20-25 rpm at room temperature (270.3 μl 37% formaldehyde for 10 ml of medium).Add 125 mM Glycine and mix 5 minutes on a shaker at 20-25 rpm at room temperature (625 μl 2M Glycine for 10 ml of medium).Put the ce... |
null | null | null | dx.doi.org/10.17504/protocols.io.ubcesiw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
SECTION: Collect Water
?.
SECTION: Separating particle associated (PA) and free-living microbes (FL)
?.
SECTION: Preparing for culture
?.
SECTION: Isolation of Colonies
?. | ["[Collect Water] Pre-filter the water with a 20 µm mesh net and fill a clean carboy with several liters of this <20 µm-filtered water. You are filtering 500mL, collect at least 1 liters (~30% more than needed for filtration) at this stage to ensure enough water for system flushing.", "[Separating particle associated (... |
null | null | null | dx.doi.org/10.17504/protocols.io.spuednw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>How to run <a href="https://ccb.jhu.edu/software/centrifuge" target="_blank" rel="noopener noreferrer">Centrifuge</a> <a href="https://github.com/infphilo/centrifuge/releases/tag/v1.0.4-beta" target="_blank" rel="noopener noreferrer">version 1.0.4-beta</a> (<a href="https://... | ["[Running Centrifuge on 454 datasets] {\"blocks\":[{\"key\":\"f4i3l\",\"text\":\"This protocol section uses mock communities available on iMicrobe. These mock communities are artificially generated 454 reads (10 million reads per file) using GemSim, from known composition profiles.\",\"type\":\"unstyled\",\"depth\":0,... |
90,663 | QMask Hemispheric Separation | 4 | dx.doi.org/10.17504/protocols.io.n2bvj3qdblk5/v1 | https://www.protocols.io/view/qmask-hemispheric-separation-c4sfywbn | Michael X. Henderson | TITLE: QMask Hemispheric Separation
AUTHORS: Michael X. Henderson
[DESCRIPTION]
This protocol describes QMask hemispheric separation.
[STEPS]
SECTION: QMask Hemispheric Separation
1. Open the Qmask tool and click “pick XML” and open the QuickN XML file generated in QuickNII.
SECTION: QMask Hemispheric Separation
2. ... | ["[QMask Hemispheric Separation] Open the Qmask tool and click “pick XML” and open the QuickN XML file generated in QuickNII.", "[QMask Hemispheric Separation] Enter the appropriate coordinates from the QMask Coordinates file.", "[QMask Hemispheric Separation] Click “Destination” and navigate to the QVN\\Mask folder. C... |
73,684 | Assembly: Chronic recoverable Neuropixels in mice | 1 | null | https://www.protocols.io/view/assembly-chronic-recoverable-neuropixels-in-mice-cj7uurnw | Emily A Aery Jones | TITLE: Assembly: Chronic recoverable Neuropixels in mice
AUTHORS: Emily A Aery Jones
[DESCRIPTION]
This protocol collection explains how to build a low-cost, lightweight system to implant Neuropixels 1.0 probes into mice, record during freely moving behavior, then recover the probe for future use. This protocol explai... | ["[3D print components] Build a print file for the following pieces per mouse: 1 each of body piece, back and front flex cable holders, and dome, plus 2 wings. Print 1 headstage holder per recording rig. To re-use explanted probes, print everything except for the body piece, which is permanently affixed to the probe. F... |
83,415 | iNDI Transcription Factor-NGN2 differentiation of human iPSC into cortical neurons Version 2 | 4 | dx.doi.org/10.17504/protocols.io.n2bvj3owblk5/v1 | https://www.protocols.click/view/indi-transcription-factor-ngn2-differentiation-of-cvpxw5pn | Erika Lara Flores, Andy Qi, Luke Reilly, Marianita Santiana, Michael Ward, Mark Cookson | TITLE: iNDI Transcription Factor-NGN2 differentiation of human iPSC into cortical neurons Version 2
AUTHORS: Erika Lara Flores, Andy Qi, Luke Reilly, Marianita Santiana, Michael Ward, Mark Cookson
[DESCRIPTION]
Induced pluripotent stem cell (iPSC)-derived neurons are an important tool for studying diverse types of neu... | ["[Medium Preparation] Induction Medium: \nFor day 0 to day 3\n \n Reagent Stock Final concentration Amount for 50mL of medium Knock out DMEM/F12 --------- ------- 48.5 mL N2 supplement 100X 1X 0.5 mL Non-essential amino acids (NEAA 100X ... |
28,629 | Formation of gp37 LTF needle trimers-OmpC complex | null | dx.doi.org/10.17504/protocols.io.77vhrn6 | null | Mohammad Z. Islam, Andrei Fokine, Marthandan Mahalingam, Zhihong Zhang, Carmela Garcia-Doval, Mark J. van Raaij, Michael G. Rossmann, and Venigalla B. Rao | TITLE: Formation of gp37 LTF needle trimers-OmpC complex
AUTHORS: Mohammad Z. Islam, Andrei Fokine, Marthandan Mahalingam, Zhihong Zhang, Carmela Garcia-Doval, Mark J. van Raaij, Michael G. Rossmann, and Venigalla B. Rao
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Tailed bacteriophages (phages) ... | [] |
5,338 | Transfection of Diplonemids using AMAXA Nucleofactor apparatus | null | dx.doi.org/10.17504/protocols.io.hf2b3qe | null | Binnypreet Kaur1, 2 , Drahomíra Faktorová1, 2, Priscila Peña-Diaz1 and Julius Lukeš1, 2 | TITLE: Transfection of Diplonemids using AMAXA Nucleofactor apparatus
AUTHORS: Binnypreet Kaur1, 2 , Drahomíra Faktorová1, 2, Priscila Peña-Diaz1 and Julius Lukeš1, 2
[STEPS]
?. [Program: X-001/ X-014]
Count the cells and plan to 1 nucleofection with 5x 107 cells for each construct.
?. [Program: X-001/ X-014]
Harves... | ["[Program: X-001/ X-014]\nCount the cells and plan to 1 nucleofection with 5x 107 cells for each construct.", "[Program: X-001/ X-014]\nHarvest the cells by centrifugation at 1300xg for 5 min at room temperature in Swing Bucket Rotor", "[Program: X-001/ X-014]\nResuspend the cell pellet in 100ul of AMAXA Human T- cell... |
82,702 | Microsomal membrane isolation from cell culture | 1 | dx.doi.org/10.17504/protocols.io.rm7vzbw14vx1/v1 | https://www.protocols.click/view/microsomal-membrane-isolation-from-cell-culture-cuznwx5e | rosanne.wouters, Peter Vangheluwe | TITLE: Microsomal membrane isolation from cell culture
AUTHORS: rosanne.wouters, Peter Vangheluwe
[DESCRIPTION]
Microsomal membrane isolation from cell culture
[STEPS]
SECTION: harvest cells
1. harvest cells by detachment with TrypLE Express (Gibco, 12604-021)
SECTION: harvest cells
2. pellet cells by centrifugation... | ["[harvest cells] harvest cells by detachment with TrypLE Express (Gibco, 12604-021)", "[harvest cells] pellet cells by centrifugation (5 min, 400 gavg, 4°C)", "[harvest cells] wash cell pellet in phosphate buffered saline (PBS, Sigma, D8537-500ml)", "[harvest cells] pellet cells by centrifugation (5 min, 400 gavg, 4°C... |
39,283 | Generic Protocol for Environmental Health Systematic Reviews Based on COSTER Recommendations | 1 | dx.doi.org/10.17504/protocols.io.biktkcwn | https://www.protocols.io/view/generic-protocol-for-environmental-health-systemat-biktkcwn | Paul Whaley | TITLE: Generic Protocol for Environmental Health Systematic Reviews Based on COSTER Recommendations
AUTHORS: Paul Whaley
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>A protocol template to help researchers follow the </span><a href="https://www.sciencedirect.com/science/article/pii/S0160412... | ["[Securing capacity, competencies, and tools]\nAssess the team's combined competence in conduct of a systematic review. Recommendation 1.1.1. AB1CompetencyTeam member(s) (initials)2Information science (for e.g. search strategies)3Evidence appraisal methods (i.e. risk of bias assessment)4Statistical methods5Domain or... |
33,237 | Virus purification protocol for Ehv-163 and other viruses. | null | dx.doi.org/10.17504/protocols.io.bcpvivn6 | null | Elena Yakubovskaya, Tatiana Zaliznyak, Joaquin Martinez Martinez, Gordon Taylor | TITLE: Virus purification protocol for Ehv-163 and other viruses.
AUTHORS: Elena Yakubovskaya, Tatiana Zaliznyak, Joaquin Martinez Martinez, Gordon Taylor
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Reliable protocol for virus purification is an essential step for characterization and iden... | ["Concentrate lysate 50 times by tangential flow filtration with a Vivaflow 50 cartridge (100 KDa MWCO) to decrease volume. For EhV-163 virus, the final volume was 50 ml and the final concentration was ~7 x 109EhV/ml.", "Prepare OptiPrep solutions using F/2-Si media or 150mM NaCl, 20mM HEPES pH 8.0 buffer. 1mM EDTA bu... |
62,075 | Preparation of Symbiodiniaceae for cryopreservation and laser-warming | 1 | dx.doi.org/10.17504/protocols.io.14egn7momv5d/v1 | https://www.protocols.io/view/preparation-of-symbiodiniaceae-for-cryopreservatio-b8u3rwyn | Jessica Bouwmeester, Jonathan Daly, Mariko Quinn, Mary Hagedorn | TITLE: Preparation of Symbiodiniaceae for cryopreservation and laser-warming
AUTHORS: Jessica Bouwmeester, Jonathan Daly, Mariko Quinn, Mary Hagedorn
[DESCRIPTION]
This protocol is used to prepare Symbiodiniaceae samples for cryopreservation, specifically for vitrification and laser-warming. It uses Symbiodiniacea... | ["[Preparing the Symbiodiniaceae solution for encapsulation] Transfer freshly isolated Symbiodiniaceae (as in Bouwmeester et al. 2022, doi.org/10.17504/protocols.io.b4e3qtgn) into a 50-mL Falcon tube. Add FSW if needed to reach a total volume of 50 mL.", "[Preparing the Symbiodiniaceae solution for encapsulation] Spin ... |
24,798 | Identifying barriers and solutions concerning the recruitment and retention of elderly people in clinical research: Protocol for a Systematic Review | null | dx.doi.org/10.17504/protocols.io.4f6gtre | null | Noah Forsat, Andriko Palmowski, Yannick Palmowski, Maarten Boers, Frank Buttgereit | TITLE: Identifying barriers and solutions concerning the recruitment and retention of elderly people in clinical research: Protocol for a Systematic Review
AUTHORS: Noah Forsat, Andriko Palmowski, Yannick Palmowski, Maarten Boers, Frank Buttgereit
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><spa... | ["[INTRODUCTION]\nElderly patients (commonly defined as being ≥65 years old)[1] are underrepresented in clinical trials.[2, 3] This fact makes collecting evidence-based research data about this population difficult. Even studies that report no explicit exclusion based on age do not include enough elderly people.[4] Thi... |
64,381 | Uly Keto Gummies[Reviews] Shark Tank,Ingredients,Pills Where to Buy , How to use ? | 3 | dx.doi.org/10.17504/protocols.io.81wgb6k8qlpk/v1 | https://www.protocols.io/view/uly-keto-gummies-reviews-shark-tank-ingredients-pi-ca45sgy6 | Ulyjamesuvi | TITLE: Uly Keto Gummies[Reviews] Shark Tank,Ingredients,Pills Where to Buy , How to use ?
AUTHORS: Ulyjamesuvi
[DESCRIPTION]
This oil is gotten from the hemp plant, which is a characteristic source.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.cijucm | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
102,821 | Immunofluorescence for adherent cells | 0 | dx.doi.org/10.17504/protocols.io.ewov19z5olr2/v1 | https://www.protocols.io/view/immunofluorescence-for-adherent-cells-dgnd3va6 | Alexandros C Kokotos, Tim Ryan | TITLE: Immunofluorescence for adherent cells
AUTHORS: Alexandros C Kokotos, Tim Ryan
[DESCRIPTION]
This protocol describes a method to perform immunostaining for adherent cells.
[BEFORE_START]
This protocol describes a method to perform immunofluorescence on adherent cells on coverslips. It can also be used for immun... | ["[Immunofluorescence] Fix cells with 4 % (v/v) PFA in PBS for 10 min.\nNote: Discard PFA in a special container and not in the drain.", "[Immunofluorescence] Quench PFA by using a 50 millimolar (mM) NH4Cl solution in PBS for 10 min.", "[Immunofluorescence] Permeabilize cells with 0.25 % (v/v) Triton X-100 in PBS for 1... |
65,367 | K3TO Keto Gummies Does it really work? Review After 30 Days Use | 3 | dx.doi.org/10.17504/protocols.io.4r3l2oz3pv1y/v1 | https://www.protocols.io/view/k3to-keto-gummies-does-it-really-work-review-after-cb3xsqpn | KTO Keto Gummies Reviews | TITLE: K3TO Keto Gummies Does it really work? Review After 30 Days Use
AUTHORS: KTO Keto Gummies Reviews
[DESCRIPTION]
Click Here For Official Website www.k3toketogummies.com
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.drq55v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol is from:<br /><span class="cit-auth cit-auth-type-author">Alexander WG</span><span class="cit-sep cit-sep-separator">, </span><span class="cit-auth cit-auth-type-author">Doering DT</span><span class="cit-sep cit-sep-separator">,</span><span class="cit-sep cit-sep-l... | [] |
34,994 | Opentrons COVID-19 testing (24 samples) | null | dx.doi.org/10.17504/protocols.io.beesjbee | null | Max Marrone | TITLE: Opentrons COVID-19 testing (24 samples)
AUTHORS: Max Marrone
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Opentrons and the Open Medicine Institute are developing an automated high-throughput COVID-19 testing protocol to submit to the FDA for an Emergency Use Authorization as a diagnostic.... | ["[Station A: Initial OT-2 setup]\nClean the Station A OT-2.", "[Station A: Initial OT-2 setup]\nStart pre-cooling the Temperature Module to .\n4 °C", "[Station A: Initial OT-2 setup]\nPlace the following labware on the OT-2's deck:Slot 1: An empty, sterile NEST 96 deep well plate.Slot 7: Temperature Module with Opentr... |
13,200 | THE ROLE OF OXIDANT STRESS AND GENDER IN THE ERYTHROCYTES ARGININE METABOLISM AND AMMONIA MANAGEMENT IN PATIENTS WITH TYPE 2 DIABETES | null | dx.doi.org/10.17504/protocols.io.q5qdy5w | null | Martha L. Contreras-Zentella, Lourdes Sánchez-Sevilla, Juan A. Suárez-Cuenca, Marisela Olguín-Martínez, Martha G. Alatriste-Contreras, Norberto García-García, Lorena Orozco, and Rolando Hernández-Muñoz | TITLE: THE ROLE OF OXIDANT STRESS AND GENDER IN THE ERYTHROCYTES ARGININE METABOLISM AND AMMONIA MANAGEMENT IN PATIENTS WITH TYPE 2 DIABETES
AUTHORS: Martha L. Contreras-Zentella, Lourdes Sánchez-Sevilla, Juan A. Suárez-Cuenca, Marisela Olguín-Martínez, Martha G. Alatriste-Contreras, Norberto García-García, Lorena Oroz... | ["[Biochemical Measurements]\na) Whole blood was poured directly into ice-cold perchloric acid (8% w/v, final concentration). After centrifugation, we obtained perchloric acid-extracts of serum and RBC.b) Whole blood was centrifugated to separate RBC and serum samples\nWe extract proteins from blood\nBe carefull, avoin... |
64,287 | Protocol for Systematic review based on PROSPERO guidelines (adapted) | 3 | null | https://www.protocols.io/view/protocol-for-systematic-review-based-on-prospero-g-caz7sf9n | Mathilda Featherston-Lardeux | TITLE: Protocol for Systematic review based on PROSPERO guidelines (adapted)
AUTHORS: Mathilda Featherston-Lardeux
[DESCRIPTION]
This protocol sets out the approach taken for the systematic review: the causal effect of the Chinese pilot emission trading scheme on CO2 emissions.
[STEPS] | [] |
49,778 | Protocol_mask_RCNN_CT_tensorflow | 5 | dx.doi.org/10.17504/protocols.io.buusnwwe | https://www.protocols.io/view/protocol-mask-rcnn-ct-tensorflow-buusnwwe | Ching-Juei Yang, Jing-Yao Wang | TITLE: Protocol_mask_RCNN_CT_tensorflow
AUTHORS: Ching-Juei Yang, Jing-Yao Wang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This document outlines the implementation of mask-RCNN of computed tomography under tensorflow</div><div class = "text-block"><span>This testing protocol includes the publi... | ["Protocol testing datasets were acquired from the collection of \"TCGA-LIHC\" (https://wiki.cancerimagingarchive.net/display/Public/TCGA-LIHC) of the public medical images from TCIA.", "\"dcmtojpgpngITK-v3-subfolder.py\" is designed for converting *.dcm to *.png under clinical desired window center and window level.",... |
21,279 | Yale - Alkaline Phosphatase | null | dx.doi.org/10.17504/protocols.io.yz7fx9n | null | Gary Cline, John Stack | TITLE: Yale - Alkaline Phosphatase
AUTHORS: Gary Cline, John Stack
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Procedure to measure the amount of Alkaline Phosphatase activity. Alkaline Phosphatase (ALP) activity i... | ["Calibrate Cobas for Alkaline Phosphatase Activity analysis by running two assayed control serum.", "Sample handling as performed by the Cobas Mira Plus. a) Pipette 3 µL of sample into a cuvette slot. b) Add 150 µL of Alkaline Phosphatase Reagent. c) Mixture is incubated at 37˚C and spun for 10 minutes. d)... |
95,185 | Optimizing image resolution of wyze camera trap recordings | 4 | dx.doi.org/10.17504/protocols.io.dm6gp3p38vzp/v1 | https://www.protocols.io/view/optimizing-image-resolution-of-wyze-camera-trap-re-c87rzzm6 | Billie Goolsby, Tony Chen, Daniel Shaykevich, Marie-Therese Fischer, Lauren A O'Connell | TITLE: Optimizing image resolution of wyze camera trap recordings
AUTHORS: Billie Goolsby, Tony Chen, Daniel Shaykevich, Marie-Therese Fischer, Lauren A O'Connell
[DESCRIPTION]
Improving the resolution of Wyze cameras opens up their usability in different contexts, such as observing animals in the laboratory or in fie... | ["[Camera Preparation for Modification] Using the Wyze app, focus your camera on an object that is approximately the same distance as the distance your camera will be positioned from the focal subject in your research. Using a ruler, document this ideal focal distance. It is OK if, at this point, the image on your Wyze... |
40,857 | Study Vaccine (Part 5 of Phase 3 study of Vaccine Candidate for COVID-19) | 1 | dx.doi.org/10.17504/protocols.io.bj5zkq76 | https://www.protocols.io/view/study-vaccine-part-5-of-phase-3-study-of-vaccine-c-bj5zkq76 | Chris Ockenhouse, Chris Gast, Renee Holt, Jorge Flores | TITLE: Study Vaccine (Part 5 of Phase 3 study of Vaccine Candidate for COVID-19)
AUTHORS: Chris Ockenhouse, Chris Gast, Renee Holt, Jorge Flores
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This is Part 5 of "Phase 3 randomized, double-blinded, placebo-controlled trial to evaluate the safet... | [] |
28,020 | pAmpPSBA Plasmid Map | null | dx.doi.org/10.17504/protocols.io.7kuhkww | null | Isabel Nimmo, Ellen Nisbet, Adrian Barbrook, Christopher Howe | TITLE: pAmpPSBA Plasmid Map
AUTHORS: Isabel Nimmo, Ellen Nisbet, Adrian Barbrook, Christopher Howe
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>A plasmid map for the</span><span style = "font-style:italic;"> Amphidinium carterae </span><span>pAmpPSBA construct</span></div></div>
[STEPS] | [] |
53,049 | Rapid extraction of total lipids from microalgae | 1 | null | https://www.protocols.io/view/rapid-extraction-of-total-lipids-from-microalgae-bx2zpqf6 | Yingyu Hu, Zoe V Finkel | TITLE: Rapid extraction of total lipids from microalgae
AUTHORS: Yingyu Hu, Zoe V Finkel
[DESCRIPTION]
In this protocol, total lipids from miroalgae is extracted with Folch solvent (2:1 chloroform-methanol v/v) and the addition of 5% water. Filter and cell debris is commonly removed by filtration, which is laborious... | ["[Prepare reagent] Folch solvent (CHCl3: MeOH=2:1 v/v)", "[Prepare reagent] Mix two parts of chloroform and one part of methanol in a 1 L amber bottle. Log the volume of each solvent for double checking the ratio.", "[Prepare reagent] Attach dispensette to the bottle, mix well.", "[Prepare reagent] Label bottle with M... |
null | null | null | dx.doi.org/10.17504/protocols.io.tz9ep96 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
A real-time assay for the detection of Rubella virus RNA from clinical samples. This assay was modified from a published method with oligonucleotides updated, a different kit used, and cycling times adjusted accordingly.
[GUIDELINES]
<ul>
<li>If using a different brand or mode... | ["[Oligonucleotide sequences] {\"blocks\":[{\"key\":\"7u0lp\",\"text\":\" Name \\n 5'-3'\\n \\n \\n \\n \\n \\n \\n \",\"type\":\"atomic\",\"depth\":0,\"inlineStyleRanges\":[{\"offset\":0,\"length\":59,\"style\":\"align-center\"},{\"offset\":0,\"length\":59,\"style\":\"sup\"},{\"offset\"... |
35,615 | PrimalSeq: Generation of tiled virus amplicons for MiSeq sequencing | null | dx.doi.org/10.17504/protocols.io.bez7jf9n | https://www.protocols.io/view/primalseq-generation-of-tiled-virus-amplicons-for-bez7jf9n | Nate Matteson, Nathan Grubaugh, Karthik Gangavarapu, Josh Quick, Nick Loman, Kristian Andersen | TITLE: PrimalSeq: Generation of tiled virus amplicons for MiSeq sequencing
AUTHORS: Nate Matteson, Nathan Grubaugh, Karthik Gangavarapu, Josh Quick, Nick Loman, Kristian Andersen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left"><span style = "font-weig... | ["[Generation of barcode spike-ins]\nPrepare a PCR reaction for each combination of forward and reverse primers. A master mix can be created by combining all components except the forward and reverse primers. ABC1ComponentVolume in 20 µL reactionFinal Concentration2Q5 Reaction Buffer (5x)5 µL1x3dNTPs (10 mM)0.5 µL200 ... |
103,325 | E-Gel Protocol EFGL | 0 | dx.doi.org/10.17504/protocols.io.j8nlk8mdwl5r/v1 | https://www.protocols.io/view/e-gel-protocol-efgl-dg553y86 | EagleFish GeneticsLab | TITLE: E-Gel Protocol EFGL
AUTHORS: EagleFish GeneticsLab
[DESCRIPTION]
The purpose of this protocol is to determine successful polymerase chain reaction (PCR) amplification. This is achieved by preparing PCR sample and ladder droplets, preparing the E-Gel‱ Power Snap, depositing all samples into appropriate lanes on ... | ["[WARNING] This machine uses UV that will damage your eyes if you don’t use the protective orange screen as intended.", "[Required Materials:] PCR Sample(s)\nSingle channel pipette (2-20 µL)\nPipette tips\nE-Gel 1 Kb Plus DNA Ladder\nLab grade nucleus free water\nE-Gel Agarose cassette \nPCR Product\nParafilm wax pap... |
101,124 | Purification of SRC kinase | 0 | dx.doi.org/10.17504/protocols.io.bp2l622mrgqe/v1 | https://www.protocols.io/view/purification-of-src-kinase-dezc3f2w | Elias Adriaenssens | TITLE: Purification of SRC kinase
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol details the purification of SRC kinase.
[STEPS]
SECTION: Purification
1. To purify SRC (WT or Y530F), we purchased gene-synthesized codon-optimized Src-TEV-GST in a pFastBac-Dual vector from Genscript (available from Addgene) fo... | ["[Purification] To purify SRC (WT or Y530F), we purchased gene-synthesized codon-optimized Src-TEV-GST in a pFastBac-Dual vector from Genscript (available from Addgene) for expression in insect cells. Use the constructs to generate bacmid DNA, using the Bac-to-Bac system, by amplification in DH10BacY cells 25.", "[Pur... |
55,810 | Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format | 4 | dx.doi.org/10.17504/protocols.io.6qpvr6xjpvmk/v1 | https://www.protocols.io/view/alkaline-sds-cell-lysis-of-microbes-with-acetone-p-b2raqd2e | Yan Chen, Jennifer Gin, Christopher J Petzold | TITLE: Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format
AUTHORS: Yan Chen, Jennifer Gin, Christopher J Petzold
[DESCRIPTION]
This high-throughput protocol details the steps to extract protein from Gram-negative bacteria, Gram-positive bacte... | ["[Cell lysis] Start with 10 µL of cells per well a non-skirted PCR plate (Thermo Scientific, Cat.#AB0600).", "[Cell lysis] Resuspend the cell pellet in lysis buffer on a plate mixer.", "[Neutralization and Benzonase treatment] Add 2.75 µL 1 Molarity (M) to each well.", "[Neutralization and Benzonase treatment] Add 25 ... |
27,333 | Vandy - Transverse Aortic Constriction | null | dx.doi.org/10.17504/protocols.io.6xdhfi6 | null | Lin Zhong, Jeffrey Rottman, Chee Lim | TITLE: Vandy - Transverse Aortic Constriction
AUTHORS: Lin Zhong, Jeffrey Rottman, Chee Lim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">Hypertension in man can be modeled in the mouse by introducing a constriction i... | ["Mice are anesthetized with pentobarbital (50 mg.kg, IP).", "The ventral neck and left parasternal region is shaved and disinfected with Betadine followed by 70% alcohol.", "The mouse is positioned supine on a heating pad and a small incision is made through the skin underlying the trachea.", "The trachea is exposed, ... |
36,564 | EA.hy 926 RhoA Fret with PAsssr in Flow Cytometry | null | dx.doi.org/10.17504/protocols.io.bfxujpnw | https://www.protocols.io/view/ea-hy-926-rhoa-fret-with-passsr-in-flow-cytometry-bfxujpnw | Cody Roberts | TITLE: EA.hy 926 RhoA Fret with PAsssr in Flow Cytometry
AUTHORS: Cody Roberts
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">RhoA Activation test with PAsssr and C3</div></div>
[STEPS]
?. Split EA.hy 926 RhoA Sensor Cells into each well of a 6 well Plate. (Seeding density is about 300,000 cells a... | ["Split EA.hy 926 RhoA Sensor Cells into each well of a 6 well Plate. (Seeding density is about 300,000 cells and 1.2 million at confluence. Plate around 500,000 to have cells ready to run the next day. (You will want about 75-95% confluence the day of the experiment.)", "Allow Cells to grow to 75%-95% confluence.", "D... |
19,019 | microC: A 3D virtual microenvironment for perturbation biology | null | dx.doi.org/10.17504/protocols.io.wtjfekn | null | Dimitrios Voukantsis, Kenneth Kahn, Martin Hadley, Rowan Wilson, Francesca M Buffa | TITLE: microC: A 3D virtual microenvironment for perturbation biology
AUTHORS: Dimitrios Voukantsis, Kenneth Kahn, Martin Hadley, Rowan Wilson, Francesca M Buffa
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">microC is a multiscale virtual microenvironment for perturbation biology. It enables exper... | ["[Accessing microC]\nmicroC is available via microc.org. During the first visit this step might take several seconds. This will not be the case in future visits.", "[Preparing an experiment]\nExperiments are specified via the microC main web page (Figure 1). The user may set a number of numerical parameters via slider... |
27,982 | Mix and go competent cells | null | dx.doi.org/10.17504/protocols.io.7jnhkme | null | Ben Kuipers | TITLE: Mix and go competent cells
AUTHORS: Ben Kuipers
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Mix and Go protocol for the preparation of competent E. coli cells. (This protocol is according to Zymo Research mix and Go protocol).</div></div>
[STEPS]
?. Use 0.5 ml of fresh, overnight E. coli... | ["Use 0.5 ml of fresh, overnight E. coli culture grown in LB to inoculate 50 ml ZymoBroth™ or SOB medium in a 500 ml culture flask. Shake culture vigorously (150 - 250 rpm) at the appropriate temperature* until the OD600nm is 0.4 - 0.6. (Buffer Preparation Prior to Harvesting the Cells: The Wash and Competent Buffers a... |
58,778 | Vitamins for Algal Chemostats | 3 | null | https://www.protocols.io/view/vitamins-for-algal-chemostats-b5m2q48e | Meghan Duffy | TITLE: Vitamins for Algal Chemostats
AUTHORS: Meghan Duffy
[DESCRIPTION]
This a protocol to make vitamins for algal chemostats that are used to feed Daphnia and Ceriodaphnia in the Duffy Lab.
[STEPS] | [] |
104,252 | Startle induced negative geotaxis (SING) | 0 | dx.doi.org/10.17504/protocols.io.5jyl82637l2w/v1 | https://www.protocols.io/view/startle-induced-negative-geotaxis-sing-dh2438gw | Natalie Kaempf, Uli Pech, Patrik Verstreken | TITLE: Startle induced negative geotaxis (SING)
AUTHORS: Natalie Kaempf, Uli Pech, Patrik Verstreken
[DESCRIPTION]
This protocol describes how to perform the Startle induced negative geotaxis (SING) assay. SING defects in parkinsonism fly models have previously been shown to be caused by dopaminergic impairments.
[ST... | ["[Startle induced negative geotaxis (SING)] set a specific time period during the day (e.g. Zeitgeber 3-5) to assess negative geotaxis behavior, which will be kept the same for all following experiments", "[Startle induced negative geotaxis (SING)] flies are transferred into the first tube of the apparatus without pri... |
62,739 | Automated Remote Pulse Oximetry System (ARPOS) Methodology and Protocol | 1 | dx.doi.org/10.17504/protocols.io.n2bvj6zkxlk5/v1 | https://www.protocols.io/view/automated-remote-pulse-oximetry-system-arpos-metho-b9htr36n | Pireh Pirzada, David Morrison, Gayle Doherty, Devesh Dhasmana, David Harris-Birtill | TITLE: Automated Remote Pulse Oximetry System (ARPOS) Methodology and Protocol
AUTHORS: Pireh Pirzada, David Morrison, Gayle Doherty, Devesh Dhasmana, David Harris-Birtill
[DESCRIPTION]
Participants took part in the Automated Remote Pulse Oximetry System (ARPOS) study where their vitals including heart rate and blood... | ["[Study Information and Sign Up] Participants were asked to signup for the research study using the Qualtrics consent form. All participants were required to have access to at least a Windows OS PC or an XBOX One to sign up for the study. Participants within the UK provided information regarding the equipment they had... |
100,066 | LCM-NanoPOTS workflow for spatial proteome mapping | 1 | null | https://www.protocols.io/view/lcm-nanopots-workflow-for-spatial-proteome-mapping-ddya27se | Yumi Kwon, Ernesto S Nakayasu, WEI-JUN QIAN, Ying Zhu, Ljiljana.PasaTolic | TITLE: LCM-NanoPOTS workflow for spatial proteome mapping
AUTHORS: Yumi Kwon, Ernesto S Nakayasu, WEI-JUN QIAN, Ying Zhu, Ljiljana.PasaTolic
[DESCRIPTION]
Spatial proteomics holds great potential to transform our understanding of the role of cell populations and their spatial organizations in human tissues related to ... | ["[Laser capture microdissection (LCM)] Before cut and collection: Load DMSO as capturing media on the nanoPOTS chip", "[Laser capture microdissection (LCM)] Set the nanoPOTS robot to be ready (Temperature, humidity).", "[Laser capture microdissection (LCM)] Align the nanoPOTS chip.", "[Laser capture microdissection (L... |
39,905 | SOLUTION- 11 - CD4+T cells isolation buffer | 3 | dx.doi.org/10.17504/protocols.io.bi79khr6 | https://www.protocols.io/view/solution-11-cd4-t-cells-isolation-buffer-bi79khr6 | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: SOLUTION- 11 - CD4+T cells isolation buffer
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[STEPS] | [] |
87,006 | Simple Seed-vacuum Protocol for Agrobacterium-mediated Virus Induced Gene Silencing (VIGS) in Sunflower Helianthus annuus L. | 4 | dx.doi.org/10.17504/protocols.io.261ged56dv47/v1 | https://www.protocols.io/view/simple-seed-vacuum-protocol-for-agrobacterium-medi-cy76xzre | Majd Mardini, Mikhail Kazantsev, Elina Ivoilova, Victoria Utkina, Anastasia Vlasova, Ilya Kirov | TITLE: Simple Seed-vacuum Protocol for Agrobacterium-mediated Virus Induced Gene Silencing (VIGS) in Sunflower Helianthus annuus L.
AUTHORS: Majd Mardini, Mikhail Kazantsev, Elina Ivoilova, Victoria Utkina, Anastasia Vlasova, Ilya Kirov
[DESCRIPTION]
Virus-Induced Gene Silencing (VIGS) stands out as one of the most po... | ["[Infiltration suspension preparation] Streak previously prepared glycerol stocks of agrobacterium carrying the required VIGS constructs (TRV1 and TRV2) on agar-LB plates. For each plate: 20 mL LB medium + 1% agar + 50 μg/mL kanamycin + 10 μg/mL gentamycin + 100 μg/mL rifampicin.", "[Infiltration suspension preparatio... |
31,030 | Long term effect of Aldicarb on C. elegans | null | dx.doi.org/10.17504/protocols.io.baiwicfe | null | Priota Islam | TITLE: Long term effect of Aldicarb on C. elegans
AUTHORS: Priota Islam
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><ul style = "list-style-type:disc;"><li style = "counter-reset:ol0;list-style-type:disc;">Aldicarb is a cholinesterase inhibitor which prevents the breakdown of acetylcholine in th... | ["Bleach synchronize the worms on a Friday", "Following Monday, seed 4 maintenance plates with OP50 and dry under hood", "Add 150ul of Aldicarb solution to the 4-maintenance plate to reach a final concentration of 3uM and leave to absorb overnight", "The following day (Tuesday), refeed the arrested L1s on the treatment... |
null | null | null | dx.doi.org/10.17504/protocols.io.jqzcmx6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>We established a method for parallel, large scale analysis of multiple phytoplankton sinking rates through top-view monitoring of chlorophyll <em>a</em> fluorescence in microtitre well plates. We verified the method through experimental analysis of known factors that influenc... | [] |
23,566 | Adult mouse kidney dissociation (on ice) | null | dx.doi.org/10.17504/protocols.io.29ngh5e | null | Andrew Potter | TITLE: Adult mouse kidney dissociation (on ice)
AUTHORS: Andrew Potter
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for adult (8-10 week) mouse kidney dissociation performed on ice to reduce artifact gene expression. The first layer, consisting of collagenase digestion, breaks down the t... | ["[Isolate kidney]\nTransport kidney in ice-cold PBS.", "[Isolate kidney]\nUsing razor blade, mince biopsy for ~2 min until fine paste on petri dish on ice.\n[mince on ice]", "[Layer 1]\nWeigh out 18 mg of minced kidney onto petri dish. Transfer to 1.5 mL tube with 1 mL of collagenase enzyme mix on ice.\n[minced kidney... |
77,636 | Library preparation (dsDNA single indexing, full-UDG, no split) | 1 | dx.doi.org/10.17504/protocols.io.yxmvm2qj6g3p/v1 | https://www.protocols.io/view/library-preparation-dsdna-single-indexing-full-udg-cp3cvqiw | Marcel Keller, Christiana L Scheib | TITLE: Library preparation (dsDNA single indexing, full-UDG, no split)
AUTHORS: Marcel Keller, Christiana L Scheib
[DESCRIPTION]
Protocol for the preparation of single indexed double-stranded DNA libraries for Illumina sequencing, optimized for ultra-short ancient DNA molecules, modified from Meyer & Kircher (2010) Co... | ["[Blunt End Repair 1] Use 1.5 ml ER tube to set up the Blunt End Repair Master Mix on ice .", "[Blunt End Repair 1] Add 20 µl Master Mix to each tube of the ER strip.", "[Blunt End Repair 1] Vortex and spin down DNA extracts, add 25 µl of template DNA or water to each tube.", "[Blunt End Repair 1] Mix carefully by res... |
48,860 | VarioMax Cube CN SOP | 1 | null | https://www.protocols.io/view/variomax-cube-cn-sop-btx4npqw | USDA | TITLE: VarioMax Cube CN SOP
AUTHORS: USDA
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">VarioMax Cube CN SOP.</div></div>
[STEPS]
?. [System Startup]
If the VarioMax is sleeping, the temperature and pressure status view should be as shown below:Zero input and output pressure, and zero He and O2 f... | ["[System Startup]\nIf the VarioMax is sleeping, the temperature and pressure status view should be as shown below:Zero input and output pressure, and zero He and O2 flow. Column temperatures should be:Combustion: 900CPost-combustion: 900CReduction: 830C", "[System Startup]\nSet gas pressures:", "[System Startup]\nVeri... |
null | null | null | dx.doi.org/10.17504/protocols.io.mmic44e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol describes how to knockout mammalian non-coding RNA genes through excision of an epigenetic transcriptional start site (TSS) signature. To this end two guideRNAs are cloned onto the pX458 CRISPR vector to induce DNA cleavage right up- and downstream of the TSS el... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.sjfecjn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>Background </strong></p>
<p>Vesicovaginal fistula is a debilitating condition resulting from prolonged obstructed labor. Globally, at least 2 million women are estimated to be living with fistula with about 50,000 to 100,000 new cases each year. More than 90% of the g... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.c7sznd | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol is based on RT Noble and JA Fuhrman (1998) Aquatic Microbial Ecology 12:113-118: Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria.
[GUIDELINES]
<p><strong>Old Procedure<br /><br /></strong>1.) Make dilution of virus prep in... | [] |
25,213 | How to Culture Human Bronchial Epithelial Cells as Airway Organoids | null | dx.doi.org/10.17504/protocols.io.4u5gwy6 | null | STEMCELL Technologies | TITLE: How to Culture Human Bronchial Epithelial Cells as Airway Organoids
AUTHORS: STEMCELL Technologies
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Human bronchial epithelial cells (HBECs) are typically cultured at the air-liquid interface (ALI) to functionally recapitulate the human airway. A... | ["[Preparation of Reagents and Materials]\nPrepare PneumaCult™-ALI Complete Base Medium by adding 50 mL PneumaCult™-ALI 10X Supplement to 450 mL PneumaCult™-ALI Basal Medium. This Complete Base Medium can be aliquoted and stored at -20°C for up to 6 months. Avoid additional freeze/thaw cycles.\nNote: the PneumaCult™-AL... |
39,147 | p53 immunohistochemistry protocol | 1 | dx.doi.org/10.17504/protocols.io.bigjkbun | https://www.protocols.io/view/p53-immunohistochemistry-protocol-bigjkbun | Ratha-Korn Vilaichone, Natsuda Aumpan | TITLE: p53 immunohistochemistry protocol
AUTHORS: Ratha-Korn Vilaichone, Natsuda Aumpan
[STEPS]
?. Deparaffinize and rehydrate sections:Incubate 3 times in xylene for 5 minutes each.Incubate 3 times in 100% Ethanol for 5 minutes each.Hydrate by placing in 90%, 80% ethanol for 5 minutes each.Immerse slides in tap wate... | ["Deparaffinize and rehydrate sections:Incubate 3 times in xylene for 5 minutes each.Incubate 3 times in 100% Ethanol for 5 minutes each.Hydrate by placing in 90%, 80% ethanol for 5 minutes each.Immerse slides in tap water for 5 minutes.", "Sodium Citrate Antigen Retrieval:a. Place rack in Sodium Citrate buffer (10 mM,... |
59,697 | Automated DNA template preparation and quantitation methods | 3 | dx.doi.org/10.17504/protocols.io.j8nlkk8rdl5r/v1 | https://www.protocols.io/view/automated-dna-template-preparation-and-quantitatio-b6irrcd6 | Jane Romantseva, David Ross, Nina Alperovich, Elizabeth Strychalski | TITLE: Automated DNA template preparation and quantitation methods
AUTHORS: Jane Romantseva, David Ross, Nina Alperovich, Elizabeth Strychalski
[DESCRIPTION]
Concentrated, intact, and biologically-active DNA templates are essential for protein production using cell-free expression. We present automated methods for... | [] |
31,143 | Quantification of the effect of gastric electrical stimulation location on circulating blood hormone levels | 1 | dx.doi.org/10.17504/protocols.io.4r3l2825pl1y/v1 | https://www.protocols.io/view/quantification-of-the-effect-of-gastric-electrical-banfidbn | Terry Powley, Zhenjun Tan, Matthew Ward, J Paul Robinson | TITLE: Quantification of the effect of gastric electrical stimulation location on circulating blood hormone levels
AUTHORS: Terry Powley, Zhenjun Tan, Matthew Ward, J Paul Robinson
[DESCRIPTION]
This protocol describes a process for the quantification of electrical stimulation-induced effects on circulating blood horm... | ["[Animals] Two‐to four‐month‐old male and female rats were housed in vented rack cages in an Association for Assessment and Accreditation of Laboratory Animal Care‐approved temperature (22–24 °C) and humidity (40–60%) controlled colony room. The room was maintained on a 12‐hour light–dark schedule. Pelleted chow and ... |
27,502 | UC Davis - Metabolomics: Primary metabolites by GC-TOF MS | null | dx.doi.org/10.17504/protocols.io.64nhgve | null | Oliver Fiehn | TITLE: UC Davis - Metabolomics: Primary metabolites by GC-TOF MS
AUTHORS: Oliver Fiehn
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Description of standard setting for analysis of derivatized samples ready for injec... | ["A General parameters for GC-TOF MS profiling for primary metabolism Injection with Gerstel Cold Injection system and Agilent 7890A gas chromatograph: • Method Name: “quick_Splitless_ms_alex” • Injector: Gerstel MPS/CIS injector • Injector Mode: Splitless • Purge Time: 25 sec • Purge Flow: 40mL/min • Injector Vol: ... |
null | null | null | dx.doi.org/10.17504/protocols.io.pqgdmtw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div>
<div>
<p>Basic protocol to plate Human Embryonic Kidney 293 (HEK293) cells in to 12 well plates. This protocol can be modified easily to plate in different volumes and concentrations. </p>
</div>
</div>
[BEFORE_START]
<p>Make complete DMEM:</p>
<p> </p>
<table width="312"... | [] |
86,920 | General Fungal DNA Extraction | 4 | null | https://www.protocols.io/view/general-fungal-dna-extraction-cy5gxy3w | Angie Macias, Matthew T Kasson, Brian Lovett | TITLE: General Fungal DNA Extraction
AUTHORS: Angie Macias, Matthew T Kasson, Brian Lovett
[DESCRIPTION]
This is a routine protocol for extracting DNA from various fungi. This extraction method is suitable for follow-up molecular work such as PCR amplification.
[STEPS]
SECTION: Before you begin
1. Turn on hot water b... | ["[Before you begin] Turn on hot water bath, set to 65 °C.", "[Before you begin] Pull two Eppendorf 1.5 mL centrifuge tubes per sample.", "[Before you begin] Label both sets of tubes with (short) sample names.", "[Before you begin] Label one tube set for each sample with an \"I\" for .", "[Before you begin] Add 200 µL... |
45,922 | Immunophenotyping for NHPs, containment protocol | 4 | dx.doi.org/10.17504/protocols.io.x54v9j2b1g3e/v1 | https://www.protocols.io/view/immunophenotyping-for-nhps-containment-protocol-bq4amyse | Jonathan Audet, Courtney Meilleur | TITLE: Immunophenotyping for NHPs, containment protocol
AUTHORS: Jonathan Audet, Courtney Meilleur
[DESCRIPTION]
This is a protocol used to perform immunophenotyping of whole blood (collected in EDTA tubes) or cells from bronchoalveolar lavage (BAL). We have successfully used this protocol for rhesus macaques, cynom... | ["[Preparations] Prepare the staining mix. (for 1 sample:)\n\n \n Supplier Antibody Clone Channel Volume per test BD Biosciences CD45 D058-1283 BUV395 1.25 BD Biosciences CD3 SP34-2 BUV496 5 BD Biosciences CD8 RPA-T8 BUV563 1.25 BD Biosciences CD16 3G8 BUV737 5 BD Bioscie... |
44,781 | Profiling metazoan transcription genome-wide with nucleotide resolution using NET-seq (native elongating transcript sequencing) | 4 | dx.doi.org/10.17504/protocols.io.bpymmpu6 | https://www.protocols.io/view/profiling-metazoan-transcription-genome-wide-with-bpymmpu6 | Danya Martell, Robert Ietswaart, Brendan M. Smalec, Stirling Churchman | TITLE: Profiling metazoan transcription genome-wide with nucleotide resolution using NET-seq (native elongating transcript sequencing)
AUTHORS: Danya Martell, Robert Ietswaart, Brendan M. Smalec, Stirling Churchman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Quantifying crucial steps in gene re... | ["[2.1 Preparation of buffers and working area for cellular fractionation.]", "[2.1 Preparation of buffers and working area for cellular fractionation.]", "[3.4.6 Size select cDNA and gel extraction (Figure 3)]\nPrepare the DNA control ladder. Add 1.0 µl of DNA control ladder to 9 µl of RNase-free H2O. Add 10 µl of 2× ... |
49,831 | IPA assembly for Hifi PacBio reads | 1 | dx.doi.org/10.17504/protocols.io.buwfnxbn | https://www.protocols.io/view/ipa-assembly-for-hifi-pacbio-reads-buwfnxbn | a.kharabianmasouleh , Priyanka Sharma, Robert Henry | TITLE: IPA assembly for Hifi PacBio reads
AUTHORS: a.kharabianmasouleh , Priyanka Sharma, Robert Henry
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is regarding the assembly of plant genomes using HiFi data (PacBio Sequel II) using Improved Phase Assembly (IPA) tool.</div></div>
[S... | ["Steps to generate the genome assembly of different plant species using IPA (Improved phased assembly): 1) ccs.bam files generated by PacBio Sequel II (Hifi) platform for all the plant species were used to assemble the genome using IPA tool.2) IPA was installed 2) IPA was initiated using Conda environment"] |
null | null | null | dx.doi.org/10.17504/protocols.io.s6cehaw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p> </p>
<ul>
<li><em>B. saltans</em> cells were electroporated using a square-wave electroporator (Nepa21, Bulldog Bio, Inc.) using one poring pulse of 200 volts with a pulse duration of 25 ms and five transfer pulses of 60 volts with a pulse duration of 99 ms, with plasmid tar... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.etqbemw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This mock protocol is a fun description of the steps one might undertake to train for a one-way mission to the planet Mars. The One-Way mission concept is gaining popularity due to it's simpler approach and lower cost. Rather than expend effort to bring back the Marstronauts, ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.f22bqge | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Create a script that is the reverse of ‘cat’ in that it will print the lines from a given input file in reverse order:</p>
<pre><code>$ cat input.txt
foo
bar
baz
quux
$ ./tac.pl6 input.txt
quux
baz
bar
foo
</code></pre>
<p>The script should accept a single unnamed “input” arg... | [] |
80,332 | Characterization of Splay Characteristics of Carbon Fiber Electrode Threads (CFETs) in Agar Brain Phantom | 1 | dx.doi.org/10.17504/protocols.io.kxygx9b5zg8j/v1 | https://www.protocols.io/view/characterization-of-splay-characteristics-of-carbo-cspkwdkw | Helen N Schwerdt, Michael J Cima, Ann M Graybiel | TITLE: Characterization of Splay Characteristics of Carbon Fiber Electrode Threads (CFETs) in Agar Brain Phantom
AUTHORS: Helen N Schwerdt, Michael J Cima, Ann M Graybiel
[DESCRIPTION]
Methods to measure deflection characteristics of carbon fiber electrodes in agar brain phantoms are described.
[STEPS]
1. The spatial... | ["The spatial insertion profiles of the electrodes were emulated by inserting individual electrodes into transparent agar phantoms where electrode trajectories could be visualized. We characterized electrodes with two different types of tip profiles: flame-etched tips displaying a conical carbon fiber (CF) end profile,... |
43,750 | Colony PCR | 1 | dx.doi.org/10.17504/protocols.io.bnyemfte | https://www.protocols.io/view/colony-pcr-bnyemfte | Zhujun Wei | TITLE: Colony PCR
AUTHORS: Zhujun Wei
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This PCR method can be used to screen for inserted target genes or DNA sequencing analysis.</div></div>
[STEPS]
?. Pick colonies as the template for colony PCR. The number picked for each plate depends on the diff... | ["Pick colonies as the template for colony PCR. The number picked for each plate depends on the difference between the positive and negative controls. AB12×high Taq Master Mix (Enzyme)5 μl2Template1 μl3Forward Primer (10 μM)0.4μl4Reverse Primer (10 μM)0.4 μl5ddH2O3.2 μlFill the rest with water.\nAB12×high Taq Master M... |
49,062 | Human Islet Isolation Media Preparation | 1 | dx.doi.org/10.17504/protocols.io.bt6enrbe | https://www.protocols.io/view/human-islet-isolation-media-preparation-bt6enrbe | James Lyon, Aliya Spigelman, Jocelyn E Manning Fox, Patrick Macdonald | TITLE: Human Islet Isolation Media Preparation
AUTHORS: James Lyon, Aliya Spigelman, Jocelyn E Manning Fox, Patrick Macdonald
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes the preparation of various media formulations required for the isolation and culture of human is... | ["[ HBSS (perfusion, rinse, priming solution), M199 (wash solution) and EMEM (dilution solution)]\nABCDE1Hank's Balanced Salt Solution - HBSS (perfusion, rinse, priming solutions) (10L)2ReagentConcentrationWeight/VolumeSupplierCatalogue #3HBSS Powder9.51 g/L1 bottleMediatech/Corning55-022-PB4CaCl2 (anhydrous)3.60 mM4.0... |
null | null | null | dx.doi.org/10.17504/protocols.io.fajbicn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>BiMat: a MATLAB package to facilitate the analysis of<br />bipartite networks.<br /> <br />Extensive documentation, code, and worked examples available on:<br /> <br />http://bimat.github.io</p>
<p> </p>
<p>The datasets included with the package include phage-bacterai infecti... | [] |
20,332 | U Mass - Resistin | null | dx.doi.org/10.17504/protocols.io.x4kfquw | null | Jason Kim | TITLE: U Mass - Resistin
AUTHORS: Jason Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This experiment provides the quantification of multiple hormones using multiplexed-Luminex technology based on beads containin... | ["Add 200 µL of Assay Buffer into each well of the plate. Seal and mix on a plate shaker for 10 minutes at room temperature (20-25°C).", "Decant Assay Buffer and remove the residual amount from all wells by inverting the plate and tapping it smartly onto absorbent towels several times.", "Add 10 µL of appropriate matr... |
104,394 | Craniotomy, and Second and Third Phase Implantation to Complete Two-Part Chamber System | 0 | dx.doi.org/10.17504/protocols.io.x54v92wd4l3e/v1 | https://www.protocols.io/view/craniotomy-and-second-and-third-phase-implantation-dh7i39ke | Jiwon Choi, Usamma Amjad, Helen N Schwerdt | TITLE: Craniotomy, and Second and Third Phase Implantation to Complete Two-Part Chamber System
AUTHORS: Jiwon Choi, Usamma Amjad, Helen N Schwerdt
[DESCRIPTION]
This protocol describes how to install the second or third phase of the two-part chamber system, as well as the craniotomy. The first baseplate installation i... | ["[Craniotomy, and Second and Third Phase Implantation to Complete Two-Part Chamber System] Procedures were performed on Rhesus monkeys (n = 2) and were approved by the Institute’s Animal Care and Use Committee (IACUC) at the University of Pittsburgh and were performed following the Guide for the Care and Use of Labora... |
18,933 | School environmental contamination of methicillin-sensitive Staphylococcus aureus as an independent risk factor for nasal colonization in schoolchildren: an observational, cross-sectional study protocol | null | dx.doi.org/10.17504/protocols.io.wqvfdw6 | null | Jialing Lin, Zhenjiang Yao | TITLE: School environmental contamination of methicillin-sensitive Staphylococcus aureus as an independent risk factor for nasal colonization in schoolchildren: an observational, cross-sectional study protocol
AUTHORS: Jialing Lin, Zhenjiang Yao
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div c... | ["[Setting and study design ]\nThis multistage stratified cluster cross-sectional study was conducted from March to August 2016 in eight elementary schools in Guangzhou, China. Schoolchildren were randomly selected using a multistage stratified cluster sampling design. Firstly, we randomly selected three administrativ... |
51,017 | Wisecaver Lab algal RNA extraction protocol using Ambion TRI Reagent | 4 | dx.doi.org/10.17504/protocols.io.bv3hn8j6 | https://www.protocols.io/view/wisecaver-lab-algal-rna-extraction-protocol-using-bv3hn8j6 | Robert Auber, Grace Estep, Jennifer H Wisecaver | TITLE: Wisecaver Lab algal RNA extraction protocol using Ambion TRI Reagent
AUTHORS: Robert Auber, Grace Estep, Jennifer H Wisecaver
[DESCRIPTION]
Modified protocol for extracting RNA from the haptophyte Prymnesium parvum using Ambion Tri Reagent.
Original protocol with toubleshooting .
[STEPS]
SECTION: Homogen... | ["[Homogenization and RNA extraction (ALL WORK DONE IN THE CHEMICAL FUME HOOD)] Warm the frozen centrifuge tube by cupping the area around the pellet in the palm of your hand. As soon as you see the edges of the pellet beginning to melt, add 1 mL TRI Reagent. Pipet up and down to dislodge pellet, and transfer to a 1.5... |
33,938 | Digestion for BioBrick Assembly Kit (E0546) | 1 | dx.doi.org/10.17504/protocols.io.bddsi26e | https://www.protocols.io/view/digestion-for-biobrick-assembly-kit-e0546-bddsi26e | New England Biolabs | TITLE: Digestion for BioBrick Assembly Kit (E0546)
AUTHORS: New England Biolabs
[DESCRIPTION]
This protocol explains methods for assembling multi-compontent genetic systems using BioBrick® parts.
[BEFORE_START]
The BioBrick® Assembly Kit was developed in partnership with Ginkgo BioWorks. What follows is an abbrev... | ["Digest Upstream Part with EcoRI-HF® and SpeI:", "Digest Downstream Part with XbaI and PstI:", "Digest the Destination Plasmid with EcoRI-HF® and PstI:", "Incubate all three restriction digest reactions at 37 °C for 10 min.", "Heat inactivate at 80 °C for 20 min."] |
92,375 | Standard Operating Procedure for karyotyping non-model organisms | 3 | dx.doi.org/10.17504/protocols.io.14egn3r9pl5d/v1 | https://www.protocols.io/view/standard-operating-procedure-for-karyotyping-non-m-c6fxzbpn | Ana Riesgo, marietaconejero, C.DiNizo, Jonas Astrin, cira.martinez, Tomás Marqués-Bonet | TITLE: Standard Operating Procedure for karyotyping non-model organisms
AUTHORS: Ana Riesgo, marietaconejero, C.DiNizo, Jonas Astrin, cira.martinez, Tomás Marqués-Bonet
[DESCRIPTION]
The SOP we developed for karyotyping non-model organism is a combination of several
protocols, with modifications (see references in doc... | [] |
89,558 | Respiratory rate (microCT) | 1 | dx.doi.org/10.17504/protocols.io.6qpvr3mm2vmk/v1 | https://www.protocols.io/view/respiratory-rate-microct-c3pwympe | Núria Peñuelas | TITLE: Respiratory rate (microCT)
AUTHORS: Núria Peñuelas
[DESCRIPTION]
Respiratory rate (microCT) measurement in mice
[STEPS]
1. For the scanning procedure, anestethize the animals with isoflurane (5% induction phase, 1% maintenance). Set the air flow to 0.8l/min.
2. Define parameters for image acquisition (field of... | ["For the scanning procedure, anestethize the animals with isoflurane (5% induction phase, 1% maintenance). Set the air flow to 0.8l/min.", "Define parameters for image acquisition (field of view: 73 mm, acquisition time: 2 min, current voltage:70 mV, and amperage:200 uA).", "Determine respiration frequency using micro... |
103,539 | Striatal sections immunofluorescence and analysis | 0 | dx.doi.org/10.17504/protocols.io.n2bvjnpmxgk5/v1 | https://www.protocols.io/view/striatal-sections-immunofluorescence-and-analysis-dhct32wn | Chuyu Chen | TITLE: Striatal sections immunofluorescence and analysis
AUTHORS: Chuyu Chen
[DESCRIPTION]
Previous studies have shown that the phosphorylation of ribosomal protein S6 (p-rpS6) at S235/236 residues increases in iSPNs in response to haloperidol activation. This phosphorylation is cAMP/PKA dependent, which is the canoni... | ["[Immunostaining] Drd2-eGFP mice crossed with LRRK2-GS KI and control littermates were treated as indicated and perfused with 50 ml of PBS", "[Immunostaining] Mice were perfused with 4% paraformaldehyde in PBS.", "[Immunostaining] Brains were dehydrated with 30% sucrose in PBS for 48hrs and cut coronally (30 μm) by cr... |
103,639 | Z-Loc 4: The Standardized 4 dpf Zebrafish (Danio rerio) Larval Light/Dark Locomotion Protocol | 0 | dx.doi.org/10.17504/protocols.io.n2bvjnpkngk5/v1 | https://www.protocols.io/view/z-loc-4-the-standardized-4-dpf-zebrafish-danio-rer-dhfx33pn | Courtney Hillman, James Kearn, Matthew Parker | TITLE: Z-Loc 4: The Standardized 4 dpf Zebrafish (Danio rerio) Larval Light/Dark Locomotion Protocol
AUTHORS: Courtney Hillman, James Kearn, Matthew Parker
[DESCRIPTION]
Zebrafish (Danio rerio) are a dynamic model organism, the larval stage (≤ 4 days post-fertilization (dpf)) of which offers a unique avenue for high-t... | ["[Habituation to New Environment] At 8:30 am, transfer the Petri dishes of 4 dpf larvae from the fish facility holding room to the experimental room and place in a benchtop incubator set at 28 °C for 30 min of acclimating in the light.", "[Habituation to New Environment] Immediately after starting habituation, switch... |
37,523 | Assessment of Cas9 Activity in Cas9 Transduced Cancer Cell Lines | 1 | dx.doi.org/10.17504/protocols.io.bgvtjw6n | https://www.protocols.io/view/assessment-of-cas9-activity-in-cas9-transduced-can-bgvtjw6n | Verity Goodwin, Emily Souster, Charlotte Beaver, Adam Jackson, Rizwan Ansari, Mathew Garnett, Fiona Behan | TITLE: Assessment of Cas9 Activity in Cas9 Transduced Cancer Cell Lines
AUTHORS: Verity Goodwin, Emily Souster, Charlotte Beaver, Adam Jackson, Rizwan Ansari, Mathew Garnett, Fiona Behan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Cas9 expressing cancer cell lines need to be assessed for cas9 ac... | ["[Day 1]\nDetach and collect cas9 cells as per protocol \"Passaging adherent cancer cell lines\" steps 1-8 found here: https://protocols.io/view/passaging-adherent-cancer-cell-lines-bgtbjwin.html", "[Day 1]\nPrepare a cell suspension containing 1x10^6 cells in media (this equates to 2.5x10^6 cells per well in .\n7.2... |
null | null | null | dx.doi.org/10.17504/protocols.io.hwfb7bn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Protocol for detecting bystander cytotoxicity in mixed cultures of target-negative and target-positive cells treated with BiTE® antibody constructs. Two methods and one modification are described.</p>
[STEPS]
?.
?.
?.
?.
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.u2reyd6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
A plant extract is a substance or active substance of a desired property extracted from plant tissue by treatment for a specific purpose. Plant extracts can be used in a variety of areas including health foods, therapeutic drugs, cosmetics, processing aids, additives - chemical ... | [] |
22,262 | 0.5M EDTA, pH 8.0 | 1 | null | https://www.protocols.io/view/0-5m-edta-ph-8-0-zywf7xe | Adrien Assie, Buck Samuel | TITLE: 0.5M EDTA, pH 8.0
AUTHORS: Adrien Assie, Buck Samuel
[DESCRIPTION]
EDTA recipe
[STEPS]
1. • Start with 700 mL water
2. • Add ~60 g of NaOH
3. • Allow to cool back to room temperature (can speed in room temp water bath)
4. • Add 146.12 g EDTA
5. • Adjust pH to 8.0 with 5-10 M NaOH
6. • Add water to 1000 mL
7. •... | ["•\tStart with 700 mL water", "•\tAdd ~60 g of NaOH", "•\tAllow to cool back to room temperature (can speed in room temp water bath)", "•\tAdd 146.12 g EDTA", "•\tAdjust pH to 8.0 with 5-10 M NaOH", "•\tAdd water to 1000 mL", "•\tAutoclave"] |
56,295 | Demultiplexing Nanopore reads with LAST | 1 | dx.doi.org/10.17504/protocols.io.b28fqhtn | https://www.protocols.io/view/demultiplexing-nanopore-reads-with-last-b28fqhtn | David A Eccles | TITLE: Demultiplexing Nanopore reads with LAST
AUTHORS: David A Eccles
[DESCRIPTION]
This protocol is for a semi-manual method for read demultiplexing, as used after my presentation Sequencing DNA with Linux Cores and Nanopores to work out the number of reads captured by different barcodes.
Input: reads as a FASTQ fi... | ["[Generating Barcode Index] Prepare a FASTA file containing barcode sequences (see attached FASTA file). To reduce the chance of mismatched adapters, this should only contain the barcode sequences. That restriction means this approach will not work for short reads, where the barcode sequences are very likely to occur ... |
63,939 | Apo-Crystal Structure Determination | 6 | dx.doi.org/10.17504/protocols.io.n2bvj6boxlk5/v1 | https://www.protocols.io/view/apo-crystal-structure-determination-capbsdin | BOC Sciences | TITLE: Apo-Crystal Structure Determination
AUTHORS: BOC Sciences
[DESCRIPTION]
Different solid forms can display significantly different physical and chemical properties, including color, morphology, stability, dissolution, powder flow, tableting behavior and bioavailability. So it is important to know whether y... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.hmhb436 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The process of developing transient transfection protocols in <em>P. caudatus</em> involved initial testing and determination of proper electroporation buffers and parameters (voltage strength, pulse duration and number) to maximize cell viability. Our results suggest that th... | [] |
76,368 | Indiana University H&E Staining on AKOYA PhenoCycler Flow Cell post Imaging —The Ferkowicz Method | 4 | dx.doi.org/10.17504/protocols.io.kqdg397yeg25/v1 | https://www.protocols.io/view/indiana-university-h-amp-e-staining-on-akoya-pheno-cntqvemw | Michael Ferkowicz, Bill Bowen, Yinghua Cheng, Angela R. Sabo, Daria Barwinska, Tarek Ashkar | TITLE: Indiana University H&E Staining on AKOYA PhenoCycler Flow Cell post Imaging —The Ferkowicz Method
AUTHORS: Michael Ferkowicz, Bill Bowen, Yinghua Cheng, Angela R. Sabo, Daria Barwinska, Tarek Ashkar
[DESCRIPTION]
This protocol was developed by Indiana University researcher (Michael Ferkowicz and colleagues... | ["[Setup] Following multiplex imaging with the AKOYA PhenoCycler (CODEX) system, the PhenoCycler slide with flow cell attached is stored in 1X CODEX Akoya Buffer at 4C until ready to stain", "[Setup] Attach an aspirator tipped with 200μL pipette tip (e.g., a standard laboratory vacuum) to a lab stand via clamp or a mic... |
null | null | null | dx.doi.org/10.17504/protocols.io.usiewce | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Plantilla de protocolos del servicio.
[STEPS]
?. | ["null"] |
null | null | null | dx.doi.org/10.17504/protocols.io.dee3bd | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This mixture is is used with <a href="https://www.protocols.io/view/Cesium-Chloride-Dialysis-for-Viruses-c7jzkm" target="_blank">Cesium Chloride Dialysis for Viruses</a>
[STEPS]
?.
?.
?.
?. | [] |
59,231 | Determining IIDP Minimal Donor Criteria V.3 | 1 | dx.doi.org/10.17504/protocols.io.4r3l28p4ql1y/v3 | https://www.protocols.io/view/determining-iidp-minimal-donor-criteria-v-3-b537q8rn | Integrated Islet Distribution Program | TITLE: Determining IIDP Minimal Donor Criteria V.3
AUTHORS: Integrated Islet Distribution Program
[DESCRIPTION]
This SOP defines the pancreas donor profile acceptable for use in the National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK) sponsored research in the Integrated Islet Distribution Program ... | ["[I.\tIIDP Donor Inclusion Criteria] The following are IIDP Inclusion Criteria for Pancreas Donors for Human Islet Isolation:", "[I.\tIIDP Donor Inclusion Criteria] A multi-organ donor or pancreas-only donor if the donor meets all the criteria for multi-organ donation", "[I.\tIIDP Donor Inclusion Criteria] Adequate in... |
98,742 | Analytic Moves | 0 | null | https://www.protocols.io/view/analytic-moves-dcnw2vfe | Andrea Ballestero, Katie Ulrich | TITLE: Analytic Moves
AUTHORS: Andrea Ballestero, Katie Ulrich
[DESCRIPTION]
When we are working through our research in the interpretive social sciences or humanities, there is a tendency to privilege two things: overall argument and what we might call information or empirics. However, there is something else we can ... | ["[Introduction] Read this introduction to the protocol first.\n\nWhen we are working through our research in the interpretive social sciences or humanities, there is a tendency to privilege two things: overall argument and something we might call information or empirics. \n\nFirst, an overall argument is the thrust of... |
49,933 | Skimmed Milk Flocculation Technique for Waste Water | 1 | dx.doi.org/10.17504/protocols.io.buzmnx46 | https://www.protocols.io/view/skimmed-milk-flocculation-technique-for-waste-wate-buzmnx46 | Dilip Abraham, Venkata Raghava Mohan, gkang | TITLE: Skimmed Milk Flocculation Technique for Waste Water
AUTHORS: Dilip Abraham, Venkata Raghava Mohan, gkang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The direct examination of waste water is difficult due to low and fluctuating concentrations of microorganisms and because concentration pr... | ["[Skimmed Milk Flocculation]\nFor virus concentration assay, collect a total of waste water, and divide into two aliquots ().\n250 mL\n100 mL", "[Skimmed Milk Flocculation]\nTo each sample, add 5% pre-flocculated skim milk (e.g., add for of sample) and adjust the - by the addition of HCl.\n100 mL\n1 mL\n2.5 mL\n... |
48,160 | SARS-CoV-2 Illumina MiSeq protocol v.2 | 4 | dx.doi.org/10.17504/protocols.io.bs98nh9w | https://www.protocols.io/view/sars-cov-2-illumina-miseq-protocol-v-2-bs98nh9w | Public Health Ontario | TITLE: SARS-CoV-2 Illumina MiSeq protocol v.2
AUTHORS: Public Health Ontario
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>ARTIC amplicon sequencing protocol adapted from Josh Quick's </span><a href="https://www.protocols.io/view/ncov-2019-sequencing-protocol-v2-bdp7i5rn" style = "text-decor... | ["[cDNA preparation]\nMix the following components:Component Volume50 µM random hexamers 10mM dNTPs mix (10mM each) Total Mastermix volume (template RNA) Tot... |
null | null | null | dx.doi.org/10.17504/protocols.io.uqievue | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
93,827 | v2 RNAscope | 1 | dx.doi.org/10.17504/protocols.io.14egn3odml5d/v1 | https://www.protocols.io/view/v2-rnascope-c7vbzn2n | thnasko | TITLE: v2 RNAscope
AUTHORS: thnasko
[DESCRIPTION]
This is a protocol for performing RNAscope® in situ hybridization analysis on fixed-frozen mouse brain tissue using the RNAscope® Multiplex Fluorescent v2 kit (Advanced Cell Diagnostics; ACD). It is similar to the v2 protocol provided by ACD; places where it deviates f... | ["[Cryosectioning, sample preparation, and storage] Collect sections spaced 20 μm apart between Bregma = +1.0–0.0 in RNase-free PBS.", "[Cryosectioning, sample preparation, and storage] Immediately mount sections onto Superfrost® plus microscopy slides. Mount sections spaced 120 microns apart 4 per slide (Note that thi... |
null | null | null | dx.doi.org/10.17504/protocols.io.pj5dkq6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Wheat—a staple food crop of many countries, has always been a target for improving its resilience to biotic and abiotic stresses. Among these, rust diseases are the most detrimental in depressing wheat production. In the present study, chemical mutagen was used to induce muta... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.rxkd7kw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Describes collection for the following:</p>
<p> </p>
<p>Domoic acid (particulate and dissolved)*</p>
<p>Chlorophyll</p>
<p>DNA</p>
<p>Nutrients: NH4, urea, N, P, Si</p>
<p>Flow cytometer counts (Synecocccus, pico-eukaryotes, heterotrophic bacteria)</p>
<p>Whole water/net tow ... | [] |
62,109 | Shark Tank Keto Pills | 1 | dx.doi.org/10.17504/protocols.io.81wgb65e3lpk/v1 | https://www.protocols.io/view/shark-tank-keto-pills-b8v5rw86 | https://www.scoop.it/topic/shark-tank-keto-pills-by-babelo-sar | TITLE: Shark Tank Keto Pills
AUTHORS: https://www.scoop.it/topic/shark-tank-keto-pills-by-babelo-sar
[DESCRIPTION]
Shark Tank Keto Pills
[STEPS]
SECTION: How do Shark Tank Keto Pills Work?
1. Instant keto pills energize your body with ample energy. By consuming these instant keto pills, you quickly get to the ketosis... | ["[How do Shark Tank Keto Pills Work?] Instant keto pills energize your body with ample energy. By consuming these instant keto pills, you quickly get to the ketosis stage, rapidly shedding excessive fats. The ketosis process creates more ketone molecules that are employed to power your cells. But only eating the keto ... |
64,831 | https://www.facebook.com/PrimaWeightLossDragonsDenUK/ | 1 | dx.doi.org/10.17504/protocols.io.q26g74nw1gwz/v1 | https://www.protocols.io/view/https-www-facebook-com-primaweightlossdragonsdenuk-cbi7skhn | roxyhimb | TITLE: https://www.facebook.com/PrimaWeightLossDragonsDenUK/
AUTHORS: roxyhimb
[DESCRIPTION]
Are you not satisfied with your Keto diet feature?
Not receiving actual weight loss results after spending too much time in the gym?
Looking for Advance weight loss supplement pills?
Prima Weight Loss Dragons Den UK If... | ["[Prima Weight Loss Dragons Den UK] Prima Weight Loss Dragons Den UK If yes then you are right place. It’s true that almost every three out of ten persons are facing the obesity issue worldwide. This unnatural weight gain not causes only physical side effects but also gives you mental illness. \n\nIrregular lifestyle,... |
43,641 | Visualization of chitin-rich tissues with Lactophenol blue slide mount | 3 | dx.doi.org/10.17504/protocols.io.bnuzmex6 | https://www.protocols.io/view/visualization-of-chitin-rich-tissues-with-lactophe-bnuzmex6 | Jiri Hulcr | TITLE: Visualization of chitin-rich tissues with Lactophenol blue slide mount
AUTHORS: Jiri Hulcr
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to visualize chitin-rich tissues, such as fungal mycelium.</div><div class = "text-block"><span>This protocol is part of the B... | [] |
22,053 | DENV Titration | null | dx.doi.org/10.17504/protocols.io.zsdf6a6 | null | Fabio Gomes | TITLE: DENV Titration
AUTHORS: Fabio Gomes
[STEPS]
?. [Fixation of Cells]
Prepare fixative - 80% methanol in water
?. [Fixation of Cells]
Dump Methylcellulose overlay and blot on paper towels
?. [Fixation of Cells]
Wash gently with 1X PBS. Incubate for 10 min. Blot and dry.
?. [Fixation of Cells]
Add 0.5 mL fixative t... | ["[Fixation of Cells]\nPrepare fixative - 80% methanol in water", "[Fixation of Cells]\nDump Methylcellulose overlay and blot on paper towels", "[Fixation of Cells]\nWash gently with 1X PBS. Incubate for 10 min. Blot and dry.", "[Fixation of Cells]\nAdd 0.5 mL fixative to each well. Allow plates to sit at room temperat... |
51,526 | QIAGEN RNeasy Plant RNA Extraction Protocol (Modified) | 4 | dx.doi.org/10.17504/protocols.io.bwjepcje | https://www.protocols.io/view/qiagen-rneasy-plant-rna-extraction-protocol-modifi-bwjepcje | Steven Burgess | TITLE: QIAGEN RNeasy Plant RNA Extraction Protocol (Modified)
AUTHORS: Steven Burgess
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a protocol for extraction of RNA from plant leaf tissue using a QIAGEN RNeasy Plant Mini Kit. The procedure largely follows the manufacturer's instructions bu... | ["[Tissue Lysis]\nPre-cool 4mm SPEX stainless steel grinding beads at\n-80 °C", "[Tissue Lysis]\nPre-cool the TissueLyser inserts in LN2 for", "[Tissue Lysis]\nUsing forceps cooled in LN2, add one SPEX bead per sample tube.\nAs mentioned in the description a sample tube should contain 100 mg or less of flash-frozen lea... |
98,532 | HPAP Processing Protocol | 4 | dx.doi.org/10.17504/protocols.io.8epv5zoydv1b/v2 | https://www.protocols.io/view/hpap-processing-protocol-dcgc2tsw | Michael Betts, Gregory Golden | TITLE: HPAP Processing Protocol
AUTHORS: Michael Betts, Gregory Golden
[DESCRIPTION]
Early in life, a combination of environmental insults and genetic pre-disposition results in an autoimmune reaction to pancreatic b-cells in the Islets of Langerhans, leading to b-cell destruction and a lack of insulin production. Ove... | ["BLOOD\n\n1. Spin down vials at 2000rpm for 15min at room temperature\n\n2. Aliquot plasma into cryovials and freeze and store at -80 °C ; toss remaining plasma\n\n3. Measure volume of spun down blood and transfer to a new conical tube\n\n4. Using a 1:1 ratio of spun blood to R10 media, wash vials and transfer to the... |
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