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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81,101 | Automation Protocol for High-Efficiency and High-Quality Genomic DNA Extraction from Saccharomyces Cerevisiae | 4 | dx.doi.org/10.17504/protocols.io.8epv592p5g1b/v2 | https://www.protocols.io/view/automation-protocol-for-high-efficiency-and-high-q-ctfmwjk6 | Nina Alperovich, Benjamin M. Scott, David Ross | TITLE: Automation Protocol for High-Efficiency and High-Quality Genomic DNA Extraction from Saccharomyces Cerevisiae
AUTHORS: Nina Alperovich, Benjamin M. Scott, David Ross
[DESCRIPTION]
Here, we describe a protocol for automated extraction of genomic DNA (gDNA) from yeast liquid culture and colonies. The protocol use... | ["[Preparation of Zymolyase Stock] Prepare stock of Zymolyase 20T by dissolving to a concentration of 1 U/µL in 1x PBS.", "[Preparation of Zymolyase Stock] Divide Zymolyase solution into 800 µL aliquots and store at -20 °C until use.", "[Preparation of 2-Mercaptoethanol Stock] Prepare 0.001 % stock of 2-Mercaptoethanol... |
71,730 | Optimized Grilled Cheese | 1 | dx.doi.org/10.17504/protocols.io.261ge3nx7l47/v2 | https://www.protocols.io/view/optimized-grilled-cheese-ciasuaee | Beth K. Martin, Chengxiang Qiu, Jay Shendure | TITLE: Optimized Grilled Cheese
AUTHORS: Beth K. Martin, Chengxiang Qiu, Jay Shendure
[DESCRIPTION]
Grilled Cheese Sandwiches are delicious. Here we describe a method for making an epic one.
(Submitted October 14, 2022, Happy Birthday Jay!)
[GUIDELINES]
Introduction
The Grilled Cheese Sandwich has been around for ... | ["[Bread Preparation] In the biggest mothereffing bowl that you can find, add the water, sugar, and yeast. Let sit for a few minutes until you see bubbles forming", "[Bread Preparation] Add the oil, salt, and 4 cups of flour. Stir until flour is incorporated, but you don't need to get all the lumps out.", "[Bread Prepa... |
null | null | null | dx.doi.org/10.17504/protocols.io.dnc5av | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol is for the NEXTflex™ Small RNA Sequencing Kit v2, designed to prepare small RNA libraries for sequencing using Illumina® sequencers. This kit utilizes adapters with randomized ends to greatly reduce sequence bias in small RNA sequencing library construction.<br /><... | [] |
102,279 | SynBot Protocols | 2 | dx.doi.org/10.17504/protocols.io.3byl4qewjvo5/v2 | https://www.protocols.io/view/synbot-protocols-df5f3q3n | Justin T Savage, Juan Ramirez, Dolores Irala, Cagla Eroglu | TITLE: SynBot Protocols
AUTHORS: Justin T Savage, Juan Ramirez, Dolores Irala, Cagla Eroglu
[DESCRIPTION]
Protocols related to the paper SynBot: An open-source image analysis software for automated quantification of synapses. Includes details of rat neuron and astrocyte culture, in vitro synapse staining, in vivo syna... | [] |
69,212 | protocol_template_for_intervention_review | 3 | dx.doi.org/10.17504/protocols.io.81wgbpb41vpk/v2 | https://www.protocols.io/view/protocol-template-for-intervention-review-cft4tnqw | Yuki Kataoka, Yasushi Tsujimoto, Masahiro Banno, Shunsuke Taito, Ryuhei So, Jun Watanabe, Akihiro Shiroshita | TITLE: protocol_template_for_intervention_review
AUTHORS: Yuki Kataoka, Yasushi Tsujimoto, Masahiro Banno, Shunsuke Taito, Ryuhei So, Jun Watanabe, Akihiro Shiroshita
[DESCRIPTION]
This is a procol template.
[STEPS] | [] |
50,700 | Gentle Cell extraction from rock samples. | 1 | null | https://www.protocols.io/view/gentle-cell-extraction-from-rock-samples-bvrkn54w | Jackie Goordial, Beth Orcutt, Tim Dangelo | TITLE: Gentle Cell extraction from rock samples.
AUTHORS: Jackie Goordial, Beth Orcutt, Tim Dangelo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Method for extracting cells in a gentle manner from rocks for downstream single cell sorting and sequencing. Starting material for the protocol is rock ... | ["[Sample is started from 5 g of rock, preserved in 5 mL of glycerol TE in a 15 mL centrifuge tube. ]\na. For one tube (for later sorting) Resuspend the pellet in 1ml of 1X GlyTE. Can dilute with 1X PBS. Store in freezer. b. For second tube (for microscopy) – stain with SYBR Green, and filter on 0.2 um polycarbonate f... |
71,182 | Evaluation of mtKeima foci in induced neurons (iNeurons) | 4 | dx.doi.org/10.17504/protocols.io.6qpvr4d7bgmk/v1 | https://www.protocols.io/view/evaluation-of-mtkeima-foci-in-induced-neurons-ineu-chrnt55e | Felix Kraus | TITLE: Evaluation of mtKeima foci in induced neurons (iNeurons)
AUTHORS: Felix Kraus
[DESCRIPTION]
Protocol for the evaluation of mtKeima foci in induced neurons (iNeurons)
[STEPS]
SECTION: Differentiation of iNeurons
1. Day 0: Treat AAVS1-TRE3G-NGN2 cells with Accutase and plate the dissociated cells in matrigel-coa... | ["[Differentiation of iNeurons] Day 0: Treat AAVS1-TRE3G-NGN2 cells with Accutase and plate the dissociated cells in matrigel-coated 6-well plates (2x105 cells/well) in ND1 Medium supplemented with Y27632 (10 μM). \nND1 Medium: \nDMEM/F12 \nN2 (100x) 1x \nBDNF 10 ng/ml \nNT3 10 n... |
85,691 | Culturing and passaging of iPSC derived intestinal organoids | 4 | null | https://www.protocols.io/view/culturing-and-passaging-of-ipsc-derived-intestinal-cxw3xpgn | rachel.bates | TITLE: Culturing and passaging of iPSC derived intestinal organoids
AUTHORS: rachel.bates
[DESCRIPTION]
Culturing and passaging of iPSC derived intestinal organoids derived using STEMDIFF intestinal organoid kit. We usually use organoids after 5 passages once consistent growth has been established and until 15th passa... | ["[Establishing organoids.] Intestinal organoids were generated using until protocol stage 6.2.2.4. For some cell lines yields of organoids can be very low using STEMcell methods. We usually harvest organoids at 9 days differentiation.", "[Establishing organoids.] Monolayer cultures in 24 well plate displaying spher... |
54,377 | iNDI Transcription Factor-NGN2 differentiation of human iPSC into cortical neurons Version 2 | 4 | dx.doi.org/10.17504/protocols.io.8epv5zyn5v1b/v1 | https://www.protocols.click/view/indi-transcription-factor-ngn2-differentiation-of-bzchp2t6 | 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 ... |
92,910 | Preparing primary sandwich hippocampal neuron cultures for cryo-electron tomography | 1 | dx.doi.org/10.17504/protocols.io.6qpvr3y83vmk/v1 | https://www.protocols.io/view/preparing-primary-sandwich-hippocampal-neuron-cult-c6ynzfve | Florelle Domart, Arsen Petrovic, Thanh Thao Do, Anna Siegert, Thomas Dresbach, Rubén Fernández-Busnadiego | TITLE: Preparing primary sandwich hippocampal neuron cultures for cryo-electron tomography
AUTHORS: Florelle Domart, Arsen Petrovic, Thanh Thao Do, Anna Siegert, Thomas Dresbach, Rubén Fernández-Busnadiego
[DESCRIPTION]
Primary sandwich hippocampal neuron cultures are adapted from the Kaech and Banker protocol (Kaech... | ["[Preparation of the EM grids] For preparation of EM grids, follow the accompanying protocol by Siegert, Petrovic, Do et al.", "[Preparation of primary sandwich hippocampal neuron culture on EM grids - Astrocyte feeder layer] Plate 5 million cortical cells from an E19 rat embryo cortical suspension in T75 flask in MEM... |
38,920 | 2: User-friendly protocol: Oligo ordering and preparation (SABER-FISH) | 1 | null | https://www.protocols.io/view/2-user-friendly-protocol-oligo-ordering-and-prepar-bh9gj93w | Jocelyn Y. Kishi, Sylvain W. Lapan, Brian J Beliveau, Emma R. West, Allen Zhu, Hiroshi M. Sasaki, Sinem Saka, Yu Wang, Constance L Cepko, Peng Yin | TITLE: 2: User-friendly protocol: Oligo ordering and preparation (SABER-FISH)
AUTHORS: Jocelyn Y. Kishi, Sylvain W. Lapan, Brian J Beliveau, Emma R. West, Allen Zhu, Hiroshi M. Sasaki, Sinem Saka, Yu Wang, Constance L Cepko, Peng Yin
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is a... | ["To generate a catalytic (telomerase-like) hairpin corresponding to the primers sequence (RC = reverse complement):A(primer sequence)GGGCCTTTTGGCCC(RC of primer sequence)T(RC of primer sequence)/3InvdT/For example, given the primer 27 sequence of CATCATCAT, the catalytic hairpin h.27.27 sequence would be:ACATCATCATGGG... |
null | null | null | dx.doi.org/10.17504/protocols.io.smhec36 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The ultra-high density intensive farming model of grass carp (<em>Ctenopharyngodon idellus</em>) may elicit growth inhibition, decline flesh quality and increase disease susceptibility of fish. The quality degradation and excessive fat accumulation in cultured <em>C. idellus<... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.imccc2w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol provides a detailed description of how to design and perform BONCAT experiments using two different bioorthogonal amino acids, <span class="s1">L</span>-azidohomoalanine (AHA) and <span class="s1">L</span>-homopropargylglycine (HPG), which are both surrogates of... | [] |
55,278 | Basic Rolling Circle Amplification (RCA) Protocol (Thermo phi29 polymerase) | 3 | dx.doi.org/10.17504/protocols.io.bz8np9ve | https://www.protocols.io/view/basic-rolling-circle-amplification-rca-protocol-th-bz8np9ve | argawikandito | TITLE: Basic Rolling Circle Amplification (RCA) Protocol (Thermo phi29 polymerase)
AUTHORS: argawikandito
[DESCRIPTION]
-
[STEPS] | [] |
51,549 | Piezo proteins: incidence and abundance in the enteric nervous system with immunohistochemical techniques | 1 | dx.doi.org/10.17504/protocols.io.bwj5pcq6 | https://www.protocols.io/view/piezo-proteins-incidence-and-abundance-in-the-ente-bwj5pcq6 | Michael Schemann, Gemma Mazzuoli-Weber | TITLE: Piezo proteins: incidence and abundance in the enteric nervous system with immunohistochemical techniques
AUTHORS: Michael Schemann, Gemma Mazzuoli-Weber
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is to quantify the presence of both Piezo1 and 2 in enteric neurons throughou... | ["Human samples of large and small intestines were taken from macroscopically unaffected areas and placed in an ice-cold-oxygenated sterile Krebs solution and immediately transferred to the laboratory. Tissues were then dissected in the ice-cold oxygenated sterile Krebs solution to obtain whole-mount submucosal and mye... |
75,491 | Immunoprecipitation from transfected cells | 4 | dx.doi.org/10.17504/protocols.io.4r3l27353g1y/v1 | https://www.protocols.io/view/immunoprecipitation-from-transfected-cells-cmybu7sn | Cesare Orlandi | TITLE: Immunoprecipitation from transfected cells
AUTHORS: Cesare Orlandi
[DESCRIPTION]
This protocol provides step by step information on how to perform immunoprecipitation from transfected cells. We normally use this protocol with HEK293FT cells but it can be adopted to other cell types.
[GUIDELINES]
Note: All solu... | ["[Immunoprecipitation from transfected cells] Drain medium and gently wash cells once with ice-cold PBS (0.5ml for mw6; 1 ml for 6-cm dish; 3 ml for 10-cm dish).", "[Immunoprecipitation from transfected cells] Use a gentle stream to dislodge cells with PBS.", "[Immunoprecipitation from transfected cells] Centrifuge th... |
43,326 | Double digested | 1 | dx.doi.org/10.17504/protocols.io.bni6mche | https://www.protocols.io/view/double-digested-bni6mche | Jiaxin Li | TITLE: Double digested
AUTHORS: Jiaxin Li
[STEPS]
?. Add the following reagents to a tube. AB1Total10ul210 x Buffer1ul3Template（500ng）According to different template4EnzymeEach for 0.5ul5ddWaterAdd to 10ul
AB1Total10ul210 x Buffer1ul3Template（500ng）According to different template4EnzymeEach for 0.... | ["Add the following reagents to a tube. AB1Total10ul210 x Buffer1ul3Template（500ng）According to different template4EnzymeEach for 0.5ul5ddWaterAdd to 10ul\nAB1Total10ul210 x Buffer1ul3Template（500ng）According to different template4EnzymeEach for 0.5ul5ddWaterAdd to 10ul", "Pipette up and down thoro... |
45,351 | ddPCR titration of AAV vectors | 1 | dx.doi.org/10.17504/protocols.io.bqifmubn | https://www.protocols.io/view/ddpcr-titration-of-aav-vectors-bqifmubn | Addgene The Nonprofit Plasmid Repository | TITLE: ddPCR titration of AAV vectors
AUTHORS: Addgene The Nonprofit Plasmid Repository
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes ddPCR titration of AAV vectors. To see the full abstract and additional resources, visit </span><a href="https://www.addgene.org/proto... | ["[Preparation]\nBefore handling any viruses get materials ready.", "[Preparation]\nEnsure that primers, probe, 10X PCR buffer, and master mix are thawed.", "[Preparation]\nVortex primers, probe and master mix for then spin in a mini centrifuge and place .\non ice", "[Preparation]\nWipe down a DG8 cartridge holder wi... |
71,192 | Evaluation of pUb kinetics using 3D-SIM | 4 | dx.doi.org/10.17504/protocols.io.kqdg396yqg25/v1 | https://www.protocols.io/view/evaluation-of-pub-kinetics-using-3d-sim-chryt57w | Felix Kraus | TITLE: Evaluation of pUb kinetics using 3D-SIM
AUTHORS: Felix Kraus
[DESCRIPTION]
Protocol for the evaluation of pUb kinetics using 3D-SIM
[STEPS]
SECTION: Seeding of HeLa cells
1. Wash HeLa cells expressing doxycycline-inducible Parkin with 1x PBS
SECTION: Seeding of HeLa cells
2. Add Trypsin to cells for 5 min and ... | ["[Seeding of HeLa cells] Wash HeLa cells expressing doxycycline-inducible Parkin with 1x PBS", "[Seeding of HeLa cells] Add Trypsin to cells for 5 min and incubate at 37°C to dissociate cells from plastic well", "[Seeding of HeLa cells] Resuspend cells in 1 mL DMEM media", "[Seeding of HeLa cells] Count cells", "[Seed... |
40,261 | Salmonella Typhimurium isolation from specimens | 4 | dx.doi.org/10.17504/protocols.io.bjjdkki6 | https://www.protocols.io/view/salmonella-typhimurium-isolation-from-specimens-bjjdkki6 | Angel Justiz-Vaillant, Suzette E. Curtello | TITLE: Salmonella Typhimurium isolation from specimens
AUTHORS: Angel Justiz-Vaillant, Suzette E. Curtello
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-style:italic;">Salmonella </span><span>are motile, flagellated rod-shaped Zoonotic pathogens which may survive with or witho... | ["The Salmonella Typhimurium isolation was carried out as followed: the exterior of the hen cloaca was first cleaned with a sterilized and moistened cotton balls before application of the cotton tips of each swab applicator.", "The swabs, caeca, and stomach tissues were immediately placed in a sterile screw-cap test tu... |
69,738 | GFP-VSV Infection | 1 | null | https://www.protocols.io/view/gfp-vsv-infection-cgcitsue | Christopher Rousso, Alison Macdonald | TITLE: GFP-VSV Infection
AUTHORS: Christopher Rousso, Alison Macdonald
[DESCRIPTION]
GFP-VSV Infection
[STEPS]
1. If infecting transfected cells, infect them 24 hours after transfection.
2. Remove cells from 37 °C incubator.
3. Replace media with fresh media (with FBS) prior to infection with GFP-VSV.
5. Dilute VSV-... | ["If infecting transfected cells, infect them 24 hours after transfection.", "Remove cells from 37 °C incubator.", "Replace media with fresh media (with FBS) prior to infection with GFP-VSV.", "Dilute VSV-GFP in serum-free culture media. Perform the necessary calculations to determine the dilution that is required to o... |
101,680 | BAF_S03_Shimadzu MALDI 8030 | 0 | dx.doi.org/10.17504/protocols.io.kxygxywo4l8j/v1 | https://www.protocols.io/view/baf-s03-shimadzu-maldi-8030-dfiq3kdw | Nicholas Sherman | TITLE: BAF_S03_Shimadzu MALDI 8030
AUTHORS: Nicholas Sherman
[DESCRIPTION]
General process for operation and data acquisition for the open access MALDI-TOF.
[BEFORE_START]
To prepare 10 mL of the solution (70% ACN, 0.1% TFA) needed for matrices:
- obtain a 20 mL glass bottle
- add 7 mL 100% ACN, 3 mL H20, and 5 uL... | ["[Prepare for acquistion:] Sign into the 'MALDI 8030' account on the computer using a set password", "[Prepare for acquistion:] You will need the \"MALDI Solutions Data Acquisition\" software and the 'current instrument status' app.", "[Acquiring data --> acquire tab] At the acquire tab, start loading the target in... |
null | null | null | dx.doi.org/10.17504/protocols.io.n9udh6w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><em>The MELD Project is an international collaboration aiming to create open-access, robust and generalisable tools for FCD detection. To this end, we will train a neural network classifier on MRI features from FCD patients from multiple centres worldwide.</em></p>
<p><strong... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jvdcn26 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A defined artificial seawater medium for growing bacteria.</p>
[BEFORE_START]
<p>Acid wash all glassware with 10% HCl and rinse well with dH<sub>2</sub>O.</p>
[GUIDELINES]
<p>Increase or decrease amount proportionally to prepare stock quantities as needed. Add dry reagents ... | [] |
28,858 | WT-1 Staining Protocol for Podocytes | null | dx.doi.org/10.17504/protocols.io.8e2htge | null | Frank Brosius | TITLE: WT-1 Staining Protocol for Podocytes
AUTHORS: Frank Brosius
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This protocol describes a protocol used by some DiaComp members to detect podocyte nuclei in rodent glo... | ["Day 1. Deparaffinize/hydrate1. Dip in Xylene 5 minutes 2x (carry out in the hood)\n2. Dip in 100% ETOH 5 minutes 2X\n3. Dip in 95% ETOH 5 minutes once\n4. Dip in 70% ETOH 5 minutes in once\n5. Dip in dH²0 5 minutes 2X\n6. Dip in PBS 5 minutes once7. Place the slides in jar with preheated Retrieve All 1 and incubate 2... |
38,092 | seqFISH Hyb Station | 4 | dx.doi.org/10.17504/protocols.io.bhfkj3kw | https://www.protocols.io/view/seqfish-hyb-station-bhfkj3kw | Long Cai, Linus Eng, Nico Pierson, Chris Cronin | TITLE: seqFISH Hyb Station
AUTHORS: Long Cai, Linus Eng, Nico Pierson, Chris Cronin
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The seqFISH Hyb Station is a custom built platform consists of a liquid handling pump , a fluidic switcher , and a 96-well plate auto-sampler which aids seqFISH experim... | [] |
105,167 | YPS+CRAD Media preparation | 0 | dx.doi.org/10.17504/protocols.io.4r3l2qbyxl1y/v1 | https://www.protocols.io/view/yps-crad-media-preparation-dixp4fmn | Gabriela Paredes | TITLE: YPS+CRAD Media preparation
AUTHORS: Gabriela Paredes
[DESCRIPTION]
YPS (Yeast Extract, Peptone, Sucrose) is a culture medium specifically designed for the general isolation of fungi. This medium is composed of yeast extract, peptone (or tryptone), and a carbohydrate source such as glucose or sucrose, providing ... | ["[Dissolve YPS Components:] (For 1 liter of medium)\nIn a 2-liter Erlenmeyer flask with a stir bar, dissolve the following components in 1 liter of distilled water (dH2O):\n\n1 g of yeast extract.\n\n1 g of peptone or tryptone.\n\n1 g of glucose or sucrose.\n\n0.1 g of chloramphenicol.\n\n18 g of agar.\n\nStir and h... |
23,023 | Fresh frozen tissue staining with CODEX tagged antibody panel | null | dx.doi.org/10.17504/protocols.io.2qpgdvn | null | Yury Goltsev, Nikolay Samusik, Julia Kennedy-Darling, Salil Bhate, Matthew Hale, Gustavo Vazquez, Sarah Black, Garry Nolan | TITLE: Fresh frozen tissue staining with CODEX tagged antibody panel
AUTHORS: Yury Goltsev, Nikolay Samusik, Julia Kennedy-Darling, Salil Bhate, Matthew Hale, Gustavo Vazquez, Sarah Black, Garry Nolan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>CODEX is a technology that uses oligo labeled... | ["[Tissue Preparation]\nBegin with fresh frozen tissues sectioned onto 22mm2 poly-lysine coated coverslips and stored at -80C. Add a 5mmlayer of drierite granules on the bottom of a pipet tip box or similar container. Place a piece of kimwipe on top of the drierite. Retrieve the coverslips from freezer with bent-ti... |
53,124 | Chlamydomonas reinhardtii nuclear transformation by electroporation. | 1 | dx.doi.org/10.17504/protocols.io.bx5cpq2w | https://www.protocols.io/view/chlamydomonas-reinhardtii-nuclear-transformation-b-bx5cpq2w | João Vitor Molino | TITLE: Chlamydomonas reinhardtii nuclear transformation by electroporation.
AUTHORS: João Vitor Molino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocols describe the steps required for nuclear transformation of </span><span style = "font-style:italic;">Chlamydomonas reinhardtii </... | ["[DNA Preparation]\nDigest a large enough amount of plasmid. The goal is to have a concentrated digested sample in the range of 250-700 ng/uL.Select the appropiate enzymes for linearization. Usually, restrictions sites in flanking position to the expression cassete.Mix all components for digestion . Digest for at ... |
31,115 | XCMS Analysis of Untargeted Mass Spec Data | 1 | null | https://www.protocols.io/view/xcms-analysis-of-untargeted-mass-spec-data-bamjic4n | Olivier George, Sierra Simpson | TITLE: XCMS Analysis of Untargeted Mass Spec Data
AUTHORS: Olivier George, Sierra Simpson
[STEPS]
?. [Sign up for XCMS]
Sign Up | ["[Sign up for XCMS]\nSign Up"] |
63,614 | Oprah Winfrey Weight Loss Gummies | 1 | dx.doi.org/10.17504/protocols.io.e6nvwk2z2vmk/v1 | https://www.protocols.io/view/oprah-winfrey-weight-loss-gummies-cac6saze | feaaf | TITLE: Oprah Winfrey Weight Loss Gummies
AUTHORS: feaaf
[DESCRIPTION]
Oprah Winfrey Weight Loss Gummies
If you do not know how to lose weight fast, let me help you. This article will discuss Oprah Winfrey Weight Loss Gummies,which is a natural and effective supplement that helps in losing excess body fat and offers ... | [] |
69,957 | Total crude protein in plankton: Pierce BCA protein assay (including the enhanced assay for low biomass) | 4 | dx.doi.org/10.17504/protocols.io.5qpvoy5e7g4o/v3 | https://www.protocols.io/view/total-crude-protein-in-plankton-pierce-bca-protein-cgjdtui6 | Ying-Yu Hu, Christopher Lord, Zoe V. Finkel | TITLE: Total crude protein in plankton: Pierce BCA protein assay (including the enhanced assay for low biomass)
AUTHORS: Ying-Yu Hu, Christopher Lord, Zoe V. Finkel
[DESCRIPTION]
Here we describe a protocol for extracting total crude protein from phytoplankton and zooplankton, and quantifying by Pierce BCA protein as... | ["[Sample collection] Microalgae samples", "[Sample collection] Filter microalgae in liquid media onto polycarbonate filters, using gentle vacuum pressure (130 mmHg).", "[Sample collection] Place sample filters in 2 mL Cryogenic Vials.", "[Sample collection] Freeze dry samples before processed.", "[Prepare protein solu... |
76,617 | Feedstocks-to-Fuels Pipeline (F2F) | 4 | dx.doi.org/10.17504/protocols.io.3byl4jrezlo5/v1 | https://www.protocols.io/view/feedstocks-to-fuels-pipeline-f2f-cn3hvgj6 | Venkataramana R Pidatala, Mengziang Lei, Hemant Choudhary, Christopher J Petzold, Hector Garcia Martin, Blake A Simmons, John Gladden, Alberto Rodriguez | TITLE: Feedstocks-to-Fuels Pipeline (F2F)
AUTHORS: Venkataramana R Pidatala, Mengziang Lei, Hemant Choudhary, Christopher J Petzold, Hector Garcia Martin, Blake A Simmons, John Gladden, Alberto Rodriguez
[DESCRIPTION]
Sustainably grown biomass is a promising alternative to produce fuels and chemicals and reduce the d... | ["[Fermentation] Growth and adaptation of Rhodosporidium toruloides \n\nStreak Rhodosporidium toruloides strain GB2 on an agar plate prepared using yeast peptone dextrose (YPD) medium and the antibiotics cefotaxime (100 µg/mL) and nourseothricin (50 µg/mL), and incubate it for 2 days at 30 C.", "[Fermentation] Inoculat... |
56,723 | NADPH diaphorase histochemistry in rat gastric nitric oxide synthase neurons | 1 | dx.doi.org/10.17504/protocols.io.eq2lyn3eevx9/v1 | https://www.protocols.io/view/nadph-diaphorase-histochemistry-in-rat-gastric-nit-b3mtqk6n | Madeleine Di Natale, Billie Hunne, Jamie JL Liew, Linda Fothergill, Martin Stebbing, John Furness | TITLE: NADPH diaphorase histochemistry in rat gastric nitric oxide synthase neurons
AUTHORS: Madeleine Di Natale, Billie Hunne, Jamie JL Liew, Linda Fothergill, Martin Stebbing, John Furness
[DESCRIPTION]
NOS (nitric oxide synthase) is a NADPH oxidase, requiring NADPH as a proton donor for the conversion of arginine t... | ["Tissue sources \n\nAll procedures were approved by the University of Melbourne Animal Ethics Committee (approval 10272).Rats were supplied with food and water ad libitum prior to any experiments. Stomach samples were collected from female and male Sprague Dawley (SD) rats, 7-10 weeks old, 168-236 g for females and 30... |
49,176 | Microfluidic device platform operation for processing tissue into single cells | 1 | dx.doi.org/10.17504/protocols.io.bt9ynr7w | https://www.protocols.io/view/microfluidic-device-platform-operation-for-process-bt9ynr7w | Jeremy Lombardo | TITLE: Microfluidic device platform operation for processing tissue into single cells
AUTHORS: Jeremy Lombardo
[DESCRIPTION]
Protocol for operating Minced Digestion and Integrated Dissociation and Filtration Devices
[STEPS]
SECTION: Minced Digestion Device Operation
1. Affix 0.05” ID tubing (Saint-Gobain, Malvern, P... | ["[Minced Digestion Device Operation] Affix 0.05” ID tubing (Saint-Gobain, Malvern, PA) to Minced Digestion Device inlet and outlet hose barbs.", "[Minced Digestion Device Operation] Connect tubing to an Ismatec peristaltic pump (Cole-Parmer, Werheim, Germany) with 2.62 mm ID tubing (Saint-Gobain, Malvern, PA).", "[Min... |
null | null | null | dx.doi.org/10.17504/protocols.io.excbfiw | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<strong>Reagent List: </strong><br />Cell Staining Buffer (BioLegend Cat. No. 420201) <br />Red Cell Lysis Buffer (BioLegend Cat. No. 420301) <br />7-AAD Viability Staining Solution (BioLegend Cat. No. 420403) <br />TruStain FcX™ (anti-CD16/32, BioLegend Cat. No. 101319) <br />Hu... | [] |
44,814 | P1 transduction | 4 | null | https://www.protocols.io/view/p1-transduction-bpznmp5e | Elizabeth Fozo | TITLE: P1 transduction
AUTHORS: Elizabeth Fozo
[STEPS]
?. [Prepare P1 phage]
Inoculate a single colony into 5 ml LB medium (+ appropriate antibiotic if needed)
?. [Prepare P1 phage]
Shake at overnight
37 °C
?. [Prepare P1 phage]
Dilute to be 0.01 in 10 ml LB medium + of 1 M CaCl2 + 0.2% glucose final
50 µl
?. [Pr... | ["[Prepare P1 phage]\nInoculate a single colony into 5 ml LB medium (+ appropriate antibiotic if needed)", "[Prepare P1 phage]\nShake at overnight\n37 °C", "[Prepare P1 phage]\nDilute to be 0.01 in 10 ml LB medium + of 1 M CaCl2 + 0.2% glucose final\n50 µl", "[Prepare P1 phage]\nGrow at for 60 minutes (don’t wan... |
81,029 | In Silico analysis links the NSL complex to Parkinson’s disease and the mitochondria – Protein-protein interaction data to functional enrichment analysis | 5 | dx.doi.org/10.17504/protocols.io.5qpvorb19v4o/v2 | https://www.protocols.io/view/in-silico-analysis-links-the-nsl-complex-to-parkin-ctddwi26 | Katie Kelly, c.manzoni, Patrick Lewis, Helene Plun-Favreau | TITLE: In Silico analysis links the NSL complex to Parkinson’s disease and the mitochondria – Protein-protein interaction data to functional enrichment analysis
AUTHORS: Katie Kelly, c.manzoni, Patrick Lewis, Helene Plun-Favreau
[DESCRIPTION]
Whilst the majority (~90-95%) of PD cases are sporadic, much of our understa... | ["[Downloading and merging the Protein-Protein Interaction (PPI) Data] All code can be found here : 10.5281/zenodo.7875446.\nThe general pipeline to derive the first layer interactome can be found in Figure 1.", "[Downloading and merging the Protein-Protein Interaction (PPI) Data] Collect PPIs for NSL seeds using 3 dif... |
70,849 | Obtain LB agar plates (with antibiotics) | 4 | dx.doi.org/10.17504/protocols.io.j8nlkw4b5l5r/v1 | https://www.protocols.io/view/obtain-lb-agar-plates-with-antibiotics-che9t3h6 | An.Huang | TITLE: Obtain LB agar plates (with antibiotics)
AUTHORS: An.Huang
[DESCRIPTION]
LB plate is a fundamental laboratory consumable. This protocol helps make basic LB agar plates.
[STEPS]
1. Weigh 40 g LB nutrient agar powder.
2. Dissolve the powder in 1000 mL distilled water.
3. Autoclave the melting LB agar at... | ["Weigh 40 g LB nutrient agar powder.", "Dissolve the powder in 1000 mL distilled water.", "Autoclave the melting LB agar at 121 °C for 15 min.", "(Optional) If the plate is required to contain a certain antibiotic, add a certain amount of antibiotics.\nHere ampicillin is used as an example:\nAdd 1 mL 1000X ampicillin ... |
null | null | null | dx.doi.org/10.17504/protocols.io.rukd6uw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Catalase activity is assayed based on the decomposition of H<sub>2</sub>O<sub>2</sub> by the enzyme.</p>
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jhccj2w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Dairy cows affected with subclinical mastitis can be sources of virulent, antimicrobial-resistant Staphylococci to humans by the excretion of the bacteria through their milk. This study focussed on the phenotypic and genotypic antibiotic resistance patterns of Staphylococci i... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.nw5dfg6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
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52,535 | Bead preparation protocol | 4 | null | https://www.protocols.io/view/bead-preparation-protocol-bxixpkfn | Peter H L Krijger, Tim A Hoek, Sanne Boersma, Lieke I P M Donders, Maaike M C Broeders, Mark Pieterse, Pim W Toonen, Ive Logister, Bram M P Verhagen, Marjon J A M Verstegen, Thomas W van Ravesteyn, Rene J T M Roymans, Francesca Mattiroli, Jo Vandesompele, Monique Nijhuis, Stefan Meijer, Anton van Weert, Edwin Dekker, F... | TITLE: Bead preparation protocol
AUTHORS: Peter H L Krijger, Tim A Hoek, Sanne Boersma, Lieke I P M Donders, Maaike M C Broeders, Mark Pieterse, Pim W Toonen, Ive Logister, Bram M P Verhagen, Marjon J A M Verstegen, Thomas W van Ravesteyn, Rene J T M Roymans, Francesca Mattiroli, Jo Vandesompele, Monique Nijhuis, Stefa... | ["[Bead preparation]\nMix the beads by vortexing for .", "[Bead preparation]\nPut the beads on a rollerbank for .", "[Bead preparation]\nAliquot 10 ml beads in 50ml tubes.", "[Bead preparation]\nPut the 50 ml tube on the magnet.", "[Bead preparation]\nWhen the solution is clear carefully remove the supernatant.", "[Bea... |
91,533 | Protocol for Primary Mouse Hepatocyte Isolation -- University of Minnesota TMCs | 4 | dx.doi.org/10.17504/protocols.io.81wgbx933lpk/v1 | https://www.protocols.io/view/protocol-for-primary-mouse-hepatocyte-isolation-un-c5mmy446 | Laura Niedernhofer, David Bernlohr, Linshan Shang | TITLE: Protocol for Primary Mouse Hepatocyte Isolation -- University of Minnesota TMCs
AUTHORS: Laura Niedernhofer, David Bernlohr, Linshan Shang
[DESCRIPTION]
STAR Protocol for Primary Mouse Hepatocyte Isolation -
Protocol used for isolating primary hepatocytes to be used in scRNAseq and bulk RNA seq.
[BEFORE... | ["[Pump Preparation and Mouse Anesthesia] Warm water bath to 42 °C.", "[Pump Preparation and Mouse Anesthesia] Place perfusion buffer in the water bath.", "[Pump Preparation and Mouse Anesthesia] Prepare the peristaltic pump:", "[Pump Preparation and Mouse Anesthesia] Run 70% ethanol through the tubing.", "[Pump Prepar... |
43,644 | Morphotyping Fungal Cultures | 3 | dx.doi.org/10.17504/protocols.io.bnu4meyw | https://www.protocols.io/view/morphotyping-fungal-cultures-bnu4meyw | Craig Bateman, Jiri Hulcr | TITLE: Morphotyping Fungal Cultures
AUTHORS: Craig Bateman, Jiri Hulcr
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocols describes the process of designating fungal morphotypes.</div><div class = "text-block"><span>This protocol is part of the Bark Beetle Mycobiome (BBM) Research Coordi... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.mezc3f6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Experimental procedural checklist. Detailed description of sample exercises with images. Example class outline for the TBP that includes chair, barre, and across the floor exercises. </p>
[STEPS] | [] |
28,368 | CRISPR-Cas9 mutagenesis in Phaeodactylum tricornutum, particle bombardment | null | dx.doi.org/10.17504/protocols.io.7xqhpmw | null | Mark Moosburner | TITLE: CRISPR-Cas9 mutagenesis in Phaeodactylum tricornutum, particle bombardment
AUTHORS: Mark Moosburner
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Particle bombardment mediated transformation of CRISPR-Cas9 components to the diatom Phaeodactylum tricornutum</div></div>
[STEPS]
?. [Phaeodact... | ["[Phaeodactylum cell preparation]\nPlate wild-type Phaeodactylum in preparation for particle bombardment", "[Phaeodactylum cell preparation]\nCalculate the cell concentration of a culture of Phaeodactylum tricornutum that is grown axenically. Calculate the volume required for 1x108 cells total. Pellet at 2000 x g for ... |
89,465 | Bulk RNASeq Delivery | 5 | dx.doi.org/10.17504/protocols.io.rm7vzxx9rgx1/v4 | https://www.protocols.io/view/bulk-rnaseq-delivery-c3kzykx6 | Tyler Stahl | TITLE: Bulk RNASeq Delivery
AUTHORS: Tyler Stahl
[DESCRIPTION]
This protocol will give an overview of the grc data delivery structure and results files
[STEPS]
SECTION: Analysis Overview
1. In brief, the RNASeq analysis follows pre-processing (quality control/filtering/trimming), alignment, post-processing, and dif... | ["[Analysis Overview] In brief, the RNASeq analysis follows pre-processing (quality control/filtering/trimming), alignment, post-processing, and differential expression analysis between sample groups with DESeq2. A detailed overview of the analysis can be found in the README.txt and methods.txt file. Also, please see ... |
97,935 | High molecular weight DNA extraction from fungal spores for long read sequencing | 0 | dx.doi.org/10.17504/protocols.io.n92ld8ybnv5b/v1 | https://www.protocols.io/view/high-molecular-weight-dna-extraction-from-fungal-s-dbvp2n5n | Nonthakorn (Beatrice) Apirajkamol, Wee Tek Tay, Bishwo Mainali, Phillip Taylor, Thomas Kieran Walsh | TITLE: High molecular weight DNA extraction from fungal spores for long read sequencing
AUTHORS: Nonthakorn (Beatrice) Apirajkamol, Wee Tek Tay, Bishwo Mainali, Phillip Taylor, Thomas Kieran Walsh
[DESCRIPTION]
A modified extraction protocol is required to extract high quantity and quality DNA from fungal spores. We o... | ["[Cell disruption] Note: to obtain the best outcome, freshly made lysis buffer should be used.\nMake cell lysis buffer: 50mM Tris-HCL pH8.5, 50mM EDTA, 5% SDS, and 1% beta- mercaptoethanol", "[Cell disruption] Add 250 µl of 1.0 mm zirconia (ceramic) beads and 600 µl of cell lysis buffer in a 2ml microcentrifuge tube\n... |
58,456 | Introductory Hydra Activities | 1 | dx.doi.org/10.17504/protocols.io.b5byq2pw | https://www.protocols.io/view/introductory-hydra-activities-b5byq2pw | Callen Hyland | TITLE: Introductory Hydra Activities
AUTHORS: Callen Hyland
[DESCRIPTION]
This is a series of introductory lab activities for BIOL309-03: Research Methods. The purpose is to master vocabulary related to Hydra anatomy, become familiar with compound microscopes and dissecting microscopes, and practice microdissections ... | ["[Observation activities] In this activity you will become familiar with the anatomy of Hydra including areas of the body, cell layers, and nematocysts, while practicing the new vocabulary we learned in lecture.\n\nLearning objectives:\nUse a compound microscope to examine prepared slides\nMaster vocabulary related to... |
103,196 | Adeno-associated virus (AAV) production and administration | 0 | dx.doi.org/10.17504/protocols.io.bp2l623b5gqe/v1 | https://www.protocols.io/view/adeno-associated-virus-aav-production-and-administ-dgz43x8w | Shiyi Wang | TITLE: Adeno-associated virus (AAV) production and administration
AUTHORS: Shiyi Wang
[DESCRIPTION]
Adeno-associated virus (AAV) production and administration
[STEPS]
1. **Transfection of HEK293T Cells**
1.1. - Transfect HEK293T cells with the following plasmids: pAd-DELTA F6, serotype plasmid AAV PHP.eB, and AAV pla... | ["**Transfection of HEK293T Cells**", "- Transfect HEK293T cells with the following plasmids: pAd-DELTA F6, serotype plasmid AAV PHP.eB, and AAV plasmid (pZac2.1-GfaABC1D-Ezrin-BioID2-HA or pZac2.1-GfaABC1D-Ezrin T567A-BioID2-HA).", "**Cell Lysis and AAV Purification**", "- Three days after transfection, collect cells ... |
37,244 | Wound healing migration/invasion assay in 96-well format | 1 | dx.doi.org/10.17504/protocols.io.bgk4juyw | https://www.protocols.io/view/wound-healing-migration-invasion-assay-in-96-well-bgk4juyw | Douglas Adamoski, Sandra Martha Gomes Dias | TITLE: Wound healing migration/invasion assay in 96-well format
AUTHORS: Douglas Adamoski, Sandra Martha Gomes Dias
[STEPS]
SECTION: Collagen from rat tail tendon purification
1. This first part of the protocol is aimed to prepare the Collagen from rat tail tendon. If your lab already has collagen suitable for 3D matr... | ["[Collagen from rat tail tendon purification] This first part of the protocol is aimed to prepare the Collagen from rat tail tendon. If your lab already has collagen suitable for 3D matrix polymerization, you may skip this step.", "[Collagen from rat tail tendon purification] Remove 10-15 rat tails from -80 °C and le... |
73,417 | Media changes and Passaging in 2- or 5-layer CellStacks | 4 | null | https://www.protocols.io/view/media-changes-and-passaging-in-2-or-5-layer-cellst-cjxhupj6 | Allan JW Lui | TITLE: Media changes and Passaging in 2- or 5-layer CellStacks
AUTHORS: Allan JW Lui
[DESCRIPTION]
Protocol for handling CellStacks
[BEFORE_START]
Ensure shelves of incubator are truly level with a spirit level or app
[STEPS]
SECTION: Passaging
6. Per flask, Prepare and pre-warm:
SECTION: Passaging
7. Pour out ... | ["[Passaging] Per flask, Prepare and pre-warm:", "[Passaging] Pour out media in flask, wash out remaining media twice by:\nAdding PBS\nDistributing evenly between layers to cover the entire culture surface area\nPouring out PBS", "[Passaging] Add Trypsin\nIncubate flask for around 3 min \nTap flask to dislodge cells",... |
62,208 | Superior Keto: Beware Weight Loss Pills SCAM 2022 Reviews? | 3 | dx.doi.org/10.17504/protocols.io.kxygxzokkv8j/v1 | https://www.protocols.io/view/superior-keto-beware-weight-loss-pills-scam-2022-r-b8y8rxzw | ACV Keto | TITLE: Superior Keto: Beware Weight Loss Pills SCAM 2022 Reviews?
AUTHORS: ACV Keto
[DESCRIPTION]
Superior Keto
[STEPS] | [] |
28,191 | Protocol for T7 Exonuclease (NEB #M0263) | 1 | null | https://www.protocols.io/view/protocol-for-t7-exonuclease-neb-m0263-7r7hm9n | New England Biolabs | TITLE: Protocol for T7 Exonuclease (NEB #M0263)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">T7 Exonuclease efficiently degrades nicked and linear dsDNA (with blunt or 3' overhangs) from 5' to 3' direction, leaving supercoiled dsDNA inctact.*</div><div class = "text-... | ["Set-up the reaction as follows: AB1Components50 μl REACTION2 DNAup to 1 μg3 NEBuffer 4 (10x) 5 μl (1X)4 T7 Exonuclease 1 μl (10 units)5 Nuclease-free H2O up to 50 μl\nAB1Components50 μl REACTION2 DNAup to 1 μg3 NEBuffer 4 (10x) 5 μl (1X)4 T7 ... |
79,605 | Protocol for Papillomavirus DNA extraction from cervical brushes using the Wizard® Genomic DNA Purification Kit | 4 | dx.doi.org/10.17504/protocols.io.8epv5jp94l1b/v1 | https://www.protocols.io/view/protocol-for-papillomavirus-dna-extraction-from-ce-cryvv7w6 | Geórgia Hackradt Rêgo, Alice Leite, Maryana Thalyta Ferreira Câmara de Oliveira, Beatriz Helena Dantas Rodrigues de Albuquerque, Larissa Alves Honorato Ferreira, Yago Tomaz Vieira da Silva, Eduardo Pereira de Azevedo, Janaína Ferreira Aderaldo, Daniel Carlos Ferreira Lanza, Ricardo Ney Cobucci | TITLE: Protocol for Papillomavirus DNA extraction from cervical brushes using the Wizard® Genomic DNA Purification Kit
AUTHORS: Geórgia Hackradt Rêgo, Alice Leite, Maryana Thalyta Ferreira Câmara de Oliveira, Beatriz Helena Dantas Rodrigues de Albuquerque, Larissa Alves Honorato Ferreira, Yago Tomaz Vieira da Silva, Ed... | ["[COLLECTION OF SAMPLES] For the collection of endocervical material, the speculum is inserted into the vaginal canal", "[COLLECTION OF SAMPLES] After viewing the cervix, the brush is introduced into the cervical canal", "[COLLECTION OF SAMPLES] Then the brush is rotated 360 degrees by eight turns to the right and eig... |
85,735 | ITS1 Amplicon Prep | 1 | null | https://www.protocols.io/view/its1-amplicon-prep-cxyfxptn | aglazer | TITLE: ITS1 Amplicon Prep
AUTHORS: aglazer
[DESCRIPTION]
This protocol was provided by IDT in the the xGen ITS1 Amplicon Panel manual.
[STEPS]
SECTION: Prepare panel-specific Multiplex PCR Reaction Mix
1. Before mixing reagents, calculate the total volume of the Master Mix based on the number of reactions required, w... | ["[Prepare panel-specific Multiplex PCR Reaction Mix] Before mixing reagents, calculate the total volume of the Master Mix based on the number of reactions required, with 10% overage for pipetting.", "[Prepare panel-specific Multiplex PCR Reaction Mix] Make the Multiplex PCR Reaction Mix according to the table below an... |
64,394 | Fluxactive Complete Reviews: Honest Customer Results or Obvious Ripoff? | 3 | dx.doi.org/10.17504/protocols.io.x54v9yonmg3e/v1 | https://www.protocols.io/view/fluxactive-complete-reviews-honest-customer-result-ca5isg4e | Fluxactive | TITLE: Fluxactive Complete Reviews: Honest Customer Results or Obvious Ripoff?
AUTHORS: Fluxactive
[DESCRIPTION]
Fluxactive Complete has been released as a prostate wellness supplement that can support prostate health in men, which in turn helps keep their bladders and reproductive system healthy.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.iy7cfzn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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84,229 | Samples Preparation for Foodborne Pathogen Detection and Tracking project | 1 | dx.doi.org/10.17504/protocols.io.8epv5x1jdg1b/v1 | https://www.protocols.io/view/samples-preparation-for-foodborne-pathogen-detecti-cwhdxb26 | Engy Nasr, anna.henger, Björn Grüning, Paul Zierep, Bérénice Batut | TITLE: Samples Preparation for Foodborne Pathogen Detection and Tracking project
AUTHORS: Engy Nasr, anna.henger, Björn Grüning, Paul Zierep, Bérénice Batut
[DESCRIPTION]
Our foodborne Pathogen detection and tracking project main goal is to create openly available FAIR workflows capable of detecting and tracking all k... | ["[Materials and Methods] Bacteria stock cultures Salmonella enterica subsp. Houtenae DSM 9221, Salmonella enterica subsp. Enterica DSM 554, Salmonella enterica subsp. Salamae DSM 9220, Campylobacter jejuni subsp. Jejuni DSM 4688, Campylobacter lari subsp. Lari DSM 11375, Listeria monocytogenes DSM 20600, Listeria mono... |
28,113 | Dinoflagellate transformation | null | dx.doi.org/10.17504/protocols.io.7prhmm6 | null | Lu Wang, Brittany Sprecher, Huan Zhang, Senjie Lin | TITLE: Dinoflagellate transformation
AUTHORS: Lu Wang, Brittany Sprecher, Huan Zhang, Senjie Lin
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Protocol of dinoflagellate cell transformation</span></div></div>
[STEPS]
?. Cultivate Fugacium kawagutii (formerly Symb... | ["Cultivate Fugacium kawagutii (formerly Symbiodinium kawagutii) cells in L1 medium with an antibiotic cocktail for 3-4 weeks and Alexandrium catenella cells in L1 with antibiotics for 1-2 weeks. (Final antibiotic concentration is 0.1 mg/ml for Ampicillin, 0.05 mg/ml for Kanamycin and 0.05 mg/ml for Streptomycin).", "H... |
null | null | null | dx.doi.org/10.17504/protocols.io.iavcae6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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57,802 | FACS-based enrichment of transfected hPSCs | 4 | dx.doi.org/10.17504/protocols.io.b4piqvke | https://www.protocols.io/view/facs-based-enrichment-of-transfected-hpscs-b4piqvke | Hanqin Li, Oriol Busquets, Steven Poser, Dirk Hockemeyer, Frank Soldner | TITLE: FACS-based enrichment of transfected hPSCs
AUTHORS: Hanqin Li, Oriol Busquets, Steven Poser, Dirk Hockemeyer, Frank Soldner
[DESCRIPTION]
This protocol describes the procedure FACS-based enrichment of transfected human pluripotent stem cells (hPSCs).
Protocol overview
A. Preparation of samples for FACS sortin... | ["[A. Preparation of samples for FACS sorting] Incubate the hPSC cultures (either feeder-free in mTeSR media or on MEF feeders in hPSC medium) supplemented with 10 µM Y-27632 (1:1000 dilution of stock) for at least .120 min \n\nFor a detailed protocol on growth of hPSCs in feeder-free media refer to the collection \"Fe... |
86,873 | Can light be used to treat obesity and diabetes? | 4 | dx.doi.org/10.17504/protocols.io.j8nlkooj1v5r/v1 | https://www.protocols.io/view/can-light-be-used-to-treat-obesity-and-diabetes-cy3zxyp6 | Rédoane Daoudi | TITLE: Can light be used to treat obesity and diabetes?
AUTHORS: Rédoane Daoudi
[DESCRIPTION]
This document is highly theoretical lab method paper. It may be used to perform thermogenesis from several cells in a living organism instead of only brown adipocytes. We perform thermogenesis from white adipocytes. The purpo... | ["[Introduction] This document is highly theoretical lab method paper. It may be used to perform thermogenesis from several cells in a living organism instead of only brown adipocytes. We perform thermogenesis from white adipocytes. The purpose is to uptake the blood glucose and lipids to produce heat and subsequent we... |
81,412 | Protocol for use with NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB #E7490) and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (E7760, E7765) | 1 | dx.doi.org/10.17504/protocols.io.6qpvredyblmk/v3 | https://www.protocols.io/view/protocol-for-use-with-nebnext-poly-a-mrna-magnetic-ctrcwm2w | New England Biolabs, Isabel Gautreau | TITLE: Protocol for use with NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB #E7490) and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (E7760, E7765)
AUTHORS: New England Biolabs, Isabel Gautreau
[DESCRIPTION]
The NEBNext Ultra II Directional RNA Library Prep Kit for Illumina contains the enzyme... | ["[Preparation of First Strand Reaction Buffer and Probe Hybridization to RNA] Prepare the First Strand Synthesis Reaction Buffer and Random Primer Mix in a nuclease-free microcentrifuge tube as follows: \n\n \nYou can prepare the first strand synthesis reaction buffer later in the protocol, but it is important that it... |
null | null | null | dx.doi.org/10.17504/protocols.io.fwibpce | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.fdpbi5n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Nile Red is prepared in acetone to make a working concentration of 1000 ug/mL. It should be stored at 4°C in the dark. </p>
[STEPS]
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24,099 | Biochemical Measures of Neuropathy -- Glutathione S-Transferase | null | dx.doi.org/10.17504/protocols.io.3sbgnan | null | Eva Feldman | TITLE: Biochemical Measures of Neuropathy -- Glutathione S-Transferase
AUTHORS: Eva Feldman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">Oxidative stress is highly correlated with the metabolic changes caused by hyp... | ["[Sample Preparation: Tissue]\n1. Label 2 sets of 1.5 ml micro-centrifuge tubes and 1 set of 0.5 ml tubes. 2. If not perfused at dissection, rinse tissue with ice cold homogenization buffer to remove RBC’s and clots. 3. Sonicate the tissue on ~5 in 0.5–1 mL of cold homogenizing buffer per mg of tissue. ... |
77,144 | qPCR assay for Aquarickettsia spp. | 4 | dx.doi.org/10.17504/protocols.io.14egn2n6pg5d/v2 | https://www.protocols.io/view/qpcr-assay-for-aquarickettsia-spp-cpjyvkpw | Sterling R Butler, Stephanie Rosales | TITLE: qPCR assay for Aquarickettsia spp.
AUTHORS: Sterling R Butler, Stephanie Rosales
[DESCRIPTION]
qPCR for the quantification of Aquarickettsia spp. (Klinges et al., 2022) a putative parasite found in the coral A. cervicornis. This protocol has been altered by incorporating a recently published A. cervicornis CAM ... | ["[Prepare for qPCR] Remove PCR reagents from freezer and allow reagents to thaw on ice or at room temperature.\nWipe down PCR hood with 10% bleach and ethanol. \nPlace consumables such as tubes, plates, plate sealers, and water in PCR hood and turn on UV light for 20 min \nOnce everything is thawed vortex PCR reagents... |
58,120 | In vitro release, extraction, and analysis of PCBs and metabolites from polymeric implants | 1 | dx.doi.org/10.17504/protocols.io.kqdg3ppj1l25/v1 | https://www.protocols.click/view/in-vitro-release-extraction-and-analysis-of-pcbs-a-b4zgqx3w | Amanda J. Bullert, Hui Wang, Hansjoachim Lehmler | TITLE: In vitro release, extraction, and analysis of PCBs and metabolites from polymeric implants
AUTHORS: Amanda J. Bullert, Hui Wang, Hansjoachim Lehmler
[DESCRIPTION]
This protocol describes a method to determine the release of 2,2’,5,5’-tetrachlorobiphenyl-4-ol (4-OH-PCB 52), a human-relevant metabolite of PCB 5... | ["[Extraction] Transfer 3 mL of each media sample from the in vitro release experiment described above into clean, well-labeled glass vials for extraction (Vial_A)", "[Extraction] TIP: A seven-point calibration curve of the study compound is prepared and extracted concurrently. The calibration curve can then be used to... |
73,877 | Monkeypox virus multiplexed PCR amplicon sequencing (PrimalSeq) | 1 | dx.doi.org/10.17504/protocols.io.5qpvob1nbl4o/v4 | https://www.protocols.io/view/monkeypox-virus-multiplexed-pcr-amplicon-sequencin-ckdvus66 | Nicholas F.G. Chen*, Luc Gagne*, Matthew Doucette, Sandra Smole, Erika Buzby, Joshua Hall, Stephanie Ash, Rachel Harrington, Seana Cofsky, Selina Clancy, Curtis J Kapsak, Joel Sevinsky, Kevin Libuit, mallery.breban, Chrispin Chaguza, Nathan D. Grubaugh, Daniel J. Park, Glen R. Gallagher#, Chantal B.F. Vogels# | TITLE: Monkeypox virus multiplexed PCR amplicon sequencing (PrimalSeq)
AUTHORS: Nicholas F.G. Chen*, Luc Gagne*, Matthew Doucette, Sandra Smole, Erika Buzby, Joshua Hall, Stephanie Ash, Rachel Harrington, Seana Cofsky, Selina Clancy, Curtis J Kapsak, Joel Sevinsky, Kevin Libuit, mallery.breban, Chrispin Chaguza, N... | ["Library Preparation Method", "[Amplicon Generation] Reagents:", "[Amplicon Generation] In two separate tubes, prepare the following master mixes:", "[Amplicon Generation] Label two sets of PCR tubes/plates for Pool 1 and Pool 2", "[Amplicon Generation] Add the following: \n20 µL Pool 1 master mix to each Pool 1 tube/... |
null | null | null | dx.doi.org/10.17504/protocols.io.p59dq96 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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35,892 | Detection of Sars-Cov2 Using qPCR | null | dx.doi.org/10.17504/protocols.io.bfaujiew | https://www.protocols.io/view/detection-of-sars-cov2-using-qpcr-bfaujiew | Joseph Patterson, Allyson Cole-Strauss, John Beck, Caryl Sortwell, Jack Lipton | TITLE: Detection of Sars-Cov2 Using qPCR
AUTHORS: Joseph Patterson, Allyson Cole-Strauss, John Beck, Caryl Sortwell, Jack Lipton
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">PCR based tests, such as quantitative PCR (qPCR) are the gold standard to test for the novel coronavirus (SARS-Cov2). Many ... | ["[cDNA Synthesis]\nAdd 4 µL of Superscript IV VILO Master Mix (Fisher, 11-755-250) to each PCR tube (using PCR strip tubes).", "[cDNA Synthesis]\nAdd 16ul RNA of RNA to each PCR tube (using PCR strip tubes).", "[cDNA Synthesis]\nGently mix by inversion and briefly centrifuge to collect the liquid at the bottom of the ... |
84,886 | Immunization with alpha-synuclein peptide | 4 | dx.doi.org/10.17504/protocols.io.e6nvwd5bwlmk/v1 | https://www.protocols.click/view/immunization-with-alpha-synuclein-peptide-cw5wxg7e | Connor Monahan | TITLE: Immunization with alpha-synuclein peptide
AUTHORS: Connor Monahan
[DESCRIPTION]
This protocol details immunization of MHC-II(-/-); HLA DRB1*15:01 mice with alpha-synuclein(32-46) peptide in complete Freund's adjuvant.
[STEPS]
SECTION: Immunization
1. Prepare immunization emulsions:
SECTION: Immunization
1.1. P... | ["[Immunization] Prepare immunization emulsions:", "[Immunization] Prepare 200 µg of M. tuberculosis H37Ra (BD Difco Adjuvant, Fisher Scientific, Cat #DF0638-60-7; Waltham, MA) in 1x PBS or in 100 µg a-syn32-46 peptide (A&A peptides; San Diego, CA) dissolved in 1x PBS.", "[Immunization] Immunize 8- to 12-week-old male ... |
null | null | null | dx.doi.org/10.17504/protocols.io.heib3ce | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><span style="color: #000339; font-family: Raleway, sans-serif; font-size: 14px; font-style: normal; font-variant-ligatures: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: 2; text-align: start; text-indent: 0px; text-transform: none; w... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ehmbb46 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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36,747 | Maxpar Antibody Labeling for Imaging Mass Cytometry | null | dx.doi.org/10.17504/protocols.io.bf5jjq4n | https://www.protocols.io/view/maxpar-antibody-labeling-for-imaging-mass-cytometr-bf5jjq4n | Marda Jorgensen, Michelle Daniel | TITLE: Maxpar Antibody Labeling for Imaging Mass Cytometry
AUTHORS: Marda Jorgensen, Michelle Daniel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Version 11 of the antibody labelling protocol published by Fluidigm.</span></div></div>
[STEPS]
?. [Preload the poly... | ["[Preload the polymer with lanthanide. ]\n1 Spin the polymer tube for 10 seconds in a microfuge to ensure that the reagent is at the bottom of the tube. 2 Resuspend the polymer with 95 μL of L-Buffer. 3 Mix thoroughly by pipetting. 4 Add 5 μL of lanthanide metal solution to the tube (final concentration: 2.5 mM in 100... |
null | null | null | dx.doi.org/10.17504/protocols.io.hfib3ke | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol is modified from: </p>
<p>Raghukumar S, Schaumann K. 1993. An epifluorescence microscopy method for direct<br />detection and enumeration of the fungilike marine protists, the thraustochytrids. Limnol.<br />Oceanogr. 38(1): 182-187.</p>
[STEPS]
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83,545 | DNA Extraction Protocol from Sterivex Filters | 1 | dx.doi.org/10.17504/protocols.io.ewov1qyyygr2/v1 | https://www.protocols.io/view/dna-extraction-protocol-from-sterivex-filters-cvtzw6p6 | Meghan M. Shea, Alexandria B Boehm | TITLE: DNA Extraction Protocol from Sterivex Filters
AUTHORS: Meghan M. Shea, Alexandria B Boehm
[DESCRIPTION]
This is a modified protocol for extracting DNA from Sterivex filters using an adjusted procedure with the Qiagen DNeasy Blood and Tissue Kit, as first published by Spens et al. 2017.
This protocol originat... | ["[Day 1 - DNA Lysing] Clean bench area with bleach, ethanol, and RNase away", "[Day 1 - DNA Lysing] Turn on incubator and set to 56°C", "[Day 1 - DNA Lysing] Wipe down 1000 µL and 200 µL pipettes with RNase Away and UV for 15 minutes on each side", "[Day 1 - DNA Lysing] Remove sterivex filters from -15°C freezer", "[D... |
null | null | null | dx.doi.org/10.17504/protocols.io.cqivud | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is a generic PNGase F protocol with non-denaturing reaction conditions. It is appropriate for both <a href="https://www.neb.com/products/p0704-pngase-f" target="_blank">P0704</a> and <a href="https://www.neb.com/products/p0708-pngase-f-recombinant" targe... | [] |
30,709 | Preparation of Brain Samples for LEGEND MAX™ Beta Amyloid ELISA | null | dx.doi.org/10.17504/protocols.io.98vh9w6 | null | Sam Li | TITLE: Preparation of Brain Samples for LEGEND MAX™ Beta Amyloid ELISA
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Soluble and insoluble tissue fractionation - This protocol generates soluble and insoluble subcellular fractions for analysis of Aβ partitioning in tissues.]
Homogenize in... | ["[Soluble and insoluble tissue fractionation - This protocol generates soluble and insoluble subcellular fractions for analysis of Aβ partitioning in tissues.]\nHomogenize in TBS with protease inhibitors (Pierce sells excellent solid tablets for use with homogenization buffers) at 5mLs per 1g tissue. Teflon/glass homo... |
26,207 | HMW DNA extraction from diverse plants species for PacBio and Nanopore sequencing | 1 | dx.doi.org/10.17504/protocols.io.5t7g6rn | https://www.protocols.io/view/hmw-dna-extraction-from-diverse-plants-species-for-5t7g6rn | Alessia Russo, Giacomo Potente, Baptiste Mayjonade | TITLE: HMW DNA extraction from diverse plants species for PacBio and Nanopore sequencing
AUTHORS: Alessia Russo, Giacomo Potente, Baptiste Mayjonade
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Modified from the protocol of Baptiste Mayjonade, Jérome Gouzy, Cécile Donnadieu, Nicolas Pouilly, Will... | ["[Cell Lysis]\nIncubate Lysis Buffer at 65 °C for at least 30 minutes (gently mix the tube every 10 minutes). For convenience, one can aliquote 600 µl Lysis Buffer in a 2 ml tube per sample and incubate in the water bath.Keep the SDS Lysis Buffer at 65°C until the tissue powder is added (the buffer has to be warm to e... |
87,515 | Imaging peripheral nerve tissue with 3D-MUSE | 1 | dx.doi.org/10.17504/protocols.io.n2bvj3nkplk5/v1 | https://www.protocols.io/view/imaging-peripheral-nerve-tissue-with-3d-muse-czp3x5qn | Chaitanya Kolluru, Michael W. Jenkins, David L. Wilson, James Seckler | TITLE: Imaging peripheral nerve tissue with 3D-MUSE
AUTHORS: Chaitanya Kolluru, Michael W. Jenkins, David L. Wilson, James Seckler
[DESCRIPTION]
3D-MUSE is a novel serial block-face imaging technology, designed to image tissue samples embedded in a
resin medium. This protocol provides a step by step overview of imagin... | ["[Setting up the microtome prior to imaging] Ensure that the microtome is in the 3D mode by following the steps in the user manual. Set the section thickness to 3 microns and the cutting speed to level one. The cutting angle is around 4-6 degrees.", "[Setting up the microtome prior to imaging] Clamp the tissue block i... |
99,258 | Assessment of tuberculosis transmission probability in three Thai prisons based on five dynamic models | 0 | dx.doi.org/10.17504/protocols.io.6qpvr868zlmk/v1 | https://www.protocols.io/view/assessment-of-tuberculosis-transmission-probabilit-dc622zge | Nithinan Mahawan, Thanapoom Rattananupong, Puchong Sri-Uam, Wiroj Jiamjarasrangsi | TITLE: Assessment of tuberculosis transmission probability in three Thai prisons based on five dynamic models
AUTHORS: Nithinan Mahawan, Thanapoom Rattananupong, Puchong Sri-Uam, Wiroj Jiamjarasrangsi
[DESCRIPTION]
This study aimed to assess and compare the probability of tuberculosis (TB) transmission based on five d... | ["[Research ethics] The study received ethical approval from the Ethical Review Board of Chulalongkorn University\nFaculty of Medicine, with reference number 610/63.", "[Research ethics] Contact the academic department of the Department of Corrections to gained permission from\nthe Department of Corrections at the Mini... |
57,275 | L3 stage C. elegans dissociation for FACS isolation and RNA-seq analysis of intestine-specific cells | 4 | dx.doi.org/10.17504/protocols.io.14egn7zwmv5d/v1 | https://www.protocols.io/view/l3-stage-c-elegans-dissociation-for-facs-isolation-b363qrgn | Robert TP Williams, Erin Osborne Nishimura | TITLE: L3 stage C. elegans dissociation for FACS isolation and RNA-seq analysis of intestine-specific cells
AUTHORS: Robert TP Williams, Erin Osborne Nishimura
[DESCRIPTION]
This protocol is for generating a single cell suspension suitable for isolation of intestine-specific cells through Fluorescence Activated Cell S... | ["[Before beginning] Prepare reagents in advance\n\n\nL15-10 Buffer: Mix 500 ml Leibovitz's L-15 Medium, 50 ml Fetal Bovine Serum (heat inactivated), 50 ul of 100x Penicillin-Streptomycin solution and 7.7 g sucrose. Filter with 0.2 micron pore filter. Store at 4ºC.\n\nEgg Buffer: Mix 29.5 ml of 2M NaCl, 12 ml of 2M KCl... |
85,689 | Measurement of GCase activity in lysosomes in live cells | 4 | null | https://www.protocols.io/view/measurement-of-gcase-activity-in-lysosomes-in-live-cxwzxpf6 | rachel.bates | TITLE: Measurement of GCase activity in lysosomes in live cells
AUTHORS: rachel.bates
[DESCRIPTION]
Assay uses the substrate PFB-FDGluc (5-(Pentafluorobenzoylamino)Fluorescein Di-β-D-Glucopyranoside)from
ThermoScientific (Cat# P11947). Substrate is supposed to be taken up by late
endosomes and lysosomes only and flu... | ["Wash cells once carefully with prewarmed PBS.", "Add 125ul substrate (400ug/ml substrate (400 mg/ml in OPTIMEM) per well. Put in 37 °C incubator for 1 h.", "Aspirate substrate. Wash cells three times with 250 ml PBS (37 °C).", "ADD 125UL ml OPTIMEM (37 °C). Measure t=0 minutes on plate reader: Ex, 488nm, Em, 520 nm. ... |
null | null | null | dx.doi.org/10.17504/protocols.io.iqzcdx6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Daniel Richter, Nov 29, 2011</p>
<p>based on RNAqueous May 29, 2008 protocol revision C, TURBO DNA-free June 9, 2009 protocol 1907M revision F</p>
[GUIDELINES]
<p>To avoid possible RNA degradation, try to work quickly in all steps.</p>
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.gzkbx4w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>After cell lysis and centrifugation the possibly misfolded proteins can be refolded with this protocol.</p>
[STEPS]
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80,500 | Cell Passage Protocol | 4 | dx.doi.org/10.17504/protocols.io.bp2l696w1lqe/v1 | https://www.protocols.io/view/cell-passage-protocol-csuuweww | Creative Bioarray | TITLE: Cell Passage Protocol
AUTHORS: Creative Bioarray
[DESCRIPTION]
Cell subculture is one of the conventional methods of cell culture, when cells with the extension of culture time and cell division, cells contact with each other and contact occurs, growth rate slows down or even stops, and will also be due to insu... | ["[Methods] Cell passage preparation: Before the start of the experiment, 15 mL of consumables such as centrifuge tubes, pipettes, and tips required for the experiment are put into a sterile ultra-clean table. The morphology and growth density of the cells are observed under a microscope, and passage could be performed... |
null | null | null | dx.doi.org/10.17504/protocols.io.hjtb4nn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Procedure for the transformation of the nuclear genome of <em>Tetraselmis striata</em> by microprojectile bombardment.</p>
[GUIDELINES]
<p>The overall bombardment protocol has been modified from that used for chloroplast transformation of <em>Chlamydomonas reinhardtii</em> (... | [] |
69,221 | Measurement of Extracellular Vesicles with Tunable Resistive Pulse Sensing | 1 | dx.doi.org/10.17504/protocols.io.ewov1ojnolr2/v1 | https://www.protocols.io/view/measurement-of-extracellular-vesicles-with-tunable-cfudtns6 | J. Nathaniel Diehl, Amelia Ray, Lauren B. Collins, Andrew Peterson, Kyle C. Alexander, John S. Ikonomidis, Adam W. Akerman | TITLE: Measurement of Extracellular Vesicles with Tunable Resistive Pulse Sensing
AUTHORS: J. Nathaniel Diehl, Amelia Ray, Lauren B. Collins, Andrew Peterson, Kyle C. Alexander, John S. Ikonomidis, Adam W. Akerman
[DESCRIPTION]
This protocol details the steps necessary to quantify the concentration and size distributi... | ["[Reagent and sample preparation] Prepare 2x phosphate-buffered saline (2x PBS).", "[Reagent and sample preparation] Dilute calibration particles (CPC100) 1:1500 in 2x ME. Store at 4 °C 1-2 weeks.", "[Reagent and sample preparation] Thaw sample(s) at Room temperature and centrifuge 10000 x g for 10 min.", "[Reagent a... |
53,376 | Encoding Probe Design using PaintSHOP, SOP006.v1.1 | 1 | null | https://www.protocols.io/view/encoding-probe-design-using-paintshop-sop006-v1-1-byc8pszw | Nicole Houchins, Rory Kruithoff, Douglas Shepherd | TITLE: Encoding Probe Design using PaintSHOP, SOP006.v1.1
AUTHORS: Nicole Houchins, Rory Kruithoff, Douglas Shepherd
[DESCRIPTION]
Document Summary: This document, SOP006 – Encoding Probe Design using PaintSHOP, describes how to construct RNA-targeting, DNA-based encoding probes with the open-source, interactive ap... | ["[Part 1 - Generating encoding probe sequences - Step 1: Determine gene/genes of interest] Determine a gene or list of genes of interest for your specific experimental design. Gene selection may require consideration of expression levels depending on the sample size and distribution of the expression of the selected... |
84,917 | Feline Enteric Virus Detection Assay | 1 | dx.doi.org/10.17504/protocols.io.3byl4qk5jvo5/v1 | https://www.protocols.io/view/feline-enteric-virus-detection-assay-cw6vxhe6 | Come J Thieulent, Mariano Carossino, Laura Peak, Udeni B. R. Balasuriya | TITLE: Feline Enteric Virus Detection Assay
AUTHORS: Come J Thieulent, Mariano Carossino, Laura Peak, Udeni B. R. Balasuriya
[DESCRIPTION]
The Feline Enteric Virus Detection Assay is intended as an in vitro veterinary reagent set, based on Reverse Transcription quantitative PCR (RT-qPCR), for the detection of feline c... | ["[Reaction Set Up] Thaw all reagents on ice.", "[Reaction Set Up] Centrifuge all reagents on a benchtop centrifuge to ensure no liquid is in cap and keep on ice", "[Reaction Set Up] Setup the Master Mix according to the following table 1:", "[PROGRAMMING THE THERMOCYCLER] Select the following fluorescence channels: AB... |
66,363 | Via Keto Gummies Australia (Shocking Side Effects) Read Ingredients, Pros, Cons | 1 | dx.doi.org/10.17504/protocols.io.n2bvj6w8xlk5/v1 | https://www.protocols.io/view/via-keto-gummies-australia-shocking-side-effects-r-cc23sygn | cbbf | TITLE: Via Keto Gummies Australia (Shocking Side Effects) Read Ingredients, Pros, Cons
AUTHORS: cbbf
[DESCRIPTION]
Via Keto Gummies Australia (Shocking Side Effects) Read Ingredients, Pros, Cons & Where To Buy Via Keto Gummies Australia?
===>(OFFICIAL WEBSITE) Click Here To Order Via Keto Gummies In Australia (AU)
... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.pxadpie | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>To separate and visualize DNA fragments of varying sizes, using a gel matrix and an electrical current.</p>
<p> </p>
<p> </p>
[STEPS]
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33,736 | Protein extraction form Aurantiochytrium limacinum (ATCC MYA-1381) | null | dx.doi.org/10.17504/protocols.io.bc7gizjw | null | Anbarasu Karthikaichamy | TITLE: Protein extraction form Aurantiochytrium limacinum (ATCC MYA-1381)
AUTHORS: Anbarasu Karthikaichamy
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Protein extraction protocol for </span><span style = "font-style:italic;">Aurantiochytrium limacinum</span><span> (ATCC MYA-1381; Stramenop... | ["[Lysis buffer preparation]\nStart by making stocks of the following, KCl MgCl2TrisPrepare lysis buffer (LyB) by adding the following chemicals (for 10ml), AB1ChemicalVolume (uL)2KCl (1M)5003MgCl2 (25mM)10004Tris (1M)5005NP40 (100%)456Tween (100%)457dH2O8310\nAB1ChemicalVolume (uL)2KCl (1M)5003MgCl2 (25mM)10004Tris ... |
62,267 | Keto Start ACV Gummies Reviews & Shark Tank, Price, Benefits | 1 | dx.doi.org/10.17504/protocols.io.4r3l2oe83v1y/v1 | https://www.protocols.io/view/keto-start-acv-gummies-reviews-amp-shark-tank-pric-b823rygn | ketostartgummiesreviews | TITLE: Keto Start ACV Gummies Reviews & Shark Tank, Price, Benefits
AUTHORS: ketostartgummiesreviews
[DESCRIPTION]
Keto Start ACV Gummies Reviews & Shark Tank, Price, Benefits
[STEPS]
SECTION: Keto Start ACV Gummies Reviews & Shark Tank, Price, Benefits Keto Start ACV Gummies – The Lozenge to Fasten Weight ... | ["[Keto Start ACV Gummies Reviews & Shark Tank, Price, Benefits Keto Start ACV Gummies – The Lozenge to Fasten Weight Losing Process! It takes further fidelity than your appetite to go to the spa everyday say. A lot of people will lose their confidence after not getting early results. Getting relieve off from fat... |
65,632 | Physical property-Stability and pH (TBE and Borax Agarose electrophoresis buffer) | 4 | null | https://www.protocols.io/view/physical-property-stability-and-ph-tbe-and-borax-a-ccb8ssrw | Stephane Fadanka, Nadine Mowoh | TITLE: Physical property-Stability and pH (TBE and Borax Agarose electrophoresis buffer)
AUTHORS: Stephane Fadanka, Nadine Mowoh
[DESCRIPTION]
The pH check is important because changes in the pH might affect mobility of DNA in the agarose gel hence PCR result alteration and misinterpretation.
The physical stability... | ["[Confirming Stability and pH] To confirm the weight of the powder buffer sachet:\n\nWeigh the individual powder components that constitute the buffer ( the individual powders could be pre-dried if necessary in an incubator with silica gel beads at 37 °C)\nPut them together in a beaker and mix.\nPour the powder mix in... |
54,108 | Diffusion weighted MRI of Mouse Abdomen | 1 | dx.doi.org/10.17504/protocols.io.kxygxp6jol8j/v1 | https://www.protocols.io/view/diffusion-weighted-mri-of-mouse-abdomen-by34pyqw | Mamtaaryagupta , Miguelrj , Stephen Pickup, Hee Kwon Song, Rong Zhou | TITLE: Diffusion weighted MRI of Mouse Abdomen
AUTHORS: Mamtaaryagupta , Miguelrj , Stephen Pickup, Hee Kwon Song, Rong Zhou
[DESCRIPTION]
This SOP includes animal prep and scanner setting up for scout and radial k-space sampling of diffusion weighted MRI of mouse abdomen.
[STEPS]
1. This SOP includes a brief Di... | ["This SOP includes a brief Diffusion weighted MRI protocol that consists of following major steps:\n\n1. Animal Preparation and induction of general anesthesia\n\n2. MRI calibration and acquisition of Radial diffusion weighted MRI\n\n3. Animal recovery\n\nAnimal Preparation\n\nAnimal should be transferred from the hom... |
88,731 | Saliva Collection | 4 | dx.doi.org/10.17504/protocols.io.q26g7pxr8gwz/v1 | https://www.protocols.io/view/saliva-collection-c2v3ye8n | Kwang Nickel, Cristina Paz, Randall J Kimple | TITLE: Saliva Collection
AUTHORS: Kwang Nickel, Cristina Paz, Randall J Kimple
[DESCRIPTION]
This is a protocol for collection of saliva from mice with pilocarpine stimulation and isoflurane anesthesia.
[STEPS]
SECTION: Preparation
1. To prepare a stock solution of pilocarpine hydrochloride (Sigma-Aldrich, catalog # ... | ["[Preparation] To prepare a stock solution of pilocarpine hydrochloride (Sigma-Aldrich, catalog # 6503), weigh 10 mg of the compound and dissolve it in 1.776 mL of sterile isotonic saline by vortexing, to give a stock solution of 5.63 mg/ml. There is no need to sterilize this solution. But if desired, filter it throu... |
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