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.crxv7m | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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?.
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?.
?. | [] |
106,726 | Preparation, storage and use of the positive and negative controls for DDNS | 0 | dx.doi.org/10.17504/protocols.io.8epv5r594g1b/v2 | https://www.protocols.io/view/preparation-storage-and-use-of-the-positive-and-ne-dkge4tte | Joyce Akello, Manasi Majumdar, Alex Shaw, Catherine Troman, Erika Bujaki, Javier Martin, Nick Grassly | TITLE: Preparation, storage and use of the positive and negative controls for DDNS
AUTHORS: Joyce Akello, Manasi Majumdar, Alex Shaw, Catherine Troman, Erika Bujaki, Javier Martin, Nick Grassly
[DESCRIPTION]
This protocol describes the laboratory process for the use of run controls (positive and negative controls)
for... | ["[CVA20 positive control reconstitution] Reconstitution of the positive control", "[CVA20 positive control reconstitution] Working in the MSCII, reconstitute the vial containing the lyophilised CVA20 (freeze dried material) by adding 1mL of nuclease free water (NFW)", "[CVA20 positive control reconstitution] Vortex br... |
48,332 | General protocol for the culture of adherent mammalian cell lines | 1 | null | https://www.protocols.io/view/general-protocol-for-the-culture-of-adherent-mamma-btfknjkw | Clark Fritsch | TITLE: General protocol for the culture of adherent mammalian cell lines
AUTHORS: Clark Fritsch
[DESCRIPTION]
The purpose of this protocol is to give a general overview of the various methods associated with the culture of adherent mammalian cells. These methods include the use of aseptic technique, maintaining mammal... | ["[Maintenance of Aseptic Technique and Setup of Work Environment] Mammalian cell lines are extremely vulnerable to bacterial and fungal contamination from the environment, as they do not have immune systems of their own. Because of this, extra care must be taken to avoid contamination. This section will cover the vari... |
95,487 | MUSIC Protocol | 1 | dx.doi.org/10.17504/protocols.io.4r3l22kwxl1y/v1 | https://www.protocols.io/view/music-protocol-c9g7z3zn | Wenxin Zhao, Zhifei Luo, Sheng Zhong | TITLE: MUSIC Protocol
AUTHORS: Wenxin Zhao, Zhifei Luo, Sheng Zhong
[DESCRIPTION]
Here we introduce the Multi-Nucleic Acid Interaction Mapping in Single Cell (MUSIC) technique for concurrent profiling of multiplex chromatin interactions, gene expression, and RNA-chromatin associations within individual nuclei. MUSIC p... | ["[Crosslinking and nuclei isolation for cell lines] Wash cell culture with ice-cold PBS.", "[5' Phosphorylation] Resuspend nuclei in 250 µL of 5’ phosphorylation master mix followed by an incubation at 37°C while rotating at 800 rpm for 1 hour.", "[Ligation of cell barcodes] Anneal cell barcodes.", "[Ligation of ... |
49,129 | Automatic Deposition of DAN Matrix using a TM Sprayer for MALDI Analysis of Lipids | 1 | dx.doi.org/10.17504/protocols.io.bt8hnrt6 | https://www.protocols.io/view/automatic-deposition-of-dan-matrix-using-a-tm-spra-bt8hnrt6 | Elizabeth Neumann, Carrie Romer, Jamie Allen, Jeff Spraggins | TITLE: Automatic Deposition of DAN Matrix using a TM Sprayer for MALDI Analysis of Lipids
AUTHORS: Elizabeth Neumann, Carrie Romer, Jamie Allen, Jeff Spraggins
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Scope:</div><div class = "text-block">To describe the procedure for spraying tissue section... | ["[Autofluorescence Scan]\nRemove slides from freezer and place in desiccator for .", "[Autofluorescence Scan]\nScan for autofluorescence on Zeiss Axio Scanner.", "[TM Sprayer Setup]\nChange nitrogen to 6 psi and turn on sprayer.", "[TM Sprayer Setup]\nOpen software and set nozzle temperature to\n40 °C", "[TM Sprayer ... |
93,362 | Neuromelanin Processing and Image Acquisition | 4 | null | https://www.protocols.io/view/neuromelanin-processing-and-image-acquisition-c7eszjee | Anastasia Filimontseva, YuHong Fu, Glenda Halliday | TITLE: Neuromelanin Processing and Image Acquisition
AUTHORS: Anastasia Filimontseva, YuHong Fu, Glenda Halliday
[DESCRIPTION]
Protocol for preparing post-mortem tissue for intracellular NM quantification.
[STEPS]
SECTION: Tissue Processing
1. Formalin-fixed paraffin-embedded tissue blocks from the pontine and midbra... | ["[Tissue Processing] Formalin-fixed paraffin-embedded tissue blocks from the pontine and midbrain regions were sectioned at 6µm, collected onto adhesive microscope slides and allowed to dry in the oven at 37°C for 48 hours.", "[Tissue Processing] Slides were incubated in the oven at 60°C for 1 hour to melt the paraffi... |
null | null | null | dx.doi.org/10.17504/protocols.io.ju6cnze | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Permutation analysis for eyetracking study</p>
[STEPS]
?.
?. | [] |
69,411 | GeoMx-NGS Readout Library Preparation | 4 | dx.doi.org/10.17504/protocols.io.n92ldpb29l5b/v1 | https://www.protocols.io/view/geomx-ngs-readout-library-preparation-cf2btqan | Angela R.S. Kruse, Morad C Malek, Jamie Allen, Melissa Farrow, Jeff Spraggins | TITLE: GeoMx-NGS Readout Library Preparation
AUTHORS: Angela R.S. Kruse, Morad C Malek, Jamie Allen, Melissa Farrow, Jeff Spraggins
[DESCRIPTION]
This protocols describes the preparation of a library for Illumina NGS sequencing from Nanostring GeoMx DSP aspirate samples.
[STEPS]
SECTION: Transferring the DSP Colle... | ["[Transferring the DSP Collection Plate] PREPARING THE COLLECTION PLATE (1 HOUR)", "[Transferring the DSP Collection Plate] Remove the collection plate from the DSP instrument by following the instructions at the end of the GeoMx DSP run or clicking the plate status icon.", "[Transferring the DSP Collection Plate] Sea... |
77,053 | Visualization of Yeast Chromosomes Using Clamped Homogeneous Electric Field (CHEF) Electrophoresis | 4 | dx.doi.org/10.17504/protocols.io.8epv5jdpdl1b/v1 | https://www.protocols.io/view/visualization-of-yeast-chromosomes-using-clamped-h-cpg5vjy6 | Lois L. Hoyer | TITLE: Visualization of Yeast Chromosomes Using Clamped Homogeneous Electric Field (CHEF) Electrophoresis
AUTHORS: Lois L. Hoyer
[DESCRIPTION]
I inherited this protocol while working as a postdoctoral researcher in the laboratory of Dr. Stewart Scherer in the 1990s. Literature that influenced protocol development is l... | ["[How to Make Agarose-Embedded Yeast Chromsomes (Chromosome Plugs)] Grow the yeast strain on an agar plate, streaking for isolated colonies. Plates can be stored at 4 °C until needed.\n\n\n \n\n\nSelect a well-isolated, representative colony. Inoculate it into the liquid growth medium of your choice. Cultures can be i... |
48,834 | Lab protocol for assessing the spectral dependencies of the cortisol awakening response (CAR) and potentially related outcome measures for morning light exposure | 5 | dx.doi.org/10.17504/protocols.io.btxanpie | https://www.protocols.io/view/lab-protocol-for-assessing-the-spectral-dependenci-btxanpie | Sebastian Babilon, Paul Myland, Julian Klabes, Joel Simon, Tran Quoc Khanh | TITLE: Lab protocol for assessing the spectral dependencies of the cortisol awakening response (CAR) and potentially related outcome measures for morning light exposure
AUTHORS: Sebastian Babilon, Paul Myland, Julian Klabes, Joel Simon, Tran Quoc Khanh
[DESCRIPTION]
Cortisol secretion has a fundamental role in human ... | ["[Participants] Subject eligibility\n\nThe following questionnaires / tests are recommended to be used for proper subject selection:\n\nPittsburgh Sleep Quality Index, PSQI\nMunich Chronotype Questionnaire, MCTQ\n36-item Short-Form Health Survey, SF-36\n10-item Perceived Stress Scale, PSS-10\nScreening for color defic... |
31,175 | Table 1. Main sociodemographic and clinical characteristics of the surveyed human population. Shushtar County (Iran), 2017‒2018. | null | dx.doi.org/10.17504/protocols.io.bapfidjn | null | Abdollah Rafiei, Raheleh Baghlaninezhad, Pamela C. Köster, Begoña Bailo, Marta Hernández de Mingo, David Carmena, Esmat Panabad, Molouk Beiromvand | TITLE: Table 1. Main sociodemographic and clinical characteristics of the surveyed human population. Shushtar County (Iran), 2017‒2018.
AUTHORS: Abdollah Rafiei, Raheleh Baghlaninezhad, Pamela C. Köster, Begoña Bailo, Marta Hernández de Mingo, David Carmena, Esmat Panabad, Molouk Beiromvand
[STEPS]
?. | [] |
95,595 | Ethical Considerations and Technological Solutions in Healthcare Research | 0 | null | https://www.protocols.io/view/ethical-considerations-and-technological-solutions-c9kjz4un | Jenny Brown | TITLE: Ethical Considerations and Technological Solutions in Healthcare Research
AUTHORS: Jenny Brown
[DESCRIPTION]
The project aimed to explore the ethical challenges and technological solutions within the realm of healthcare research, with a particular focus on the unique context of Hawai'i. It took into account th... | ["[Introduction] The widespread adoption of telehealth services during the pandemic has sparked inquiries into their effectiveness compared to traditional in-person visits and raised concerns about equitable access to these technology-based services (Shaw, James, et al., 2021). Within this dynamic healthcare landscape,... |
20,360 | U Mass - Total protein | null | dx.doi.org/10.17504/protocols.io.x5gfq3w | null | Jason Kim | TITLE: U Mass - Total protein
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 levels of... | ["Perform daily quality control assessment of instrumentation before analysis.", "Load each sample into a specialized micro-sample cup for the clinical chemistry analyzer.", "Select Total protein test on display and run the analysis.", "Collect and analyze the data."] |
96,959 | Simplified ATAC-seq protocol on frozen brains of fruit flies | 1 | null | https://www.protocols.io/view/simplified-atac-seq-protocol-on-frozen-brains-of-f-daw72fhn | Ryan Corces, William J. Greenleaf, Howard Y. Chang, Siyuan Feng, Jamie Freeman | TITLE: Simplified ATAC-seq protocol on frozen brains of fruit flies
AUTHORS: Ryan Corces, William J. Greenleaf, Howard Y. Chang, Siyuan Feng, Jamie Freeman
[DESCRIPTION]
This protocol enables the isolation of nuclei from frozen tissues. These nuclei are suitable for use in ATAC-seq, single-cell ATAC-seq, ChIP-seq, HiC... | ["[Before you start the protocol:] All steps should be performed on ice or at 4 °C. Pre-chill a fixed angle centrifuge to 4°C.", "[Before you start the protocol:] Pre-chill all tubes. For each sample you are processing, you will need: (i) one 2 ml cryo tube with 10 1.6 mm beads for bead homogenization (ii) one 1.5 ml ... |
74,793 | Lysogeny Broth (LB) medium | 4 | dx.doi.org/10.17504/protocols.io.ewov1o262lr2/v1 | https://www.protocols.io/view/lysogeny-broth-lb-medium-cmahu2b6 | Andreas Sagen | TITLE: Lysogeny Broth (LB) medium
AUTHORS: Andreas Sagen
[DESCRIPTION]
Lysogeny broth (LB) is a nutritionally rich medium which is primarily used for the growth of bacteria[1]. LB broth is commonly used when cultivating Escherichia coli. There exist different formulations of LB and lead to the development of derivati... | ["[500 mL LB-Lennox (broth) medium] 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 LB-Lennox (agar) medium] All compounds are measured using a high precision ana... |
89,973 | Fluorescent in situ hybridization in sponge (Ephydatia muelleri) tissues with tyramide signal amplification | 4 | dx.doi.org/10.17504/protocols.io.j8nlkonkxv5r/v1 | https://www.protocols.io/view/fluorescent-in-situ-hybridization-in-sponge-ephyda-c34vyqw6 | Vanessa R Ho, April Hill, Sally P Leys | TITLE: Fluorescent in situ hybridization in sponge (Ephydatia muelleri) tissues with tyramide signal amplification
AUTHORS: Vanessa R Ho, April Hill, Sally P Leys
[DESCRIPTION]
Cultured sponges such as Ephydatia muelleri (Demospongiae) have delicate tissues and are attached to coverslips, unlike many other tissue samp... | ["[Tissue fixation and preparation] Fix sponges in 4% paraformaldehyde in 1:4 Holtfreter's solution (HS; diluted 1 in 4) overnight", "[Tissue fixation and preparation] Wash once in 1:4 HS", "[Tissue fixation and preparation] Dehydrate the tissues\n25% ethanol (EtOH) and 75% 1:4 HS\n50% EtOH and 50% 1:4 HS\n75% EtOH and... |
55,477 | Labelling kelps with 13C and 15N for isotope tracing or enrichment experiments | 4 | dx.doi.org/10.17504/protocols.io.8epv597rdg1b/v1 | https://www.protocols.io/view/labelling-kelps-with-13c-and-15n-for-isotope-traci-b2evqbe6 | Anton Kuech, Ursula Witte, Inka Bartsch | TITLE: Labelling kelps with 13C and 15N for isotope tracing or enrichment experiments
AUTHORS: Anton Kuech, Ursula Witte, Inka Bartsch
[DESCRIPTION]
Isotope tracing experiments can be used to trace organic material flow through the ecosystem by artificially adding labelled biomass into a system. The advantage of this ... | ["[Culture set-up (pre-labelling)] Sterile culture bottles (glass or plexiglass) of sufficient size are used for cultivation. In our case, sporophytes of Laminaria digitata and Saccharina latissima were cultured in 5 L DURAN glass bottles with the nutrient addition of 100 mL (half concentration) Provasoli Enriched Seaw... |
49,359 | Making electrocompetent Agrobacterium tumefaciens | 1 | null | https://www.protocols.io/view/making-electrocompetent-agrobacterium-tumefaciens-bufpntmn | Johannes Wolfram Debler | TITLE: Making electrocompetent Agrobacterium tumefaciens
AUTHORS: Johannes Wolfram Debler
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol yields about 5 ml of electrocompetent </span><span style = "font-style:italic;">Agrobacterium tumefaciens </span><span>cells, aliquotted into ... | ["[Things you need to prepare]\nLB medium (for 1 litre combine 10 g Tryptone, 5 g Yeast Extrad and 10 g NaCl, adjust pH to 7.0 and autoclave)10% glycerol solution (ice cold)H2O (ice cold)liquid nitrogen50 - 60 x 1.5 ml tubes (pre-chill in fridge)10 ml pipette tips8 x 50 ml tubes (pre-chill in fridge)Your favourite stra... |
67,428 | InstaHard Reviews: InstaHard Male Enhancement Reviews! | 3 | dx.doi.org/10.17504/protocols.io.5jyl89yn6v2w/v1 | https://www.protocols.io/view/instahard-reviews-instahard-male-enhancement-revie-cd4cs8sw | InstaHard Reviews | TITLE: InstaHard Reviews: InstaHard Male Enhancement Reviews!
AUTHORS: InstaHard Reviews
[DESCRIPTION]
Official WebSite Of InstaHard:- https://wintersupplement.com/instahard-reviews/
[STEPS] | [] |
64,613 | Isolation of Neuronal Nuclei From Human Frozen Post-Mortem Prefrontal Cortex Brain Tissue Using Fluorescence-Activated Nuclei Sorting (FANS) For Methylation Analyses | 4 | dx.doi.org/10.17504/protocols.io.dm6gpbmbjlzp/v1 | https://www.protocols.io/view/isolation-of-neuronal-nuclei-from-human-frozen-pos-cbcdsis6 | Alexandra Del Favero-Campbell, Gabriel R Fries | TITLE: Isolation of Neuronal Nuclei From Human Frozen Post-Mortem Prefrontal Cortex Brain Tissue Using Fluorescence-Activated Nuclei Sorting (FANS) For Methylation Analyses
AUTHORS: Alexandra Del Favero-Campbell, Gabriel R Fries
[DESCRIPTION]
There is a need for disentangling the role of transcriptional and epigenet... | ["[Part A. Nuclei Isolation [~1-2 hours]] The protocol below yields at least 300,000 NeuN+ and NeuN- nuclei (when the population is present) per 100 mg of frozen human post-mortem prefrontal cortex tissue. It is important to note that recovery may vary from sample to sample due to high inter-sample variability. Refer ... |
26,159 | Prepare 2L of B-Broth for culturing bacteria | null | dx.doi.org/10.17504/protocols.io.5spg6dn | null | Cancer Research UK / Wellcome Gurdon Institute media kitchen | TITLE: Prepare 2L of B-Broth for culturing bacteria
AUTHORS: Cancer Research UK / Wellcome Gurdon Institute media kitchen
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Prepare 2L of B-Broth for culturing bacteria</div></div>
[STEPS]
?.
?. ABC1IngredientsQuantity2Bacto
tryptone20g3NaCl 10g4Doub... | ["ABC1IngredientsQuantity2Bacto\n tryptone20g3NaCl 10g4Double\n distilled H2Oup to 2L\nABC1IngredientsQuantity2Bacto\n tryptone20g3NaCl 10g4Double\n distilled H2Oup to 2L", "AB11Dissolve Bacto tryptone and NaCl in 1L double distilled H2O in a 2L measuring\n cylinder22Make up to final volume using double distilled ... |
54,171 | RCA of Gotcha | 4 | dx.doi.org/10.17504/protocols.io.by53py8n | https://www.protocols.io/view/rca-of-gotcha-by53py8n | Chia-Hsien Shih | TITLE: RCA of Gotcha
AUTHORS: Chia-Hsien Shih
[DESCRIPTION]
This protocol is to test that GotCha is functional and can works as designed.
[STEPS]
SECTION: Preparation
1. Add 5 µL of GotCha(functional beads) into eppendorf
SECTION: Preparation
2. Centrifuge for 15000 rpm, 5 min and remove supernatant. Make sure that... | ["[Preparation] Add 5 µL of GotCha(functional beads) into eppendorf", "[Preparation] Centrifuge for 15000 rpm, 5 min and remove supernatant. Make sure that eppendorf should put on DynaMag when removing supernatant.", "[Protocol] Add 3 µL of 10X phi29 polymerase reaction buffer into eppendorf with GotCha", "[Protocol] A... |
15,061 | Human CD8 T cell transduction and rapid expansion protocol | 1 | dx.doi.org/10.17504/protocols.io.sxvefn6 | https://www.protocols.io/view/human-cd8-t-cell-transduction-and-rapid-expansion-sxvefn6 | Kristin Anderson | TITLE: Human CD8 T cell transduction and rapid expansion protocol
AUTHORS: Kristin Anderson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol outlines the steps for generating human CD8 T cells expressing an engineered T cell receptor.</div></div>
[STEPS]
?. [Day 0 - Lentiviral supernat... | ["[Day 0 - Lentiviral supernatant production and transduction]\nPrepare packaging cell line:1. Resuspend 3x106 293T cells with 10 mL LCL media and plate in a 10cm plate.2. Incubate at 37C overnight.", "[Day 1 - Lentiviral supernatant production and transduction]\nTransfect 293T:1. Thaw tubes of DNA. And prepare 5mL pol... |
96,955 | SenNet Case Selection Protocol - JHU TMC | 0 | dx.doi.org/10.17504/protocols.io.q26g71z1kgwz/v1 | https://www.protocols.io/view/sennet-case-selection-protocol-jhu-tmc-daw32fgn | kyu sang han, Fan Wu, Pei-Hsun Wu, Sashank Reddy, Denis Wirtz, Joel Sunshine | TITLE: SenNet Case Selection Protocol - JHU TMC
AUTHORS: kyu sang han, Fan Wu, Pei-Hsun Wu, Sashank Reddy, Denis Wirtz, Joel Sunshine
[DESCRIPTION]
Inclusion
Age below 30 or above 50.
English Speaking.
Able to provide consent.
Resected pancreas tissue.
Clear and normal
structured islets of Langerhans, acinus, and duct... | ["[Disclaimer] Patient samples will be obtained from distal pancreatectomy, splenectomy, and cholecystectomy. No other procedures or follow-up is needed for research purposes.", "[Inclusion] Age below 30 or above 50.\nEnglish Speaking.\nAble to provide consent.\nResected pancreas tissue.\nClear and normal structured is... |
72,453 | Explant Surgery: Chronic recoverable Neuropixels in mice | 1 | null | https://www.protocols.io/view/explant-surgery-chronic-recoverable-neuropixels-in-cizduf26 | Emily A Aery Jones | TITLE: Explant Surgery: Chronic recoverable Neuropixels in mice
AUTHORS: Emily A Aery Jones
[DESCRIPTION]
This protocol collection explains how to build a low-cost, lightweight system to implant Neuropixels 1.0 probes into mice, record during freely moving behavior, then recover the probe for future use. This protocol... | ["[Prepare mouse] Set O2 flow rate to 1-1.5L/min and isoflurane to 3%. Place mouse in anesthetic chamber.", "[Prepare mouse] When breathing has slowed to 1Hz, move animal to the toothbar. Switch isoflurane from chamber to nosecone. Wait until unresponsive to pedal reflex test, then lower to 1.5% isoflurane.", "[Prepare... |
26,382 | Manual Cell Counting | null | dx.doi.org/10.17504/protocols.io.5zng75e | null | Aparna Kumar, Dana AL-Azzeh, Schuele Lab | TITLE: Manual Cell Counting
AUTHORS: Aparna Kumar, Dana AL-Azzeh, Schuele Lab
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Manual counting of cells using a Hemocytometer.</div></div>
[STEPS]
?. [Preparation for Counting Cells]
Remove of the solution containing the single cells using a p20 micr... | ["[Preparation for Counting Cells]\nRemove of the solution containing the single cells using a p20 micropipette and add to a 1.5 ml microcentrifuge tube or onto a piece of parafilm.\n10 µl", "[Preparation for Counting Cells]\nCentrifuge the Trypan Blue and remove from the top of the Trypan Blue as not to get any debr... |
null | null | null | dx.doi.org/10.17504/protocols.io.hdtb26n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a collection of methods and protocols from the manuscript: <a href="http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.2000862" target="_blank">Gonçalves et al. Commensal bacteria and essential amino acids control food choice behavior and reproductio... | [] |
94,401 | Light-dark box test for mice | 1 | dx.doi.org/10.17504/protocols.io.j8nlkojxdv5r/v1 | https://www.protocols.io/view/light-dark-box-test-for-mice-c8e9zth6 | Csilla Novák, Andrés Mauricio Jaramillo Flautero, Matthias Prigge | TITLE: Light-dark box test for mice
AUTHORS: Csilla Novák, Andrés Mauricio Jaramillo Flautero, Matthias Prigge
[DESCRIPTION]
This protocol describes the setup and execution of the light-dark box test for mice, a behavioral experiment used to assess anxiety-related responses. The protocol involves preparing a light-dar... | ["[Pylon Viewer settings] Connect the camera to the computer and to a power source.", "[Pylon Viewer settings] Open the Pylon Viewer and select the camera.", "[Pylon Viewer settings] At AOI controls, crop the image, so that you only see the setup. You can only change the width and the height of the image when there is ... |
74,822 | FarmBot Use Instructions | 5 | null | https://www.protocols.io/view/farmbot-use-instructions-cmbeu2je | Mia Ruppel, Sven K Nelson, Grace Sidberry, Madison Mitchell, Daniel Kick, Shawn K. Thomas, Katherine E. Guill, Melvin J. Oliver, Jacob D. Washburn | TITLE: FarmBot Use Instructions
AUTHORS: Mia Ruppel, Sven K Nelson, Grace Sidberry, Madison Mitchell, Daniel Kick, Shawn K. Thomas, Katherine E. Guill, Melvin J. Oliver, Jacob D. Washburn
[DESCRIPTION]
This protocol contains instructions for setting up and running the RootBot system.
[STEPS]
SECTION: Software Set Up
... | ["[Software Set Up] Installation: Go to https://software.farm.bot/v12/FarmBot-OS/farmbot-os.html#installation for instructions on how to install FarmBot OS", "[Software Set Up] Configuration: Go to https://software.farm.bot/v12/FarmBot-OS/farmbot-os/configurator.html for instructions on how to configure FarmBot for spe... |
64,572 | NDP52 and OPTN S177D S473D: expression and purification | 4 | dx.doi.org/10.17504/protocols.io.bp2l61znrvqe/v1 | https://www.protocols.io/view/ndp52-and-optn-s177d-s473d-expression-and-purifica-cba4sigw | Justyna Sawa-Makarska | TITLE: NDP52 and OPTN S177D S473D: expression and purification
AUTHORS: Justyna Sawa-Makarska
[DESCRIPTION]
This protocol describes how to express and purify human NDP52 and OPTN S177D S473D. The same procedure can be applied to purify wild type OPTN.
[STEPS]
SECTION: Expression
2. The proteins were expressed in E. ... | ["[Expression] The proteins were expressed in E. coli Rosetta pLySS cells. Grow the cells in 4 L of LB medium at 37°C until an OD600 nm of 0.4. Next, bring the temperature down to 18°C and grow further to an OD600 nm of 0.8. Induce protein expression with 100 μM IPTG and grow for further 16 h at 18°C.", "[Expression] P... |
27,227 | SLIC Protocol | null | dx.doi.org/10.17504/protocols.io.6t3heqn | null | N.J. Hillson | TITLE: SLIC Protocol
AUTHORS: N.J. Hillson
[STEPS]
?. Measure the DNA concentration (ng/ml) of each assembly piece.
?. Add 1 mg of each assembly piece (including the linearized vector backbone) to a separate 20 ml chew-back reaction mixture as follows:1 mg assembly piece+ 0.1 ml 5 U/ml T4 DNA polymerase+ 2 ml 10X Prom... | ["Measure the DNA concentration (ng/ml) of each assembly piece.", "Add 1 mg of each assembly piece (including the linearized vector backbone) to a separate 20 ml chew-back reaction mixture as follows:1 mg assembly piece+ 0.1 ml 5 U/ml T4 DNA polymerase+ 2 ml 10X Promega ligase buffer+ ________ dH2O to20 ml", "Incubate ... |
83,870 | TIMSTOF Compass 4.0 Methods - LCMS and MALDI - OrsburnLab 2023 | 1 | dx.doi.org/10.17504/protocols.io.x54v9p8zzg3e/v1 | https://www.protocols.click/view/timstof-compass-4-0-methods-lcms-and-maldi-orsburn-cv56w89e | Benjamin Orsburn | TITLE: TIMSTOF Compass 4.0 Methods - LCMS and MALDI - OrsburnLab 2023
AUTHORS: Benjamin Orsburn
[DESCRIPTION]
The methods included here are in support of research submissions from the www.OrsburnLab.org group in 2023 from a TIMSTOF Flex system with EasyNLC1200, EvoSep One and MALDI (1) front end sources.
Methods inc... | [] |
55,738 | Inorganic polyphosphate from microalgae: A DAPI-based estimation in microtiter plate | 1 | null | https://www.protocols.io/view/inorganic-polyphosphate-from-microalgae-a-dapi-bas-b2n2qdge | Yingyu Hu, Zoe V Finkel | TITLE: Inorganic polyphosphate from microalgae: A DAPI-based estimation in microtiter plate
AUTHORS: Yingyu Hu, Zoe V Finkel
[DESCRIPTION]
The DAPI-based fluorometric estimation of polyphosphate from microalgae has been widely used in field samples since the method was published by Martin P. et al., where fluoresce... | ["[Preparation of reagents] Tris buffer 20 mM pH 7.0", "[Preparation of reagents] In a 1 L volumetric flask, top 20 mL 1 M pH 7.0 Tris buffer to 1 L with MilliQ", "[Preparation of reagents] Filter through Rapid-flow and store at Room temperature", "[Preparation of reagents] PolyP primary standard stock", "[Preparation... |
69,846 | Quantitative analyses of the ultrastructural features of dopaminergic axon terminals. Protocol #2: Acquisition and analysis of electron microscopy images | 1 | dx.doi.org/10.17504/protocols.io.x54v9d8ppg3e/v1 | https://www.protocols.io/view/quantitative-analyses-of-the-ultrastructural-featu-cgfwttpe | Natalie M Doig, Max Larsson, Peter J Magill | TITLE: Quantitative analyses of the ultrastructural features of dopaminergic axon terminals. Protocol #2: Acquisition and analysis of electron microscopy images
AUTHORS: Natalie M Doig, Max Larsson, Peter J Magill
[DESCRIPTION]
The release of dopamine from axons is critical for normative brain function and behaviour. ... | ["[Examination of Sections in the Electron Microscope] Sampling: One of the challenges for EM is to design a sampling strategy to ensure your data sample is representative, reflecting the true distribution/occurrence of a particular structure, and robust enough to detect effects of e.g., experimental manipulations.\n\n... |
50,141 | Watering Arabadopsis in the Greenhouse or Growth Chamber | 1 | null | https://www.protocols.io/view/watering-arabadopsis-in-the-greenhouse-or-growth-c-bu75nzq6 | Lynn Doran | TITLE: Watering Arabadopsis in the Greenhouse or Growth Chamber
AUTHORS: Lynn Doran
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Watering Arabadopsis in the greenhouse or growth chamber.</div></div>
[STEPS]
?. Place pots in a tray.
?. Fill tray with about one inch of water.
?. Wait 15 minutes. ... | ["Place pots in a tray.", "Fill tray with about one inch of water.", "Wait 15 minutes. If soil has absorbed all the water in the tray, add another inch of water.", "Repeat steps 2 and 3 until after 15 minutes there is still standing water in the tray. Dump out any remaining water.", "Water approximately every three d... |
70,858 | Single-cell RNA-seq for mDA neurons | 1 | dx.doi.org/10.17504/protocols.io.6qpvr4dxpgmk/v1 | https://www.protocols.io/view/single-cell-rna-seq-for-mda-neurons-chfit3ke | gurvir.virdi | TITLE: Single-cell RNA-seq for mDA neurons
AUTHORS: gurvir.virdi
[DESCRIPTION]
Harvesting and performing single-cell RNA-seq on hiPSC-derived mDA neurons.
[STEPS]
SECTION: Harvesting cells for RNA-seq
1. At the desired age of mDA neurons, they are harvested for single-cell RNA-seq:
SECTION: Harvesting cells for RNA-s... | ["[Harvesting cells for RNA-seq] At the desired age of mDA neurons, they are harvested for single-cell RNA-seq:", "[Harvesting cells for RNA-seq] mDA neurons are washed 1x in PBS.", "[Harvesting cells for RNA-seq] They are incubated with Accutase (Thermo Fisher Scientific) for 5 min at 37 °C .", "[Harvesting cells for... |
72,451 | Implant Surgery: Chronic recoverable Neuropixels in mice | 1 | null | https://www.protocols.io/view/implant-surgery-chronic-recoverable-neuropixels-in-cizbuf2n | Emily A Aery Jones | TITLE: Implant Surgery: Chronic recoverable Neuropixels in mice
AUTHORS: Emily A Aery Jones
[DESCRIPTION]
This protocol collection explains how to build a low-cost, lightweight system to implant Neuropixels 1.0 probes into mice, record during freely moving behavior, then recover the probe for future use. This protocol... | ["[Prepare surgical tools and field] Sterilize tips of metal instruments, ground screw, and headbar in autoclave 25 min or hot bead sterilizer 5 s . Disinfect cotton swabs, toothpick, and a weigh boat under UV light 30 min .", "[Prepare surgical tools and field] Disinfect surgical field with 10% bleach. Lay absorbent ... |
null | null | null | dx.doi.org/10.17504/protocols.io.eckbauw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<strong>Viral Bioinformatic Resource Centre</strong>
<ul>
<li><strong>Provide databases of viral genomic information.</strong>
<ul>
<li>Please check the <strong><em>Organisms</em></strong> menu to see which viruses we support: we’re now focusing on large DNA viruses</li>
<li>The... | [] |
101,269 | Electrochemical analysis of laser-inscribed graphene electrodes using cyclic voltammetry (ferri/ferrocyanide redox couple) | 6 | dx.doi.org/10.17504/protocols.io.4r3l27q7jg1y/v2 | https://www.protocols.io/view/electrochemical-analysis-of-laser-inscribed-graphe-de5v3g66 | Yifan Tang, Lisseth Casso Hartmann, David Bahamon Pinzon, Geisianny AM Moreira, Diana Vanegas, Eric S McLamore | TITLE: Electrochemical analysis of laser-inscribed graphene electrodes using cyclic voltammetry (ferri/ferrocyanide redox couple)
AUTHORS: Yifan Tang, Lisseth Casso Hartmann, David Bahamon Pinzon, Geisianny AM Moreira, Diana Vanegas, Eric S McLamore
[DESCRIPTION]
This protocol describes use of the cyclic voltammetry (... | ["[Preparation] Prepare LIG electrodes \nUse protocol for LIG fabrication to prepare a batch of electrodes (link here).\nFor quality control process to prepare large batches of LIG electrodes, contact the corresponding author (emclamo@clemson.edu). \n \n\nExpected results from step 1:\nFig 1 shows photographs of the in... |
null | null | null | dx.doi.org/10.17504/protocols.io.qj2duqe | 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 ... | [] |
82,326 | Protein extraction and Western blotting | 3 | dx.doi.org/10.17504/protocols.io.rm7vzb44xvx1/v1 | https://www.protocols.io/view/protein-extraction-and-western-blotting-cumwwu7e | Shiyi Wang | TITLE: Protein extraction and Western blotting
AUTHORS: Shiyi Wang
[DESCRIPTION]
Protein extraction and Western blotting
[STEPS] | [] |
28,403 | MojoSort™ Human NK Cell Isolation Kit Protocol | null | dx.doi.org/10.17504/protocols.io.7ythpwn | null | Sam Li | TITLE: MojoSort™ Human NK Cell Isolation Kit Protocol
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Product description and procedure summary:</span></div><div class = "text-block">Target cells are depleted by incubating your sample with the biotin... | ["Prepare cells from your tissue of interest or blood without lysing erythrocytes. Kits for human samples have been optimized for PBMCs, please prepare the cells using a suitable method.", "In the final wash of your sample preparation, resuspend the cells in MojoSort™ Buffer by adding up to 4 mL in a 5 mL (12 x 75 mm) ... |
92,694 | Protocol for assembly of a serine integrase-based platform for functional validation of genetic switch controllers in eukaryotic cells-Human | 1 | dx.doi.org/10.17504/protocols.io.x54v9p5qpg3e/v1 | https://www.protocols.io/view/protocol-for-assembly-of-a-serine-integrase-based-c6rwzd7e | Marco A. de Oliveira, Lilian H. Florentino, Thais T. Sales, Rayane N. Lima, Luciana R. C. Barros, Cintia G. Limia, Mariana S. M. Almeida, Maria L. Robledo, Leila M. G. Barros, Eduardo O. Melo, Daniela M. Bittencourt, Stevens K. Rehen, Martín H. Bonamino, Elibio Rech | TITLE: Protocol for assembly of a serine integrase-based platform for functional validation of genetic switch controllers in eukaryotic cells-Human
AUTHORS: Marco A. de Oliveira, Lilian H. Florentino, Thais T. Sales, Rayane N. Lima, Luciana R. C. Barros, Cintia G. Limia, Mariana S. M. Almeida, Maria L. Robledo, Leila M... | ["[PBMC isolation ● Timing 1.5 h] After performing the sterilization procedure in the safety cabinet, couple the syringe containing 20 mL PBS to the leukocyte filter, cut the filter tube extremity, and put it into a 50 mL tube.", "[PBMC isolation ● Timing 1.5 h] Press the syringe to wash the leukocyte filter. Repeat th... |
81,632 | TS Spurrs - FFPE block - 1mm3 cube cut out - tissue (TM - 013) | 4 | dx.doi.org/10.17504/protocols.io.kxygx968wg8j/v1 | https://www.protocols.io/view/ts-spurrs-ffpe-block-1mm3-cube-cut-out-tissue-tm-0-ctx8wprw | sandra.crameri | TITLE: TS Spurrs - FFPE block - 1mm3 cube cut out - tissue (TM - 013)
AUTHORS: sandra.crameri
[DESCRIPTION]
Processing unstained parraffin block that has had a 1mm3 piece disected out of the face to Spurr's resin block for EM.
[GUIDELINES]
All step times are the minimum time required. Longer steps are acceptable.
[S... | ["[HEADER] SAN:\n\n\nSPEC No:\n\n\nOPERATOR & STEPS:\n\n\nOPERATOR & STEPS:", "[Dewax FFPE sections] or X3B 5 min at 60 °C", "[Dewax FFPE sections] or X3B 5 min at Room temperature", "or X3B 5 min at Room temperature", "[Rehydrate] 100 % volume 10 min", "95 % volume 10 min", "70 % volume 10 min", "[Conventional ... |
20,110 | U Mass - Cytokines Panel I - multiplex | null | dx.doi.org/10.17504/protocols.io.xvnfn5e | null | Jason Kim | TITLE: U Mass - Cytokines Panel I - multiplex
AUTHORS: Jason Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">
This experiment provides the quantification of multiple cytokines and chemokines using multiplexed-Lumine... | ["Add 200 μL of Wash Buffer into each well of the plate. Seal and mix on a plate shaker for 10 minutes at room temperature (20-25°C).", "Decant Wash Buffer and remove the residual amount from all wells by inverting the plate and tapping it smartly onto absorbent towels several times.", "Add 25 μL of each Standard or Co... |
null | null | null | dx.doi.org/10.17504/protocols.io.ehkbb4w | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
53,238 | Image Analysis to Quantify Coral Bleaching Using Greyscale Model | 1 | dx.doi.org/10.17504/protocols.io.bx8wprxe | https://www.protocols.io/view/image-analysis-to-quantify-coral-bleaching-using-g-bx8wprxe | Rowan Mclachlan, Andrea Grottoli | TITLE: Image Analysis to Quantify Coral Bleaching Using Greyscale Model
AUTHORS: Rowan Mclachlan, Andrea Grottoli
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol outlines a method of quantitatively measuring the degree of bleaching of a coral colony non-destructively in the fiel... | ["[Photographing live coral fragments]\nFor detailed instructions on how to photograph coral fragments, please refer to Section 1 of our published protocol: Geometric Method for Estimating Coral Surface Area Using Image Analysis (dx.doi.org/10.17504/protocols.io.bpxcmpiw)", "[Photographing live coral fragments]\nAdditi... |
null | null | null | dx.doi.org/10.17504/protocols.io.emcbc2w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div class="view-protocol-title vpt-block">
<p class="vpt-desc editable-content">For use in <a href="https://www.protocols.io/view/Generating-viral-metagenomes-from-the-coral-holobi-ejgbcjw" target="_blank">Generating viral metagenomes from the coral holobiont</a>.</p>
</div>
[... | [] |
58,771 | Chromosomal DNA extraction from Gram-positive bacteria, V2 | 4 | dx.doi.org/10.17504/protocols.io.5jyl85119l2w/v2 | https://www.protocols.io/view/chromosomal-dna-extraction-from-gram-positive-bact-b5mtq46n | Anders Kiledal, Julia A Maresca | TITLE: Chromosomal DNA extraction from Gram-positive bacteria, V2
AUTHORS: Anders Kiledal, Julia A Maresca
[DESCRIPTION]
Extraction of high-molecular-weight DNA from Gram-positive bacterial species, with optional steps for removing surfactants. This DNA is suitable for sequencing and the protocol can be scaled up at l... | ["[Grow culture] Inoculate 10 mL rich medium from a fresh overnight culture, and incubate at appropriate temperature on shaker. At OD600 of ~0.8-1.0, harvest cells by centrifugation (10 min., 5000 rpm).", "[Cell lysis] Resuspend cell pellet in 2 mL TEN (10 mM Tris-HCl, pH 8.0, 10 mM EDTA, 150 mM NaCl).", "[Cell lysis] ... |
null | null | null | dx.doi.org/10.17504/protocols.io.fjqbkmw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?. | [] |
35,382 | Sars-CoV2 RNA purification with homemade SPRI beads for RT-qPCR test | null | dx.doi.org/10.17504/protocols.io.beswjefe | https://www.protocols.io/view/sars-cov2-rna-purification-with-homemade-spri-bead-beswjefe | Ayelet Rahat, Miriam Adam, Uri Shabi, Moshe Cohen, Daniel Kitsberg, Malka Nissim-Rafinia, Hagit Turm, Agnes Klochendler, Daphna Joseph-Strauss, Israa Sharkia, Matan Lotem, Gavriel Fialkoff, Ronen Sadeh, Alon Chappleboim, Yuval Dor, Nir Friedman, Dana Wolf, Naomi Habib | TITLE: Sars-CoV2 RNA purification with homemade SPRI beads for RT-qPCR test
AUTHORS: Ayelet Rahat, Miriam Adam, Uri Shabi, Moshe Cohen, Daniel Kitsberg, Malka Nissim-Rafinia, Hagit Turm, Agnes Klochendler, Daphna Joseph-Strauss, Israa Sharkia, Matan Lotem, Gavriel Fialkoff, Ronen Sadeh, Alon Chappleboim, Yuval Dor, Nir... | ["[SPRI viral RNA Cleanup]\nSample dilutionStart with clinical samples collceted in virtal transport media and inactivated by dilution in lysis buffer. Add equal volume lysis/binding buffer to samples, e.g. for 28 µl, add 28 µl lysis/binding buffer\nThe maximal volume in the process is x3.6 the sample volume, so use th... |
28,683 | Fatty acid extraction and derivatisation | null | dx.doi.org/10.17504/protocols.io.79jhr4n | null | iGEM Dusseldorf | TITLE: Fatty acid extraction and derivatisation
AUTHORS: iGEM Dusseldorf
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol enables direct, one-pot fatty acid extraction and derivatisation of plant and bacterial samples for preparation for GC-MS analysis.</div><div class = "text-block"><s... | ["[Start]\nsamples with 4 oD-units ( e.g.: oD = 1, you will need 4 ml culture )you should make 4 or more replicates", "[Start]\ncentrifuge in a clean glass tube @ 4500 x g", "[Start]\ndiscard supernatant", "[Start]\nFreeze @ -80 ˚C until further use", "[Extraction solution]\n200 µl C17 internal standard (1 mg/ml hexane... |
32,122 | Longitudinal Analysis of C elegans (L4, YA D2 & YA D5) | null | dx.doi.org/10.17504/protocols.io.bbk2ikye | null | Priota Islam | TITLE: Longitudinal Analysis of C elegans (L4, YA D2 & YA D5)
AUTHORS: Priota Islam
[STEPS]
?. Bleach synchronize the worms following the protocol Bleach synchronisation of C. elegans
?. Refeed the arrested L1s 2 days prior to tracking (Refeed per strain on 3 plates)
?. Prepare the imaging plates by seeding with 50ul ... | ["Bleach synchronize the worms following the protocol Bleach synchronisation of C. elegans", "Refeed the arrested L1s 2 days prior to tracking (Refeed per strain on 3 plates)", "Prepare the imaging plates by seeding with 50ul OP50 and leave to dry on bench top/hood", "Image the strains at the following stages: L4, Day ... |
52,367 | High Throughput Semi-Automated SARS-CoV-2 Library Preparation Protocol for Ion Torrent Sequencing using Opentrons, New England Biolabs Kit, and ARTIC Primers | 4 | dx.doi.org/10.17504/protocols.io.bxdppi5n | https://www.protocols.io/view/high-throughput-semi-automated-sars-cov-2-library-bxdppi5n | Elias Dahdouh, Fernando Lázaro Perona, María Rodríguez Tejedor, Rubén Cáceres Sánchez, Iván Bloise Sánchez, Jesús Mingorance | TITLE: High Throughput Semi-Automated SARS-CoV-2 Library Preparation Protocol for Ion Torrent Sequencing using Opentrons, New England Biolabs Kit, and ARTIC Primers
AUTHORS: Elias Dahdouh, Fernando Lázaro Perona, María Rodríguez Tejedor, Rubén Cáceres Sánchez, Iván Bloise Sánchez, Jesús Mingorance
[DESCRIPTION]
<div c... | ["[Preparation of cDNA using VILO from Thermo Fisher]\nFor each sample dispense 7µL of the extracted nucleic acids to the respective wells in the 96-well plate (Plate 1)NOTE: All the calculations from here until the end of the protocol are done for 96 samples + 4 samples to account for pipetting errors", "[Preparation ... |
null | null | null | dx.doi.org/10.17504/protocols.io.e7qbhmw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
100,992 | Delivery via SMDNAS02 | 0 | dx.doi.org/10.17504/protocols.io.261ge5d97g47/v2 | https://www.protocols.io/view/delivery-via-smdnas02-deu83ezw | Cameron Baker | TITLE: Delivery via SMDNAS02
AUTHORS: Cameron Baker
[DESCRIPTION]
Instructions for delivery of investigator data via the SMDNAS02 drive.
[STEPS]
SECTION: Introduction
1. On July 1st 2024, URMC Genomics Research Center will be moving away from web delivery links and to direct delivery via SMDNAS (specifically SMDNAS02... | ["[Introduction] On July 1st 2024, URMC Genomics Research Center will be moving away from web delivery links and to direct delivery via SMDNAS (specifically SMDNAS02) for internal university users.\n\nThis change in delivery method is being introduced to streamline delivery of data away from links that expire, links th... |
86,457 | Cylinder Test | 1 | dx.doi.org/10.17504/protocols.io.81wgbxxpnlpk/v1 | https://www.protocols.io/view/cylinder-test-cynzxvf6 | Sabina Marciano, Roberta Marongiu | TITLE: Cylinder Test
AUTHORS: Sabina Marciano, Roberta Marongiu
[DESCRIPTION]
The Cylinder test is used to evaluate locomotor asymmetry in rodent models
[STEPS]
1. Place the mouse in the transparent cylinder for 5 min
2. Place an angled mirror at the back of the cylinder to allow observation of behavior from every... | ["Place the mouse in the transparent cylinder for 5 min", "Place an angled mirror at the back of the cylinder to allow observation of behavior from every angle", "Record mouse behavior for 5 min \n\nMain outcome measures: Left/Right contacts, Number of rears, L/R hind-paw contacts, Total time rearing, Time on the groun... |
62,602 | Prima Kapseln Erfahrungen – Is It Really Work? How Long Does Prima Kapseln Erfahrungen Work? | 3 | dx.doi.org/10.17504/protocols.io.rm7vzyo95lx1/v1 | https://www.protocols.io/view/prima-kapseln-erfahrungen-is-it-really-work-how-lo-b9dir24e | health | TITLE: Prima Kapseln Erfahrungen – Is It Really Work? How Long Does Prima Kapseln Erfahrungen Work?
AUTHORS: health
[DESCRIPTION]
Prima Kapseln Erfahrungen
[STEPS] | [] |
56,317 | Chocolate Chip Cookies | 1 | dx.doi.org/10.17504/protocols.io.b285qhy6 | https://www.protocols.io/view/chocolate-chip-cookies-b285qhy6 | freddie.sherlock | TITLE: Chocolate Chip Cookies
AUTHORS: freddie.sherlock
[DESCRIPTION]
This protocol outlines an optimised recipe for chocolate chip cookies, the recipe will make between 30 - 40 cookies.
[BEFORE_START]
Preheat fan oven to 180oC
[GUIDELINES]
Prepare ingredients before starting.
[STEPS]
SECTION: Dry Ingredient Pre... | ["[Dry Ingredient Preparation] In a bowl, mix the following amounts of dry ingredients to a large bowl and use a whisk to create a homogenous mix.\n240 g\n240 g \n10 g \n10 g \n265 g \n225 g", "[Wet Ingredient Preparation] Using a knife, slice 280 g into even chunks, transfer to a saucepan on low or medium heat and hea... |
null | null | null | dx.doi.org/10.17504/protocols.io.kg3ctyn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol discribes how to make growth medium for Synechococcus sp. PCC 7002, including the stock solutions needed. </p>
[STEPS]
?.
?.
?.
?.
?.
?. | [] |
54,855 | Dead-end Ultrafiltration Water Collection | 1 | dx.doi.org/10.17504/protocols.io.q26g78qy9lwz/v1 | https://www.protocols.io/view/dead-end-ultrafiltration-water-collection-bztfp6jn | Andrea Ottesen, Brandon Kocurek | TITLE: Dead-end Ultrafiltration Water Collection
AUTHORS: Andrea Ottesen, Brandon Kocurek
[DESCRIPTION]
Dead end ultrafiltration is the most basic form of filtration. In this case a Rexeed #25S Filter is used with a peristaltic pump to pull volumes from 10L to 100 L through nanometer sized pores ( approximately 30... | ["[Prepare pump, tubing and filter] Using scissors, cut a piece of tubing (L/S 36) long enough to cover the distance from the water source you will be sampling, through the peristaltic pump, to the ultrafilter.", "[Prepare pump, tubing and filter] Feed the influent tubing through the peristaltic pump head and close the... |
70,472 | Synthesis of double-strand cDNA (ds-cDNA) from viral dsRNA by using Random primers | 4 | dx.doi.org/10.17504/protocols.io.bp2l69nddlqe/v1 | https://www.protocols.io/view/synthesis-of-double-strand-cdna-ds-cdna-from-viral-cg3gtyjw | Vahid Jalali Javaran | TITLE: Synthesis of double-strand cDNA (ds-cDNA) from viral dsRNA by using Random primers
AUTHORS: Vahid Jalali Javaran
[DESCRIPTION]
Double-stranded cDNA synthesis from viral dsRNAs:
For dsRNA sequencing by nanopore sequencing, this protocol was used. Before treating samples with RNase T1, you should measure the tota... | ["[Synthesis of the first strand of cDNA] Mix well below components by pipetting and centrifuge or spin briefly. \nTreated dsRNA5 µlRandom primers (60 µM)2µldNTP (10 mM)1 µlH2O 6 µlTotal14 µl", "[RNase T1 and DNase I digestion] Add 10X DNase Buffer with MgCl2 (final concentration should be 1X). \nAdd 50 units RNase T1 ... |
38,780 | One-pot native barcoding of amplicons v3 (LoCost) | 1 | null | https://www.protocols.io/view/one-pot-native-barcoding-of-amplicons-v3-locost-bh44j8yw | Josh Quick | TITLE: One-pot native barcoding of amplicons v3 (LoCost)
AUTHORS: Josh Quick
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This one-pot native barcoding protocol was developed in conjunction with Oxford Nanopore Technologies, New England Biolabs and BCCDC.</div></div>
[STEPS]
?. In a new PCR stri... | ["In a new PCR strip-tube/plate set up the following reaction for each sample: AB1ComponentVolume2PCR dilution from previous step3.3 µL3Ultra II End Prep Reaction Buffer1.2 µL4Ultra II End Prep Enzyme Mix0.5 µL5Nuclease-free water5 µL6Total10 µL\nAB1ComponentVolume2PCR dilution from previous step3.3 µL3Ultra II End Pr... |
90,011 | OT-2 Counter-Selection | 5 | dx.doi.org/10.17504/protocols.io.5qpvor5xdv4o/v2 | https://www.protocols.io/view/ot-2-counter-selection-c353yq8n | Ana Mariya Anhel, Lorea Alejaldre, Ángel Goñi-Moreno | TITLE: OT-2 Counter-Selection
AUTHORS: Ana Mariya Anhel, Lorea Alejaldre, Ángel Goñi-Moreno
[DESCRIPTION]
This protocol is meant to select the samples from one or more source plate(s) that has 2 different selecting conditions: one condition gives higher values and the other lower values. From these selected samples th... | ["[Files Preparation] Preparing Customized Template\n\nPreparing the template (a .xlsx) with the specific variables for each experiment.\n\nHere we attach a template of the variable file with several sheets and a PDF file explaining each variable:\n\nGeneralVariables: variables related mainly to the labware that is goi... |
null | null | null | dx.doi.org/10.17504/protocols.io.u79ezr6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
SECTION: Set up of environment required for PyMC3, Pyro & Turing.jl (MAC OS X)
?.
SECTION: Running PyMC3 & Pyro
?.
SECTION: Running Turing.jl
?.
SECTION: Running Figaro
?. | ["[Set up of environment required for PyMC3, Pyro & Turing.jl (MAC OS X)] {\"blocks\":[{\"key\":\"cgk89\",\"text\":\"\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"50l\",\"text\":\"Navigate to the folder in which you would like to conduct the experimentation.\"... |
95,309 | Melatonin ELISA | 4 | dx.doi.org/10.17504/protocols.io.81wgbx35ylpk/v1 | https://www.protocols.io/view/melatonin-elisa-c9bmz2k6 | daniel.dautan daniel, Per Svenningsson | TITLE: Melatonin ELISA
AUTHORS: daniel.dautan daniel, Per Svenningsson
[DESCRIPTION]
Measurement of mouse plasma melatonin using ELISA Kit (Enzo Life Sciences, ENZ-KIT150-0001, NY, US) according to manufacturer instructions.
[STEPS]
SECTION: Melatonin Extraction
1. Mix 200 µL of plasma with an equal volume of cold Et... | ["[Melatonin Extraction] Mix 200 µL of plasma with an equal volume of cold Ethyl Acetate. Vortex gently.", "[Melatonin Extraction] Allow layers to separate on ice for 3 min. Vortex again and incubated on ice for 2 min.", "[Melatonin Extraction] Spin samples at 1000g for 10 min at 4 °C. Transfer the organic layer to a n... |
null | null | null | dx.doi.org/10.17504/protocols.io.jm2ck8e | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
99,894 | Scoping Review Protocol: Changes in Skin Microbiome Post-Dermatological Interventions | 0 | dx.doi.org/10.17504/protocols.io.261ge53owg47/v2 | https://www.protocols.io/view/scoping-review-protocol-changes-in-skin-microbiome-ddsw26fe | Eron J. Powell, Jeremy R. Ellis | TITLE: Scoping Review Protocol: Changes in Skin Microbiome Post-Dermatological Interventions
AUTHORS: Eron J. Powell, Jeremy R. Ellis
[DESCRIPTION]
This scoping review protocol aims to systematically map the existing literature on the effects of common dermatological procedures on the skin microbiome. Adhering to PRIS... | ["[Introduction] The skin microbiome is an ecosystem of microorganisms residing on the human skin which play a crucial role in maintaining skin health and protecting against pathogens(1). This community includes bacteria, fungi, viruses, and mites, which interact with each other and the host forming a dynamic equilibri... |
63,388 | Condor CBD Gummies THE MOST POPULAR CBD GUMMY BEARS IN UNITED STATES READ HERE REVIEWS, BENEFITS, SIDE EFFECT, INGREDIENTS, DOES IT REALLY WORK? IS IT SAFE? BUY NOW GET INSTANTLY | 1 | dx.doi.org/10.17504/protocols.io.5qpvob2nbl4o/v1 | https://www.protocols.io/view/condor-cbd-gummies-the-most-popular-cbd-gummy-bear-b954r88w | Condor CBD Gummies | TITLE: Condor CBD Gummies THE MOST POPULAR CBD GUMMY BEARS IN UNITED STATES READ HERE REVIEWS, BENEFITS, SIDE EFFECT, INGREDIENTS, DOES IT REALLY WORK? IS IT SAFE? BUY NOW GET INSTANTLY
AUTHORS: Condor CBD Gummies
[DESCRIPTION]
Condor CBD Gummies - You plan to recuperate just as truly feel over and above anyone's ex... | ["Condor CBD Gummies\n\n \n\n\n➢Product Name —Condor CBD Gummies Reviews\n➢Main Benefits—Improve Metabolism & Help in Pain Relief\n➢Composition —NaturalOrganic Compound\n➢Side-Effects—NA\n➢Rating :—⭐⭐⭐⭐⭐\n➢Availability —Online\n➢Price (for Sale) Buy Now Here —Click Here\nCondor CBD Gummies - You plan to recuperate just... |
37,883 | Primer Preparation | 4 | dx.doi.org/10.17504/protocols.io.n92ldy1e7l5b/v1 | https://www.protocols.io/view/primer-preparation-bg83jzyn | Dakota Betz | TITLE: Primer Preparation
AUTHORS: Dakota Betz
[DESCRIPTION]
Dilute primer stocks for use in your PCR reactions.
[BEFORE_START]
Use 75% Ethanol to clean the lab bench, tube racks, and pipettes before taking out any reagents and starting the protocol.
[STEPS]
SECTION: Clean lab area first!
1. Check that you have clea... | ["[Clean lab area first!] Check that you have cleaned the lab bench, tube racks, and pipettes with 75% Ethanol before taking out any reagents and starting this protocol.", "[Primer Preparation] Primer stocks are located in the -80 freezer (right side of shelf 2). Obtain only the primer stocks you need right now from th... |
30,120 | InDrop Library Preparation - TruDrop (modified V2) Detailed | 1 | dx.doi.org/10.17504/protocols.io.9ngh5bw | https://www.protocols.io/view/indrop-library-preparation-trudrop-modified-v2-det-9ngh5bw | Austin Southard-Smith, Alan Simmons, Ken Lau | TITLE: InDrop Library Preparation - TruDrop (modified V2) Detailed
AUTHORS: Austin Southard-Smith, Alan Simmons, Ken Lau
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol details the library preparation process of dual-indexed, NovaSeq-compatible, single-cell RNA-Seq libraries from the i... | ["[Oligo Removal]\nIf necessary, thaw samples on ice.", "[Oligo Removal]\nWhile samples are thawing, visually estimate the volume of each sample. Record this value", "[Oligo Removal]\nFor every 70 uL of post-RT material prepare 100 uL of Digest mix as follows:Component:Ultrapure RNase/DNase free H2O ... |
15,476 | Manual microdissection of schistosomes for proteomic and transcriptomic characterisation of the worm alimentary tract | null | dx.doi.org/10.17504/protocols.io.tcueiww | null | Leandro Neves, R. Alan Wilson, William de Castro Borges | TITLE: Manual microdissection of schistosomes for proteomic and transcriptomic characterisation of the worm alimentary tract
AUTHORS: Leandro Neves, R. Alan Wilson, William de Castro Borges
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Schistosomes are intravenous parasites with ability to s... | [] |
70,972 | Core Receiving and Splitting | 6 | dx.doi.org/10.17504/protocols.io.bp2l69b91lqe/v1 | https://www.protocols.io/view/core-receiving-and-splitting-chi4t4gw | maggie.bowman | TITLE: Core Receiving and Splitting
AUTHORS: maggie.bowman
[DESCRIPTION]
The method covers how soil cores were received and depth stratified.
[STEPS]
1. When cores are received first check that there are cores labeled Core A, Core B, and Cores C1-4 included in the sample cooler.
2. Place Core A and C4 back into th... | ["When cores are received first check that there are cores labeled Core A, Core B, and Cores C1-4 included in the sample cooler.", "Place Core A and C4 back into the site bag and store vertically in the4 °C refrigerator in 1446.", "Spray down the table with a 70% EtOH solution and wipe down using kimwipes.", "Wearing g... |
27,497 | Internal Metabolite Extraction for Targeted and Untargeted Metabolomics Using Ultrahigh Resolution Mass Spectrometry | null | dx.doi.org/10.17504/protocols.io.64hhgt6 | null | Gretchen Swarr, Winifred Johnson, Krista Longnecker | TITLE: Internal Metabolite Extraction for Targeted and Untargeted Metabolomics Using Ultrahigh Resolution Mass Spectrometry
AUTHORS: Gretchen Swarr, Winifred Johnson, Krista Longnecker
[STEPS]
?. [Extraction of metabolites from filter samples]
Filters should be stored at -80 ºC until ready for extracting.
?. [Extracti... | ["[Extraction of metabolites from filter samples]\nFilters should be stored at -80 ºC until ready for extracting.", "[Extraction of metabolites from filter samples]\nUse combusted aluminum foil surface for all weighing and cutting. Rinse tweezers and scissors (especially inside edges) with methanol prior to beginning. ... |
93,171 | Imaging single AF647 molecules immobilised in PVA on a cover glass | 4 | dx.doi.org/10.17504/protocols.io.eq2lyj5bplx9/v1 | https://www.protocols.io/view/imaging-single-af647-molecules-immobilised-in-pva-c68tzhwn | Ezra Bruggeman | TITLE: Imaging single AF647 molecules immobilised in PVA on a cover glass
AUTHORS: Ezra Bruggeman
[DESCRIPTION]
This is a protocol for the preparation of a microscopy sample of single Alexa Fluor 647 molecules immobilised in PVA polymer on a cover glass. This protocol was used to generate the data shown in Figure 2i a... | ["[Protocol] Argon plasma clean cover glass (VWR collection, 631-0124) for 30 min in a plasma cleaner (Expanded Plasma Cleaner, PDC-002, Harrick Plasma).", "[Protocol] Prepare a 1% poly(vinyl) alcohol (PVA) solution:", "[Protocol] Dilute Alexa Fluor 647 (AF647) to 500 picomolar (pM) in the filtered 1% PVA solution.", "... |
102,773 | JAX-Sen: Mouse kidney dissociation for single-cell RNA sequencing | 0 | dx.doi.org/10.17504/protocols.io.j8nlk833wl5r/v1 | https://www.protocols.io/view/jax-sen-mouse-kidney-dissociation-for-single-cell-dgkv3uw6 | Ramalakshmi Ramasamy, Juliana Alcoforado Diniz, Jessica Garofalo, Patrick Fleming, Paul Robson | TITLE: JAX-Sen: Mouse kidney dissociation for single-cell RNA sequencing
AUTHORS: Ramalakshmi Ramasamy, Juliana Alcoforado Diniz, Jessica Garofalo, Patrick Fleming, Paul Robson
[DESCRIPTION]
These samples are part of the JAX-Sen project in the SENNET Consortium. We aim to study and characterize senescence in the C57Bl... | ["[Reagents and Materials] 5 ml Protein lobind tubes\n1.5 or 2 ml Protein lobind tubes\nMicro scissors/ scalpel\nIce-cold PBS\nWide-bore pipette tips\nGentleMACS dissociator\nGentleMACS C tubes\nDMEM + 10% FBS\nACK lysis buffer – 2 ml/sample\nSS_buffer– 5 ml/sample\n40um cell strainer\n70uM strainer\n\nSS_Buffer:", "[P... |
18,019 | Making OP50 solution from Frozen Stock | null | dx.doi.org/10.17504/protocols.io.vube6sn | null | Priota Islam | TITLE: Making OP50 solution from Frozen Stock
AUTHORS: Priota Islam
[STEPS]
?. Day: 1 Get LB Agar from the media kitchen and autoclave it for 2hrs Post autoclave, pour the agar on large petri dishes (60mm) and leave to dry overnight to be transferred to the cold room the next day
?. Day: 2 Get the frozen tube out of t... | ["Day: 1 Get LB Agar from the media kitchen and autoclave it for 2hrs Post autoclave, pour the agar on large petri dishes (60mm) and leave to dry overnight to be transferred to the cold room the next day", "Day: 2 Get the frozen tube out of the freezer (Freezer 12, SD Box) Take a sterile pipette tip and get some frozen... |
null | null | null | dx.doi.org/10.17504/protocols.io.impcc5n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>How to measure ocular blood flow during water drinking test</p>
<p> </p>
[STEPS]
?.
?. | [] |
85,892 | Chemical Decontamination and Maintenance of the BD FACS Aria Fusion Sheath Fluid Tank | 1 | null | https://www.protocols.io/view/chemical-decontamination-and-maintenance-of-the-bd-cx5cxq2w | Jamie C Tijerina | TITLE: Chemical Decontamination and Maintenance of the BD FACS Aria Fusion Sheath Fluid Tank
AUTHORS: Jamie C Tijerina
[DESCRIPTION]
Regular tank maintenance prevents formation of biofilms, rust, and contamination of cytometers or sorters.
This protocol has been tested as being as effective as autoclaving the tank, b... | ["Carefully remove the sheath probe/sensor from stainless steel sheath tank using a wrench. Rest it on the lined surface. Remove all teflon tape residue, using q-tips and razor as needed to remove pieces.", "This step is optional, but useful if contamination is suspected, or if rust is observed: carefully remove the tw... |
44,760 | PMN- 01b - Isolation of Human PMN from Whole Blood | 4 | dx.doi.org/10.17504/protocols.io.bpxymppw | https://www.protocols.io/view/pmn-01b-isolation-of-human-pmn-from-whole-blood-bpxymppw | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: PMN- 01b - Isolation of Human PMN from Whole Blood
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">List of published papers using this protocol:</div><div class = "t... | ["Place of whole blood into a 10 ml volume centrifuge tube.\n5 mL", "Add of dextran solution (SOLUTION- 03) and mix well by drawing in and out of a pipette.\n2 mL", "Incubate in the dark for at\n37 °C", "Place of Fycoll-HyPaque media solution into a 10 ml volume centrifuge tube.\n3 mL", "Slowly and carefully layer ... |
20,475 | Preparation of feeder-free iPSCs culture | null | dx.doi.org/10.17504/protocols.io.x83fryn | null | Celeste Karch, Rita Martinez, Jacob Marsh | TITLE: Preparation of feeder-free iPSCs culture
AUTHORS: Celeste Karch, Rita Martinez, Jacob Marsh
[STEPS]
?. Coat appropriate sized tissue culture dish with Matrigel. Swirl plate to distribute evenly across surface of dish.
?. Allow Matrigel to set for at room temperature or in a humidified chamber.
This will provide... | ["Coat appropriate sized tissue culture dish with Matrigel. Swirl plate to distribute evenly across surface of dish.", "Allow Matrigel to set for at room temperature or in a humidified chamber.\nThis will provide enough cells for a full 96 well plate of neural aggregates.\nWe typically thaw 1 vial of iPSC into 1 well o... |
20,261 | HPA Cell Atlas Standard Immunostaining Protocol | null | dx.doi.org/10.17504/protocols.io.x2dfqa6 | null | Peter Thul, Ulrika Axelsson | TITLE: HPA Cell Atlas Standard Immunostaining Protocol
AUTHORS: Peter Thul, Ulrika Axelsson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The Cell Atlas, part of the Human Protein Atlas project, systematically investigate the spatiotemporal subcellular distribution of human proteins. This is our s... | ["[Fixation]\nRemove the growth medium (i.e. aspirate ~ from all wells).\n80 µl", "[Fixation]\nWash the cells once with 1X PBS.\n40 µl", "[Fixation]\nFix the cells by incubating in 4% PFA/1XPBS for 15 minutes.\n40 µl", "[Permeabilization]\nRemove the PFA and permeabilize the cells by incubating with 0.1 % Triton X-1... |
21,913 | Simultaneous ocular and cervical VEMP | null | dx.doi.org/10.17504/protocols.io.zmzf476 | null | Tatiana Rocha Silva, Marco Aurélio Rocha Santos, Luciana Macedo de Resende, Ludimila Labanca, Denise Utsch Gonçalves | TITLE: Simultaneous ocular and cervical VEMP
AUTHORS: Tatiana Rocha Silva, Marco Aurélio Rocha Santos, Luciana Macedo de Resende, Ludimila Labanca, Denise Utsch Gonçalves
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify">Vestibular Evoked Myogenic Po... | ["[Equipment / Software]\nThis protocol uses the Labat® equipment, two channels, connected to a laptop. (Figure 1 and 2).", "[Position of electrodes]\nIn the recording of cervical VEMP and ocular VEMP performed simultaneously, channel 1 electrodes are used to record ocular VEMP and channel 2 electrodes to record cervic... |
79,925 | Schistosoma mansoni cercariae transformation (without needle) | 4 | dx.doi.org/10.17504/protocols.io.8epv5jp36l1b/v2 | https://www.protocols.io/view/schistosoma-mansoni-cercariae-transformation-witho-csavwae6 | Sarah K Buddenborg | TITLE: Schistosoma mansoni cercariae transformation (without needle)
AUTHORS: Sarah K Buddenborg
[DESCRIPTION]
Free-living aquatic S. mansoni cercariae transform into the first intramammalian stage, called schistosomula or somules, by burrowing in the host skin. Upon contact, cercariae begin to enter the skin and lose... | ["[Cercariae collection] Shed cercariae from snails in a 6-well plate (see protocol \"Schistosoma mansoni cercariae shedding\"). The snails can be shed for up to 2 hrs by collecting cercariae and replacing with fresh water every 30 min", "Using a sterile transfer pipette, dispense cercariae into sterile 15ml falcon tub... |
76,396 | Terrific broth (TB) medium | 4 | null | https://www.protocols.io/view/terrific-broth-tb-medium-cnukveuw | Andreas Sagen | TITLE: Terrific broth (TB) medium
AUTHORS: Andreas Sagen
[DESCRIPTION]
IBI’s Terrific Broth is used with Glycerol in cultivating recombinant strains of E. coli. Terrific broth is a highly enriched medium for improving yield in plasmid bearing E. coli. Recombinant strains have an extended growth phase in the medium. Th... | ["[Terrific broth base solution] Fill the bottle with 200 mL distilled water", "[Terrific broth base solution] Add powdered solids into bottle, and use a magnetic mixer with a stir bar to mix for 5 min", "[Terrific broth base solution] Adjust pH while mixing to pH 7.2 using concentrated sodium hydroxide", "[Terrific br... |
92,883 | High Molecular Weight DNA Extraction Protocol [Tissue Sample] | 4 | null | https://www.protocols.io/view/high-molecular-weight-dna-extraction-protocol-tiss-c6xtzfnn | Aswini Leela | TITLE: High Molecular Weight DNA Extraction Protocol [Tissue Sample]
AUTHORS: Aswini Leela
[DESCRIPTION]
This is an organic extraction protocol used for high molecular DNA extraction for tissue samples.
[STEPS]
SECTION: High Molecular Weight DNA Extraction Protocol
1. Lysis Tissue Sample
Add 500 µL of lysis buffer to... | ["[High Molecular Weight DNA Extraction Protocol] Lysis Tissue Sample\nAdd 500 µL of lysis buffer to 50 - 150 mg of of sample. Make sure the tissue sample has been finely cut.", "[High Molecular Weight DNA Extraction Protocol] Denatures and digest proteins that are subsequently hydrolyzed with Proteinase K\nAdd 15 µL... |
null | null | null | dx.doi.org/10.17504/protocols.io.drw57d | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
43,863 | Immunoprecipitation, Decross-linking, and DNA Extraction | 4 | dx.doi.org/10.17504/protocols.io.bn3xmgpn | https://www.protocols.io/view/immunoprecipitation-decross-linking-and-dna-extrac-bn3xmgpn | Vasso Makrantoni, Daniel Robertson, Adele L. Marston | TITLE: Immunoprecipitation, Decross-linking, and DNA Extraction
AUTHORS: Vasso Makrantoni, Daniel Robertson, Adele L. Marston
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A plethora of biological processes like gene transcription, DNA replication, DNA recombination, and chromosome segregation are... | ["[Immunoprecipitation, Decross-linking, and DNA Extraction]\nPrewash (n × 15) μl of Protein G Dynabeads (n = number of IP samples) in containing 0.1% SDS, and protease inhibitors with rotation for . Place the microcentrifuge tubes on a magnet and discard the supernatant. (1/3)\n[ice-cold 1× FA buffer]\n[PMSF]", "[Im... |
95,639 | Bedding Test | 4 | dx.doi.org/10.17504/protocols.io.n2bvj3ko5lk5/v1 | https://www.protocols.io/view/bedding-test-c9mxz47n | daniel.dautan daniel, Per Svenningsson | TITLE: Bedding Test
AUTHORS: daniel.dautan daniel, Per Svenningsson
[DESCRIPTION]
Used to assess nigrostriatal sensorimotor function in mice. Based on the Deacon 2006 protocol.
[STEPS]
2. Provide few pellet of food (Standard diet, SDS, R1/CRM/R3) (around 2-3 pellets for a total of 5g) as well as water ad libitum.
1. ... | ["Provide few pellet of food (Standard diet, SDS, R1/CRM/R3) (around 2-3 pellets for a total of 5g) as well as water ad libitum.", "Transfer the mice as single cage into a “Green line” cage (Techniplast, USA).", "Place a 5 x 5 cm cellulose paper tissue folded in the right corner of the cage.", "Place the cage in a vent... |
null | null | null | dx.doi.org/10.17504/protocols.io.qrhdv36 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
SECTION: Data Preparation
?.
SECTION: Data Preparation
?.
SECTION: Data Preparation
?.
SECTION: Data Preparation
?.
SECTION: Data Preparation
?.
SECTION: Data Preparation
?.
SECTION: Non-rigid Registration
?.
SECTION: Non-rigid Registration
?.
SECTION: Non-rigid Registration
?... | ["[Data Preparation] Extract dense point clouds F and R from 4DCT images at different phases, and they represent the status of lung surface at different time.", "[Data Preparation] Simplify point cloud F to point cloud F‘. The scale of F’ should be around 4000.", "[Data Preparation] Calculate the connectivity matrix M ... |
42,407 | Making Quenching and Blocking Solution | 6 | dx.doi.org/10.17504/protocols.io.bmnfk5bn | https://www.protocols.io/view/making-quenching-and-blocking-solution-bmnfk5bn | Kenneth Schackart, Kattika Kaarj | TITLE: Making Quenching and Blocking Solution
AUTHORS: Kenneth Schackart, Kattika Kaarj
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to make Quenching solution and Blocking solution used for protein EDAC particle coupling. Glycine serves as a primary amine source for q... | ["[Make Quenching Solution]\nAdd BSA to DW to make solution.Swirl to dissolve BSA.\n100 mg\n100 mL\nRecommended concentration from Tech Note 205 is - BSA. Volume and concentration can be adjusted as necessary.", "[Make Quenching Solution]\nAdd glycine to make solution.\n263 mg\nRecommended concentration from Tec... |
99,955 | Quick protocol for protein extraction from adherent fish-derived fibroblasts | 0 | dx.doi.org/10.17504/protocols.io.q26g71ydkgwz/v1 | https://www.protocols.io/view/quick-protocol-for-protein-extraction-from-adheren-ddut26wn | Joao M Moreno, Vitor C Sousa, Romana Santos | TITLE: Quick protocol for protein extraction from adherent fish-derived fibroblasts
AUTHORS: Joao M Moreno, Vitor C Sousa, Romana Santos
[DESCRIPTION]
We present a rapid and efficient protocol for extracting total proteins from adherent fish-derived fibroblasts, specifically optimized for applications in Western blott... | ["Carefully remove all culture media from the flask and add enough ice-cold 1X PBS to wash the cells", "Carefully remove the ice-cold 1x PBS and add ice-cold lysis buffer (RIPA buffer) according to the estimated number of cells:\n1 mLfor cells (roughly a T75 flask).", "Use a cell scraper to dissociate the cells from... |
57,162 | protocols.io academic and non-profit contract | 1 | dx.doi.org/10.17504/protocols.io.b33iqqke | https://www.protocols.io/view/protocols-io-academic-and-non-profit-contract-b33iqqke | protocols.io team | TITLE: protocols.io academic and non-profit contract
AUTHORS: protocols.io team
[DESCRIPTION]
Template Contract
This contract is hereby made between the UNIVERSITY/ORGANIZATION (Univ) and ZappyLab, Inc. (DBA “protocols.io”).
DATE:December 13, 2021START DATE:December 27, 2021END DATE:December 26, 2022DESCRIPTION OF ... | ["[Activation] Within thirty (30) days from the Start Date, Univ will provide to protocols.io a list of IP addresses for on-campus user notification about free Premium workspaces.", "[Activation] Within two (2) weeks from the Start Date, protocols.io will enable free Premium workspaces accounts to be created by any Uni... |
null | null | null | dx.doi.org/10.17504/protocols.io.ecybaxw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<strong>Viral Bioinformatic Resource Centre</strong>
<ul>
<li><strong>Provide databases of viral genomic information.</strong>
<ul>
<li>Please check the <strong><em>Organisms</em></strong> menu to see which viruses we support: we’re now focusing on large DNA viruses</li>
<li>The... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.rq4d5yw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?. | ["For in vitro assays intact mitochondria were isolated, and citrate synthase activity measured from female third instar wandering larvae", "Set the plate reader at 412nm on a kinetic program : Duration 1.5 minute ; Interval 10 seconds", "Transfer 93 uL of isolated mitochondrial to a 96 well plate to make a final conc... |
81,113 | 1. Taxon Group: Anthozoa | 4 | dx.doi.org/10.17504/protocols.io.dm6gpjnk1gzp/v1 | https://www.protocols.io/view/1-taxon-group-anthozoa-ctfzwjp6 | John Bishop, Inez Januszczak | TITLE: 1. Taxon Group: Anthozoa
AUTHORS: John Bishop, Inez Januszczak
[DESCRIPTION]
This is part of the collection "DToL Taxon-specific Standard Operating Procedure (SOP) for Marine Metazoa", lead by the Other Metazoa Working Group. The SOP collection contains guidance on how to process the various marine Metazoa spec... | [] |
33,940 | High Efficiency Transformation Protocol (C2987I) | 1 | dx.doi.org/10.17504/protocols.io.bddui26w | https://www.protocols.io/view/high-efficiency-transformation-protocol-c2987i-bddui26w | New England Biolabs | TITLE: High Efficiency Transformation Protocol (C2987I)
AUTHORS: New England Biolabs
[DESCRIPTION]
This is the protocol for C2987I cells. If you are using the C2987H cells, please refer to this protocol.
[GUIDELINES]
Transformation Protocol Variables
Thawing: Cells are best thawed on ice and DNA added as soon as ... | ["Thaw a tube of NEB 5-alpha Competent E. coli cells on ice until the last ice crystals disappear.", "Mix gently and carefully pipette 50 µL into a transformation tube on ice.", "Add 1 µL-5 µL containing 1 pg-100 ng of plasmid DNA to the cell mixture.", "Carefully flick the tube 4-5 times to mix cells and DNA. Do not v... |
33,594 | Construction and sequencing of DNA libraries on Hiseq 2000 platform for the eastern banjo frog | 1 | dx.doi.org/10.17504/protocols.io.bc22iyge | https://www.protocols.io/view/construction-and-sequencing-of-dna-libraries-on-hi-bc22iyge | Qiye Li, Qunfei Guo, Yang Zhou, Huishuang Tan, Terry Bertozzi, Yuanzhen Zhu, Ji Li, Stephen Donnellan, Guojie Zhang | TITLE: Construction and sequencing of DNA libraries on Hiseq 2000 platform for the eastern banjo frog
AUTHORS: Qiye Li, Qunfei Guo, Yang Zhou, Huishuang Tan, Terry Bertozzi, Yuanzhen Zhu, Ji Li, Stephen Donnellan, Guojie Zhang
[DESCRIPTION]
This protocol is used for construction and sequencing of DNA libraries which ... | ["The following step is the protocol for construction and sequencing of short-insert libraries (170 bp, 250 bp, 500 bp, and 800 bp).", "The following step is the protocol for construction and sequencing of mate-paired libraries (2 kb, 5 kb, 10 kb, and 20 kb).", "[Genomic DNA interruption] The extracted 1 µg genomic DNA... |
null | null | null | dx.doi.org/10.17504/protocols.io.dqf5tm | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Protocol adatped to match the one followed by Northeastern_Boston
[STEPS]
?.
?.
?.
?.
?. | [] |
51,213 | ATAC Sequencing Protocol | 4 | dx.doi.org/10.17504/protocols.io.bv9mn946 | https://www.protocols.io/view/atac-sequencing-protocol-bv9mn946 | Klaus H. Kaestner Lab, Suzanne Shapira | TITLE: ATAC Sequencing Protocol
AUTHORS: Klaus H. Kaestner Lab, Suzanne Shapira
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Interrogating cell-type specific chromatin accessibility can reveal cis-regulatory elements linked to downstream gene expression patterns.... | ["[Resuspension Buffer]\n1. To use for Lysis Buffer and Wash Buffer, can be stored at room temperature long-term.500 μl 1M Tris-HCl, pH 7.5 (final 10 mM)100 μl 5 M NaCl (final 10 mM)150 μl 1 M MgCl2 (final 3 mM)49.25 ml nuclease-free H²O\n50 mL", "[Cell Lysis]\n1. Centrifuge 100,000 cells to pellet [NOTE: The person wh... |
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