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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null | null | null | dx.doi.org/10.17504/protocols.io.t3geqjw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol was developed for the human breast cell atlas (HBCA) project to obtain high-viability cell suspensions from freshly dissociated breast tissues from human patients. There are two options for performing this protocol: rapid-dissociation (15-30 min) or exhaustive diss... | ["[Making 10xcollagenase solution] {\"blocks\":[{\"key\":\"ia6g\",\"text\":\"Dissolve in .\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[{\"offset\":9,\"length\":1,\"key\":0},{\"offset\":14,\"length\":1,\"key\":1}],\"data\":[]}],\"entityMap\":[{\"type\":\"amount\",\"mutability\":\"MU... |
39,820 | Rehabilitation protocol after varization osteotomy - Case Study | 3 | dx.doi.org/10.17504/protocols.io.bi5kkg4w | https://www.protocols.io/view/rehabilitation-protocol-after-varization-osteotomy-bi5kkg4w | Sebastião Santos | TITLE: Rehabilitation protocol after varization osteotomy - Case Study
AUTHORS: Sebastião Santos
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Background: </span><span>Knee rehabilitation using therapeutic exercises in the aquatic environment has been used in orde... | [] |
43,592 | Linker Ligation at both Ends of RNAs on Beads | 4 | dx.doi.org/10.17504/protocols.io.bntgmejw | https://www.protocols.io/view/linker-ligation-at-both-ends-of-rnas-on-beads-bntgmejw | Clémentine Delan-Forino, David Tollervey | TITLE: Linker Ligation at both Ends of RNAs on Beads
AUTHORS: Clémentine Delan-Forino, David Tollervey
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes of RNA in eukaryotes and Archaea. Functional ... | ["[Dephosphorylation of RNA 3′ P Ends Using Alkaline Phosphatase (TSAP)]\nTSAP catalyzes removal of 5′ and 3′ phosphate groups from DNA and RNA; it is effective on 3′ overhangs, 5′ overhangs and blunt ends and leaves 5′ OH and 3′ OH ends. Treating the RNAs with alkaline phosphatase will remove the 3′ phosphates left be... |
69,964 | IAV H1N1 MDCK Plaque Assay Protocol | 1 | dx.doi.org/10.17504/protocols.io.5qpvornqbv4o/v1 | https://www.protocols.io/view/iav-h1n1-mdck-plaque-assay-protocol-cgjktukw | Michaela Lunn, Earl G. Brown | TITLE: IAV H1N1 MDCK Plaque Assay Protocol
AUTHORS: Michaela Lunn, Earl G. Brown
[DESCRIPTION]
This protocol is used to determine the plaque forming units of H1N1 virus in tissue lysates.
[STEPS]
1. Grow MDCK cells in 6-well plates
2. When confluent, proceed with plaque assay. Best day to start is Monday, Tuesday, o... | ["Grow MDCK cells in 6-well plates", "When confluent, proceed with plaque assay. Best day to start is Monday, Tuesday, or Friday to avoid working on the weekend", "Spin homogenate samples at 5.0RPM for 10 min. at 4C, and then prepare serial dilutions from the supernatant. (Lung tissue from 3 days-post-inoculation H1N1-... |
null | null | null | dx.doi.org/10.17504/protocols.io.gmbbu2n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>SNPs calling protocol for analysis the genetic polymorphism among natural color variants. This protocol accompanies the following <em>GigaScience</em> publication:</p>
<p> </p>
<p>Jihoon Jo, et al. (2016): Draft genome of the sea cucumber Apostichopus japonicus and genetic p... | [] |
66,907 | DNA extraction (BOMB_Soil) | 4 | dx.doi.org/10.17504/protocols.io.q26g74e8kgwz/v1 | https://www.protocols.io/view/dna-extraction-bomb-soil-cdj3s4qn | Tsu-Chun Hung, Yin-Tse Huang, Hsin-Mao Wu | TITLE: DNA extraction (BOMB_Soil)
AUTHORS: Tsu-Chun Hung, Yin-Tse Huang, Hsin-Mao Wu
[DESCRIPTION]
DNA extraction (BOMB_Soil)
[STEPS]
SECTION: Sample Collection
2. Add 200 µL of 1mm beads to 2ml enppendorf tube
SECTION: Sample Collection
3. Add200 µL of 0.5mm beads to 2ml enppendorf tube
SECTION: Sample Colle... | ["[Sample Collection] Add 200 µL of 1mm beads to 2ml enppendorf tube", "[Sample Collection] Add200 µL of 0.5mm beads to 2ml enppendorf tube", "[Sample Collection] Add 225 µL of TE buffer to 2ml enppendorf tube", "[Sample Collection] Add 375 µL of lysis buffer to 2ml enppendorf tube", "[Sample Collection] Take 2ml enppe... |
27,359 | Quantifying how FAIR is Hong Kong: The Hong Kong Shareability of Hong Kong University Research Experiment | null | dx.doi.org/10.17504/protocols.io.6x7hfrn | null | Scott Edmunds, Jesse Xiao, Hongling Zhou | TITLE: Quantifying how FAIR is Hong Kong: The Hong Kong Shareability of Hong Kong University Research Experiment
AUTHORS: Scott Edmunds, Jesse Xiao, Hongling Zhou
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Using 59 HKU students undertaking the data curation module of the Master of Science... | [] |
62,300 | Amira Annotation Protocol | 1 | dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v1 | https://www.protocols.io/view/amira-annotation-protocol-b834ryqw | Grace Park, Nora Forknall, Larissa Heinrich, Henrique Ludwig, Ruchi Parekh, Alyson Petruncio, Jacquelyn Price, Diana Ramirez, rymert, Stephan Saalfeld, Alia Suleiman, Rebecca Vorimo, Aubrey Weigel | TITLE: Amira Annotation Protocol
AUTHORS: Grace Park, Nora Forknall, Larissa Heinrich, Henrique Ludwig, Ruchi Parekh, Alyson Petruncio, Jacquelyn Price, Diana Ramirez, rymert, Stephan Saalfeld, Alia Suleiman, Rebecca Vorimo, Aubrey Weigel
[DESCRIPTION]
In this protocol we describe the voxel-based classification of org... | ["[Mitochondria] Mitochondria \n\n \n\nSummary\n\nLarge, ovoid organelles characterized by outer and inner membranes that form cristae. Mitochondria can fuse and branch to form tubular networks. Inner membrane folding density varies based on cell type. Dark-staining aggregates within mitochondria lumen have been iden... |
52,594 | WIPI2d Coprecipitation Assay | 4 | dx.doi.org/10.17504/protocols.io.bxkspkwe | https://www.protocols.io/view/wipi2d-coprecipitation-assay-bxkspkwe | lmstrong | TITLE: WIPI2d Coprecipitation Assay
AUTHORS: lmstrong
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Pulldown assay of WIPI2d</div></div>
[STEPS]
?. Equilibrate 10uL of GST resin to pulldown buffer. To do this, pipette 40uL of slurry (so 20uL of resin) into a 1.7uL eppy. Add >500mL of wash buffer... | ["Equilibrate 10uL of GST resin to pulldown buffer. To do this, pipette 40uL of slurry (so 20uL of resin) into a 1.7uL eppy. Add >500mL of wash buffer. Slow spin to pellet resin. ~1000rpm for 1 minute should be good. Repeat X3", "Add 10 μM purified WIPI2d and either with 20 μM of GST or GST-ATG16L1(207-230). Add buffer... |
41,549 | ELISA for quantification of monocyte chemoattractant protein-1 (MCP-1/CCL2) in human serum or plasma | 6 | dx.doi.org/10.17504/protocols.io.bktmkwk6 | https://www.protocols.io/view/elisa-for-quantification-of-monocyte-chemoattract-bktmkwk6 | Angel Justiz-Vaillant, Belkis Ferrer-Cosme | TITLE: ELISA for quantification of monocyte chemoattractant protein-1 (MCP-1/CCL2) in human serum or plasma
AUTHORS: Angel Justiz-Vaillant, Belkis Ferrer-Cosme
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The monocyte chemoattractant protein-</span><span style = "font-style:italic;"... | ["An anti-human monocyte chemoattractant protein-1 (MCP-1/CCL2) coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum or plasma into the wells. Human MCP-1/CCL2 present in the serum sample binds to antibodies adsorbed into the micr... |
7,336 | Water Sampling onto Filters for Nucleic Acids Sequencing | null | dx.doi.org/10.17504/protocols.io.jegcjbw | null | Melissa Duhaime, Morgan Lindback, Rachel Cable | TITLE: Water Sampling onto Filters for Nucleic Acids Sequencing
AUTHORS: Melissa Duhaime, Morgan Lindback, Rachel Cable
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol will guide you through the process of filter water using a serial filtration approach to generate filters with microbi... | ["[Assembly of pump and filtration units]\nThe goal of this step is to prepare unit such that direction of flow in tubing will be from water source, through pump head, through first filtration unit, through second filteration unit, and then into collection receptacle. Attach tubing to both ends of a 47 mm filter unit.R... |
88,652 | Biochemical assays and evaluation | 1 | dx.doi.org/10.17504/protocols.io.5jyl8pey7g2w/v1 | https://www.protocols.io/view/biochemical-assays-and-evaluation-c2tkyekw | lparra | TITLE: Biochemical assays and evaluation
AUTHORS: lparra
[DESCRIPTION]
Preparation of brain and Neuro2A lysates
[STEPS]
SECTION: Preparation of Brain and Neuro2A Lysates
1.
Whole mouse brains were homogenized with a Dounce tissue grinder (20
times) in neuronal protein extraction reagent (N-PER) (Thermo... | ["[Preparation of Brain and Neuro2A Lysates] Whole mouse brains were homogenized with a Dounce tissue grinder (20\ntimes) in neuronal protein extraction reagent (N-PER) (Thermo Scientific)\ncontaining protease/phosphatase inhibitors (Cell Signaling #5872).", "[Preparation of Brain and Neuro2A Lysates] Triton X-100 (Sig... |
98,588 | How to book a sorting slot in PPMS | 0 | dx.doi.org/10.17504/protocols.io.36wgq32n3lk5/v2 | https://www.protocols.io/view/how-to-book-a-sorting-slot-in-ppms-dch42t8w | Daniel Gimenes | TITLE: How to book a sorting slot in PPMS
AUTHORS: Daniel Gimenes
[DESCRIPTION]
Step by step protocol on how to book a cell sorter at EMBL's Flow Cytometry Core Facility
[STEPS]
SECTION: Access the PPMS calendar
1. Go to https://ppms.embl.de
SECTION: Access the PPMS calendar
2. Click on Flow Cytometry Core Facility
... | ["[Access the PPMS calendar] Go to https://ppms.embl.de", "[Access the PPMS calendar] Click on Flow Cytometry Core Facility", "[Access the PPMS calendar] Login into your account", "[Access the PPMS calendar] On the upper tabs, click on \"BOOK\"", "[Access the PPMS calendar] Select one of the cell sorters that you want ... |
85,589 | Human ovarian tissue explant cultures (static or fluidic conditions) | 1 | dx.doi.org/10.17504/protocols.io.3byl4qbdjvo5/v1 | https://www.protocols.click/view/human-ovarian-tissue-explant-cultures-static-or-fl-cxtvxnn6 | hannah.anvari, pooja.devrukhkar, francesca.e.duncan francesca.duncan | TITLE: Human ovarian tissue explant cultures (static or fluidic conditions)
AUTHORS: hannah.anvari, pooja.devrukhkar, francesca.e.duncan francesca.duncan
[DESCRIPTION]
The Cellular Senescence Network (SenNet) was recently established to map senescent cells in the human body. As part of this initiative, our goal is to ... | ["[Processing human ovarian tissue for ovarian explant culture]", "[Processing human ovarian tissue for ovarian explant culture] Ovarian tissue samples are collected from the Northwestern Pathology department and placed immediately on ice following collection. The research coordinator will bring research specimens to t... |
58,965 | Affordable method for genotyping HIV-1 reverse transcriptase, protease and integrase genes: an in-house protocol | 1 | dx.doi.org/10.17504/protocols.io.b5tvq6n6 | https://www.protocols.io/view/affordable-method-for-genotyping-hiv-1-reverse-tra-b5tvq6n6 | Sontaga Manyana, Melendhran Pillay, Lilishia Gounder, Aabida Khan, Pravi Moodley, Kogieleum Naidoo, Benjamin Chimukangara | TITLE: Affordable method for genotyping HIV-1 reverse transcriptase, protease and integrase genes: an in-house protocol
AUTHORS: Sontaga Manyana, Melendhran Pillay, Lilishia Gounder, Aabida Khan, Pravi Moodley, Kogieleum Naidoo, Benjamin Chimukangara
[DESCRIPTION]
HIV drug resistance (HIVDR) remains a major threat... | ["[PCR MASTER MIX] Preparation of one-step reverse transcription and second-round PCR master mix", "[DETECTION OF AMPLICONS] Gel electrophoresis on agarose gel.", "[SEQUENCE ANALYSIS] Sequence editing and drug resistance interpretation.", "[EXTRACTION] Sample preparation and RNA extraction on NucliSENS easyMAG", "[EXTR... |
null | null | null | dx.doi.org/10.17504/protocols.io.hsnb6de | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.khkct4w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Extraction of high quality DNA for long read sequencing e.g. the Oxford Nanopore </p>
<p>Optimized for DNA extraction from eucalyptus grandis and eucalyptus pauciflora. </p>
<p> </p>
<p>This protocol contains an optional Chloroform clean up step which is necessary for eucalyp... | [] |
45,881 | Attentional function in fibromyalgia and rheumatoid arthritis | 1 | dx.doi.org/10.17504/protocols.io.bq2zmyf6 | https://www.protocols.io/view/attentional-function-in-fibromyalgia-and-rheumatoi-bq2zmyf6 | Carmen M Galvez-Sanchez, Pablo de la Coba, José M. Colmenero, Gustavo A. Reyes del Paso, Stefan Duschek | TITLE: Attentional function in fibromyalgia and rheumatoid arthritis
AUTHORS: Carmen M Galvez-Sanchez, Pablo de la Coba, José M. Colmenero, Gustavo A. Reyes del Paso, Stefan Duschek
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify">Concentration diff... | [] |
81,469 | EASI-FISH Spot Counting in Drosophila Brain Using RS-FISH | 5 | dx.doi.org/10.17504/protocols.io.ewov1opz7lr2/v1 | https://www.protocols.io/view/easi-fish-spot-counting-in-drosophila-brain-using-cts5wng6 | Claire Managan, Gudrun Ihrke | TITLE: EASI-FISH Spot Counting in Drosophila Brain Using RS-FISH
AUTHORS: Claire Managan, Gudrun Ihrke
[DESCRIPTION]
This protocol describes how to utilize the Radial Symmetry-FISH (RS-FISH) software for fluorescent spot detection and counting (Bahry, E., Breimann, L., Zouinkhi, M.et al., 2022) to analyze images of th... | ["[Image Cropping and Channel Selection] Isolate and edit the channels with RNA expression that will be used for spot counting.", "[Calculate the Anisotropy Coefficient] In order to accurately detect 3D locations, it is important that the spots being counted are relatively spherical. The anisotropy coefficient is the f... |
14,684 | Bland-Altman plots Squat, Single Leg Squat, Countermovement Jump | null | dx.doi.org/10.17504/protocols.io.sj4ecqw | null | Wolfgang Teufl, Markus Miezal, Bertram Taetz, Michael Fröhlich, Gabriele Bleser | TITLE: Bland-Altman plots Squat, Single Leg Squat, Countermovement Jump
AUTHORS: Wolfgang Teufl, Markus Miezal, Bertram Taetz, Michael Fröhlich, Gabriele Bleser
[DESCRIPTION]
<p>Find enclosed the Bland-Altman plots of hip-, knee-, ankle joint and the global pelvis felxion, obliquity and rotation belonging to the publi... | [] |
79,943 | Tile/SED/Array Interface (TSAI) for Multiplexed Ion Beam Imaging (MIBI) run setup | 5 | dx.doi.org/10.17504/protocols.io.4r3l27rrxg1y/v1 | https://www.protocols.io/view/tile-sed-array-interface-tsai-for-multiplexed-ion-csbfwajn | Christine Camacho, Hadeesha Piyadasa, Benjamin Oberlton, Alex Kong, Cameron Sowers, Sricharan Reddy Varra, Albert Tsai | TITLE: Tile/SED/Array Interface (TSAI) for Multiplexed Ion Beam Imaging (MIBI) run setup
AUTHORS: Christine Camacho, Hadeesha Piyadasa, Benjamin Oberlton, Alex Kong, Cameron Sowers, Sricharan Reddy Varra, Albert Tsai
[DESCRIPTION]
The Multiplexed Ion Beam Imager (MIBI) is a next-generation mass spectrometry-based micr... | ["[Load the MIBI slide and and create a template .json file] Log into MIBItracker in the internet browser.", "[MIBIscope general guidelines] Keep the MIBIscope in \"Standby\" mode when not actively setting up a run. Keeping it in SED mode ablates (burns through) tissue as you navigate, so work quickly and efficiently."... |
null | null | null | dx.doi.org/10.17504/protocols.io.djg4jv | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The protocol provides an inexpensive, rapid (30 min) and reliable technique for obtaining counts of viruses and prokaryotes simultaneously. The method is from:<br />Patel A, Noble RT, Steele JA, Schwalbach MS, Hewson I, Fuhrman JA.<a href="http://www.nature.com/nprot/journal/v2/... | [] |
58,791 | Harvesting Algae | 3 | null | https://www.protocols.io/view/harvesting-algae-b5nfq5bn | Jessie Ochs, Isabella Oleksy | TITLE: Harvesting Algae
AUTHORS: Jessie Ochs, Isabella Oleksy
[DESCRIPTION]
This is a protocol to harvest and maintain algae from a chemostat. In the Duffy Lab, the algae used is Ankistrodesmus falcatus.
[STEPS] | [] |
43,458 | Illumina TruSeq Library quantification with qPCR probe method | 6 | null | https://www.protocols.io/view/illumina-truseq-library-quantification-with-qpcr-p-bnpamdie | Kentaro Itokawa | TITLE: Illumina TruSeq Library quantification with qPCR probe method
AUTHORS: Kentaro Itokawa
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A homemade solution for quantification of Illumina library.</div><div class = "text-block">Because the method uses a quenched-probe (not intercalator), it is ... | ["[Preparing calibrators and primer/probe]\nPrepare low-TE buffer (10 mM Tris-HCl, 0.1 mM EDTA, pH 8.0) containing 5 ng/μl salmon sperm DNA. AB11 M Tris-HCl, pH8.0100 μl20.5 M EDTA10 μl3UltraPure™DNA Solution 10 mg/mL5 μl4milli-Q water9889 μl5Total10 mLStore in -20 °C.\nAB11 M Tris-HCl, pH8.0100 μl20.5 M EDTA10 μl3U... |
null | null | null | dx.doi.org/10.17504/protocols.io.eyvbfw6 | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong>Application Notes:<br /></strong>Immunoprecipitation is a procedure by which proteins or peptides that react specifically with an antibody are removed from solution and examined for quantity or physical characteristics. Immunoprecipitation can also be used to “enrich”a... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.egwbbxe | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol provides a method for predicting the proportions of phage replication cycles within the skin virome. We will be looking at three markers for temperate phages: 1) presence of integrase genes, 2) presence of ACLAME database prophage elements, and 3) similarity to bac... | [] |
99,468 | Protocol OCPRIP | 0 | dx.doi.org/10.17504/protocols.io.261ge56qwg47/v2 | https://www.protocols.io/view/protocol-ocprip-dddk224w | Chiara Parravicini, Daniele Spedicati, Matteo Guenci, Nicole Liggeri | TITLE: Protocol OCPRIP
AUTHORS: Chiara Parravicini, Daniele Spedicati, Matteo Guenci, Nicole Liggeri
[DESCRIPTION]
We present a step-by-step methodology for the systematic extraction, alignment, and analysis of peer review data from Crossref to enhance the OpenCitations Index.
The protocol delineates four key phases:... | ["[Gathering Data from Crossref] The first step is to isolate all objects described in Crossref as peer-review. In Crossref, these entities are registered with the type \"peer-review\". A code to make this filtering is created. The dump, due to its dimensions, has been previusly devided in smaller chuncks. \n\nMore spe... |
75,189 | Protocol for high-throughput isolation of bacterial intracellular nonreplicating persisters | 4 | dx.doi.org/10.17504/protocols.io.3byl4j5xolo5/v1 | https://www.protocols.io/view/protocol-for-high-throughput-isolation-of-bacteria-cmnvu5e6 | Iris Dadole, Kevin Huguet, Didier Blaha, Nicolas Personnic | TITLE: Protocol for high-throughput isolation of bacterial intracellular nonreplicating persisters
AUTHORS: Iris Dadole, Kevin Huguet, Didier Blaha, Nicolas Personnic
[DESCRIPTION]
Failure of antibiotics to clear a bacterial infection is arguably one of the most severe threat to global health. Bacteria ability to with... | ["[Cultivation of Acanthamoeba castellanii: Axenic cultivation of A. castellanii trophozoites] Prepare Peptone Yeast Glucose (PYG) broth (see Note 3): \n \n yeast extract 1 g/L BBL Bacto Proteose Peptone 20 g/L D(+)glucose monohydrate (50 mL of a 2 M 1.8% (w/v) MgSO4 (10 mL of a 0.4 M solution) 4 mM ... |
96,448 | Exp_02 | 0 | dx.doi.org/10.17504/protocols.io.bp2l6xo7zlqe/v1 | https://www.protocols.io/view/exp-02-dae82bhw | José Eduardo De la Cruz Luna | TITLE: Exp_02
AUTHORS: José Eduardo De la Cruz Luna
[DESCRIPTION]
Creacionde l segundo experimento
[STEPS]
SECTION: Protocolo del Segundo Experimento: Influencia del Color en la Transferencia de Calor de Agua a 100ºC a Temperatura Ambiente (25ºC)
1. Objetivo:
Determinar si el color de las botellas afecta la velocidad... | ["[Protocolo del Segundo Experimento: Influencia del Color en la Transferencia de Calor de Agua a 100ºC a Temperatura Ambiente (25ºC)] Objetivo:\nDeterminar si el color de las botellas afecta la velocidad de transferencia de calor del agua a 100ºC a la temperatura ambiente del laboratorio (25ºC).\nMateriales:\nTres bot... |
54,093 | OriCiro® Cell-Free Cloning System/PASS V4.1.2 | 4 | dx.doi.org/10.17504/protocols.io.by3mpyk6 | https://www.protocols.io/view/oriciro-cell-free-cloning-system-pass-v4-1-2-by3mpyk6 | shigemasa.s | TITLE: OriCiro® Cell-Free Cloning System/PASS V4.1.2
AUTHORS: shigemasa.s
[DESCRIPTION]
OriCiro® Cell-Free Cloning System is a rapid and powerful tool replacing cumbersome DNA cloning
(plasmid construction) process relying on E. coli. The system consists of two kits. OriCiro Assembly Kit allows seamless assembly of... | ["[Assembly Reaction] Thaw 2X RA Mix on ice, mix it well with a vortex mixer at a maximum speed and spin down with a micro-centrifuge.", "[Amplification Reaction] Turn on a thermal cycler or an air incubator and preheat at 33°C. \n\nAvoid evaporation of the reaction during incubation. If the thermal cycler is used, its... |
37,902 | Quick Protocol for Monarch® Total RNA Miniprep Kit (NEB #T2010) | 1 | dx.doi.org/10.17504/protocols.io.bg9njz5e | https://www.protocols.io/view/quick-protocol-for-monarch-total-rna-miniprep-kit-bg9njz5e | New England Biolabs | TITLE: Quick Protocol for Monarch® Total RNA Miniprep Kit (NEB #T2010)
AUTHORS: New England Biolabs
[DESCRIPTION]
Quick Protocol for Monarch® Total RNA Miniprep Kit (NEB #T2010).
Quickly and easily purify up to 100 µg of high-quality total RNA from multiple sample types – all with one kit!
For use with blood, cel... | ["[PART 1: Sample Disruption and Homogenization] Please select your starting material of the following:\n- Cultured Mammalian Cells\n- Mammalian Whole Blood (Fresh or Frozen)\n- Tissue or Leukocytes\n- Tough-to-Lyse Samples (bacteria, yeast, plant, etc.) using Mechanical Lysis", "[PART 1: Sample Disruption and Homogeni... |
92,501 | Protocol for Medication Possession Ratio (MPR) Calculation | 5 | dx.doi.org/10.17504/protocols.io.j8nlkoy2wv5r/v1 | https://www.protocols.io/view/protocol-for-medication-possession-ratio-mpr-calcu-c6jvzcn6 | Pryscila Rodrigues Moreira, Leonardo Teodoro de Farias, Ana Carolina Figueiredo Modesto | TITLE: Protocol for Medication Possession Ratio (MPR) Calculation
AUTHORS: Pryscila Rodrigues Moreira, Leonardo Teodoro de Farias, Ana Carolina Figueiredo Modesto
[DESCRIPTION]
The Medication Possession Ratio (MPR) provides an estimate of patient adherence based on the actual possession of medications. It is a metric ... | ["[Loading the packages] Every time you open the software, you should load the following\npackages:", "[Setting the working directory to a specific path] Setting the working directory is important because it determines the default location for reading and writing files.\n1- In RStudio, go to the \"Session\" menu.\n2... |
52,937 | Making electro-competent cells | 4 | dx.doi.org/10.17504/protocols.io.bxxhppj6 | https://www.protocols.io/view/making-electro-competent-cells-bxxhppj6 | Ashwinuday | TITLE: Making electro-competent cells
AUTHORS: Ashwinuday
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol can be used for obtaining of electro-competent bacterial cells.</div></div>
[STEPS]
?. Streak the cells on LB agar plates and incubate at for
37 °C
?. Pick single colony and in... | ["Streak the cells on LB agar plates and incubate at for\n37 °C", "Pick single colony and inoculate it in 2X LB broth and incubate at for - on shaker incubator\n20 mL\n37 °C", "Take 2ml of primary inoculum and inoculate it in 2X LB broth and incubate it at on shaker.\n200 mL\n37 °C", "Grow till the OD reaches 0.6... |
53,144 | Preparation of Encoding Probes SOP005.v1.2 (PCR, In-vitro Transcription, Reverse Transcription and USER ENZYME Digest) | 4 | null | https://www.protocols.io/view/preparation-of-encoding-probes-sop005-v1-2-pcr-in-bx5ypq7w | Rory Kruithoff, Douglas Shepherd | TITLE: Preparation of Encoding Probes SOP005.v1.2 (PCR, In-vitro Transcription, Reverse Transcription and USER ENZYME Digest)
AUTHORS: Rory Kruithoff, Douglas Shepherd
[DESCRIPTION]
Document Summary:This document, Preparation of Encoding Probes (SOP005), describes the p... | ["[Part 1 - PCR Amplification - Step 1: Prepare the PCR reaction] In a 1.7 mL Eppendorf tube, mix the following:\n- 40 µL ;\n- 2 µL ;\n- 2 µL ; \n- 1 µL ; \n- 355 µL ; \n- 400 µL .", "[Part 1 - PCR Amplification - Step 1: Prepare the PCR reaction] Aliquot 50 µL into 16 PCR tubes.", "[Part 1 - PCR Amplification -... |
40,240 | ELISA for anti-HIV peptide antibodies in the egg yolks of brown Leghorn layer hens. | 6 | dx.doi.org/10.17504/protocols.io.bjiqkkdw | https://www.protocols.io/view/elisa-for-anti-hiv-peptide-antibodies-in-the-egg-y-bjiqkkdw | Angel Justiz-Vaillant | TITLE: ELISA for anti-HIV peptide antibodies in the egg yolks of brown Leghorn layer hens.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">These are three ELISAs for detection of anti-HIV antibodies. These test were highly specific, sensitive and reproducible. They de... | ["Coating buffer is prepared as follows: 3.7 g Sodium Bicarbonate (NaHCO3) and 0.64 g Sodium Carbonate (Na2CO3) in 1L of distilled water.", "Phosphate buffered-saline Tween-20 (10% PBS-Tween 20, pH 7.2) is prepared as follows: Dissolve the following: 0.2g of KCl, 8g of NaCl, 1.45g of Na2HPO4, 0.25g of KH2PO4, and 2ml o... |
24,606 | Calculation of MOF pore size distributions using PoreBlazer 4.0 | 1 | dx.doi.org/10.17504/protocols.io.261ge671dl47/v1 | https://www.protocols.io/view/calculation-of-mof-pore-size-distributions-using-p-396gr9e | Jonas Sundberg | TITLE: Calculation of MOF pore size distributions using PoreBlazer 4.0
AUTHORS: Jonas Sundberg
[DESCRIPTION]
This is a brief step-by-step protocol for how to calculate and plot the pore-size distribution (PSD) of a metal-organic framework. The protocol uses the nice PoreBlazer software made by Sarkisov et. al., for in... | ["[Preparation of input files] Crystallographic clean-up using Mercury\nIf your material has co-crystallized solvent molecule(s) it is important to remove before measuring the pore-size distribution. In this protocol we will work with HKUST-1 (CSD-refcode: FIQCEN) as an example. The crystal structure of HKUST-1 contain... |
45,860 | Physiotherapist’ Job Performance, Impression Management and Organizational Citizenship Behaviors: An Analysis of Hierarchical Linear Modeling | 1 | dx.doi.org/10.17504/protocols.io.bq2cmyaw | https://www.protocols.io/view/physiotherapist-job-performance-impression-managem-bq2cmyaw | Fu-I Hou, Yu-Lung Wu, Min-Hui Li, Wan- Yun Huang | TITLE: Physiotherapist’ Job Performance, Impression Management and Organizational Citizenship Behaviors: An Analysis of Hierarchical Linear Modeling
AUTHORS: Fu-I Hou, Yu-Lung Wu, Min-Hui Li, Wan- Yun Huang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Studies on physiotherapists are general... | ["Physiotherapist’ Job Performance, Impression Management and Organizational Citizenship Behaviors: An Analysis of Hierarchical Linear Modeling\n\t\t\t\t\t\t\t .justify:after {\n\t\t\t\t\t\t\t content: \"\";\n\t\t\t\t\t\t\t display:inline-block;\n\t\t\t\t\t\t\t width: 100%;\n\t\t\t\t\t\t\t }\n\t\t\t\t\t\t\tF... |
88,510 | ADP Glo Protocol | 4 | null | https://www.protocols.io/view/adp-glo-protocol-c2n6ydhe | Annan SI Cook, Xuefeng Ren | TITLE: ADP Glo Protocol
AUTHORS: Annan SI Cook, Xuefeng Ren
[DESCRIPTION]
Protocol for ADP Glo (Promega) assay to measure the catalytic activity of the lipid kinase VPS34 on small unilammelar vesicles.
[STEPS]
SECTION: Preparation of Small Unilamellar Vesicles (SUVs)
1. Dehydrate 0.4 mg of the lipid mixture (40% DOPC... | ["[Preparation of Small Unilamellar Vesicles (SUVs)] Dehydrate 0.4 mg of the lipid mixture (40% DOPC, 20% DOPE, 20% DOPS, 20% liver phosphatidylinositol, Avanti Polar Lipids) in a glass tube using a gentle N2 stream.", "[Preparation of Small Unilamellar Vesicles (SUVs)] Allow the lipids to dry in a vacuum desiccator ... |
78,640 | Immunohistochemistry for p53 staining in Breast Cancer Tissue | 4 | dx.doi.org/10.17504/protocols.io.5qpvord7dv4o/v1 | https://www.protocols.io/view/immunohistochemistry-for-p53-staining-in-breast-ca-cq2qvydw | Freda Halim | TITLE: Immunohistochemistry for p53 staining in Breast Cancer Tissue
AUTHORS: Freda Halim
[DESCRIPTION]
These are protocols used for study of p53 expression differences in Luminal B Her-2 negative patients. The aim of the study is to show p53 expression differences in Luminal B Her-2 negative patients with and without... | ["[Deparaffinization and Rehydration] Incubate slides in Xylenes for 3 minutes", "[Deparaffinization and Rehydration] Incubate slides in Xylenes for 3 minutes", "[Blockage of Endogenous Peroxidase] Incubate slides in 3% H202 for 15 minutes", "[Deparaffinization and Rehydration] Incubate slides in Xylenes for 3 minutes"... |
44,360 | OnsiteGene 2 Protocol Saliva Direct | 4 | dx.doi.org/10.17504/protocols.io.bpjgmkjw | https://www.protocols.io/view/onsitegene-2-protocol-saliva-direct-bpjgmkjw | yliu | TITLE: OnsiteGene 2 Protocol Saliva Direct
AUTHORS: yliu
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This OnsiteGene protocol is designed for testing the normal saliva samples without nucleic acid extraction. A convenient saliva swab is used to collect about 50 μL of saliva for the detect... | ["[Sample Collection Procedure]\nSaliva sample should be collected with the assistance of a healthcare worker or technician.", "[Sample Collection Procedure]\nBefore collection, clean hands using alcohol-based sanitizer or soap and water (no fragrances) and wear appropriate PPE (at minimum, gloves and a mask).", "[Samp... |
null | null | null | dx.doi.org/10.17504/protocols.io.jeqcjdw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>1<sup>st</sup> purification: a-FLAG (A2220; Sigma-Aldrich)</p>
<p>2<sup>nd</sup> purification: GFP TRAP_A (ChromoTek)</p>
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.h8cb9sw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.fakbicw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>BLAST (Basic Local Alignment Search Tool) is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences (Wikipedia).</p>
<p> </p>
<p style="text-align: center;"><img id="s-mce-... | [] |
40,903 | ELISA for measurement of monocyte chemoattractant protein-1 (MCP-1/CCL2) in human serum. | 6 | dx.doi.org/10.17504/protocols.io.bj7fkrjn | https://www.protocols.io/view/elisa-for-measurement-of-monocyte-chemoattractant-bj7fkrjn | Angel Justiz-Vaillant, Belkis Ferrer-Cosme | TITLE: ELISA for measurement of monocyte chemoattractant protein-1 (MCP-1/CCL2) in human serum.
AUTHORS: Angel Justiz-Vaillant, Belkis Ferrer-Cosme
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">MCP-1 is believed to play an important role in monocyte infiltration into tumor tissues. [1] ... | ["An anti-human MCP-1/CCL2 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum or plasma. Human MCP-1/CCL2 present in the serum or plasma binds to antibodies adsorbed into the microwells.", "The microplate is blocked with 3% non-... |
58,164 | MDA for virome analysis | 4 | dx.doi.org/10.17504/protocols.io.b42uqyew | https://www.protocols.io/view/mda-for-virome-analysis-b42uqyew | Frej Larsen | TITLE: MDA for virome analysis
AUTHORS: Frej Larsen
[DESCRIPTION]
This protocol is not intended for amplification of DNA. Rather, it uses the Phi29 DNA polymerase enzyme to turn single stranded DNA (ssDNA) into double stranded DNA (dsDNA). This is required for ssDNA viruses to be sequenced.
The procedure should be ... | ["Place materials that tolerate UV-treatment in fume hood and turn on the UV light and recirculation for 30 minutes before use.", "Pick up a bucket of ice and thaw samples on ice", "Add 10 ng DNA in 10 µL MQ water to the PCR tube and mix by pipetting.\nIf sample has a concentration below 1 ng/ul, add 10 µL of undilut... |
null | null | null | dx.doi.org/10.17504/protocols.io.dqd5s5 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Adapted T4 Protocol to reflect the one used by Northeastern_Boston for ligation of sticky end DNA.
[STEPS]
?.
?.
?.
?.
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?. | [] |
63,439 | Protocol: MHC class I and dengue hemorrhagic fever: a systematic review of HLA-A*24 and HLA-B*44 | 4 | dx.doi.org/10.17504/protocols.io.261gen94yg47/v2 | https://www.protocols.io/view/protocol-mhc-class-i-and-dengue-hemorrhagic-fever-b97pr9mn | Andrew C Cook, Dylan Thibaut | TITLE: Protocol: MHC class I and dengue hemorrhagic fever: a systematic review of HLA-A*24 and HLA-B*44
AUTHORS: Andrew C Cook, Dylan Thibaut
[DESCRIPTION]
This project will examine the effect of two MHC class I alleles, HLA-A*24 and HLA-B*44 on dengue hemorrhagic fever susceptibility. A systematic review will be con... | ["[Title] MHC class I and dengue hemorrhagic fever: a systematic review of HLA-A*24 and HLA-B*44", "[Registration] Protocols.io", "[Authors]", "[Authors] Andrew Cook: Lake Erie College of Osteopathic Medicine - Bradenton ACook28563@med.lecom.edu \nORCID: https://orcid.org/0000-0001-6332-1993\n\nDylan Thibaut: Lake Erie... |
27,989 | LB Agar (1 Liter) | null | dx.doi.org/10.17504/protocols.io.7jvhkn6 | null | Alba Balletbó | TITLE: LB Agar (1 Liter)
AUTHORS: Alba Balletbó
[STEPS]
?. Add LB agar components in a 1 L autoclavable. LB agar components (1 L): AB1NaCl10 gram2Tryptone10 gram3Yeast Extract5 gram4Agar15 gram
AB1NaCl10 gram2Tryptone10 gram3Yeast Extract5 gram4Agar15 gram
?. Add 1 L of distilled water into the bottle.
?. Vigorously ... | ["Add LB agar components in a 1 L autoclavable. LB agar components (1 L): AB1NaCl10 gram2Tryptone10 gram3Yeast Extract5 gram4Agar15 gram\nAB1NaCl10 gram2Tryptone10 gram3Yeast Extract5 gram4Agar15 gram", "Add 1 L of distilled water into the bottle.", "Vigorously shake the bottle.", "Place the bottle into the autoclave ... |
null | null | null | dx.doi.org/10.17504/protocols.io.hgbb3sn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div>
<p>This is a collection of protocols from 'Flower Ca<sup>2+</sup> channel in CME and ADBE' of Yao CK et al. (2017).</p>
<p> </p>
<p>Please see the manuscript for the full method details.</p>
<p> </p>
</div>
<p> </p>
<p> </p>
<p> </p>
<p><strong>References:</strong></p>
<ol... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.qf6dtre | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The use of genetically encoded ‘self-labeling tags’ with chemical fluorophore ligands enables rapid labeling of specific cells in neural tissue. To improve the chemical tagging of neurons, we synthesized and evaluated new fluorophore ligands based on Cy, Janelia Fluor, Alexa ... | [] |
80,392 | Whole-cell patch-clamping of cultured human neurons | 1 | dx.doi.org/10.17504/protocols.io.81wgbyqb3vpk/v1 | https://www.protocols.io/view/whole-cell-patch-clamping-of-cultured-human-neuron-csrgwd3w | Quyen Do, Dayne Beccano-Kelly, Richard Wade-Martins | TITLE: Whole-cell patch-clamping of cultured human neurons
AUTHORS: Quyen Do, Dayne Beccano-Kelly, Richard Wade-Martins
[DESCRIPTION]
This protocol describes procedures of the whole-cell patch clamping of human neurons derived from induced pluripotent stem cells and cultured in adherent monolayer.
[STEPS]
SECTION: ... | ["[Pulling of glass electrodes] Pull borosilicate glass pipettes using a Sutter P-97 Flaming Brown puller. The pulling programme is set at 470 (i.e. Ramp) Heat, 0 Pull, 150 Velocity and 500 Pressure.", "[Recording Programmes] Intrinsic membrane properties:\n1. Use the Intracellular Solution (ICS) for current-clamp and ... |
22,573 | Culturing Euplotes crassus to high densities using a combination of algae and bacteria as the food source. | null | dx.doi.org/10.17504/protocols.io.2amgac6 | null | Lawrence A. Klobutcher, Larry Klobutcher | TITLE: Culturing Euplotes crassus to high densities using a combination of algae and bacteria as the food source.
AUTHORS: Lawrence A. Klobutcher, Larry Klobutcher
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><ul style = "list-style-type:disc;"><li style = "counter-reset:ol0;list-style-type:disc;... | ["Grow a 10 ml culture of E. coli overnight using L-broth. (Notes: we have used strain HT115, but any strain of E. coli will likely do. Do not use antibiotics.)", "Distribute the bacterial culture to 2 ml microcentrifuge tubes and pellet by centrifugation in a microcentrifuge for 1.5 min.", "Pour off the supernatant an... |
85,364 | Lentivirus production in HEK293FT with calcium-phosphate method | 4 | null | https://www.protocols.click/view/lentivirus-production-in-hek293ft-with-calcium-pho-cxkuxkww | Ulduz S. Afshar | TITLE: Lentivirus production in HEK293FT with calcium-phosphate method
AUTHORS: Ulduz S. Afshar
[DESCRIPTION]
To produce lentivirus, HEK293FT cells are transfected with lentiviral vector and packaging plasmids using thecalcium-phosphate method.
[STEPS]
SECTION: Day1
1. Seed 6 million HEK293FT in a 10cm plate with 10... | ["[Day1] Seed 6 million HEK293FT in a 10cm plate with 10 ml complete medium (DMEM+10%FBS+1% pen-strep+1% MEM-NEAA)", "[Day 2] Add 25 μl from 10 mM Chloroquine (Final Concentration:25μM) to 9 ml of complete medium. (To avoid lysosomal degradation of the transfected DNA)", "[Day 2] While preparing the plasmid mix, keep t... |
41,559 | ZymoBIOMICS MagBead DNA/RNA-R2135 | 4 | dx.doi.org/10.17504/protocols.io.bktxkwpn | https://www.protocols.io/view/zymobiomics-magbead-dna-rna-r2135-bktxkwpn | ZYMO Research Corp. | TITLE: ZymoBIOMICS MagBead DNA/RNA-R2135
AUTHORS: ZYMO Research Corp.
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The ZymoBIOMICSTM MagBead DNA/RNA kit provides a high-throughput, magnetic bead-based purification of both high-quality DNA and total RNA (including small/microRNAs) from the same st... | ["[Sample Preparation]\nAdd to a sample 250 uL max.input and mix and/or homogenize. AB1Sample TypeMaximum Input2Feces50 mg3Soil50 mg4Liquid Samples and Swab Collections250 ul5Cells (suspended in DNA/RNA Shield or isotonic buffer, e.g. PBS)5-20 mg (wet weight; 2x10^8 bacterial, 2x10^7 yeast cells, 2x10^6 mammalian cell... |
57,488 | 10X Genomics Single-Nucleus Multiome (RNA + ATAC) Assay for Profiling Adult Human Tissues | 1 | dx.doi.org/10.17504/protocols.io.b4dqqs5w | https://www.protocols.io/view/10x-genomics-single-nucleus-multiome-rna-atac-assa-b4dqqs5w | Kimberly Conklin, Bo Zhang, Amanda Knoten, Dinh Diep, Blue Lake, Sanjay Jain, Kun Zhang | TITLE: 10X Genomics Single-Nucleus Multiome (RNA + ATAC) Assay for Profiling Adult Human Tissues
AUTHORS: Kimberly Conklin, Bo Zhang, Amanda Knoten, Dinh Diep, Blue Lake, Sanjay Jain, Kun Zhang
[DESCRIPTION]
10X Genomics Single Cell 3' (v3) RNA sequencing is a microdroplet-based method that permits the effective cap... | ["[Isolate Nuclei] Resuspend nuclei in 50 µL to 100 µL of 1X Diluted Nuclei Buffer (20X nuclei buffer, PN2000207, provided by 10x Genomics), volume depends on target concentration. 1X Diluted Nuclei Buffer is prepared following the user guide Chromium Next GEM Single Cell Multiome ATAC + Gene Expression (CG000338 Rev ... |
null | null | null | dx.doi.org/10.17504/protocols.io.u2seyee | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
As a new type of nanomaterials with the most thin, the maximum intensity and most conductive conductivity, graphene is known as "black gold" and "king of new materials".
[STEPS] | [] |
20,068 | U Mass - Cholesterol (Total) | null | dx.doi.org/10.17504/protocols.io.xucfnsw | null | Jason Kim | TITLE: U Mass - Cholesterol (Total)
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 involves a spectrophotometric measurement using Roche Cobas Clinical Chemistry Analyzer. Serum leve... | ["Perform daily quality control assessment of instrumentation before analysis.", "Load each sample into a specialized micro-sample cup for the clinical chemistry analyzer.", "Select Cholesterol (Total) test on display and run the analysis.", "Collect and analyze the data."] |
94,865 | Nest Building Test | 4 | null | https://www.protocols.io/view/nest-building-test-c8vrzw56 | daniel.dautan, Per Svenningsson, Valina L. Dawson, Ted Dawson, Hanseok Ko | TITLE: Nest Building Test
AUTHORS: daniel.dautan, Per Svenningsson, Valina L. Dawson, Ted Dawson, Hanseok Ko
[DESCRIPTION]
Used to assess nigrostriatal sensorimotor function in mice. Based on the Deacon 2006 protocol.
[STEPS]
2. Place a paper tissue folded into a 5x5 cm square.
1. Singly house mice in individual, cl... | ["Place a paper tissue folded into a 5x5 cm square.", "Singly house mice in individual, clean cages.", "Following 48h the bedding was score between 0 to 5 as follows:\n 0- The mice did not touch the paper square.\n 1- The mice unfolded the paper square but did not tear it up.\n 2- The mice unfolded and started... |
104,483 | alternative PCR protocol for gene COXI neo-caledonian freshwater micro-crustaceans | 4 | dx.doi.org/10.17504/protocols.io.n92ld8q57v5b/v1 | https://www.protocols.io/view/alternative-pcr-protocol-for-gene-coxi-neo-caledon-diab4aan | Coline Royaux, Nicolas Rabet, Céline Bonillo, Frédéric Busson | TITLE: alternative PCR protocol for gene COXI neo-caledonian freshwater micro-crustaceans
AUTHORS: Coline Royaux, Nicolas Rabet, Céline Bonillo, Frédéric Busson
[DESCRIPTION]
This PCR protocol has been used to amplify the Cytochrome Oxydase I gene of neo-caledonian genera Boeckella, Lynceus, Latonopsis, Eulimnadia an... | ["Prepare the mix for the PCR depending on the quantity of DNA samples you want to amplify", "For each well, mix 13.22 µL, 2 µL, 0.5 µL and 0.28 µL. This mix is hereafter named \"intermediary mix\".", "Add your primers to the mix, 0.5 µL 10 picomolar (pM) and 0.5 µL 10 picomolar (pM) for each well. This mix is hereaft... |
null | null | null | dx.doi.org/10.17504/protocols.io.nrzdd76 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Spatial heterogeneity of soil respiration and its temperature sensitivity poses great challenge to accurately estimating carbon flux in global carbon cycling, which have been researched mostly on flatlands but few times in hillslope ecosystems. On an eroded slope (35°) of the... | [] |
70,628 | Passaging Trophoblast Organoids | 4 | null | https://www.protocols.io/view/passaging-trophoblast-organoids-cg8ctzsw | vfarmer | TITLE: Passaging Trophoblast Organoids
AUTHORS: vfarmer
[DESCRIPTION]
For the passage of trophoblast organoids. Should be done every 5-7 days.
[STEPS]
SECTION: Splitting Steps
2. Remove old Trophoblast Organoid Medium (TOM) from well using vacuum
SECTION: Splitting Steps
3. Add 500 µL of PBS to each well
SECTION: Sp... | ["[Splitting Steps] Remove old Trophoblast Organoid Medium (TOM) from well using vacuum", "[Splitting Steps] Add 500 µL of PBS to each well", "[Splitting Steps] Gently scrape off the Matrigel domes (including organoids) using a wide orifice P1000 and transfer the released mixture of Matrigel and organoids into a 15 ml ... |
66,358 | Diaetoxil Avis France : Diaetoxil Avis [FR] - à lire avant de prendre toute décision finale. | 5 | dx.doi.org/10.17504/protocols.io.6qpvr6n6bvmk/v1 | https://www.protocols.io/view/diaetoxil-avis-france-diaetoxil-avis-fr-lire-avant-cc2wsyfe | EdnaMorrisj | TITLE: Diaetoxil Avis France : Diaetoxil Avis [FR] - à lire avant de prendre toute décision finale.
AUTHORS: EdnaMorrisj
[DESCRIPTION]
d'acheter le produit sur ordonnance ou en pharmacie. Parmi les ingrédients, on trouve notamment
[STEPS]
1.
Diaetoxil Avis FranceTout le monde veut perdre du poids rapidemen... | ["\n \n\n\n\n\nDiaetoxil Avis FranceTout le monde veut perdre du poids rapidement et en toute sécurité. Vous n'êtes pas la seule à rêver de porter un jean plus petit que celui que vous portez actuellement. Tout le monde n'est peut-être pas capable de perdre du poids.\nSi quelqu'un recherche des offres pour l'Allemagn... |
52,117 | Membrane Fractionation | 4 | dx.doi.org/10.17504/protocols.io.bw5vpg66 | https://www.protocols.io/view/membrane-fractionation-bw5vpg66 | Veerle Baekelandt | TITLE: Membrane Fractionation
AUTHORS: Veerle Baekelandt
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Membrane Fractionation</span><span> (Ultracentrifugation)</span></div></div>
[STEPS]
?. seed cells for in a 10 cm dish at a density of 6 x 106 cells per plate
... | ["seed cells for in a 10 cm dish at a density of 6 x 106 cells per plate", "wash cells with 1X PBS for 2 times", "scrape cells of the dish and harvest in 1 ml pf PBS + PI buffer", "Centrifuge: 1000 34, 15 min", "resuspend cells in 500 µl PBS + PI buffer", "sonicate 2 times at 30Hz for 15 ON-OFF intervals of 10 s each ... |
null | null | null | dx.doi.org/10.17504/protocols.io.ge8bthw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Trace metals solution to be used in ESAW Media for Marine Phytoplankton </p>
[BEFORE_START]
<p>Trace Metal Solution amounts are per ONE LITER, MilliQ H<sub>2</sub>O. Prepare stock volumes according to individual need.</p>
[STEPS]
?.
?.
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72,101 | Amplification and sequencing of Hepatitis B virus pol gene | 4 | dx.doi.org/10.17504/protocols.io.j8nlkwwkwl5r/v1 | https://www.protocols.io/view/amplification-and-sequencing-of-hepatitis-b-virus-cinduda6 | rute.marcelino | TITLE: Amplification and sequencing of Hepatitis B virus pol gene
AUTHORS: rute.marcelino
[DESCRIPTION]
The Amplification and sequencing of HBV pol gene protocol aim to present all the details from HBV DNA extraction with QIAamp DNA Blood Mini Kit (Qiagen, Werfen) and with a homemade assay for amplification/sequencing... | ["[HBV DNA extraction and reagents] Reagent preparation\nProtease: Add 5.5 ml of protease solvent included in the kit (nuclease-free water containing 0.04% sodium azide) to the tube containing the lyophilized protease. Reconstituted protease is stable for up to two months when stored at 2-8°C. Storage at -20ºC is recom... |
null | null | null | dx.doi.org/10.17504/protocols.io.fdebi3e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Sueoka's High Salt Medium is used for photoautotrophic growth of the green alga <em>Chlamydomonas reinhardtii</em>. The medium is also known as HS or HSM.</p>
<p> </p>
<p>Source:</p>
<p>Sueoka, N. (1960) <em>Proc. Natl. Acad. Sci. USA</em> <strong>46</strong>, 83-91.</p>
<p>h... | [] |
82,959 | Co-immunoprecipitation protocol to study LRRK2 binding to Rab12 in a cell-based assay | 4 | dx.doi.org/10.17504/protocols.io.n92ldmbbnl5b/v1 | https://www.protocols.click/view/co-immunoprecipitation-protocol-to-study-lrrk2-bin-cu9pwz5n | Francesca Tonelli | TITLE: Co-immunoprecipitation protocol to study LRRK2 binding to Rab12 in a cell-based assay
AUTHORS: Francesca Tonelli
[DESCRIPTION]
This protocol describes the immunoprecipitation (IP) of FLAG-tagged LRRK2 from whole cell lysates to assess its interaction with Rab12. This method can be used to screen the impact that... | ["[Transient transfection of HEK293 cells:] Seed HEK293 cells to be 70-90% confluent at transfection. Proceed to the next step the day after seeding cells.", "[Transient transfection of HEK293 cells:] Dilute FLAG-tagged LRRK2 (wild-type or mutant) DNA and HA-tagged Rab12 (or HA-empty control) DNA in Opti-MEMTMReduced S... |
57,048 | Staphilococcus Aureus Sampling | 4 | dx.doi.org/10.17504/protocols.io.b3xyqppw | https://www.protocols.io/view/staphilococcus-aureus-sampling-b3xyqppw | Pol Roca Cugat, Olga Sánchez | TITLE: Staphilococcus Aureus Sampling
AUTHORS: Pol Roca Cugat, Olga Sánchez
[DESCRIPTION]
This protocol is intended to study the affectation of Staphilococcus Aureus, including the MRSA variant. It outlines the basic protocol for a multi-subject study.
[GUIDELINES]
This protocol is intended to study the affectation... | ["[Preparation] Wash your hands with soap. Put on your lab coat, your mask and your goggles or face shield. Make sure your mask is airtight and air cannot escape through the sides.", "[Preparation] Prepare the area where you are going to work. Disinfect the surfaces with the bleach solution.\nThe subjects should not be... |
37,449 | Chromatin Endogenous Cleavage and high-throughput sequencing (ChEC-seq) in S. cerevisiae | null | dx.doi.org/10.17504/protocols.io.bgthjwj6 | https://www.protocols.io/view/chromatin-endogenous-cleavage-and-high-throughput-bgthjwj6 | Gabe Zentner | TITLE: Chromatin Endogenous Cleavage and high-throughput sequencing (ChEC-seq) in S. cerevisiae
AUTHORS: Gabe Zentner
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Genome-wide mapping of protein-DNA interactions is critical for understanding gene regulation, chromatin remodeling, and other chromat... | ["[Yeast culture and harvest]\nIn the morning, dilute the overnight culture to OD600 = 0.2-0.3 in 50 mL YPD or SC medium in a 300 mL flask. Grow 50 mL culture at 30°C until OD600 = 0.5-0.7.", "[Yeast culture and harvest]\nThe day before the experiment, inoculate 3 mL YPD or SC medium with a single colony. Grow overnigh... |
63,521 | VOC and VOI (SARS-Cov-2) identification by Sanger Sequencing | 1 | dx.doi.org/10.17504/protocols.io.ewov1nxqkgr2/v1 | https://www.protocols.io/view/voc-and-voi-sars-cov-2-identification-by-sanger-se-b999r996 | Laís Ceschini, Matheus Filgueira Bezerra, Viviane do Carmo Vasconcelos de Carvalho, Cássia Docena, Gabriel Luz Wallau, Marcelo Henrique Santos Paiva | TITLE: VOC and VOI (SARS-Cov-2) identification by Sanger Sequencing
AUTHORS: Laís Ceschini, Matheus Filgueira Bezerra, Viviane do Carmo Vasconcelos de Carvalho, Cássia Docena, Gabriel Luz Wallau, Marcelo Henrique Santos Paiva
[DESCRIPTION]
The method hereby described is an update of a rapid and accessi... | ["[cDNA Synthesis] Mix the following components in an 0.2mL 8-strip tube or 96 well PCR plate;\n\nComponent Value\n\n 10X RT B uffer 2.0 µL \n dNTP Mix (100mM) 0.8 µL \n10X RT Ra... |
98,788 | Calf-Intestinal Alkaline Phosphatase Treatment in situ-Killinger 2024 | 0 | dx.doi.org/10.17504/protocols.io.5qpvoky7bl4o/v1 | https://www.protocols.io/view/calf-intestinal-alkaline-phosphatase-treatment-in-dcqc2vsw | Bryan Killinger, Solji Choi | TITLE: Calf-Intestinal Alkaline Phosphatase Treatment in situ-Killinger 2024
AUTHORS: Bryan Killinger, Solji Choi
[DESCRIPTION]
Alpha-synuclein phosphorylated at serine 129 (PSER129) occurs in two pools, non-aggregated (physiological) and aggregated (disease). This protocol allows for the selective dephosphorylation o... | ["[Day 1] Wash free-floating tissue (3 x 10 minutes) in dilution media.\n \nDilution media:", "[Day 1] Incubate the samples with 1% Triton X-100 in DM for 10 min.", "[Day 1] Wash in DM 10 min.", "[Day 1] Wash the tissues in CIAP buffer (2x10 minutes).\n\nCIAP buffer:", "[Day 1] Incubate the tissues with CIAP at a dilut... |
109,176 | Sequencing the Virome of Wild Eastern Cottontail Rabbits using Oxford Nanopore Technologies (ONT) | 0 | dx.doi.org/10.17504/protocols.io.5jyl82ywrl2w/v1 | https://www.protocols.io/view/sequencing-the-virome-of-wild-eastern-cottontail-r-dnuy5exw | Paula Glover | TITLE: Sequencing the Virome of Wild Eastern Cottontail Rabbits using Oxford Nanopore Technologies (ONT)
AUTHORS: Paula Glover
[DESCRIPTION]
This protocol can be used to perform multiplex sequencing of a virome using Oxford Nanopore Technologies (ONT).
Forty RNA samples, including blood (n = 10), fecal (n = 10), epi... | ["[Pre-processing of Samples: Blood, Fecal, Epithelial, and Mucosal (Salival)] Place each swab in a 1.5-mL centrifuge tube with 500 µL of phosphate buffered saline (PBS). PBS is an isotonic solution that prevents the rupture of cells or shriveling of cells due to osmosis and is a non-toxic formulation for the cells.", ... |
81,012 | Western Blot | 1 | dx.doi.org/10.17504/protocols.io.yxmvm26m5g3p/v1 | https://www.protocols.click/view/western-blot-ctcuwiww | Katherine Brimblecombe, Natalie Connor-Robson, Stephanie J Cragg | TITLE: Western Blot
AUTHORS: Katherine Brimblecombe, Natalie Connor-Robson, Stephanie J Cragg
[DESCRIPTION]
TBD
[STEPS]
SECTION: Preparing Samples
1. Take samples out of the -80°C freezer and keep on dry ice until ready to digest.
SECTION: Preparing Samples
2. On wet ice, add 200 µL RIPA Buffer (see Materials) to ea... | ["[Preparing Samples] Take samples out of the -80°C freezer and keep on dry ice until ready to digest.", "[Preparing Samples] On wet ice, add 200 µL RIPA Buffer (see Materials) to each unilateral striatum sample.", "[Preparing Samples] Mix thoroughly until sample completely blended with Tissue Tearor.", "[Preparing Sam... |
17,513 | Enterovirus (EV) D68 TaqMan 2018 (EV-D68-TM2018) | null | dx.doi.org/10.17504/protocols.io.vche2t6 | null | Ian Mackay, Judy Northill | TITLE: Enterovirus (EV) D68 TaqMan 2018 (EV-D68-TM2018)
AUTHORS: Ian Mackay, Judy Northill
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol aims to amplify enterovirus (EV) D68 viruses and not other viruses.</div><div class = "text-block">This protocol is modified from a previously publ... | ["[Oligonucleotide sequences]\nAB1NameSequence 5'-3'2EV-D68-For1TGTTYCCACGGTTGAAAAYAA3EV-D68-For2TTCCCACGGTTGAAARYRAC4EV-D68-RevCAAGCTACACACGGGTTAGT5EV-D68-FAM-TM2018FAM - CCGTTAWCCGCTATAGTACTTCGAGAAACC - BHQ1MODIFICATIONS TO THE PUBLISHED ASSAY:Two modified forward primers, targeting the same region as the original as... |
43,257 | BGISEQ-500 Sequencing | 1 | null | https://www.protocols.io/view/bgiseq-500-sequencing-bngzmbx6 | Jie Huang, Xinming Liang, Yuankai Xuan, Chunyu Geng, Yuxiang Li, Haorong Lu, Shoufang Qu, Xianglin Mei, Hongbo Chen, Ting Yu, Nan Sun, Junhua Rao, Jiahao Wang, Wenwei Zhang, Ying Chen, Sha Liao, Hui Jiang, Xin Liu, Zhaopeng Yang, Feng Mu, Shangxian Gao | TITLE: BGISEQ-500 Sequencing
AUTHORS: Jie Huang, Xinming Liang, Yuankai Xuan, Chunyu Geng, Yuxiang Li, Haorong Lu, Shoufang Qu, Xianglin Mei, Hongbo Chen, Ting Yu, Nan Sun, Junhua Rao, Jiahao Wang, Wenwei Zhang, Ying Chen, Sha Liao, Hui Jiang, Xin Liu, Zhaopeng Yang, Feng Mu, Shangxian Gao
[DESCRIPTION]
<div class = "... | ["Test the quality of the sequencing library (see protocol for library preparation) by the Qubit® ssDNA Assay Kit and homogenized at 6ng total amounts.", "Carry out Rolling circle amplification（RCA）for 10 minutes in an 80 ul reaction volume with pure water, buffer and DNB polymerase", "Add 20 ul DNBs stopping buffer to... |
81,024 | Library tissue handling, viral DNA extraction, and NGS sample preparation | 4 | dx.doi.org/10.17504/protocols.io.bp2l695zklqe/v1 | https://www.protocols.io/view/library-tissue-handling-viral-dna-extraction-and-n-ctc8wizw | Sripriya Ravindra Kumar, Timothy F. Shay, Xinhong Chen, David Brown, Tatyana Dobreva, Qin Huang, Xiaozhe Ding, Yicheng Luo, Pétur H. Einarsson, Alon Greenbaum, Min J. Jang, Benjamin E. Deverman, Viviana Gradinaru, Miguel Chuapoco | TITLE: Library tissue handling, viral DNA extraction, and NGS sample preparation
AUTHORS: Sripriya Ravindra Kumar, Timothy F. Shay, Xinhong Chen, David Brown, Tatyana Dobreva, Qin Huang, Xiaozhe Ding, Yicheng Luo, Pétur H. Einarsson, Alon Greenbaum, Min J. Jang, Benjamin E. Deverman, Viviana Gradinaru, Miguel Chuapoco
... | ["[DNA Extraction] Add 100 mg (brain, liver, or spinal cord) and 1 mL to bead homogenizer tubes. Use prefilled tubes with 1.5 mm Zirconium beads or 2.8 mm stainless steel beads.", "[DNA Extraction] Remove RNA by digestion with 3 µL and digest with 3 µL. Supplement reaction with 10 µL. Incubate at Room temperature and... |
99,968 | Marchantia thalli Transformation - Sulfadiazine Selection | 0 | dx.doi.org/10.17504/protocols.io.kqdg329bqv25/v1 | https://www.protocols.io/view/marchantia-thalli-transformation-sulfadiazine-sele-ddu826zw | Kayla Robinson | TITLE: Marchantia thalli Transformation - Sulfadiazine Selection
AUTHORS: Kayla Robinson
[DESCRIPTION]
Here we provide a simplified protocol for Agrobacterium-mediated stable transformation of regenerating thalli of the model liverwort Marchantia polymorpha that involves sulfadiazine herbicide selection. The protocol ... | ["[Overview] This page includes a simplified protocol for Agrobacterium-mediated stable transformation of regenerating thalli of the model liverwort Marchantia polymorpha. The protocol is adapted from Kubota et al. (2013; https://doi.org/10.1271/bbb.120700), which should be referenced for further detail.", "[Overview] ... |
86,549 | Ex vivo electrophysiology | 4 | dx.doi.org/10.17504/protocols.io.j8nlkooowv5r/v1 | https://www.protocols.io/view/ex-vivo-electrophysiology-cyrvxv66 | Beatriz E Nielsen | TITLE: Ex vivo electrophysiology
AUTHORS: Beatriz E Nielsen
[DESCRIPTION]
This protocol describes the steps to perform whole-cell electrophysiology recordings in acute brain slices.
[STEPS]
SECTION: Set up
1. Rig set-up.
SECTION: Set up
1.3. Set 1X ACSF (add drugs needed for particular experiments) in a jug or bottle... | ["[Set up] Rig set-up.", "[Set up] Set 1X ACSF (add drugs needed for particular experiments) in a jug or bottle and bubble it with O2/CO2.", "[Set up] Open the N2 tank connected to the rig anti-vibration table.", "[Set up] Turn on required devices (computer, amplifier, manipulators, light sources, video camara controls... |
99,990 | SMARTerV4 (1x) Amplification for single-cell or single-nuclei RNASeq Protocol | 1 | dx.doi.org/10.17504/protocols.io.261geopdjl47/v3 | https://www.protocols.io/view/smarterv4-1x-amplification-for-single-cell-or-sing-ddvw267e | Allen Institute | TITLE: SMARTerV4 (1x) Amplification for single-cell or single-nuclei RNASeq Protocol
AUTHORS: Allen Institute
[DESCRIPTION]
Protocol to generate full-length cDNA from single cells, or nuclei, using Takara SMARTer V4.
Note: Research reported in this publication was supported by the National Institute Of Mental Health... | [] |
60,895 | Generation of knockout and rescue cell lines using CRISPR-Cas9 genome editing | 4 | dx.doi.org/10.17504/protocols.io.eq2lynx5wvx9/v1 | https://www.protocols.io/view/generation-of-knockout-and-rescue-cell-lines-using-b7p7rmrn | William Hancock-Cerutti, Jun Hyun Park, Pietro De Camilli | TITLE: Generation of knockout and rescue cell lines using CRISPR-Cas9 genome editing
AUTHORS: William Hancock-Cerutti, Jun Hyun Park, Pietro De Camilli
[DESCRIPTION]
This protocol describes the genetic modification of cultured cells using CRISPR-Cas9, including synthesis of reagents, transfection, selection and scr... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.s7behin | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a modified protocol for Qiagen's DNEasy Blood and Tissue kit for non-destructive DNA extraction of minute insects and other organisms. It was optimized for parasitic wasps (0.5-2mm size).</p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jyccpsw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The development of self-microemulsifying drug delivery systems (SMEDDS) was obtained from pseudoternary phase diagram construction. This protocol demonstrates how to construct pseudoternary phase diagram. Tween 20, Tween 80, or Triton X-100 was used as a surfactant and absolu... | [] |
70,448 | Magnetic Bead DNA/RNA extraction using the NucleoMag DNA/RNA Water kit and the 96 manual magnetic bead extractor – 96 well format | 4 | dx.doi.org/10.17504/protocols.io.bp2l69n2dlqe/v1 | https://www.protocols.io/view/magnetic-bead-dna-rna-extraction-using-the-nucleom-cg2qtydw | Christopher A Hempel | TITLE: Magnetic Bead DNA/RNA extraction using the NucleoMag DNA/RNA Water kit and the 96 manual magnetic bead extractor – 96 well format
AUTHORS: Christopher A Hempel
[DESCRIPTION]
Protocol for magnetic Bead DNA/RNA extraction using the NucleoMag DNA/RNA Water kit and the 96 manual magnetic bead extractor – 96 well fo... | ["Add 25 µl B-beads to each lysate in well 1 with a multichannel pipette and cover all other rows while pipetting into one row --> for 96 samples + 2 buffer volumes, fill 2,450 µl B-beads into a reagent matrix", "Add 425 µl MWA2 buffer to each sample with a multichannel pipette (note: protocol says 475 µl buffer MWA2 b... |
49,197 | Complexing Sodium Oleate for use in insulin secretion | 4 | dx.doi.org/10.17504/protocols.io.buamnsc6 | https://www.protocols.io/view/complexing-sodium-oleate-for-use-in-insulin-secret-buamnsc6 | Aliya Spigelman, Mourad Ferdaoussi, Patrick Macdonald | TITLE: Complexing Sodium Oleate for use in insulin secretion
AUTHORS: Aliya Spigelman, Mourad Ferdaoussi, Patrick Macdonald
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is for complexing of sodium oleate to be used in insulin secretion experiments. </div></div>
[STEPS]
?. [Preparat... | ["[Preparation of 10% w/v BSA]\nWeigh of fatty acid free BSA (Sigma A6003 )\n1 g", "[Preparation of 10% w/v BSA]\nAdd BSA into a beaker with of ultrapure water\n10 mL", "[Preparation of 10% w/v BSA]\nStir BSA and water until all the BSA has dissolved. *Warming at may help dissolve BSA.\n37 °C", "[Preparation of 1... |
40,612 | Chemosensory assay | 4 | dx.doi.org/10.17504/protocols.io.bjwckpaw | https://www.protocols.io/view/chemosensory-assay-bjwckpaw | Andreea S | TITLE: Chemosensory assay
AUTHORS: Andreea S
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Neuropeptide-like proteins (NLPs) are a subclass of neuropeptides utilized by the nervous system of the nematodes. Altering the levels of the NLPs affects the behaviour of the neuronal networks in the ... | ["[NLP production ]\nThe neuropeptide-like proteins (NLPs) for this experiment will be ordered online. As starting point, the NLP14A will be purchased. If non-effective, other NLPs will be assessed.", "[Preparation chemosensory assay]\nThe chemosensory assay towards the root exudate will be conducted on agar plates. Th... |
28,932 | Pichia pastoris strain and growth condition | null | dx.doi.org/10.17504/protocols.io.8hcht2w | null | iGEM Dusseldorf | TITLE: Pichia pastoris strain and growth condition
AUTHORS: iGEM Dusseldorf
[STEPS]
?. [Preparation ]
Grow Pichia pastoris cells on agar plate containing desired antibiotic ( non-shaking 30°C 72 hours )
?. [Day one]
Cultivation
?. [Day one]
Add growth medium (BMGY) to baffled flasks
3ml-10ml growth medium in 30mL-100m... | ["[Preparation ]\nGrow Pichia pastoris cells on agar plate containing desired antibiotic ( non-shaking 30°C 72 hours )", "[Day one]\nCultivation", "[Day one]\nAdd growth medium (BMGY) to baffled flasks\n3ml-10ml growth medium in 30mL-100mL flasks to ensure sufficient aeration", "[Day one]\nInoculate growth medium with ... |
64,824 | https://www.facebook.com/Tyler-Perry-CBD-Gummies-108934358368482 | 3 | dx.doi.org/10.17504/protocols.io.bp2l61zmkvqe/v1 | https://www.protocols.io/view/https-www-facebook-com-tyler-perry-cbd-gummies-108-cbiyskfw | The fundamental element of Tyler Perry CBD Gummies is Hemp Plant Extract and more which just assists | TITLE: https://www.facebook.com/Tyler-Perry-CBD-Gummies-108934358368482
AUTHORS: The fundamental element of Tyler Perry CBD Gummies is Hemp Plant Extract and more which just assists
[DESCRIPTION]
The fundamental element of Tyler Perry CBD Gummies is Hemp Plant Extract and more which just assists in making your wellbei... | [] |
60,273 | transfer protocol 3 | 1 | null | https://www.protocols.io/view/transfer-protocol-3-b64rrgv6 | richard | TITLE: transfer protocol 3
AUTHORS: richard
[DESCRIPTION]
test
[STEPS]
1. test | ["test"] |
58,769 | MLA Medium Preparation | 3 | null | https://www.protocols.io/view/mla-medium-preparation-b5mrq456 | Katie Hunsberger, Kristel Sanchez | TITLE: MLA Medium Preparation
AUTHORS: Katie Hunsberger, Kristel Sanchez
[DESCRIPTION]
This recipe is used to grow algae in the genus Anabaena, Dolichospermum, and Aphanizomenon in the Duffy lab. It can be used to grow other freshwater cyanobacteria cultures.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ugketuw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
On a high speed slaughter line for pigs, skin scratches were separately scored in the posterior region (defined as the area including the hind legs and the tail) and the anterior one (as the remaining area), while the whole carcass was examined for external hematomas. Chronic ea... | [] |
80,727 | Collecting Citations from Text | 5 | dx.doi.org/10.17504/protocols.io.bp2l6bkq5gqe/v2 | https://www.protocols.io/view/collecting-citations-from-text-cs3xwgpn | Rebecca Hedreen | TITLE: Collecting Citations from Text
AUTHORS: Rebecca Hedreen
[DESCRIPTION]
Basic steps and scripts used for translating text citations to bibtex files suitable for loading into citation management software or citation analysis scripts. 4 publically available webpage mounted scripts are suggested, that require no pro... | ["[Preparing text file] Copy citations from the source document(s) into a text (.txt) document.", "Edit the text document so that each citation is on a separate line with one blank line between each citation. Not all the scripts require a blank line between citations, but it does improve readability and importing.", "[... |
26,291 | IMMUNOCYTOCHEMISTRY OF i3NEURONS (Support Protocol 2) | null | dx.doi.org/10.17504/protocols.io.5wtg7en | null | Michael S. Fernandopulle, Ryan Prestil, Christopher Grunseich, Chao Wang, Li Gan, Michael E. Ward | TITLE: IMMUNOCYTOCHEMISTRY OF i3NEURONS (Support Protocol 2)
AUTHORS: Michael S. Fernandopulle, Ryan Prestil, Christopher Grunseich, Chao Wang, Li Gan, Michael E. Ward
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Staining i</span><span style = "vertical-align:super;">3</span><span>Neurons f... | ["Make of 8 % PFA solution ( PBS, 16 % PFA).\n15 ml\n7.5 ml\n7.5 ml", "Make of antibody blocking solution (3 % donkey serum and 0.1 % saponin in PBS). Filter sterilize.\n50 ml\nDetergents other than saponin (i.e., Triton X-100 or Tween-20 at 0.25 %) may also be used. Concentrations should be optimized by the user.",... |
106,432 | Isolation of the Region Around Locus Coeruleus for Single Nucleus RNA Profiling | 0 | dx.doi.org/10.17504/protocols.io.kxygxy4x4l8j/v1 | https://www.protocols.io/view/isolation-of-the-region-around-locus-coeruleus-for-dj684rhw | Pauline Jakobs, Diana Municchi, Matthias Prigge | TITLE: Isolation of the Region Around Locus Coeruleus for Single Nucleus RNA Profiling
AUTHORS: Pauline Jakobs, Diana Municchi, Matthias Prigge
[DESCRIPTION]
This protocol outlines the methodology for isolating the peri-locus coeruleus (peri-LC) region in mice for subsequent single nucleus RNA profiling. Key steps inc... | ["[Buffer Preparation (important - steril filter and autoclave)] Prepare the buffer a day before, and keep it in the fridge before using", "[Buffer Preparation (important - steril filter and autoclave)] ~ 500ml Milli-Q-Water", "[Buffer Preparation (important - steril filter and autoclave)] add reagents of Table 1", "[B... |
82,663 | ATG3 construct cloning | 4 | dx.doi.org/10.17504/protocols.io.n2bvj85zngk5/v1 | https://www.protocols.click/view/atg3-construct-cloning-cuyfwxtn | lmstrong | TITLE: ATG3 construct cloning
AUTHORS: lmstrong
[DESCRIPTION]
ATG3 cloning
[STEPS]
SECTION: Ligation Independent Cloning
1. Amplify gene using PCR with Q5 polymerase. Design primers with overhangs compatible with 1GFP and 2BT vectors. For mutants, design overlapping primers in opposing direction as if using around t... | ["[Ligation Independent Cloning] Amplify gene using PCR with Q5 polymerase. Design primers with overhangs compatible with 1GFP and 2BT vectors. For mutants, design overlapping primers in opposing direction as if using around the horn. Use these to perform 2-step PCR, verifying each step via gel.", "[Ligation Independen... |
null | null | null | dx.doi.org/10.17504/protocols.io.dp25qd | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Multiwell plates are convenient for isolating cyanophages from environmental samples using the liquid bioassay approach (Table 1). This protocol describes a typical procedure (96-well assay) used to detect and isolate cyanophages from marine samples that lyses <em>Synechococcus<... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.fdjbi4n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>Murashige and Skoog medium</strong> (or <em><strong>MSO</strong></em> or <em><strong>MS0</strong></em> <em>(MS-zero)</em>) is a <a href="https://en.wikipedia.org/wiki/Plant" target="_blank">plant</a> <a href="https://en.wikipedia.org/wiki/Growth_medium" target="_blank... | [] |
34,562 | Preparing 1/2 SŠ Algal Inorganic Nutrient Medium | null | dx.doi.org/10.17504/protocols.io.bdzai72e | null | Jakub Nedbal, Lu Gao | TITLE: Preparing 1/2 SŠ Algal Inorganic Nutrient Medium
AUTHORS: Jakub Nedbal, Lu Gao
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes preparation of 1/2 SŠ inorganic nutrient medium for </span><span style = "font-style:italic;">C. vulgaris,</span><span style = "font-sty... | ["[Preparatory Steps]\nPrepare the components listed int he following table. Make sure all constituents have been sterilized and that the deionized water has been autoclaved.Work in a sterile laminar flow hood. ABCD1ComponentQuantityUnitNote2Final Volume503ml3Maximum Dry Culture Weight0.5g/l45Deionized Water500mlAutoc... |
82,290 | Library tissue handling, viral DNA extraction, and NGS sample preparation | 4 | dx.doi.org/10.17504/protocols.io.bp2l695zklqe/v2 | https://www.protocols.io/view/library-tissue-handling-viral-dna-extraction-and-n-cukswuwe | Miguel Chuapoco, Sripriya Ravindra Kumar, Timothy F. Shay, Xinhong Chen, David Brown, Tatyana Dobreva, Qin Huang, Xiaozhe Ding, Yicheng Luo, Pétur H. Einarsson, Alon Greenbaum, Min J. Jang, Benjamin E. Deverman, Viviana Gradinaru | TITLE: Library tissue handling, viral DNA extraction, and NGS sample preparation
AUTHORS: Miguel Chuapoco, Sripriya Ravindra Kumar, Timothy F. Shay, Xinhong Chen, David Brown, Tatyana Dobreva, Qin Huang, Xiaozhe Ding, Yicheng Luo, Pétur H. Einarsson, Alon Greenbaum, Min J. Jang, Benjamin E. Deverman, Viviana Gradinaru
... | ["[DNA Extraction] Add 100 mg (brain, liver, or spinal cord) and 1 mL to bead homogenizer tubes. Use prefilled tubes with 1.5 mm Zirconium beads or 2.8 mm stainless steel beads.", "[DNA Extraction] Remove RNA by digestion with 3 µL and digest with 3 µL. Supplement reaction with 10 µL. Incubate at Room temperature and... |
51,926 | Liver Landscape project (HCA) publication link | 1 | dx.doi.org/10.17504/protocols.io.bwxwpfpe | https://www.protocols.io/view/liver-landscape-project-hca-publication-link-bwxwpfpe | Christine Briggs | TITLE: Liver Landscape project (HCA) publication link
AUTHORS: Christine Briggs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">HCA does not provide the Case Selection Protocol. We will provide a link to the project publication for the purposes of providing the required protocol DOI to huBMAP.</div>... | ["[HCA_liver_landscape-Case_Selection_Protocol]\nThis is the DOI to the project publication:https://doi.org/10.1038/s41467-018-06318-7"] |
25,589 | MAINTENANCE CULTURE OF iPSCs (Basic Protocol 1) | null | dx.doi.org/10.17504/protocols.io.48vgzw6 | null | Michael S. Fernandopulle, Ryan Prestil, Christopher Grunseich, Chao Wang, Li Gan, Michael E. Ward | TITLE: MAINTENANCE CULTURE OF iPSCs (Basic Protocol 1)
AUTHORS: Michael S. Fernandopulle, Ryan Prestil, Christopher Grunseich, Chao Wang, Li Gan, Michael E. Ward
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Human iPSCs are an ideal system for studying human biology due to their rapid proliferatio... | ["[Matrigel Coating]\nAliquotting concentrated Matrigel:\nMatrigel polymerizes rapidly at room temperature when concentrated, so it is imperative to aliquot stocks with pre-chilled tips and tubes and to thaw the concentrated stock solution on ice.", "[Matrigel Coating]\nGradually thaw a bottle of Matrigel stock soluti... |
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