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.kchcst6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?. | [] |
82,458 | Immunoblotting of macrophages and microglia | 4 | dx.doi.org/10.17504/protocols.io.6qpvr41dzgmk/v1 | https://www.protocols.click/view/immunoblotting-of-macrophages-and-microglia-cur2wv8e | Narayana Yadavalli, Shawn M. Ferguson | TITLE: Immunoblotting of macrophages and microglia
AUTHORS: Narayana Yadavalli, Shawn M. Ferguson
[DESCRIPTION]
This protocol describes the preparation from cell lysate from cultured cells and immunoblotting procedure.
[STEPS]
SECTION: Cell culture and treatments
1. Supplement RIPA buffer with Protease Inhibitor Cock... | ["[Cell culture and treatments] Supplement RIPA buffer with Protease Inhibitor Cocktail (Roche) and PhosStop phosphatase inhibitor (Roche) and chill on ice.", "[Cell culture and treatments] Aspirate media from cells and rinse cells with PBS on ice. Aspirate PBS thoroughly.", "[Cell culture and treatments] Pipette RIPA ... |
null | null | null | dx.doi.org/10.17504/protocols.io.p2kdqcw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The purpose of this document is to present bee monitoring protocols with options for local implementation for groups that are working with the Food and Agriculture Organization of the United Nations (FAO). Listed below are the parameters that were used in designing the proto... | [] |
60,341 | GenomeTrakr WGS Protocol Collection and Workflow for MiSeq | 1 | dx.doi.org/10.17504/protocols.io.3byl4bwyjvo5/v1 | https://www.protocols.io/view/genometrakr-wgs-protocol-collection-and-workflow-f-b66vrhe6 | Tina.Pfefer , Julie Haendiges, Maria Balkey, Ruth Timme | TITLE: GenomeTrakr WGS Protocol Collection and Workflow for MiSeq
AUTHORS: Tina.Pfefer , Julie Haendiges, Maria Balkey, Ruth Timme
[DESCRIPTION]
Here we have created a collection of all the protocols used for WGS using the MiSeq, in order, from sample extraction to NCBI submission.
This collection has three sec... | ["[Wet lab] DNA Extraction", "[Wet lab] DNA Quantification", "[Wet lab] Library Preparation", "[Wet lab] Sequencing", "[Dry lab - Direct Submission] Check sequence quality:", "[Dry lab - Direct Submission] Dry lab workflow for sequence QC and NCBI submission - Direct Submission: \n\n\nThe following protocols are also i... |
96,090 | Extraction of high molecular weight insect DNA for long-read sequencing | 0 | dx.doi.org/10.17504/protocols.io.36wgq3xzklk5/v1 | https://www.protocols.io/view/extraction-of-high-molecular-weight-insect-dna-for-c932z8qe | Bérénice Lafon, Marie-Ka Tilak, Fabien L. Condamine | TITLE: Extraction of high molecular weight insect DNA for long-read sequencing
AUTHORS: Bérénice Lafon, Marie-Ka Tilak, Fabien L. Condamine
[DESCRIPTION]
The objective of this protocol is to extract insect DNA with minimal fragmentation to optimize long fragment sequencing with Oxford Nanopore Technology (ONT). The DN... | ["[Step 1: Preparing and selecting the tissues] Depending on how the specimen has been sampled and preserved, one may adapt the DNA extractions as follows:", "[Step 1: Preparing and selecting the tissues] If the tissue sample was preserved in RNAlater, pour the contents of the tube into a Petri dish. Blot the RNAlater ... |
null | null | null | dx.doi.org/10.17504/protocols.io.ufbetin | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The following protocol describes the acoustic droplet ejection dispenses needed for a minitaturized 16S PCR reaction using the Echo 550. The protocol expects (1) 384-Well 16S Illumina Primer Plate in an echo qualified Low Dead Volume (LDV) plate, (1) 384-Well Extracted gDNA in a... | ["[Prepare Plates] {\"blocks\":[{\"key\":\"638m3\",\"text\":\"Thaw and centrifuge primer, gDNA, and PCR plates.\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"6qvl8\",\"text\":\"\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"... |
87,436 | SEcuRe 2.0 – A simple and economic protocol for efficient in vitro fertilization using cryopreserved mouse sperm | 4 | dx.doi.org/10.17504/protocols.io.261ge4j3yv47/v5 | https://www.protocols.io/view/secure-2-0-a-simple-and-economic-protocol-for-effi-czmkx44w | Magdalena Wigger, Branko Zevnik, Simon E Tröder | TITLE: SEcuRe 2.0 – A simple and economic protocol for efficient in vitro fertilization using cryopreserved mouse sperm
AUTHORS: Magdalena Wigger, Branko Zevnik, Simon E Tröder
[DESCRIPTION]
The advent of genome editing tools like CRISPR/Cas has substantially increased the number of genetically engineered mouse models... | ["[Sperm cryopreservation] Prepare 20 straws for 2 sacrificed males of the same line. Use of a single male is possible as well, but the number of straws and volume of media used needs to be reduced by 50%", "[Sperm cryopreservation] Mark the straws at 2.3 cm and 4.0 cm at the open end and label them at the other end (c... |
105,361 | EB Formation using Aggrewell 400/800 | 0 | dx.doi.org/10.17504/protocols.io.14egn64bpl5d/v2 | https://www.protocols.io/view/eb-formation-using-aggrewell-400-800-di5r4g56 | Niraj Sawarkar, Regine Tipon, Yasmine Nonose, Gist Croft | TITLE: EB Formation using Aggrewell 400/800
AUTHORS: Niraj Sawarkar, Regine Tipon, Yasmine Nonose, Gist Croft
[DESCRIPTION]
Embryoid body formation is the aggregate formation of hPS cells in a three-dimensional format to differentiate into specific lineages. In this,protocol we would discuss some important steps to en... | ["[A. PREPARATION OF EBs using AGGREWEL 400/800 PLATES] Add 2 mL of AggreWell Anti-adherence reagent Solution to each well to be used.", "[A. PREPARATION OF EBs using AGGREWEL 400/800 PLATES] Centrifuge plate at 2000 x g (or maximum speed) for 5 minutes. Check for bubbles under the microscope, and spin again if needed.... |
33,926 | Q5® Site-Directed Mutagenesis Kit Quick Protocol (E0554) | 1 | dx.doi.org/10.17504/protocols.io.bddei23e | https://www.protocols.io/view/q5-site-directed-mutagenesis-kit-quick-protocol-e0-bddei23e | New England Biolabs | TITLE: Q5® Site-Directed Mutagenesis Kit Quick Protocol (E0554)
AUTHORS: New England Biolabs
[DESCRIPTION]
This is the quick protocol for the Q5® Site-Directed Mutagenesis Kit (E0554).
[BEFORE_START]
Primers should be designed with 5´ ends annealing back-to-back. We recommend using the NEB online design software, ... | ["[Exponential Amplification (PCR)] Assemble the following reagents in a thin-walled PCR tube.", "[Exponential Amplification (PCR)] Mix reagents completely.", "[Exponential Amplification (PCR)] Transfer to a thermalcycler and perform the following cycling conditions:", "[Kinase, Ligase & DpnI (KLD) Treatment] Assemble ... |
31,414 | Isolating a Monoclonal Cell Population by Limiting Dilution | null | dx.doi.org/10.17504/protocols.io.bawwiffe | null | Addgene the Nonprofit Plasmid Repository | TITLE: Isolating a Monoclonal Cell Population by Limiting Dilution
AUTHORS: Addgene the Nonprofit Plasmid Repository
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol is for isolating monoclonal cell population by limiting dilution. To see the full abstract and additional resources... | ["[Generating Conditioned Medium (optional)]\nSeed stable cells such that the next day they will be approximately 50-60% confluent. For Lenti-X 293T cells this is about 2 × 106 cells in a 10 cm dish. Each 10 cm dish should be seeded in DMEM complete, which will generate enough conditioned medium for one 96-well plate.... |
78,212 | A versatile nuclei extraction protocol for single cell multiome ATAC and gene expression in non model species | 4 | dx.doi.org/10.17504/protocols.io.261genwm7g47/v3 | https://www.protocols.io/view/a-versatile-nuclei-extraction-protocol-for-single-cqmcvu2w | Rose Ruiz Daniels, Richard S Taylor, Ioannis Konstantinidis, Sarah Salisbury, Diego Perojil Morata, Jorge Manuel de Oliveira Fernandes, Emily Clark, Dan Macqueen, Diego Robledo | TITLE: A versatile nuclei extraction protocol for single cell multiome ATAC and gene expression in non model species
AUTHORS: Rose Ruiz Daniels, Richard S Taylor, Ioannis Konstantinidis, Sarah Salisbury, Diego Perojil Morata, Jorge Manuel de Oliveira Fernandes, Emily Clark, Dan Macqueen, Diego Robledo
[DESCRIPTION]
H... | ["[Nucleus isolation workflow for ST-based buffers] on ice, place a piece of frozen tissue into one well of a 6-well tissue culture plate with 1 mL TST.", "[Nucleus isolation workflow for ST-based buffers] on ice, mince tissue initially using Tungsten Carbide scissors for 30 s and then with Noyes Spring Scissors for ... |
66,368 | https://exipure-ervaringen.jimdosite.com/ | 3 | dx.doi.org/10.17504/protocols.io.kqdg3po9ql25/v1 | https://www.protocols.io/view/https-exipure-ervaringen-jimdosite-com-cc28syhw | rogerdselders | TITLE: https://exipure-ervaringen.jimdosite.com/
AUTHORS: rogerdselders
[DESCRIPTION]
Exipure Reviews's creation, as recently expressed, is comprised of eight painstakingly picked, experimentally demonstrated colorful plants and spices.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ghebt3e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><span style="font-weight: 400;">This protocol describes the production of a reference-quality <em>de novo</em> transcriptome assembly for the spiny mouse (<em>Acomys cahirinus</em>).</span><span style="font-weight: 400;"> These methods can be applied to other RNA-Seq datasets... | [] |
82,572 | Immunohistochemistry for CD8+ staining in Breast Cancer Tissue | 6 | dx.doi.org/10.17504/protocols.io.bp2l69odrlqe/v1 | https://www.protocols.click/view/immunohistochemistry-for-cd8-staining-in-breast-ca-cuvkww4w | Freda Halim | TITLE: Immunohistochemistry for CD8+ staining in Breast Cancer Tissue
AUTHORS: Freda Halim
[DESCRIPTION]
These are protocols used for study of CD8+ Cell Count in Luminal B Her-2 negative BC patients. We used using paraffin sections of 66 samples and stained the slides for CD8+ antibody, using primary antibody CD8 (clo... | ["[Deparaffinization and rehydration] Incubate slides in Xylenes for 3 minutes", "[Deparaffinization and rehydration] Rinse with running tap water and aquadest", "[Deparaffinization and rehydration] Rehydrate slides in 100% Ethanol, 96% Ethanol, 70% Ethanol each for 3 minutes", "[Blockage of Endogenous Peroxidase] Incu... |
81,370 | Parse Evercode Fixation Protocol v2.0.1 for cells or nuclei -- University of Minnesota TMCs | 1 | dx.doi.org/10.17504/protocols.io.x54v9d6p1g3e/v1 | https://www.protocols.io/view/parse-evercode-fixation-protocol-v2-0-1-for-cells-ctp2wmqe | Parse Biosciences, Laura J Niedernhofer, David A Bernlohr | TITLE: Parse Evercode Fixation Protocol v2.0.1 for cells or nuclei -- University of Minnesota TMCs
AUTHORS: Parse Biosciences, Laura J Niedernhofer, David A Bernlohr
[DESCRIPTION]
https://www.parsebiosciences.com/products/evercode-whole-transcriptome
Fixation for Parse Evercode sc/snRNAseq
Includes details for both ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.gjjbukn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol is used for performing Type IIS assembly by either <em>BsaI</em> or <em>SapI</em>-mediated restriction/ligation using the Loop assembly system.</p>
<p> </p>
<p>Loop assembly comprises 8 receiver plasmids in odd and even levels (4 per level), which contain direct... | [] |
37,963 | HTAPP_Dissociation of human metastatic breast cancer core needle biopsy to a single-cell suspension for single-cell RNA-seq | 1 | dx.doi.org/10.17504/protocols.io.bhbjj2kn | https://www.protocols.io/view/htapp-dissociation-of-human-metastatic-breast-canc-bhbjj2kn | Michal Slyper, Julia Waldman, Jingyi Wu, Abhay Kanodia, Sébastien Vigneau, Asaf Rotem, Bruce Johnson, Orit Rozenblatt-Rosen, Aviv Regev | TITLE: HTAPP_Dissociation of human metastatic breast cancer core needle biopsy to a single-cell suspension for single-cell RNA-seq
AUTHORS: Michal Slyper, Julia Waldman, Jingyi Wu, Abhay Kanodia, Sébastien Vigneau, Asaf Rotem, Bruce Johnson, Orit Rozenblatt-Rosen, Aviv Regev
[DESCRIPTION]
<div class = "text-blocks"><d... | ["[Sample Description]\nReport sample processing information.\n[Wet Ice]\nSample ID:Date:Anatomical Site of the Biopsy:Number of Biopsy Cores:Core(s) Priority Number:Media Used for Transportation:Person Processing:", "[Sample Description]\nTransfer the sample to a Petri dish with cold PBS (or RPMI without phenol red) k... |
40,680 | Sample preparation | 4 | dx.doi.org/10.17504/protocols.io.bjygkptw | https://www.protocols.io/view/sample-preparation-bjygkptw | philippe.bechtold | TITLE: Sample preparation
AUTHORS: philippe.bechtold
[STEPS]
?. [Sample Preparation]
Take the swab (NP or OP)
?. [Sample Preparation]
Insert swab into Tube H with lysis buffer ( , consisiting ofand -)
500 µl
[violent shaking]
[Incubation]
?. [Sample Preparation]
Dispose swab and add and
[EtOH]
[Magnetic beads]
?. ... | ["[Sample Preparation]\nTake the swab (NP or OP)", "[Sample Preparation]\nInsert swab into Tube H with lysis buffer ( , consisiting ofand -)\n500 µl\n[violent shaking]\n[Incubation]", "[Sample Preparation]\nDispose swab and add and\n[EtOH]\n[Magnetic beads]", "[Sample Preparation]\nDiscard supernatant after pulling ... |
91,620 | Lifeplan Camera Trapping Protocol | 1 | null | https://www.protocols.io/view/lifeplan-camera-trapping-protocol-c5qcy5sw | Hanna M.K. Rogers, Gaia Giedre Banelyte, Arielle M Farrell, Bess Hardwick, Tommi Mononen, Deirdre Kerdraon | TITLE: Lifeplan Camera Trapping Protocol
AUTHORS: Hanna M.K. Rogers, Gaia Giedre Banelyte, Arielle M Farrell, Bess Hardwick, Tommi Mononen, Deirdre Kerdraon
[DESCRIPTION]
Lifeplan is a global biodiversity monitoring project with the aim of assessing the current state of biodiversity worldwide, and using this knowledge... | ["[Preparations]", "[Preparations] Preparing equipment\n\n\n•\tLabel cameras with QR codes on the inside. Choose stickers marked “urban” or “natural” depending on which place you are sampling in the first year.\n\n•\tLabel SD cards with QR codes\n\n\n•\tCheck camera ID and change the Night Mode setting:\n\no\tInsert 6 ... |
107,034 | RNA Isolation with TRIzol™ (Invitrogen) and on column DNase treatment using Qiagen RNeasy | 0 | dx.doi.org/10.17504/protocols.io.6qpvr8ynzlmk/v1 | https://www.protocols.io/view/rna-isolation-with-trizol-invitrogen-and-on-column-dkr24v8e | David Metzger | TITLE: RNA Isolation with TRIzol™ (Invitrogen) and on column DNase treatment using Qiagen RNeasy
AUTHORS: David Metzger
[DESCRIPTION]
This protocol is a compilation of the protocols for isolating total RNA from frozen tissue using TRIzol (Invitrogen) and DNase treating total RNA using the Qiagen RNA clean up protocol.... | ["[Homogenization with NextAdvanced Bullet Blender] Place ~10 1.0 mm ceria stabilized zirconium oxide beads in a safe-lock tube for each sample.", "[Homogenization with NextAdvanced Bullet Blender] In a chemical fume hood, add 1 mL of TRIzol reagent to the Safe-Lock tube containing the beads.", "[Homogenization with Ne... |
84,276 | High-throughput cultivation and identification of soil bacteria | 4 | dx.doi.org/10.17504/protocols.io.5jyl8pm26g2w/v1 | https://www.protocols.io/view/high-throughput-cultivation-and-identification-of-cwiuxcew | Nhu Nguyen, Sophia Lee, Andrew Lin | TITLE: High-throughput cultivation and identification of soil bacteria
AUTHORS: Nhu Nguyen, Sophia Lee, Andrew Lin
[DESCRIPTION]
This protocol uses a dilution to extinction technique to isolate bacteria from soil but also applicable to other substrates. The isolation takes place in 96-well plates, thus allowed us to r... | ["[Sample preparation] Collect the soil (or sample) of interest. It is best to do the cultivation immediately after collection, but materials can be stored in the refrigerator overnight. Longer storage can affect the outcome if you are using this method for quantification.", "[Sample preparation] Prepare the collected ... |
61,516 | Single cell dissociation of brain organoids | 4 | dx.doi.org/10.17504/protocols.io.5qpvobp6bl4o/v1 | https://www.protocols.io/view/single-cell-dissociation-of-brain-organoids-b8bkrskw | michela.deleidi, María José Pérez J. | TITLE: Single cell dissociation of brain organoids
AUTHORS: michela.deleidi, María José Pérez J.
[DESCRIPTION]
This protocol details about single cell dissociation of brain organoids.
[STEPS]
SECTION: Single cell dissociation of brain organoids
1. Mix 500 µL DNAse with 5 mL Papain.
SECTION: Single cell dissocia... | ["[Single cell dissociation of brain organoids] Mix 500 µL DNAse with 5 mL Papain.", "[Single cell dissociation of brain organoids] Transfer single or pooled organoid to 60 mm dish.", "[Single cell dissociation of brain organoids] Aspirate excess media, add 2.5 mL Papain + DNAse solution.", "[Single cell dissociation o... |
75,377 | Freely moving recording: Chronic recoverable Neuropixels in mice | 1 | null | https://www.protocols.io/view/freely-moving-recording-chronic-recoverable-neurop-cmuru6v6 | Emily A Aery Jones | TITLE: Freely moving recording: Chronic recoverable Neuropixels in mice
AUTHORS: Emily A Aery Jones
[DESCRIPTION]
This protocol collection explains how to build a low-cost, lightweight system to implant Neuropixels 1.0 probes into mice, record during freely moving behavior, then recover the probe for future use. This ... | ["[Design the enclosure] Consider what acrylic to use (e.g. 1/4\" P95 matte black acrylic).\nUse black if you're planning to track LEDs in the dark or white if you're planning to track a Black6 mouse based on center of mass.\nUse matte finish to reduce reflections from LEDs and overhead lights.\nThicker material makes ... |
104,165 | Mycoplasma Testing Protocol | 4 | dx.doi.org/10.17504/protocols.io.81wgbxw71lpk/v1 | https://www.protocols.io/view/mycoplasma-testing-protocol-dhyd37s6 | Carolina Lopez | TITLE: Mycoplasma Testing Protocol
AUTHORS: Carolina Lopez
[DESCRIPTION]
Mycoplasma Testing Protocol (Adapted following manufacturer's instructions)
[STEPS]
SECTION: Mycoplasma Testing Protocol
1. Reagents for luminescence test:
MycoAlert PLUS Detection Kit, Lonza, cat #LT07-710.
Positive Control – supernatant fro... | ["[Mycoplasma Testing Protocol] Reagents for luminescence test: \nMycoAlert PLUS Detection Kit, Lonza, cat #LT07-710. \nPositive Control – supernatant from positive sample, 75ul aliquots stored at -80°C\nNegative Control – Water or sample from myco-free cell line, NOT unused media\nOpaque 96 well plate – Falcon cat #3... |
null | null | null | dx.doi.org/10.17504/protocols.io.iuycexw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is the protocol to extract RNA from Sterivex filters from RNA-SIP experiments carried out with seawater, vent fluids, etc.</p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
35,824 | Imaging - Stanford TMC | 1 | dx.doi.org/10.17504/protocols.io.be8qjhvw | https://www.protocols.io/view/imaging-stanford-tmc-be8qjhvw | John Hickey | TITLE: Imaging - Stanford TMC
AUTHORS: John Hickey
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>See our detailed protocol published with the following title: </span><span style = "font-weight:bold;">CODEX multiplexed tissue imaging with DNA-conjugated antibodies.</span></div></div>
[STEPS]... | ["See our detailed protocol published with the following title: CODEX multiplexed tissue imaging with DNA-conjugated antibodies."] |
22,275 | Worm Freezing Buffer | 1 | dx.doi.org/10.17504/protocols.io.14egnxjrzl5d/v1 | https://www.protocols.io/view/worm-freezing-buffer-zzbf72n | Adrien Assie, Buck Samuel | TITLE: Worm Freezing Buffer
AUTHORS: Adrien Assie, Buck Samuel
[DESCRIPTION]
Worm Freezing buffer recipe according to Brenner, S. (1974). Genetics77, 71. Found on wormbook see external link
[STEPS]
1. 150 mLof 100 % volume glycerol
2. 25 mL of 1 Molarity (M) Potassium Phosphate Buffer, pH 6.0
3. 2.85 gof NaCl
... | ["150 mLof 100 % volume glycerol", "25 mL of 1 Molarity (M) Potassium Phosphate Buffer, pH 6.0", "2.85 gof NaCl", "500 mLof M9 Buffer", "Adjust deionized water to1000 mL", "Autoclave"] |
40,969 | nCoV-2019 McGill Artic PCR Protocol, 5 ul RT and V3 only at 63C | 1 | dx.doi.org/10.17504/protocols.io.bj9hkr36 | https://www.protocols.io/view/ncov-2019-mcgill-artic-pcr-protocol-5-ul-rt-and-v3-bj9hkr36 | Sarah Reiling, Anne-Marie Roy, Shu-Huang Chen, Ioannis Ragoussis | TITLE: nCoV-2019 McGill Artic PCR Protocol, 5 ul RT and V3 only at 63C
AUTHORS: Sarah Reiling, Anne-Marie Roy, Shu-Huang Chen, Ioannis Ragoussis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">V3 only primers can be found here:</div><div class = "text-block"><a href="https://github.com/sarahreiling/... | ["[Primer pool preparation]\nPRIMER POOL PREPARATIONIf required resuspend lyophilised primers at a concentration of 100 µM each\nV3 only primers for this protocol were designed using Primal Scheme and generate overlapping 400 nt amplicons. Primer names and dilutions are listed in the table below. https://github.com/sar... |
64,386 | Das Urban Dictionary von DIAETOXIL Bewertungen | 1 | dx.doi.org/10.17504/protocols.io.e6nvwkq77vmk/v1 | https://www.protocols.io/view/das-urban-dictionary-von-diaetoxil-bewertungen-ca5asg2e | balorjerry | TITLE: Das Urban Dictionary von DIAETOXIL Bewertungen
AUTHORS: balorjerry
[DESCRIPTION]
DIAETOXIL Bewertungen Alle reden über die Keto-Gewichtsabnahme. Sie reden über die Ergebnisse und wie gut sie das glauben, während sie dabei sind. Niemand spricht über den Beginn der Diät, und dafür gibt es einen Grund. Es ist la... | ["[Das Urban Dictionary von DIAETOXIL Bewertungen]"] |
37,063 | Installation instructions for RNA-seq analysis using a conda environment | null | dx.doi.org/10.17504/protocols.io.bgffjtjn | https://www.protocols.io/view/installation-instructions-for-rna-seq-analysis-usi-bgffjtjn | Laise Moraes | TITLE: Installation instructions for RNA-seq analysis using a conda environment
AUTHORS: Laise Moraes
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The purpose of this protocol is to define and provide instructions for creating a conda environment for phylogenetic analysis</div></div>
[STEPS]
?. ... | ["[Installing Miniconda]\nCreate a directory called softwares to your HOME directory, switch to it and then download the 64-bit Python 3 Miniconda installer.Install Miniconda quietly, accepting defaults.After installation, remove the Miniconda installer from directory.Set the Miniconda permanent PATH and update conda p... |
null | null | null | dx.doi.org/10.17504/protocols.io.ki8cuhw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div title="Page 54">
<div>
<div>
<p>Platelet activation was quantitatively assessed on a randomly selected subgroup of 10 patients (not treated with acetylsalicylic acid) in un-processed blood by the PACT (Platelet activation test, adjusted from Roest 2013). In the original pap... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.cizuf5 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
How to Make a 0.5M TCEP Stock Solution
[GUIDELINES]
<a href="http://store.p212121.com/TCEP-HCl/" target="_blank">TCEP</a> can be dissolved in many types of aqueous buffers, and at a wide range of pH levels and still maintain stability<br /><br />This allows you to prepare TCEP ... | [] |
101,923 | LIANA+_Integrating_MultiOmics_Data | 0 | dx.doi.org/10.17504/protocols.io.eq2lyw6orvx9/v1 | https://www.protocols.io/view/liana-integrating-multiomics-data-dfsb3nan | Daniel Dimitrov, Philipp Sven Lars Schäfer, Elias Farr, Pablo Rodriguez-Mier, Sebastian Lobentanzer, Pau Badia-i-Mompel, Aurelien Dugourd, Jovan Tanevski, Ricardo Omar Ramirez Flores, Julio Saez-Rodriguez | TITLE: LIANA+_Integrating_MultiOmics_Data
AUTHORS: Daniel Dimitrov, Philipp Sven Lars Schäfer, Elias Farr, Pablo Rodriguez-Mier, Sebastian Lobentanzer, Pau Badia-i-Mompel, Aurelien Dugourd, Jovan Tanevski, Ricardo Omar Ramirez Flores, Julio Saez-Rodriguez
[DESCRIPTION]
A Protocol describing the application of LIANA+ o... | ["[Install LIANA+] # In command line / or jupyter notebook\npip install liana[common]\npip install adjustText==0.8", "[Import Required Packages] import numpy as np\nimport liana as li\nimport mudata as mu\nimport scanpy as sc\nfrom matplotlib import pyplot as plt\nfrom adjustText import adjust_text", "[Import Required ... |
66,816 | Cardiologist | 1 | dx.doi.org/10.17504/protocols.io.5qpvobzxxl4o/v1 | https://www.protocols.io/view/cardiologist-cdg8s3zw | Dr rAKathy Kathy rAKathy. Davis, Kathy Mach | TITLE: Cardiologist
AUTHORS: Dr rAKathy Kathy rAKathy. Davis, Kathy Mach
[DESCRIPTION]
Heart failure monitor decision diagnosed medical condition needing medication results heart attack know further then artery blocking the valve stopping blood flow to the cause heart attack. considered as heart failure monitor acces... | [] |
55,765 | Hydra collecting for citizen scientists | 1 | dx.doi.org/10.17504/protocols.io.b2pvqdn6 | https://www.protocols.io/view/hydra-collecting-for-citizen-scientists-b2pvqdn6 | Callen Hyland, Kimberly Sladek | TITLE: Hydra collecting for citizen scientists
AUTHORS: Callen Hyland, Kimberly Sladek
[DESCRIPTION]
The freshwater cnidarian Hydra has been a model system for regeneration and developmental biology for over 250 years, but much remains unknown about their biodiversity and global distribution. As a citizen scientist, ... | ["[Collecting Hydra] Gather your materials:\nNotebook and pen\nWhite or clear plastic container (a medium-sized food storage container is ideal)\nGlass Pasteur pipette + rubber bulb\nScrew-cap plastic tubes\nMagnifying glass, high powered reading glasses, or headband magnifier\nOptional: plastic toothbrush holder to pr... |
36,527 | Amplicon clean-up using SPRI beads | null | dx.doi.org/10.17504/protocols.io.bfwpjpdn | https://www.protocols.io/view/amplicon-clean-up-using-spri-beads-bfwpjpdn | Muhammad Faisal, Olin Silander, Nikki Freed | TITLE: Amplicon clean-up using SPRI beads
AUTHORS: Muhammad Faisal, Olin Silander, Nikki Freed
[STEPS]
?. [Ampure XP bead clean up]
Vortex SPRI beads thoroughly to ensure they are well resuspended, the solution should be a homogenous brown colour.
?. [Ampure XP bead clean up]
Add an equal volume (1:1) of SPRI beads to... | ["[Ampure XP bead clean up]\nVortex SPRI beads thoroughly to ensure they are well resuspended, the solution should be a homogenous brown colour.", "[Ampure XP bead clean up]\nAdd an equal volume (1:1) of SPRI beads to the sample tube and mix gently by either flicking or pipetting. For example add room temperature SPR... |
21,194 | Single-cell mapping of lineage and identity via CellTagging | null | dx.doi.org/10.17504/protocols.io.yxifxke | null | Brent A. Biddy, Wenjun Kong, Kenji Kamimoto, Chuner Guo, Sarah Waye, Tao Sun, Samantha Morris | TITLE: Single-cell mapping of lineage and identity via CellTagging
AUTHORS: Brent A. Biddy, Wenjun Kong, Kenji Kamimoto, Chuner Guo, Sarah Waye, Tao Sun, Samantha Morris
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Single-cell technologies are offering unprecedented insight into complex biology, ... | ["[Amplification of pooled CellTag libraries]\nIn this first part of the protocol, we describe the amplification of pooled CellTags by liquid culture to maintain library complexity. CellTag libraries are available from Addgene: https://www.addgene.org/pooled-library/morris-lab-celltag/. For analysis of clonal dynamics ... |
null | null | null | dx.doi.org/10.17504/protocols.io.mv5c686 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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101,688 | BAF_S01_DIONEX Ultimate 3000 HPLC | 0 | dx.doi.org/10.17504/protocols.io.5qpvok98xl4o/v1 | https://www.protocols.io/view/baf-s01-dionex-ultimate-3000-hplc-dfiy3kfw | Nicholas Sherman | TITLE: BAF_S01_DIONEX Ultimate 3000 HPLC
AUTHORS: Nicholas Sherman
[DESCRIPTION]
Description of HPLC operation and a standard step-by-step for reversed-phase chromatography of peptide mixtures on a 5 um C-18 column 300A, 150 x 2 mm.
[BEFORE_START]
Buffers:
A - 0.1% TFA H20
B - 0.1% TFA 95% ACN
C (and syringe) - 1... | ["[Start up the HPLC:] Once the purge valve is open, turn on the motor and purge by clicking the empty box to the left of the words. This box will then turn green showing that it is indeed on", "[Start up the HPLC:] Purge solvents. Allowing a long purge may reduce the period of pressure fluctuations.", "[Start up the H... |
51,223 | HUMAN ISLET SORTING FOR ALPHA, BETA, AND ACINAR CELLS | 4 | dx.doi.org/10.17504/protocols.io.bv9xn97n | https://www.protocols.io/view/human-islet-sorting-for-alpha-beta-and-acinar-cell-bv9xn97n | Klaus H. Kaestner Lab, Suzanne Shapira | TITLE: HUMAN ISLET SORTING FOR ALPHA, BETA, AND ACINAR CELLS
AUTHORS: Klaus H. Kaestner Lab, Suzanne Shapira
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Fluorescence-activated cell sorting (FACS) relies on cell-type specific properties to isolate individual popu... | ["[SET-UP]\n1. Thaw trypsin in water bath (0.05%, at least )2. Thaw FBS3. Label sorting tubes for samples a. Sample b. Aqua live/Dead Only4. Label TWO sets of collection tubes for each cell type and put 1XPBS in each tube a. Alpha b. Beta c. Acinar5. Prepare 2% FBS (50ml 1XPBS + 1ml FBS), keep on ... |
29,382 | Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping | null | dx.doi.org/10.17504/protocols.io.8xehxje | null | Jennifer B Treweek, Ken Y Chan, Nicholas C Flytzanis, Bin Yang, Benjamin E Deverman, Alon Greenbaum, Antti Lignell, Cheng Xiao, Long Cai, Mark S Ladinsky, Pamela J Bjorkman, Charless C Fowlkes, Viviana Gradinaru | TITLE: Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping
AUTHORS: Jennifer B Treweek, Ken Y Chan, Nicholas C Flytzanis, Bin Yang, Benjamin E Deverman, Alon Greenbaum, Antti Lignell, Cheng Xiao, Long Cai, Mark S Ladinsky, Pame... | [] |
37,223 | Adoption and evaluation of the Doha agreement classification system of groin pain in athletes (part 2): a worldwide survey | null | dx.doi.org/10.17504/protocols.io.bgkfjutn | https://www.protocols.io/view/adoption-and-evaluation-of-the-doha-agreement-clas-bgkfjutn | Willem Heijboer, Adam Weir, Eamonn Delahunt, Per Hölmich, Anthony G. Schache, Johannes L. Tol, Robert-Jan de Vos, Zarko Vuckovic, Andreas Serner | TITLE: Adoption and evaluation of the Doha agreement classification system of groin pain in athletes (part 2): a worldwide survey
AUTHORS: Willem Heijboer, Adam Weir, Eamonn Delahunt, Per Hölmich, Anthony G. Schache, Johannes L. Tol, Robert-Jan de Vos, Zarko Vuckovic, Andreas Serner
[DESCRIPTION]
<div class = "text-bl... | [] |
60,019 | Golden monkey fecal sampling protocol | 4 | null | https://www.protocols.io/view/golden-monkey-fecal-sampling-protocol-b6utrewn | Amanda Johnston | TITLE: Golden monkey fecal sampling protocol
AUTHORS: Amanda Johnston
[DESCRIPTION]
This project aims to use data collected from fecal samples to asses the effects of habitat loss on two populations of endangered monkey. The protocol outlines the steps for collecting and processing fecal samples from groups of habitua... | ["[Field sample collection and sub-sample preparation] After locating the fecal bolus, use a wooden spatula to remove leaves, sticks, vegetative debris, and soil as much as possible from the outside of the bolus.", "[Field sample collection and sub-sample preparation] Fill in the field data sheet, recording the time, G... |
null | null | null | dx.doi.org/10.17504/protocols.io.nkhdct6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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83,750 | FIVTools Overview | 5 | dx.doi.org/10.17504/protocols.io.rm7vzxn62gx1/v1 | https://www.protocols.click/view/fivtools-overview-cv2ew8be | William J Buchser | TITLE: FIVTools Overview
AUTHORS: William J Buchser
[DESCRIPTION]
Starting point for using FIVTools for image-based functional tools
[STEPS]
SECTION: Installation
2. Within WashU, the program is accessed from the RIS archive below. Alternatively, this open-source program can be downloaded from the gitlab repo and ru... | ["[Installation] Within WashU, the program is accessed from the RIS archive below. Alternatively, this open-source program can be downloaded from the gitlab repo and run directly.\n\n\\\\storage1.ris.wustl.edu\\wbuchser\\Active\\dB\\Software\\FIVE_Tools\\", "[Installation] FIVTools is software designed for use with im... |
57,788 | Thawing of mouse embryonic fibroblasts (MEFs) for hPSC cultures | 4 | dx.doi.org/10.17504/protocols.io.b4n4qvgw | https://www.protocols.io/view/thawing-of-mouse-embryonic-fibroblasts-mefs-for-hp-b4n4qvgw | Hanqin Li, Oriol Busquets, Steven Poser, Dirk Hockemeyer, Frank Soldner | TITLE: Thawing of mouse embryonic fibroblasts (MEFs) for hPSC cultures
AUTHORS: Hanqin Li, Oriol Busquets, Steven Poser, Dirk Hockemeyer, Frank Soldner
[DESCRIPTION]
This protocol describes the thawing of mouse embryonic fibroblasts (MEFs) as feeder cells for human pluripotent stem cell (hPSC) culture.
General note... | ["To recover frozen stocks for MEF expansion, P0 MEF tubes will be thawed in a water bath at 37 °C by gently shaking", "Thawed cells are transferred into a 15 ml conical tube containing 9 ml pre-warmed MEF medium. Centrifuge the tube at 250 x g, 5 min", "Resuspended MEFs (10x106 cells/10 cm plate) are plated in fresh ... |
null | null | null | dx.doi.org/10.17504/protocols.io.cqmvu5 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Transfection of Neuro2a cells with PolyJet
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.crkv4v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Protocol for Dephosphorylation of 5´-ends of DNA using rSAP (M0371)
[STEPS]
?.
?.
?. | [] |
93,206 | Freely moving imaging | 1 | dx.doi.org/10.17504/protocols.io.261ged1bjv47/v1 | https://www.protocols.io/view/freely-moving-imaging-c69wzh7e | Mai-Anh Vu, mwhowe | TITLE: Freely moving imaging
AUTHORS: Mai-Anh Vu, mwhowe
[DESCRIPTION]
We have developed a new micro-fiber array approach capable of chronically measuring and optogenetically manipulating local dynamics across over 100 targeted locations simultaneously in head-fixed and freely moving mice, enabling investigation of ce... | ["For visualizing fibers in behaving mice custom-built miniscopes (Liberti et al., 2016; Liberti et al., 2017) were positioned above the fiber bundle, focused with an XYZ manipulator, and cemented in place with Metabond (Parkell) under brief isoflurane anesthesia.", "Note: Permanent implantation was used for initial ex... |
103,678 | Human Fixed Nucleus Isolation for Single-Nucleus Transcriptomic Profiling (10x Genomics) | 0 | dx.doi.org/10.17504/protocols.io.261ge5xqyg47/v1 | https://www.protocols.io/view/human-fixed-nucleus-isolation-for-single-nucleus-t-dhg633ze | Satoshi Ishishita, Katherin Gabriel, Seph Palomino, Allan-Hermann Pool | TITLE: Human Fixed Nucleus Isolation for Single-Nucleus Transcriptomic Profiling (10x Genomics)
AUTHORS: Satoshi Ishishita, Katherin Gabriel, Seph Palomino, Allan-Hermann Pool
[DESCRIPTION]
Protocol for generating suspensions of fixed human nuclei for single-nucleus transcriptomics.
[STEPS]
SECTION: Equipment and Rea... | ["[Equipment and Reagents] Equipment\nKimble Dounce Kontes tissue-grinder set (DWK 885300-0000)\n50 ml Oakridge tubes (#0556214D) // can replace with 50 mL Falcon Tubes\n15 mL Falcon tubes (Fisher #352097)\n50 mL Falcon tubes (Fisher #352070)\n1.5mL LoBind Eppendorf Tubes\n70-micron Corning Cell Strainer (#431751)\nFir... |
94,357 | Purification of Total RNA from Cells Using Spin Technology | 4 | dx.doi.org/10.17504/protocols.io.81wgbxeeqlpk/v1 | https://www.protocols.io/view/purification-of-total-rna-from-cells-using-spin-te-c8dvzs66 | Malu G Tansey | TITLE: Purification of Total RNA from Cells Using Spin Technology
AUTHORS: Malu G Tansey
[DESCRIPTION]
Purification of Total RNA from Cells Using Spin Technology
[STEPS]
SECTION: Method
1. Add 20μl β-ME per 1 ml Buffer RLT. Dispense in a fume hood. Buffer RLT containing β-ME can be stored at room temperature for up t... | ["[Method] Add 20μl β-ME per 1 ml Buffer RLT. Dispense in a fume hood. Buffer RLT containing β-ME can be stored at room temperature for up to 1 month.", "[Method] Add volumes of ethanol (96–100%) as indicated on the bottle to concentrate buffer RPE to obtain a working Solution.", "[Method] Harvest cells (do not use mor... |
82,390 | 12. Taxon Group: Porifera | 4 | dx.doi.org/10.17504/protocols.io.36wgqj2rxvk5/v1 | https://www.protocols.io/view/12-taxon-group-porifera-cupwwvpe | John Bishop, Inez Januszczak | TITLE: 12. Taxon Group: Porifera
AUTHORS: John Bishop, Inez Januszczak
[DESCRIPTION]
This is part of the collection "DToL Taxon-specific Standard Operating Procedures (SOPs) for Marine Metazoa", lead by the Other Metazoa Working Group. The SOP collection contains guidance on how to process the various marine Metazoa s... | [] |
95,151 | Investigating Reliability and Criterion Validity of the Chinese Version of the Assessment of Physical Activity in Frail Older People: A Cross-Sectional Study | 1 | dx.doi.org/10.17504/protocols.io.14egn3d7yl5d/v1 | https://www.protocols.io/view/investigating-reliability-and-criterion-validity-o-c86pzzdn | yuelin li, LinYu Lyu, Xing Fan, LiJuan Xu, Yan Li, Rhayun Song | TITLE: Investigating Reliability and Criterion Validity of the Chinese Version of the Assessment of Physical Activity in Frail Older People: A Cross-Sectional Study
AUTHORS: yuelin li, LinYu Lyu, Xing Fan, LiJuan Xu, Yan Li, Rhayun Song
[DESCRIPTION]
- This study aims to determine the reliability and criterion validit... | [] |
81,288 | A scalable hydroponic-based method for screening isolates of chickpea Fusarium wilt pathogen, Fusarium oxysporum f.sp. ciceris | 4 | dx.doi.org/10.17504/protocols.io.5qpvormyxv4o/v1 | https://www.protocols.io/view/a-scalable-hydroponic-based-method-for-screening-i-ctmgwk3w | Manavi Raizada, Nimmy MS, Ramawatar Nagar | TITLE: A scalable hydroponic-based method for screening isolates of chickpea Fusarium wilt pathogen, Fusarium oxysporum f.sp. ciceris
AUTHORS: Manavi Raizada, Nimmy MS, Ramawatar Nagar
[DESCRIPTION]
Chickpea is the third most consumed grain legume in the world. It serves as a valuable source of protein and micronutrie... | ["Seed Germination", "Hydroponics System (HS) preparation -", "Transfer to Hydroponics system", "Infection with FOC isolates :", "The FOC isolates, previously inoculated, filtered, and the spores counted (Figure 5), were diluted with double distilled water (if required) to reach a concentration of 106 – 108 spores /ml.... |
33,840 | One-pot native barcoding of amplicons (Ultra II AMII ligation) | null | dx.doi.org/10.17504/protocols.io.bdaqi2dw | null | Josh Quick, Kirstyn Brunker | TITLE: One-pot native barcoding of amplicons (Ultra II AMII ligation)
AUTHORS: Josh Quick, Kirstyn Brunker
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a ‘one-pot ligation’ protocol for Oxford Nanopore native barcoded ligation libraries using shearing. </div></div>
[STEPS]
?. Set up the ... | ["Set up the following reaction for each sample:Component VolumeDNA amplicons (5ng) Ultra II End Prep Reaction Buffer Ultra II End Prep Enzyme Mix Total\n12.5 µl\n1.75 µl\n0.75 µl\n15 µl", "Incubate at room temperature for Incubate at for ... |
28,297 | Modified Bacterial Conjugation Protocol For Pseudo-nitzschia multiseries | null | dx.doi.org/10.17504/protocols.io.7vhhn36 | null | G Jason Smith, April Woods | TITLE: Modified Bacterial Conjugation Protocol For Pseudo-nitzschia multiseries
AUTHORS: G Jason Smith, April Woods
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This is a modified version of 'Conjugation of Thalassiosira pseudonana', publishedby J. Turnsek </span><a href="http://dx.doi.org... | ["[Growth and preparation of E. coli pTA-MOB host and episomal plasmid donor]\nInnoculate G418+Kan plates with the appropriate host strain and grow overnight (use within 7 days). Pick isolated colonies and and inoculate into 10 mL LB medium. Grow overnight at 37oC, 200 rpm.", "[Preparation of E. coli donor (cont)]\nCen... |
84,642 | Purification of NDP52 (untagged) | 4 | dx.doi.org/10.17504/protocols.io.36wgq35xklk5/v1 | https://www.protocols.io/view/purification-of-ndp52-untagged-cwwaxfae | Elias Adriaenssens | TITLE: Purification of NDP52 (untagged)
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol describes purification of NDP52 (untagged).
[STEPS]
SECTION: Purification of NDP52 (untagged)
1. The human NDP52 cDNA into a pGST2 vector with an N-terminal GST tag followed by
a TEV cleavage site is available from Addgene... | ["[Purification of NDP52 (untagged)] The human NDP52 cDNA into a pGST2 vector with an N-terminal GST tag followed by\na TEV cleavage site is available from Addgene (RRID: Addgene #187828).", "[Purification of NDP52 (untagged)] After the transformation of the pGST2 vector encoding GST-TEV-NDP52 in E. coli Rosetta pLySS ... |
null | null | null | dx.doi.org/10.17504/protocols.io.knycvfw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A simple protocol to extract DNA</p>
[BEFORE_START]
<p>If blood is preserved in ethanol, it has to be dried before starting.</p>
[STEPS]
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40,793 | ELISA for quantification of IL-30 in human serum. | 6 | dx.doi.org/10.17504/protocols.io.bj3zkqp6 | https://www.protocols.io/view/elisa-for-quantification-of-il-30-in-human-serum-bj3zkqp6 | Angel Justiz-Vaillant | TITLE: ELISA for quantification of IL-30 in human serum.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Interleukins (IL) are a type of cytokine first thought to be expressed by leukocytes alone but have later been found to be produced by many other body cells.... | ["An anti-human IL-30 coating antibody is adsorbed onto the microwells by incubation overnight at 4°C with carbonate-bicarbonate buffer.", "Add 50 µl of human serum. Human IL-30 present in the serum sample binds to antibodies adsorbed into the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buffer and... |
null | null | null | dx.doi.org/10.17504/protocols.io.c37yrm | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol contains 4 sections: <br />1. Cesium Chloride Gradient to separate phage from bacteria. Marine viruses around 1.5g/ml<br />2. DNase I treatment of CsCl-purified phage<br />3. Formamide Extraction of DNA from phagE4. <br />4. CTAB</p>
[GUIDELINES]
Needed:<br />
... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.k3ucynw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Create a script to add functional information about the samples into Anvi'o. </p>
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.gsbbwan | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Denville LE Agarose is an all purpose agarose for routine nucleic acid electrophoresis of fragments between 500bp-23,000 bp.</p>
<p> </p>
<p>Denville LE Agarose has no detectable DNase or RNase activity.</p>
[GUIDELINES]
<p><strong>Introduction</strong></p>
<p>Denville LE Ag... | [] |
37,341 | Maranhao Polymerase/Protein Purification Protocol | null | null | https://www.protocols.io/view/maranhao-polymerase-protein-purification-protocol-bgp5jvq6 | Andre Maranhao, Andrew D Ellington | TITLE: Maranhao Polymerase/Protein Purification Protocol
AUTHORS: Andre Maranhao, Andrew D Ellington
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">I present this as a somewhat universal/standard/basic purification protocol that has been successfully used to purify polymerases (e.g. RTX and Bst-LF... | ["[Culture Centrifugation]\nSpin down culture . Discard the supernatant (i.e. spent media). Keep cell pellet on ice or in a cold room enivronment ().If working from a frozen pellet, simply thaw cell pellet on ice.\n1 L\nCentrifuge: 5000 34, 20 min, 4 10\n4 °C", "[Lysis]\nResuspend cell pellet in Lysis Buffer and tr... |
45,884 | Frankenstein’ protocol for nuclei isolation from FRESH and FROZEN tissue for snRNA-Seq (10x Genomics Platform) | 1 | dx.doi.org/10.17504/protocols.io.bq24mygw | https://www.protocols.io/view/frankenstein-protocol-for-nuclei-isolation-from-fr-bq24mygw | Luciano Martelotto | TITLE: Frankenstein’ protocol for nuclei isolation from FRESH and FROZEN tissue for snRNA-Seq (10x Genomics Platform)
AUTHORS: Luciano Martelotto
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is the result of the combination of various nuclei isolation protocols for single cell RNA-s... | ["[Tissue Homogenization]\nMince/chop tissue with a razor blade to small pieces. The tissue may be as small as a grain of rice.\nFor mincing the tissue, you may take the tube out of ice, however, be quick and return to ice.", "[Tissue Homogenization]\nAdd chilled Nuclei EZ Lysis Buffer to the tissue in 1.5 mL tube.\n5... |
53,703 | ADE 2022 Day 2: PCR | 4 | dx.doi.org/10.17504/protocols.io.eq2lypr8qlx9/v2 | https://www.protocols.io/view/ade-2022-day-2-pcr-bypfpvjn | Tom Little | TITLE: ADE 2022 Day 2: PCR
AUTHORS: Tom Little
[DESCRIPTION]
DAY 2: ADE field practical instructions for PCR
[STEPS]
1. Retrieve your four tubes from the PCR machine.
2. Add 24ul of PCR mix to the second tube in your strip. The PCR mix includes buffer, enzyme and primers to amplify the ~650 base fragment of cytoc... | ["Retrieve your four tubes from the PCR machine.", "Add 24ul of PCR mix to the second tube in your strip. The PCR mix includes buffer, enzyme and primers to amplify the ~650 base fragment of cytochrome oxidase I (COX1) used as a \"universal\" DNA barcode for animals. Your tubes will now look like this, with the clear ... |
74,794 | Yeast Peptone Dextrose (YPD) medium | 4 | null | https://www.protocols.io/view/yeast-peptone-dextrose-ypd-medium-cmaiu2ce | Andreas Sagen | TITLE: Yeast Peptone Dextrose (YPD) medium
AUTHORS: Andreas Sagen
[DESCRIPTION]
Yeast peptone dextrose is a medium composition used to grow many common yeasts, among others Saccharomyces cerevisiae. Glucose is the primary carbon and energy source, while nitrogen and essential amino acids are provided by the yeast extr... | ["[100 mL Dextrose solution] All compounds are measured using a high precision analytical scale from powdered compounds. Each compound is measured to within 1% of the target weight. All compounds are mixed in a Duran bottle", "[500 mL YPD (broth) medium] All compounds are measured using a high precision analytical scal... |
40,919 | ELISA for quantification of human immunoglobulin E (IgE) in serum or plasma. | 6 | dx.doi.org/10.17504/protocols.io.bj7xkrpn | https://www.protocols.io/view/elisa-for-quantification-of-human-immunoglobulin-bj7xkrpn | Angel Justiz-Vaillant, Belkis Ferrer-Cosme | TITLE: ELISA for quantification of human immunoglobulin E (IgE) in serum or plasma.
AUTHORS: Angel Justiz-Vaillant, Belkis Ferrer-Cosme
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>IgE is a monomer. It has a molecular weight of 188 Kd and a serum concentration of 0.00005 mg/mL. It p... | ["An anti-human IgE 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 IgE present in the serum or plasma binds to antibodies adsorbed into the microwells.", "The microplate is blocked with 3% non-fat milk-PBS b... |
40,835 | Zymo Plasmid Miniprep - Classic - CHEM 584 | 4 | dx.doi.org/10.17504/protocols.io.bj5bkq2n | https://www.protocols.io/view/zymo-plasmid-miniprep-classic-chem-584-bj5bkq2n | Ken Christensen | TITLE: Zymo Plasmid Miniprep - Classic - CHEM 584
AUTHORS: Ken Christensen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The ZR Plasmid Miniprep-Classic kit is designed for efficient isolation of plasmid DNA from </span><span style = "font-style:italic;">E. coli</span><span> cell lysates usi... | ["[MINIPREP]\nCentrifuge - of bacterial culture in a clear 1.5 ml tube at full speed for 15 - 20 seconds in a microcentrifuge. Discard supernatant.\n500 µl\n5 mL\nDepending on the volume of bacterial culture it may be necessary to repeat Step 1 several times. You can also centrifuge larger culture volumes (e.g., 5 mL)... |
null | null | null | dx.doi.org/10.17504/protocols.io.pymdpu6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Platelets are the primary cellular mediator of thrombosis. This protocol allows for the preparation of washed human platelets. These platelets can then be stimulated or cultured for various purposes. </p>
[BEFORE_START]
<p>Prepare Tyrode's Buffer, or use Tyrode's buffer from... | [] |
59,709 | Plant assemble - Plant de novo genome assembly, scaffolding and annotation for genomic studies | 2 | dx.doi.org/10.17504/protocols.io.81wgb6zk3lpk/v1 | https://www.protocols.io/view/plant-assemble-plant-de-novo-genome-assembly-scaff-b6i5rcg6 | Scott Ferguson, Ashley Jones, Justin Borevitz | TITLE: Plant assemble - Plant de novo genome assembly, scaffolding and annotation for genomic studies
AUTHORS: Scott Ferguson, Ashley Jones, Justin Borevitz
[DESCRIPTION]
With the advancement of long-read sequencing technologies and associated bioinformatics tools, it has now become possible to de novo assemble com... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.s63ehgn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.id2ca8e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Please contact Dr. Steven Wilhelm (wilhelm@utk.edu) for additional information regarding this protocol.</p>
<p> </p>
<p>Adapted from Nanodrop ND-1000 User Manual </p>
[STEPS]
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62,432 | XP nutrition keto gummies reviews - how does it works for you? | 1 | dx.doi.org/10.17504/protocols.io.kxygxzo7wv8j/v1 | https://www.protocols.io/view/xp-nutrition-keto-gummies-reviews-how-does-it-work-b878rzrw | nutritionketoiesreviews | TITLE: XP nutrition keto gummies reviews - how does it works for you?
AUTHORS: nutritionketoiesreviews
[DESCRIPTION]
XP nutrition keto gummies reviews - how does it works for you?
[STEPS]
1. XP nutrition keto gummies reviews - how does it works for you?
XP Nutrition Keto Gummies- Reduce Redundant Body Weight.
De... | ["XP nutrition keto gummies reviews - how does it works for you?\nXP Nutrition Keto Gummies- Reduce Redundant Body Weight. \n\nDealing with low stamina, poor metabolism position, low energy position, poor digestion, and impunity power and other health issues are some of the health issues which you might face due to rot... |
94,965 | Cassiopea xamachana Cellular Dissociation | 4 | dx.doi.org/10.17504/protocols.io.3byl4qnnovo5/v1 | https://www.protocols.io/view/cassiopea-xamachana-cellular-dissociation-c8yvzxw6 | Anthony Bonacolta, Victoria Sharp, Marta Mammone | TITLE: Cassiopea xamachana Cellular Dissociation
AUTHORS: Anthony Bonacolta, Victoria Sharp, Marta Mammone
[DESCRIPTION]
This protocol is to optimized to dissociate and fix Cassiopea xamachana cells for cell sorting and scRNA-seq.
The dissociation by itself results in 53-55% of viable cells.
Cells cannot be sorted wit... | ["[Dissociation] Gently wash the jellyfish tissue in 10 mL for 1 min then transfer to fresh 10 mL and let incubate at Room temperature for 150 s .", "[Dissociation] Using sterilized forceps, place the jelly tissue into a clean 15 mL tube then add 1 mL on top of the jelly, or enough to submerge the tissue.", "[Dissoc... |
93,622 | Thioflavin T Assay | 1 | dx.doi.org/10.17504/protocols.io.x54v9p4kqg3e/v1 | https://www.protocols.io/view/thioflavin-t-assay-c7nwzmfe | Michael X. Henderon | TITLE: Thioflavin T Assay
AUTHORS: Michael X. Henderon
[DESCRIPTION]
This protocol details Thioflavin T assay.
[GUIDELINES]
Adapted from Alex Crowe, Jing Guo, Dustin Covell 032012 protocol, Mian Horvath Updates
[STEPS]
SECTION: Thioflavin T Assay
1. Resuspend fibril reaction. Fibrils will settle over time. Dilute 1.... | ["[Thioflavin T Assay] Resuspend fibril reaction. Fibrils will settle over time. Dilute 1.5 µL of 5 mg/mL fibrillization reaction 1:50 with PBS (total 75 µL).", "[Thioflavin T Assay] Assay each fibrillization in triplicate on the 96 well black assay plate. Dispense 20 µL of diluted α- synuclein fibrils per well.", "[Th... |
null | null | null | dx.doi.org/10.17504/protocols.io.jsjcncn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>It is presumed that early detection and treatment of the chronic lung diseases cystic fibrosis (CF) and primary ciliary dyskinesia (PCD) are crucial for improving the prognosis. Mucus stagnation and secondary infections and inflammation in the airways causes progressive lung ... | [] |
61,928 | Total Peptide Library Construction Technology | 6 | dx.doi.org/10.17504/protocols.io.5jyl8916dv2w/v1 | https://www.protocols.io/view/total-peptide-library-construction-technology-b8qgrvtw | Cathy Miller | TITLE: Total Peptide Library Construction Technology
AUTHORS: Cathy Miller
[DESCRIPTION]
The total peptide libraryis a collection of a large number of small peptide of specific length and different sequences, which includes the permutation and combination of various amino acid sequences in the short peptide of this l... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dag2bv | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
To make 10ml of blocking solution:<br /><br />10ml 1X PBS<br />100ul 10% Triton-100<br />100ul Normal Donkey Serum<br /><br />
[STEPS] | [] |
98,524 | Mouse Surgery – Transplantation of human thymus into the kidney capsule of NSG mice | 4 | dx.doi.org/10.17504/protocols.io.36wgq4p73vk5/v2 | https://www.protocols.io/view/mouse-surgery-transplantation-of-human-thymus-into-dcf42tqw | Austin Chen, Mohsen Khosravi-Maharlooei, Markus Holzl, Megan Sykes | TITLE: Mouse Surgery – Transplantation of human thymus into the kidney capsule of NSG mice
AUTHORS: Austin Chen, Mohsen Khosravi-Maharlooei, Markus Holzl, Megan Sykes
[DESCRIPTION]
This protocol details our minimally invasive approach for implanting human thymus tissue under the kidney capsule of NSG mice. In contras... | ["[Day 0 or 1, Irradiation] 1. Put the mice into an irradiation cage\n\n2. Irradiate the mouse with indicated grey \n 120 – 150 for NSG\n 250-270 for NS\n\n3. Put the mice back into their original cage", "[Day 1, Thymus surgery (all of these steps take place within the hood)] Make sure to read and understand step... |
36,429 | Nuclei Isolation for SnRNA-seq and SnATAC-seq from Frozen Fresh Human Retina Sample | null | null | https://www.protocols.io/view/nuclei-isolation-for-snrna-seq-and-snatac-seq-from-bftmjnk6 | Xuesen Cheng, Yumei Li, Rui Chen | TITLE: Nuclei Isolation for SnRNA-seq and SnATAC-seq from Frozen Fresh Human Retina Sample
AUTHORS: Xuesen Cheng, Yumei Li, Rui Chen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The protocol of single nuclei RNA/ ATAC sequencing describes the isolation of nuclei from the human flash frozen retin... | ["[Nuclei Isolation]\nCool on ice the following items: razor blades, glass dounce homogenizer (1 ml), and RNAse-free lysis buffer.Using the pre-cooled razor blade, cut a block (size of rice grain) of frozen retina in a dish on dry ice, and mince the tissue as small as possible.", "[Nuclei Isolation]\nAdd 500 ul ice-col... |
58,442 | Kanamycin 50 mg/mL Stock Solution | 1 | dx.doi.org/10.17504/protocols.io.36wgq7jm5vk5/v1 | https://www.protocols.io/view/kanamycin-50-mg-ml-stock-solution-b5biq2ke | Bailey Clark | TITLE: Kanamycin 50 mg/mL Stock Solution
AUTHORS: Bailey Clark
[DESCRIPTION]
The abstract will be added later.
[GUIDELINES]
Reference: Concentration for bacterial selection
[STEPS]
SECTION: Preparation of Stock Solution
1. Weigh 50 mg (0.05 g ) of Kanamycin.
SECTION: Preparation of Stock Solution
2. Add the K... | ["[Preparation of Stock Solution] Weigh 50 mg (0.05 g ) of Kanamycin.", "[Preparation of Stock Solution] Add the Kanamycin to a 1.5 mL tube.", "[Preparation of Stock Solution] Add deionized water to the 1 mL level on the tube.", "[Preparation of Stock Solution] Vortex the tube for 5 s , repeat 3 times.", "[Preparation ... |
51,399 | Purification of cytosolic fraction and quantification of mtDNA by qPCR | 1 | dx.doi.org/10.17504/protocols.io.14egnz12yg5d/v1 | https://www.protocols.io/view/purification-of-cytosolic-fraction-and-quantificat-bwffpbjn | Will Hancock-Cerutti, Zheng Wu, Gerald S. Shadel, Pietro De Camilli | TITLE: Purification of cytosolic fraction and quantification of mtDNA by qPCR
AUTHORS: Will Hancock-Cerutti, Zheng Wu, Gerald S. Shadel, Pietro De Camilli
[DESCRIPTION]
This protocol describes the purification of a cytosolic fraction depleted of membrane from cultured cells, and the quantification of mitochondrial DNA... | ["[Cell culture and purification of cytosolic fraction] Plate HeLa cells in DMEM 15 cm plates (3.5 x 106 cells per plate).", "[Cell culture and purification of cytosolic fraction] The following day, prepare cytosolic buffer with fresh digitonin.", "[Cell culture and purification of cytosolic fraction] Prepare lysis buf... |
62,489 | MethodsJ2 | 1 | dx.doi.org/10.17504/protocols.io.3byl4bx38vo5/v1 | https://www.protocols.io/view/methodsj2-b89zrz76 | Joel Ryan, Thomas Pengo, Alessandro Rigano, Paula Montero Llopis, Michelle S. Itano, Lisa A. Cameron, Guillermo Marqués, Caterina Strambio De Castillia, Mark A. Sanders, Claire M Brown | TITLE: MethodsJ2
AUTHORS: Joel Ryan, Thomas Pengo, Alessandro Rigano, Paula Montero Llopis, Michelle S. Itano, Lisa A. Cameron, Guillermo Marqués, Caterina Strambio De Castillia, Mark A. Sanders, Claire M Brown
[DESCRIPTION]
MethodsJ2
Building on MethodsJ , MethodsJ2 helps users write a materials and methods text for... | ["[Instructions with demo image and hardware specifications file] Please install Fiji from fiji.sc following the recommended installation procedure.", "[Instructions with demo image and hardware specifications file] Please download the contents of this repository, including the python script MethodsJ2.py file, as well ... |
81,374 | Parse Evercode WT v2.0.1 Protocol -- University of Minnesota TMCs | 1 | dx.doi.org/10.17504/protocols.io.rm7vzbzx2vx1/v1 | https://www.protocols.io/view/parse-evercode-wt-v2-0-1-protocol-university-of-mi-ctp6wmre | Parse Biosciences, Laura J Niedernhofer, David A Bernlohr | TITLE: Parse Evercode WT v2.0.1 Protocol -- University of Minnesota TMCs
AUTHORS: Parse Biosciences, Laura J Niedernhofer, David A Bernlohr
[DESCRIPTION]
https://www.parsebiosciences.com/products/evercode-whole-transcriptome
Protocol for Parse Evercode, WT - for up to 48 samples and 100K cells.
Version 2.0.1
... | ["Complete dissociation of tissue and fixation of cells or nuclei"] |
null | null | null | dx.doi.org/10.17504/protocols.io.jqycmxw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
25,796 | Isolation of haustoria from stem rust Pgt 21-0 infected wheat seedlings | 1 | null | https://www.protocols.io/view/isolation-of-haustoria-from-stem-rust-pgt-21-0-inf-5fcg3iw | Jamila Nasim, Ashley Jones, Benjamin Schwessinger | TITLE: Isolation of haustoria from stem rust Pgt 21-0 infected wheat seedlings
AUTHORS: Jamila Nasim, Ashley Jones, Benjamin Schwessinger
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Optimising haustoria isolation from infected wheat by reducing chloroplast density and increasing haustoria stabil... | ["[Blender homogenisation]\nHarvest 20–25 g of heavily infected tissue (leaf pieces of ~6 cm length), 6 days after infection (or 1 day before sporulation).", "[Blender homogenisation]\nTo remove external contaminating organisms, wash with tap water several times.", "[Blender homogenisation]\nUsing a blender, homogenise... |
73,824 | Iodine-starch sweating assay | 4 | null | https://www.protocols.io/view/iodine-starch-sweating-assay-ckb8usrw | Fanglin Lu | TITLE: Iodine-starch sweating assay
AUTHORS: Fanglin Lu
[DESCRIPTION]
This protocol outlines the procedure for assessing the sudomotor function in mice under restraint stress and under systemic pilocarpine stimulation. Both two kinds of sweating assays were based on the iodine-starch reaction.
[BEFORE_START]
Check i... | ["[Restraint stress-induced sweating] The mouse is immobilized in a self-made restraint tube.", "[Restraint stress-induced sweating] Apply 10% povidone–iodine solution to the plantar surface of bilateral hind paws with a cotton bud. Once dry, coat the skin surface with a suspension of 100% starch–castor oil.", "[Restra... |
null | null | null | dx.doi.org/10.17504/protocols.io.gydbxs6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Method to filter Illumina sequence data by removing low quality reads and reads mapping to artifact and contamination databases using BBTools.</p>
<p>DNA sequencing produces low quality reads, reads that contain sequencing artifacts and contamination from lab processes. Remo... | [] |
29,665 | Post-IMS Autofluorescence Microscopy | null | dx.doi.org/10.17504/protocols.io.879hzr6 | null | Elizabeth Neumann, Jamie Allen, Heath Patterson, Danielle Gutierrez, Jeff Spraggins | TITLE: Post-IMS Autofluorescence Microscopy
AUTHORS: Elizabeth Neumann, Jamie Allen, Heath Patterson, Danielle Gutierrez, Jeff Spraggins
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Scope: </div><div class = "text-block">Obtain autofluorescence microscopy images of tissues after IMS analysis</div... | ["Place microscope slide within adapter and insert into the Zeiss AxioScan Slide Scanner.", "Perform Coarse focusing of the tissue using:GFP filter set (ex. 450–490 nm; em. 500–550, green) High lamp power (~90%) and moderate exposure times (~ 150 ms).", "Perform Fine focusing of the tissue using:GFP filter set (ex. 45... |
50,111 | Native gel electrophoresis and Western Blot transfer of Kai-protein complexes | 1 | dx.doi.org/10.17504/protocols.io.bu67nzhn | https://www.protocols.io/view/native-gel-electrophoresis-and-western-blot-transf-bu67nzhn | Christin Köbler, Nicolas Schmelling, Alice Pawlowski, Philipp Spät, Nina Scheurer, Lutz Berwanger, Ilka Axmann, Annegret Wilde | TITLE: Native gel electrophoresis and Western Blot transfer of Kai-protein complexes
AUTHORS: Christin Köbler, Nicolas Schmelling, Alice Pawlowski, Philipp Spät, Nina Scheurer, Lutz Berwanger, Ilka Axmann, Annegret Wilde
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol could be used to ... | ["[formation of Kai protein complexes]\nThe protocol was developed for the analysis of protein complexes of the alternativ KaiC3 clock system of Synechocystis spc. PCC 6803, but might work for other KaiC clock systems as wellStrep-KaiC3 purified from E. coli Rosetta gami B (DE3) cells is phosphorylated (Strep-KaiC3-P)... |
28,101 | Preparation of LB Media | null | dx.doi.org/10.17504/protocols.io.7pdhmi6 | null | NUS iGEM | TITLE: Preparation of LB Media
AUTHORS: NUS iGEM
[STEPS]
?. Weigh of Luria Broth Base powder.
25 g
?. Add the powder into of water.
1 L
?. Autoclave entire bottle of LB media. | ["Weigh of Luria Broth Base powder.\n25 g", "Add the powder into of water.\n1 L", "Autoclave entire bottle of LB media."] |
18,348 | MCPyV Co-Immunoprecipitation Protocol | null | dx.doi.org/10.17504/protocols.io.v6ke9cw | null | Kristine Dye | TITLE: MCPyV Co-Immunoprecipitation Protocol
AUTHORS: Kristine Dye
[STEPS]
?. [Day 1 - Plate Cells]
The night before transfection, seed a 10cm plate with enough cells to be ~80% confluent the following afternoon.
?. [Day 2 - Transfection]
Transfect the cells using your preferred transfection reagent/protocol.
?. [Da... | ["[Day 1 - Plate Cells]\nThe night before transfection, seed a 10cm plate with enough cells to be ~80% confluent the following afternoon.", "[Day 2 - Transfection]\nTransfect the cells using your preferred transfection reagent/protocol.", "[Day 4 - Harvest/Lysis/IP Part 1]\nHARVEST/LYSIS36-48 hours post transfection... |
null | null | null | dx.doi.org/10.17504/protocols.io.e2wbgfe | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Target cells are depleted by incubating your sample with the biotin antibody cocktail followed by incubation with magnetic Streptavidin Nanobeads (Cat. No. 480015/480016). The magnetically labeled fraction is retained by the use of a magnetic separator. The untouched cells ar... | [] |
90,891 | SAMPLING Protocol Template | 1 | null | https://www.protocols.io/view/sampling-protocol-template-c4zjyx4n | Kathleen Pitz, Raissa.meyer | TITLE: SAMPLING Protocol Template
AUTHORS: Kathleen Pitz, Raissa.meyer
[DESCRIPTION]
A protocol template created through the BeBOP project for sampling.
[STEPS]
SECTION: MIOP: Minimum Information about an Omics Protocol
1.
MIOP Term
Value
methodology category
project
purpose
analyses
geographic... | ["[MIOP: Minimum Information about an Omics Protocol] MIOP Term\nValue\n \nmethodology category\n\n \nproject\n\n \npurpose\n\n \nanalyses\n\n \ngeographic location\n\n \nbroad-scale environmental context\n\n \nlocal environmental context\n\n \nenvironmental medium\n\n \ntarget\n\n \ncreator\n\n \nmaterials required\... |
96,838 | Unveiling Prolonged COVID Variants: A Protocol for Clustering and Phylogenetic Analysis | 0 | dx.doi.org/10.17504/protocols.io.e6nvw1p9wlmk/v1 | https://www.protocols.io/view/unveiling-prolonged-covid-variants-a-protocol-for-date2eje | Spoorthi R Kulkarni, Lavanya C, Baishali Garai, Vidya Niranjan | TITLE: Unveiling Prolonged COVID Variants: A Protocol for Clustering and Phylogenetic Analysis
AUTHORS: Spoorthi R Kulkarni, Lavanya C, Baishali Garai, Vidya Niranjan
[DESCRIPTION]
Prolonged COVID-19 has emerged as a significant concern globally, with a subset of individuals experiencing persistent symptoms long after... | ["[SAMPLE COLLECTION AND REFERENCE GENOME] The genomic sequences utilized in this protocol were sourced from the NCBI Virus Database, which encompasses region-specific genome sequences. Focused on the Indian population, the protocol primarily analyzes sample sequences provided in FASTA format, alongside reference genom... |
55,629 | Extraction of Non-Structural Carbohydrates (Total Soluble Sugars + Starch) in Plant Tissues | 6 | dx.doi.org/10.17504/protocols.io.b2jmqck6 | https://www.protocols.io/view/extraction-of-non-structural-carbohydrates-total-s-b2jmqck6 | Lynn Doran, Amanda P. De Souza | TITLE: Extraction of Non-Structural Carbohydrates (Total Soluble Sugars + Starch) in Plant Tissues
AUTHORS: Lynn Doran, Amanda P. De Souza
[DESCRIPTION]
Ethanolic extraction of total soluble sugars (liquid fraction) and starch (precipitated fraction) from leaf tissue.
[BEFORE_START]
Freeze-dry and grind leaf ti... | ["[Ethanolic Extraction] Weigh 10-15 mg of freeze-dried pulverized material into a labeled, 2 mL screw-cap tube. Record the weight.", "[Ethanolic Extraction] Add 1 mL of 80% ethanol to each sample. A repeat pipettor is useful for large sample numbers.", "[Ethanolic Extraction] Vortex to mix the samples until all powd... |
12,557 | Hot Chocolate Chip Cookies | null | dx.doi.org/10.17504/protocols.io.qhmdt46 | null | Ming-Dao Chia | TITLE: Hot Chocolate Chip Cookies
AUTHORS: Ming-Dao Chia
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Adapted from https://www.the-girl-who-ate-everything.com/hot-chocolate-cookies/</div><div class = "text-block">Amounts for making 30 cookies, adapt as needed.</div></div>
[STEPS]
?. [Ingredient ... | ["[Ingredient prep]\nAcquire the following:2 tablespoons coconut butter0.25 cup coconut oil12 tablespoons olive oil1 cup white sugar1 egg1 teaspoon vanillaA dash of nutmegA dash of cinnamonA dash of allspice1.5 cups all-purpose flour0.5 cups hot chocolate mix (incl. sugar)1 teaspoon table salt1 teaspoon baking soda200g... |
84,859 | WGSA2 workflow - a tutorial | 5 | dx.doi.org/10.17504/protocols.io.n92ldm98xl5b/v1 | https://www.protocols.io/view/wgsa2-workflow-a-tutorial-cw43xgyn | Angelina Angelova, Duc Doan, Poorani Subramanian, Mariam Quiñones, Michael Dolan, Darrell E. Hurt | TITLE: WGSA2 workflow - a tutorial
AUTHORS: Angelina Angelova, Duc Doan, Poorani Subramanian, Mariam Quiñones, Michael Dolan, Darrell E. Hurt
[DESCRIPTION]
The exploration of the microbiome has gained significant attention, leading to the development of powerful computational tools and online pipelines. These tools re... | ["[WGSA2 processing: 1 - TEDing module (pre-assembly processing)] (T) Trimming & filtering of raw reads\nTrimming and filtering steps are performed with fastp. \n\n \n\nIn this quick trim and filtering step, WGSA2 verifies that the reads from the submitted dataset have met the minimal quality and length standards requi... |
null | null | null | dx.doi.org/10.17504/protocols.io.irrcd56 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is the PCR protocol for Phusion® High-Fidelity DNA Polymerase (M0530)
[BEFORE_START]
Annealing temperatures should be determined using the <a href="http://tmcalculator.neb.com/#!/" target="_blank">NEB Annealing Temp Calculator</a>.
[GUIDELINES]
<p><strong>OVERVIE... | [] |
72,240 | Immunofluorescent staining of LN | 4 | null | https://www.protocols.io/view/immunofluorescent-staining-of-ln-cisquedw | Guido Krähenbühl | TITLE: Immunofluorescent staining of LN
AUTHORS: Guido Krähenbühl
[DESCRIPTION]
Generic Staining Protocol
[STEPS]
1. Thaw Tissuesections at RT
2. wash in PBS for 10 minutes
10 min
3. Circle samples with PAP-Pen
4. Block in 10% Serum for 30 minutes
30 min
5. Add primary Antibody for 90 minutes at RT or o/n at 4C
... | ["Thaw Tissuesections at RT", "wash in PBS for 10 minutes\n 10 min", "Circle samples with PAP-Pen", "Block in 10% Serum for 30 minutes\n30 min", "Add primary Antibody for 90 minutes at RT or o/n at 4C", "wash 3x with PBS?", "incubate with secondary AB for 60 minutes", "wash 3x with PBS?", "Add DABCO-Mowiol on samples t... |
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