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 |
|---|---|---|---|---|---|---|---|
null | null | null | dx.doi.org/10.17504/protocols.io.hebb3an | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a protocol to generate axenic fly cultures by sterilizing embryos. It is part of 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 contro... | [] |
85,770 | SoRA microscopy protocol for imaging oligomers in human brain tissue | 4 | dx.doi.org/10.17504/protocols.io.x54v9py64g3e/v1 | https://www.protocols.io/view/sora-microscopy-protocol-for-imaging-oligomers-in-cxzixp4e | Emma E Brock | TITLE: SoRA microscopy protocol for imaging oligomers in human brain tissue
AUTHORS: Emma E Brock
[DESCRIPTION]
This protocol gives a step by step guide to imaging oligomers in human brain tissue using a spinning disk confocal microscope. The microscope used for this protocol was a commercial set up produced by 3i, ho... | ["[Sample preparation and handling] Prepare samples in advance of imaging according to protocol: Single-molecule Immunofluorescence Tissue Staining Protocol for Oligomer Imaging V. by Rebecca Andrews.", "[Sample preparation and handling] Stores samples in fridge at 4 °C . Only remove samples from the fridge one at a ti... |
80,334 | Histology and Retention of Implanted Carbon Fiber Thread Electrodes in Fixed Tissue | 1 | dx.doi.org/10.17504/protocols.io.6qpvr4nm3gmk/v1 | https://www.protocols.io/view/histology-and-retention-of-implanted-carbon-fiber-cspnwdme | Helen N Schwerdt, Tomoko Yoshida, Ann M Graybiel | TITLE: Histology and Retention of Implanted Carbon Fiber Thread Electrodes in Fixed Tissue
AUTHORS: Helen N Schwerdt, Tomoko Yoshida, Ann M Graybiel
[DESCRIPTION]
Methods to cut and retain implanted carbon fiber electrodes in brain tissue are described.
[STEPS]
1. Rats were deeply anesthetized with Euthasol (pent... | ["Rats were deeply anesthetized with Euthasol (pentobarbital sodium and phenytoin sodium from Virbac AH Inc.), then transcardially perfused with 0.9% saline solution followed by 4% paraformaldehyde in 0.1 M phosphate buffer (PB).", "The implanted electrodes were cut just above the skull and below the copper wire bundle... |
97,920 | Visually-Guided Reward-Biased Behavioral Task | 0 | dx.doi.org/10.17504/protocols.io.kqdg325eev25/v1 | https://www.protocols.io/view/visually-guided-reward-biased-behavioral-task-dbu82nzw | Raymond Murray, Helen Schwerdt | TITLE: Visually-Guided Reward-Biased Behavioral Task
AUTHORS: Raymond Murray, Helen Schwerdt
[DESCRIPTION]
A protocol describing the visually guided, reward-biased saccade task monkeys were trained on in the original study: Schwerdt et al. 2020, Sci. Adv.
[STEPS]
SECTION: Behavioral Task
1. Monkeys performed a progr... | ["[Behavioral Task] Monkeys performed a programmed eye movement task in which they would first fixate on a central cue displayed on a monitor in front of the them for a fixed duration chosen from a range of 1.2 - 3 s (National Institute of Mental Health, National Institutes of Health, VCortex).", "[Behavioral Task] The... |
39,783 | Plate based scRNA-seq Illumina library construction | 1 | dx.doi.org/10.17504/protocols.io.bi4fkgtn | https://www.protocols.io/view/plate-based-scrna-seq-illumina-library-constructio-bi4fkgtn | DNA Pipelines R&D, Peter Ellis, Lesley Shirley | TITLE: Plate based scRNA-seq Illumina library construction
AUTHORS: DNA Pipelines R&D, Peter Ellis, Lesley Shirley
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This SOP describes the procedure for plate based scRNA-seq performed with a commercial available kit from New England BioLabs. Following ... | ["[Preparation of lysis buffer plates and FACS]\nImportant! This step must be performed in a designated RNAse free and pre-cDNA amplification area, keeping reagents chilled at all times", "[Preparation of lysis buffer plates and FACS]\nPrepare the cell lysis buffer, which will provide sufficient volume for one 96-well ... |
80,963 | Making CFM | 1 | dx.doi.org/10.17504/protocols.io.n2bvj84qpgk5/v1 | https://www.protocols.click/view/making-cfm-ctbbwiin | Katherine Brimblecombe, Stephanie J Cragg | TITLE: Making CFM
AUTHORS: Katherine Brimblecombe, Stephanie J Cragg
[DESCRIPTION]
TBD
[STEPS]
SECTION: Threading Carbon Fibre
1. Fill test tube with acetone (flammables cupboard) and add capillary tubes.
SECTION: Threading Carbon Fibre
2. Stick test tube to light box with Blu Tack.
SECTION: Threading Carbon Fibr... | ["[Threading Carbon Fibre] Fill test tube with acetone (flammables cupboard) and add capillary tubes.", "[Threading Carbon Fibre] Stick test tube to light box with Blu Tack.", "[Threading Carbon Fibre] Select a single carbon fibre using rubber tipped forceps.", "[Threading Carbon Fibre] Thread carbon fibre down capilla... |
89,297 | Ex vivo roGFP measurements | 4 | dx.doi.org/10.17504/protocols.io.j8nlkomb1v5r/v1 | https://www.protocols.io/view/ex-vivo-rogfp-measurements-c3fryjm6 | Cecilia Tubert | TITLE: Ex vivo roGFP measurements
AUTHORS: Cecilia Tubert
[DESCRIPTION]
This protocol details the steps to obtain ro-GFP measurements of ex vivo brain slices in a 2PLSM.
[GUIDELINES]
Follow institutional guidelines and protocols.
[STEPS]
SECTION: Procedure:
1. Brain slices expressing roGFP probes are obtained accord... | ["[Procedure:] Brain slices expressing roGFP probes are obtained according to protocol and held at room temperature in a chamber containing aCSF continuously bubbled with 95% O2/5% CO2 blood gas mixture until the moment of the experiment.", "[Procedure:] Turn on 2PLSM working station, including heated stage, and the co... |
51,187 | DiMeLo-seq: Directed Methylation with Long-read sequencing | 4 | dx.doi.org/10.17504/protocols.io.bv8tn9wn | https://www.protocols.io/view/dimelo-seq-directed-methylation-with-long-read-seq-bv8tn9wn | Nicolas Altemose, Annie Maslan, Owen Smith, Kousik Sundararajan, Rachel Brown, Aaron Straight, Aaron Streets | TITLE: DiMeLo-seq: Directed Methylation with Long-read sequencing
AUTHORS: Nicolas Altemose, Annie Maslan, Owen Smith, Kousik Sundararajan, Rachel Brown, Aaron Straight, Aaron Streets
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Directed Methylation and Long-read sequencing (DiMeLo-seq) is a pow... | ["[Reagent Preparation]\nGeneral NotesPrepare all reagents freshKeep all reagents on iceFilter all buffers through a 0.2 μm filter", "[General Notes]\nAll spins are at 4ºC for 3 minutes at 500 x g.Spinning in a swinging bucket rotator can help pellet the nuclei.To prevent nuclei from lining the side of the tube, break ... |
69,805 | GUS staining | 4 | null | https://www.protocols.io/view/gus-staining-cgemttc6 | lilyli | TITLE: GUS staining
AUTHORS: lilyli
[DESCRIPTION]
GUS staining
[STEPS]
1. Fix with 90% 90 % volume acetone for 20 min
2. Add 1 mLGus washing solution to wash off the acetone and wash it twice
3. Add Gus staining solution and vacuum on ice for 15-20 min
4. 37 ℃ overnight
5. Remove the dyeing solution, add 1ml of 70... | ["Fix with 90% 90 % volume acetone for 20 min", "Add 1 mLGus washing solution to wash off the acetone and wash it twice", "Add Gus staining solution and vacuum on ice for 15-20 min", "37 ℃ overnight", "Remove the dyeing solution, add 1ml of 70% ethanol", "Change the ethanol several times"] |
24,161 | Combined Single-Cell Measurement of Cytokine mRNA and Protein in Immune Cells | null | dx.doi.org/10.17504/protocols.io.3t9gnr6 | null | Julian J. Freen-van Heeren, Benot P. Nicolet, Monika C. Wolkers | TITLE: Combined Single-Cell Measurement of Cytokine mRNA and Protein in Immune Cells
AUTHORS: Julian J. Freen-van Heeren, Benot P. Nicolet, Monika C. Wolkers
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">A key feature of immune cells, such as T cell... | ["[1. Stimulation and extracellular staining of human and murine CD8+ T cells]\nActivate 3 x 105 [human] or 1 x 106 cells [murine] in 200 L medium containing the stimulus of choice and 2 µM monensin in a sterile 96-well plate according to standard operating procedure or as described in [29, 31]. Include a sample witho... |
30,705 | Direct-Blot™ Western Blotting Protocol | null | dx.doi.org/10.17504/protocols.io.98rh9v6 | null | Sam Li | TITLE: Direct-Blot™ Western Blotting Protocol
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Sample Preparation:]
Place cells in a microcentrifuge tube and centrifuge to collect the cell pellet.
?. [Sample Preparation:]
Lyse the cell pellet with 100µl of lysis buffer on ice for 30 min (Fo... | ["[Sample Preparation:]\nPlace cells in a microcentrifuge tube and centrifuge to collect the cell pellet.", "[Sample Preparation:]\nLyse the cell pellet with 100µl of lysis buffer on ice for 30 min (For 1 X 106 cells, lyse with 100µl of lysis buffer).", "[Sample Preparation:]\nCentrifuge at 14,000 rpm (16,000xg) for 10... |
90,385 | Serial Sectioning of Mouse Brain | 1 | dx.doi.org/10.17504/protocols.io.dm6gp3x78vzp/v1 | https://www.protocols.io/view/serial-sectioning-of-mouse-brain-c4hryt56 | Asta Zane, Nicole J Corbin-Stein, Gabrielle Childers, Jhodi Webster, Vickie Yang, Woong-Jai Won, Rajesh Gupta, Ashley Harms | TITLE: Serial Sectioning of Mouse Brain
AUTHORS: Asta Zane, Nicole J Corbin-Stein, Gabrielle Childers, Jhodi Webster, Vickie Yang, Woong-Jai Won, Rajesh Gupta, Ashley Harms
[DESCRIPTION]
This protocol highlights sectioning 40 micron mouse brain tissue to be used for histology experiments.
[GUIDELINES]
Make sure to p... | ["[PROCEDURE] Label 24 or 12 well plate with appropriate identifiers (date, project, region to be sectioned etc.) and fill each well ⅔ full with anti-freeze solution (50% glycerol in PBS).", "[PROCEDURE] Freeze microtome stage on the dry ice.", "[PROCEDURE] Crush dry ice for the sprinkling the stage later", "[PROCEDURE... |
36,474 | Protocol for Use with Large Insert Libraries (470–520 bp) (NEB #E7120) | 1 | dx.doi.org/10.17504/protocols.io.bfu2jnye | https://www.protocols.io/view/protocol-for-use-with-large-insert-libraries-470-5-bfu2jnye | New England Biolabs | TITLE: Protocol for Use with Large Insert Libraries (470–520 bp) (NEB #E7120)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol details how to construct Large Insert libraries from start to finish using NEBNext reagents. </div><div class = "text-block"><span... | ["[DNA Preparation (Section 2.1)]\nDNA PreparationCombine 10 ng-200 ng of genomic DNA with control DNA, CpG methylated pUC19 (lilac) and unmethylated lambda DNA (lilac) in made up with 0.1X TE . The amount of control DNA added is dependent on the number of reads required.\nStarting materials is 10 ng-200 ng DNA\n50 µl... |
93,370 | Bleaching and UV decontamination of materials | 3 | dx.doi.org/10.17504/protocols.io.x54v9p4m1g3e/v1 | https://www.protocols.io/view/bleaching-and-uv-decontamination-of-materials-c7e2zjge | Elena Essel, Matthias Meyer, Merlin Szymanski | TITLE: Bleaching and UV decontamination of materials
AUTHORS: Elena Essel, Matthias Meyer, Merlin Szymanski
[DESCRIPTION]
Protocol for reducing DNA contamination on materials (e.g. quarz glass bottles, spatulas) used in the ancient DNA cleanroom by sodium hypochlorite (bleach) and UV treatment.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dew3fd | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<strong>Splitting Cells/Growing Up Your Host (cells)</strong><br /><br />1. Label flasks with the bacteria (host) name, the date, and the split ratio (ie. 1:20).<br /><br />2. IN THE BIOLOGICAL SAFETY CABINET (HOOD): Add the correct amount of growth media to each flask (eg. for... | [] |
93,100 | v2 RNAscope in situ hybridization | 1 | null | https://www.protocols.io/view/v2-rnascope-in-situ-hybridization-c66kzhcw | Andrew J. Flores | TITLE: v2 RNAscope in situ hybridization
AUTHORS: Andrew J. Flores
[DESCRIPTION]
This is a protocol for performing RNAscope‱ in situ hybridization analysis on fixed-frozen mouse brain tissue using the RNAscope‱ Multiplex Fluorescent v2 kit (Advanced Cell Diagnostics; ACD). This RNAscope‱ protocol similar to the v2 pr... | ["[Cryosectioning, sample preparation, and storage] Collect sections spaced 20 μm apart between Bregma = +1.0–0.0 in RNase-free PBS.", "[Cryosectioning, sample preparation, and storage] Immediately mount sections onto Superfrost‱ plus microscopy slides. Mount sections spaced 120 microns apart 4 per slide (Note that thi... |
null | null | null | dx.doi.org/10.17504/protocols.io.hwdb7a6 | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<strong>Reagent List:</strong><br />
<ul>
<li>Cell Staining Buffer (BioLegend Cat. No. 420201)</li>
<li>Red Cell Lysis Buffer (BioLegend Cat. No. 420301)</li>
<li>7-AAD Viability Staining Solution (BioLegend Cat. No. 420403)</li>
<li>TruStain FcX™ (anti-CD16/32, BioLegend Cat. No... | [] |
64,945 | Standard Operating Procedure for conducting larval and pupal surveys for Aedes | 1 | dx.doi.org/10.17504/protocols.io.ewov1n1bygr2/v1 | https://www.protocols.io/view/standard-operating-procedure-for-conducting-larval-cbnrsmd6 | Tanya L L Russell, Kyran Staunton, Thomas R Burkot | TITLE: Standard Operating Procedure for conducting larval and pupal surveys for Aedes
AUTHORS: Tanya L L Russell, Kyran Staunton, Thomas R Burkot
[DESCRIPTION]
This Standard Operating Procedure (SOP) describes the materials and methods to perform surveys of immature mosquitoes in container habitats (generally Aedes ... | ["[Preparation] Gather all equipment required.", "[Preparation] Many containers are associated with households and surrounding areas so first permission to work in a house hold must be obtained. Once consent by the home-owner has been given to inspect their premises, move around the area looking for larval habitats, bo... |
95,492 | Universal Competition Assay by Nanopore Sequencing (U-CAN-Seq) | 4 | dx.doi.org/10.17504/protocols.io.kqdg3xjdzg25/v1 | https://www.protocols.io/view/universal-competition-assay-by-nanopore-sequencing-c9hcz32w | Jennifer Loome, John Sears, Wes Sanders, Che-Kang Chang, Paul Sylvester, Colton Linnertz, Nathaniel Moorman, Martin T. Ferris, Mark T. Heise | TITLE: Universal Competition Assay by Nanopore Sequencing (U-CAN-Seq)
AUTHORS: Jennifer Loome, John Sears, Wes Sanders, Che-Kang Chang, Paul Sylvester, Colton Linnertz, Nathaniel Moorman, Martin T. Ferris, Mark T. Heise
[DESCRIPTION]
Competition assays are an effective and rigorous method that can be used to unders... | ["[Infection] Plate cells\nPlate Vero81 cells in six 6-well plates at 2*10^5 cells/well 24 hours", "[Infection] Infect cells", "[Infection] Harvest supernatant\n24 hrs post infection, harvest each well once by taking 300 μl of supernatant and putting in a tube with 900 μl Trizol-LS reagent. Let incubate at least 10 min... |
93,164 | 0.1xBWT+SDS buffer | 3 | dx.doi.org/10.17504/protocols.io.5qpvo311zv4o/v1 | https://www.protocols.io/view/0-1xbwt-sds-buffer-c68kzhuw | Anna Schmidt, Sarah Nagel, Matthias Meyer | TITLE: 0.1xBWT+SDS buffer
AUTHORS: Anna Schmidt, Sarah Nagel, Matthias Meyer
[DESCRIPTION]
Protocol for the preparation of 0.1x BWT+SDS buffer (Bind and wash buffer I) for automated single-stranded DNA library preparation using the ssDNA2.0 method (Gansauge et al. 2020).
References
Gansauge, M.-T., Aximu-Petri, A., N... | [] |
57,328 | The efficacy of telemedicine using videoconferencing system in outpatient care for cancer patients: a systematic review and meta-analysis protocol | 1 | dx.doi.org/10.17504/protocols.io.b38qqrvw | https://www.protocols.io/view/the-efficacy-of-telemedicine-using-videoconferenci-b38qqrvw | Yasuaki Uemoto, Taro Yamanaka, Yuki Kataoka, Yoshitaka Wada, Yosuke Aoyama, Rika Kizawa, Yu Yamaguchi, Yuichiro Kikawa, Hirohumi Mukai, Naruto Taira | TITLE: The efficacy of telemedicine using videoconferencing system in outpatient care for cancer patients: a systematic review and meta-analysis protocol
AUTHORS: Yasuaki Uemoto, Taro Yamanaka, Yuki Kataoka, Yoshitaka Wada, Yosuke Aoyama, Rika Kizawa, Yu Yamaguchi, Yuichiro Kikawa, Hirohumi Mukai, Naruto Taira
[DE... | [] |
38,308 | Covid-19 Shutdown Re-Entry, Comprehensive Guide | 3 | dx.doi.org/10.17504/protocols.io.bhncj5aw | https://www.protocols.io/view/covid-19-shutdown-re-entry-comprehensive-guide-bhncj5aw | Srivastava Lab | TITLE: Covid-19 Shutdown Re-Entry, Comprehensive Guide
AUTHORS: Srivastava Lab
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Disclaimer</span><span>: The SOP presented here has been designed by the Srivastava Lab at Harvard University and is being shared outside o... | [] |
19,674 | SW-LB Media (1L) | null | dx.doi.org/10.17504/protocols.io.xf2fjqe | null | Brian Smith, baltrus@email.arizona.edu micro.tucson | TITLE: SW-LB Media (1L)
AUTHORS: Brian Smith, baltrus@email.arizona.edu micro.tucson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol will make one liter of salt water LB. Adjust volumes as necessary.</div></div>
[STEPS]
?. [Fill container aproximately 750mL of H2O]
Add stir bar and s... | ["[Fill container aproximately 750mL of H2O]\nAdd stir bar and set to mix", "[Add Ingredients]\n[Bacto Tryptone]\n[Yeast Extract]\n[NaCl]\n[MgSO4•7H2O]\n[NaHCO3]", "[Bring volume to 1L by adding H2O]\nAllow to mix again with stir bar.", "[Add Agar (if making plates)]\nAdd agar to container to be autclavedThen add media... |
104,007 | eDNA Sampling Protocol: Smith-Root citizen scientist sampler | 0 | dx.doi.org/10.17504/protocols.io.q26g71dw9gwz/v1 | https://www.protocols.io/view/edna-sampling-protocol-smith-root-citizen-scientis-dhtf36jn | susannat | TITLE: eDNA Sampling Protocol: Smith-Root citizen scientist sampler
AUTHORS: susannat
[DESCRIPTION]
This protocol outlines the procedures for using the Smith-Root citizen scientist sampler for environmental DNA (eDNA) sampling. It includes a detailed guide on water collection and filtration steps, emphasizing the impo... | ["[Water collection] Skip this step if sampling directly from a stream or other water source (as in Figure 1D). Wearing gloves, rinse sample bottle three times with ~10 ml of sample water; discard rinse water offshore or away from sampling site. Fill bottle with 1 L of sample water. If bottles are limited, large Whirl-... |
86,217 | Analyzing oxygen consumption of isolated mitochondria using the Seahorse XFe96 analyzer | 4 | dx.doi.org/10.17504/protocols.io.3byl4qj6zvo5/v1 | https://www.protocols.io/view/analyzing-oxygen-consumption-of-isolated-mitochond-cyfhxtj6 | Louise Uoselis | TITLE: Analyzing oxygen consumption of isolated mitochondria using the Seahorse XFe96 analyzer
AUTHORS: Louise Uoselis
[DESCRIPTION]
Protocol for analyzing oxygen consumption of isolated mitochondria using the Seahorse XFe96 analyzer.
[STEPS]
SECTION: Day 1
1. Seed cells in 10 cm plates aiming for a confluency of ~80... | ["[Day 1] Seed cells in 10 cm plates aiming for a confluency of ~80-90% at the time of treatment.", "[Day 1] Add 200 µL of Seahorse XFe calibrant solution to each well of a Seahorse (Agilent) cartridge plate, and incubate at 37 °C in a CO2-free incubator.", "[Day 2] Isolate mitochondria (see previously published prot... |
91,923 | cDNA generation (RT) using RevertAid reverse transcriptase | 4 | dx.doi.org/10.17504/protocols.io.eq2lyjq2plx9/v1 | https://www.protocols.io/view/cdna-generation-rt-using-revertaid-reverse-transcr-c5zty76n | David Valle-Garcia | TITLE: cDNA generation (RT) using RevertAid reverse transcriptase
AUTHORS: David Valle-Garcia
[DESCRIPTION]
This protocol is used for generating cDNA from purified RNA. It is based on RevertAid's manufacturer's protocol, with minor modifications. It can be used with other common RT enzymes such as M-MVL, just make su... | ["[RNA preparation] Thaw RNA, RT buffer, oligo dT, and random hexamers (optional) on ice", "[RNA preparation] Dilute 500 ng of RNA to a final volume of 12.8 µL in nuclease-free water.", "[RNA preparation] Dilute 1000 ng of RNA to a final volume of 13.8 µL in nuclease-free water.", "[RNA preparation] Add 1 µL of 10 mil... |
105,732 | Protocol for RNA Extraction from Peanut Samples Using Direct-zol™ RNA Miniprep | 0 | dx.doi.org/10.17504/protocols.io.kxygxyq1ol8j/v1 | https://www.protocols.io/view/protocol-for-rna-extraction-from-peanut-samples-us-djhc4j2w | Gabriela Gabriela Paredes | TITLE: Protocol for RNA Extraction from Peanut Samples Using Direct-zol™ RNA Miniprep
AUTHORS: Gabriela Gabriela Paredes
[DESCRIPTION]
RNA extraction is a fundamental step in molecular biology, crucial for downstream applications such as qPCR, sequencing, and gene expression analysis. The process of RNA extraction inv... | ["[Preparation Before Starting] Sample Preparation:\nTough-to-lyse samples (e.g., peanut tissues): For peanut tissues, which are challenging due to their high oil content, homogenize the samples using a bead beater. Use a sufficient amount of TRIzol‱ or TRI Reagent‱ (at least 800 µl) to ensure complete lysis.", "[Prepa... |
38,595 | Hot Water Tail Immersion Test | 1 | null | https://www.protocols.io/view/hot-water-tail-immersion-test-bhxbj7in | Lani Tieu, Brent Boomhower, Olivier George | TITLE: Hot Water Tail Immersion Test
AUTHORS: Lani Tieu, Brent Boomhower, Olivier George
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The tail immersion test measures pain response (tail flick latency) to thermal stimuli, and can be used to evaluate the effectiveness of and tolerance to analgesi... | ["[General Procedure]\nPick up rat from its home cage and wrap it in a towel or pee pad to restrain it, leaving tail exposed.", "[General Procedure]\nThe dipper will hold the restrained animal over the water bath and count down before dipping 1 cm of the distal tail into the water. As soon as the tip of the tail is sub... |
91,552 | Bottom agar: 1.5% w/v LB(Miller) agar | 4 | dx.doi.org/10.17504/protocols.io.5jyl8pk48g2w/v1 | https://www.protocols.io/view/bottom-agar-1-5-w-v-lb-miller-agar-c5m8y49w | HANNAH ZHU | TITLE: Bottom agar: 1.5% w/v LB(Miller) agar
AUTHORS: HANNAH ZHU
[DESCRIPTION]
How to make the bottom agar for plaque assay experiment
[STEPS]
1.
Dissolve following components in 1 L MilliQ water
2. Autoclave at 121 °C for 15 min
3. Pour onto petri dishes (approximately 20 mL per plate (10 cm diameter plates)).
... | ["Dissolve following components in 1 L MilliQ water", "Autoclave at 121 °C for 15 min", "Pour onto petri dishes (approximately 20 mL per plate (10 cm diameter plates)).", "Store at 4 °C"] |
20,889 | Tissue dissociation protocol for Pan Immune Project Tissue | null | dx.doi.org/10.17504/protocols.io.ymzfu76 | null | Lira Mamanova | TITLE: Tissue dissociation protocol for Pan Immune Project Tissue
AUTHORS: Lira Mamanova
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. Chop tissues into small pieces, weigh
?. Add
?. Run on GentleMACS Octo 30 mins/37oC cycle
?. Stop liberase with 2mM EDTA
?. Mash through smart strainer
?. PBS wash/spin c... | ["Chop tissues into small pieces, weigh", "Add", "Run on GentleMACS Octo 30 mins/37oC cycle", "Stop liberase with 2mM EDTA", "Mash through smart strainer", "PBS wash/spin cells to pellet at 500g/10 minutes. Resuspend pellet in PBS.", "Layer onto ficoll and spin at RT 400g/25 minutes", "Remove MNCs from ficoll later and... |
94,556 | EMCCD Gain and Offset Calibration | 1 | dx.doi.org/10.17504/protocols.io.kxygx3dpdg8j/v1 | https://www.protocols.io/view/emccd-gain-and-offset-calibration-c8j4zuqw | Joseph S Beckwith | TITLE: EMCCD Gain and Offset Calibration
AUTHORS: Joseph S Beckwith
[DESCRIPTION]
EMCCD Gain and Offset Calibration
[STEPS]
SECTION: EMGain 0 Camera gain and offset measurement protocol
1. Place a lens tissue on the sample stage above the objective lens to serve as a diffuser.
SECTION: EMGain 0 Camera gain and offse... | ["[EMGain 0 Camera gain and offset measurement protocol] Place a lens tissue on the sample stage above the objective lens to serve as a diffuser.", "[EMGain 0 Camera gain and offset measurement protocol] Acquire brightfield mode images from the microscope with a 100ms exposure time, capturing at least 500 frames consec... |
96,353 | DOH Workshop Part 2: Promega Pronex protocol | 0 | dx.doi.org/10.17504/protocols.io.8epv5xwx5g1b/v1 | https://www.protocols.io/view/doh-workshop-part-2-promega-pronex-protocol-dab92ar6 | Vesa Qarkaxhija, Bryan Wee, Natalie Ring | TITLE: DOH Workshop Part 2: Promega Pronex protocol
AUTHORS: Vesa Qarkaxhija, Bryan Wee, Natalie Ring
[DESCRIPTION]
This protocol is to purify extracted dsDNA, removing contaminants (e.g., buffers, proteins, salts, etc.) and low molecular weight DNA (e.g., dsDNA adapters, ssDNA oligonucleotides and nucleotides).
[BEF... | ["[Promega Pronex protocol] Resuspend the Pronex beads by vortexing for 10 sor longer.", "[Promega Pronex protocol] Into your extracted DNA tube pipette 80 µLof Pronex beads and mix into the sample by slowly pipetting 10 times.", "[Promega Pronex protocol] Leave at Room temperature for 10 min.", "[Promega Pronex protoc... |
62,626 | Refine 365 Keto Gummies Reviews -Is It Scam or Legit? | 1 | dx.doi.org/10.17504/protocols.io.rm7vzyoe5lx1/v1 | https://www.protocols.io/view/refine-365-keto-gummies-reviews-is-it-scam-or-legi-b9ear3ae | Refineketogummy | TITLE: Refine 365 Keto Gummies Reviews -Is It Scam or Legit?
AUTHORS: Refineketogummy
[DESCRIPTION]
Refine 365 Keto Gummies Reviews -Is It Scam or Legit?
[STEPS]
1. Refine 365 Keto Gummies Reviews -Is It Scam or Legit?
Refine 365 Keto Gummies is an advanced weight loss supplement that's suggested to use by a lot o... | ["Refine 365 Keto Gummies Reviews -Is It Scam or Legit?\nRefine 365 Keto Gummies is an advanced weight loss supplement that's suggested to use by a lot of health experts. These days, stoutness is the most well- known and enormous solicitude in individualities’ life. It lessens the certainty position and makes the round... |
null | null | null | dx.doi.org/10.17504/protocols.io.fksbkwe | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This Agar medium can be used for the cultivation of Phytophthora infestans. It is particularly suitable to induce sporulation of Phytophthora on plate.</p>
<p>For long term storage on plate, Rye B agar is recommended.</p>
<p> </p>
<p>This protocal has been copied from http://... | [] |
29,016 | Creating Tensor Maps | null | dx.doi.org/10.17504/protocols.io.8jyhupw | null | Courtney Comrie | TITLE: Creating Tensor Maps
AUTHORS: Courtney Comrie
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol will provide a basic guide creating Tensor maps.</div><div class = "text-block">Note: Steps may vary based upon data.</div></div>
[STEPS]
?. [Introduction]
This protocol will present t... | ["[Introduction]\nThis protocol will present the steps needed to compute multiple tensor maps on the HPC in TORTOISE. The protocol assumes that DIFFPREP and DRBUDDI have already been applied.", "[Create Mask from T2 Structural]\nOpen up ITK-snap to create mask.Type the following in a terminal:", "[Create Mask from T2 S... |
36,577 | Acetate Buffer | null | dx.doi.org/10.17504/protocols.io.bfx9jpr6 | https://www.protocols.io/view/acetate-buffer-bfx9jpr6 | Neilier Junior | TITLE: Acetate Buffer
AUTHORS: Neilier Junior
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A buffer solution has the function of resisting changes in pH even when adding powerful acids or bases. However, in the physiological environment the buffered system also provides cofactors for enzymatic re... | ["[Acetate Buffer]\nMix acetic acid and sodium acetate solutions in the proportions indicated: ABCDEFGH1mL of Acetic acid46.341.030.520.014.810.54.82mL of Sodium acetate3.79.019.530.035.239.545.23pH3.64.04.44.85.05.25.6\npH range: to (a) 0.1 M Acetic acid (5.8 mL made to 1000 mL)(b) 0.1 M Sodium acetate; 8.2 g L-1 ... |
20,219 | U Mass - Hemoglobin A1c | null | dx.doi.org/10.17504/protocols.io.xy3fpyn | null | Jason Kim | TITLE: U Mass - Hemoglobin A1c
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-Luminex technology bas... | ["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 C... |
28,847 | RPA DNA Amplification using Agdia AmplifyRP® Acceler8® Discovery Kit | null | dx.doi.org/10.17504/protocols.io.8ephtdn | null | Théo Nass, Luc Gabel | TITLE: RPA DNA Amplification using Agdia AmplifyRP® Acceler8® Discovery Kit
AUTHORS: Théo Nass, Luc Gabel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the procedure to perform an RPA DNA Amplification using the Agdia AmplifyRP® Acceler8® Discovery Kit</div></div>
[STEPS]
... | ["Prepare the RPA pellet rehydration solution following the table in the Materials section.If possible do a Master Mix that will then be divided.", "For each sample, transfer the entire volume (10 µl) to a reaction pellet. Pipette up and down until the full pellet has been resuspended.", "Cap the reaction tubes. Vortex... |
null | null | null | dx.doi.org/10.17504/protocols.io.rutd6wn | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.usvewe6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol series will guide students through the experience of analyzing metagenomic data.
[STEPS]
SECTION: DNA quality assessment and assurance
?.
SECTION: Metagenomic assembly
?.
SECTION: Assessing the quality of the assemblies
?.
SECTION: Binning assembled metagenome... | ["[DNA quality assessment and assurance] {\"blocks\":[{\"key\":\"d4427\",\"text\":\"The first step in analyzing the sequencing data set is to asses the quality of the sequence, and then to edit the dataset in order to retain only the highest quality sequences for the following analysis. \",\"type\":\"unstyled\",\"depth... |
86,199 | Immunofluorescence Assay (IFA) | 4 | dx.doi.org/10.17504/protocols.io.14egn32yyl5d/v1 | https://www.protocols.io/view/immunofluorescence-assay-ifa-cyexxtfn | Louise Uoselis | TITLE: Immunofluorescence Assay (IFA)
AUTHORS: Louise Uoselis
[DESCRIPTION]
Protocol for performing an immunofluorescence assay with fixed HeLa cells.
[STEPS]
SECTION: Day 1
1. Wash HistoGrip (ThermoFisher) coated coverslips 1x in sterile PBS.
SECTION: Day 1
2. Seed cells in 6 well plate wells containing HistoGrip (T... | ["[Day 1] Wash HistoGrip (ThermoFisher) coated coverslips 1x in sterile PBS.", "[Day 1] Seed cells in 6 well plate wells containing HistoGrip (ThermoFisher) coated coverslips in standard growth media, aiming for a confluency of ~70-80% at the time of treatment the next day.", "[Day 2] Feed cells for 60 min prior to tre... |
80,125 | Ancient DNA extract purification (chunk samples/high volume) | 1 | dx.doi.org/10.17504/protocols.io.j8nlkwje6l5r/v1 | https://www.protocols.io/view/ancient-dna-extract-purification-chunk-samples-hig-csg5wby6 | Marcel Keller, Christiana L Scheib | TITLE: Ancient DNA extract purification (chunk samples/high volume)
AUTHORS: Marcel Keller, Christiana L Scheib
[DESCRIPTION]
Protocol for the purification of extracts, modified from Dabney et al. (2013) PNAS (doi: 10.1073/pnas.1314445110).
[BEFORE_START]
Previous step:
This protocol follows the extraction protocol ... | ["[Preparation] Turn the hood on full power and open the glass.", "[Preparation] Spray hood and table bench surfaces with DNA Exitus, let sit a minute and wipe down with paper towels.", "[Preparation] Wipe down outside surfaces of reagents/tips with DNA Exitus and place in the hood.", "[Preparation] Check that the cent... |
76,457 | RNA extraction protocol for snake genomes using TRlZOL reagent（Invitrogen） | 4 | dx.doi.org/10.17504/protocols.io.ewov1o5qklr2/v2 | https://www.protocols.io/view/rna-extraction-protocol-for-snake-genomes-using-tr-cnwhvfb6 | Boyang Liu, Liangyu Cui, Zhangwen Deng, Yue Ma, Diancheng Yang, Yanan Gong, Yanchun Xu, Shuhui Yang, Song Huang | TITLE: RNA extraction protocol for snake genomes using TRlZOL reagent（Invitrogen）
AUTHORS: Boyang Liu, Liangyu Cui, Zhangwen Deng, Yue Ma, Diancheng Yang, Yanan Gong, Yanchun Xu, Shuhui Yang, Song Huang
[DESCRIPTION]
A protocol to extract RNA from snake muscle using TRlzol reagent (Invitrogen, USA) and RNA extraction ... | ["[RNA extraction] The laboratory and test bench for RNA extraction need to be sterilized using alcohol and ultraviolet light for 30 minutes. \n30 min \n\nAll the equipment used in the experiment, such as mortar and pestle, are sterilized at high temperature one day before the experiment and dried in an oven. \n\nMasks... |
21,326 | Yale - Blood or Urine Calcium | null | dx.doi.org/10.17504/protocols.io.y3nfyme | null | John Stack, Gary Cline | TITLE: Yale - Blood or Urine Calcium
AUTHORS: John Stack, Gary Cline
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Procedure used to determine the concentration of calcium in blood, serum, and plasma. Calcium is meas... | ["Calibrate Cobas for Calcium analysis by running a multi analyte standard and two assayed control serum.", "Sample handling as performed by the Cobas Mira Plus. a) Pipette 5µL of sample into a cuvette slot. b) Add 180 µL of Calcium Liquid Reagent. c) Mixture is incubated at 37˚C and spun for 10 minutes. d)... |
103,738 | Tonsil Collection and Processing Protocol | 1 | dx.doi.org/10.17504/protocols.io.e6nvw1o9zlmk/v1 | https://www.protocols.io/view/tonsil-collection-and-processing-protocol-dhi234ge | Scott H. Randell, M. Leslie Fulcher, Adam J. Kimple, Kevin Byrd, Quinn T. Easter, Bruno F. Matuck, Kelly D. Chason, James S. Hagood | TITLE: Tonsil Collection and Processing Protocol
AUTHORS: Scott H. Randell, M. Leslie Fulcher, Adam J. Kimple, Kevin Byrd, Quinn T. Easter, Bruno F. Matuck, Kelly D. Chason, James S. Hagood
[DESCRIPTION]
For preserving human tonsils by formalin fixation, O.C.T. embedding and freezing, Cryostor freezing medium, and sna... | ["[Data Collection] Keep a record of the sample collection and processing to track the source and quality of the samples. Record the following data for:", "[Data Collection] Sample collection:\nSubject ID\nDate and time collected\nThe number of tonsils collected\nThe patient position the tonsils were colleted from (lef... |
106,632 | Induced astrocyte differentiation | 0 | dx.doi.org/10.17504/protocols.io.kxygxy8pkl8j/v1 | https://www.protocols.io/view/induced-astrocyte-differentiation-dkdg4s3w | Isabel Lam, Alain Ndayisaba, Vikram Khurana | TITLE: Induced astrocyte differentiation
AUTHORS: Isabel Lam, Alain Ndayisaba, Vikram Khurana
[DESCRIPTION]
Induced astrocyte differentiation
[STEPS]
1. | [] |
80,773 | Covid sekventering - SSI | 4 | dx.doi.org/10.17504/protocols.io.j8nlkwqw6l5r/v1 | https://www.protocols.io/view/covid-sekventering-ssi-cs5dwg26 | Theis Hass THTR Thorsen, Sekventeringsenheden SB | TITLE: Covid sekventering - SSI
AUTHORS: Theis Hass THTR Thorsen, Sekventeringsenheden SB
[DESCRIPTION]
Method used at Statens Serum Institut for detection and sequencing of SARS-CoV-2 from saliva tests.
This protocol is specified for high-throughput sequencing of 384 samples - 376 positive SARS-CoV-2 samples + 8 con... | ["[Tagmentering af PCR Amplicons] Start med at navngive en ny 96-brønds PCR plade med \"TAG1\" + et unik ID.", "[Tagmentering af PCR Amplicons] Klargør \"Tagmentation\" MM. \nBenyt nedenstående tabel og gang voluminerne med antallet af prøver (+1-2 prøver for at have nok MM). \nVortex grundigt før brug. \n \n \n ... |
75,315 | MDL-LDA Agile Method | 1 | null | https://www.protocols.io/view/mdl-lda-agile-method-cmstu6en | Freddie Prianes | TITLE: MDL-LDA Agile Method
AUTHORS: Freddie Prianes
[DESCRIPTION]
As a guide in modeling the document labels using Latent Dirichlet allocation for archived documents in an Integrated Quality Assurance System (IQAS), the researchers used the agile method as it promotes flexibility, speed, and, most importantly, contin... | ["[MDL-LDA Methodology] Plan: the researchers collected previous documents involved in the accreditation process, such as compliance reports under the areas of student, faculty, facility, library, and administration. Also, understanding of the existing problems in tracking, tagging, and duplication of these documents d... |
null | null | null | dx.doi.org/10.17504/protocols.io.ictcawn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
79,271 | Quantitation of Anticoagulant Rodenticides in Serum | 1 | dx.doi.org/10.17504/protocols.io.eq2ly752mlx9/v1 | https://www.protocols.io/view/quantitation-of-anticoagulant-rodenticides-in-seru-crnfv5bn | kyle.francis, megan.romano, Rupam Sarma | TITLE: Quantitation of Anticoagulant Rodenticides in Serum
AUTHORS: kyle.francis, megan.romano, Rupam Sarma
[DESCRIPTION]
This SOP describes the extraction and sample clean-up method for the quantitative determination of eight anticoagulant rodenticides in animal serum. Analytes were extracted with 10% (v/v) acetone i... | ["[Prepared Reagents] 10% (v/v) Acetone in Methanol: Transfer 25 mL acetone to a 250-mL graduated cylinder and bring to a total volume of 250 mL with methanol.", "[Prepared Reagents] Primary Stock Solutions – 1000 ug/mL: For each anticoagulant rodenticide, dissolve 5.0 ± 0.1 mg standard reference material in 5 mL of th... |
82,915 | Physician Re-Entry: Scoping Review Protocol | 1 | dx.doi.org/10.17504/protocols.io.n2bvj85kwgk5/v1 | https://www.protocols.click/view/physician-re-entry-scoping-review-protocol-cu8bwzsn | Arshan Goudarzi, Charles S. Dorris MLIS, Anjali Gupta MD | TITLE: Physician Re-Entry: Scoping Review Protocol
AUTHORS: Arshan Goudarzi, Charles S. Dorris MLIS, Anjali Gupta MD
[DESCRIPTION]
Objective: The objective of this scoping review is to assess the extent of literature on re-entry to understand how re-entry is defined, the main reasons for career breaks and re-entry, ch... | ["[Introduction] Physicians are taking breaks for a variety of reasons. 40% of women physicians reduce hours or exit within six years of residency training (Frank et al., 2019). Additionally, nearly half of all inactive physicians are primary care physicians (Jewett et al., 2011). Reasons for taking time off, the amoun... |
90,368 | Protocol to capture images of produce items using the AI enabled Grader App | 5 | dx.doi.org/10.17504/protocols.io.e6nvwd879lmk/v2 | https://www.protocols.io/view/protocol-to-capture-images-of-produce-items-using-c4g8ytzw | Anjali Sharma | TITLE: Protocol to capture images of produce items using the AI enabled Grader App
AUTHORS: Anjali Sharma
[DESCRIPTION]
This protocol describes steps to capture, annotate, and label produce items as good or bad using the Grader App. The grader app is part of a larger system of systems conceived, designed, and develope... | ["[Procedure] Setup & Calibration", "[Procedure] Install the designated food image collection app on your mobile phone.", "[Procedure] Position the mobile phone on a stabilizing device or tripod to ensure consistent image angles and reduce camera shake.", "[Procedure] Use the calibration card to calibrate the camera's ... |
53,778 | Overlap & Gibson ligation | 4 | dx.doi.org/10.17504/protocols.io.byrspv6e | https://www.protocols.io/view/overlap-amp-gibson-ligation-byrspv6e | Shuning Guo | TITLE: Overlap & Gibson ligation
AUTHORS: Shuning Guo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is used to lagate two pieces of DNA together without digesting the fragment with restriction endonucleases.</div></div>
[STEPS]
?. Ligation of two DNA fragments by using cases belo... | ["Ligation of two DNA fragments by using cases below.", "[Preparation of linearized vectors]\nSelect an appropriate cloning site on the vector that will be linearized.", "[Preparation of linearized vectors]\nVector linearization: the linearized vector can be obtained by digesting the circular vector with restriction e... |
61,494 | Getting started with Micro-Meta App Tutorial | 5 | null | https://www.protocols.io/view/getting-started-with-micro-meta-app-tutorial-b8awrsfe | Alessandro Rigano, Mathias Hammer, Joel Ryan, Claire M. Brown, David Grunwald, Caterina Strambio De Castillia | TITLE: Getting started with Micro-Meta App Tutorial
AUTHORS: Alessandro Rigano, Mathias Hammer, Joel Ryan, Claire M. Brown, David Grunwald, Caterina Strambio De Castillia
[DESCRIPTION]
For quality, interpretation, reproducibility, and sharing value, microscopy images should be accompanied by detailed descripti... | ["[Before the tutorial] Video introduction", "[Tutorial - 1 - Download and Install Micro-Meta App] Download Micro-Meta App\n\nFollow the instructions in this step and in Video 3 of the tutorial series to download and install the stand-alone version of the Micro-Meta App.", "[Tutorial - 1 - Download and Install Micro-Me... |
38,103 | Visually guided aspiration of fluorescently labelled single neurons from acute midbrain slices followed by Smart-seq2 | 4 | dx.doi.org/10.17504/protocols.io.bhfxj3pn | https://www.protocols.io/view/visually-guided-aspiration-of-fluorescently-labell-bhfxj3pn | Oriol Pavon Arocas, Sarah F. Olesen, Tiago Branco | TITLE: Visually guided aspiration of fluorescently labelled single neurons from acute midbrain slices followed by Smart-seq2
AUTHORS: Oriol Pavon Arocas, Sarah F. Olesen, Tiago Branco
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">To link the expression of ion channels, receptors, and molecular eff... | ["[General considerations]\nThis protocol has been adapted and modified from:S. Picelli, O. Faridani, Å. Björklund, et al. Nature Protocols 2014. Full-length RNA-seq from single cells using Smart-seq2. DOI: https://doi.org/10.1038/nprot.2014.006Petr Znamenskiy - Benchling Protocol 2015 - Single cell RNAseq from acute c... |
63,435 | CardioDefend (PAIN RELIEF) DOES IT TRULY WORK? | 3 | dx.doi.org/10.17504/protocols.io.n92ldzj99v5b/v1 | https://www.protocols.io/view/cardiodefend-pain-relief-does-it-truly-work-b97jr9kn | Tzachi H | TITLE: CardioDefend (PAIN RELIEF) DOES IT TRULY WORK?
AUTHORS: Tzachi H
[DESCRIPTION]
As you can see, they both work. You just have to find that which works for your unique situation and decide.
[STEPS] | [] |
84,848 | Title Abstract Screening in Sysrev | 1 | null | https://www.protocols.io/view/title-abstract-screening-in-sysrev-cw4qxgvw | Melanie Gainey | TITLE: Title Abstract Screening in Sysrev
AUTHORS: Melanie Gainey
[DESCRIPTION]
This protocol contains instructions on how to do the first stage of screening, called title abstract screening, in the Sysrev platform. Contact Melanie Gainey (mgainey@andrew.cmu.edu) if you are having any issues or have questions.
[STEP... | ["Create an account in Sysrev (https://sysrev.com/).", "Use this link to join our project: [insert link to project]", "These instructions and the Inclusion Exclusion criteria are linked in the Project Description field for easy access.", "Click on Review on the home screen to begin screening articles.", "Read the title... |
17,442 | Abundance of fungal hyphae in seawater by epifluorescence microscopy using Calcofluor White stain method | 1 | dx.doi.org/10.17504/protocols.io.36wgq933klk5/v1 | https://www.protocols.click/view/abundance-of-fungal-hyphae-in-seawater-by-epifluor-vaae2ae | M.H. Gutiérrez | TITLE: Abundance of fungal hyphae in seawater by epifluorescence microscopy using Calcofluor White stain method
AUTHORS: M.H. Gutiérrez
[DESCRIPTION]
Protocol to stain fungal hyphae from seawater with Calcofluor White.
[GUIDELINES]
References
Damare S, Raghukumar C (2008) Fungi and macroaggregation in... | ["[Collection] Collect samples in sterile 50 mL polypropylene tubes and fix with formaldehyde or glutaraldehyde (2% final concentration). Store samples at 4 °C in the dark.", "[Stain] Stain filters with the retained material from filtration by applying 600 µLof aqueous 0.1% Calcofluor White directly to sample and filte... |
26,840 | untitled protocol | null | dx.doi.org/10.17504/protocols.io.6fyhbpw | null | Khairil Asnan, Mohd. Sadzan Asram bin Aliming, Aprialdy Idrus, Diana Eka Pratiwi | TITLE: untitled protocol
AUTHORS: Khairil Asnan, Mohd. Sadzan Asram bin Aliming, Aprialdy Idrus, Diana Eka Pratiwi
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify"><span>Cattle's blood component is compressed using centrifuge (5000 rpm for 10 minute... | ["[Sample preparation]\nCompress the whole blood sample from cattle.\n6 ml\n37 °C", "[Sample preparation]\nMix sample with\n[blood sample]\n[NaOH]\n37 °C\ndark green solution with strong odor", "Chelate reaction by adding into the previous mixed sample solution then let it sit for . After that, mixed them by for .\... |
62,858 | Standard Operating Procedure for performing sweep net sampling of host-seeking mosquitoes | 1 | dx.doi.org/10.17504/protocols.io.6qpvr67dovmk/v1 | https://www.protocols.io/view/standard-operating-procedure-for-performing-sweep-b9mir44e | Kyran Staunton, Tanya L Russell, Thomas Burkot | TITLE: Standard Operating Procedure for performing sweep net sampling of host-seeking mosquitoes
AUTHORS: Kyran Staunton, Tanya L Russell, Thomas Burkot
[DESCRIPTION]
This Standard Operating Procedure (SOP) outlines the materials and processes required to perform sweep net sampling of host-seeking adult mosquitoes.
... | ["[Sampling procedure] First, choose a method for standardising the collections: either a set number of sweeps (e.g. 100 sweep) or a set time period (e.g. 10 minutes).", "[Sampling procedure] Walk to the sampling station, situated in an area with cool shade and surrounded by vegetation where mosquitoes are likely to re... |
89,677 | Cell Viability Assay (MTT Assay) Protocol | 4 | null | https://www.protocols.io/view/cell-viability-assay-mtt-assay-protocol-c3tmynk6 | aasirvatham | TITLE: Cell Viability Assay (MTT Assay) Protocol
AUTHORS: aasirvatham
[DESCRIPTION]
The purpose of this experiment is to investigate the effects of forskolin-mediated cAMP activation on the viability of LPS-treated Schwann cells. The immortalized rat RT4-D6P2T (ATCC #CRL-2768) and S16 (ATCC #CRL-2941) cell lines were ... | ["[To perform one (1) MTT assay:] Aseptically culture immortalized rat RT4-D6P2T Schwann cells (ATCC, Cat #CRL-2768, Manassas, VA) or S16 Schwann cells (ATCC, Cat #CRL-2941, Manassas, VA) in Dulbecco’s Modified Eagle Medium (DMEM) (ATCC, Cat #30-2002, Manassas, VA) supplemented with 10% fetal bovine serum (FBS) (Thermo... |
84,689 | Effect of umbilical cord mesenchymal stem cells with/without silymarin on apoptosis, immunomodulation, proliferation, and necrosis of HepG2 cells | 1 | dx.doi.org/10.17504/protocols.io.3byl4qke8vo5/v1 | https://www.protocols.click/view/effect-of-umbilical-cord-mesenchymal-stem-cells-wi-cwxrxfm6 | pauluskusnantouns | TITLE: Effect of umbilical cord mesenchymal stem cells with/without silymarin on apoptosis, immunomodulation, proliferation, and necrosis of HepG2 cells
AUTHORS: pauluskusnantouns
[DESCRIPTION]
Background: Liver cirrhosis and liver cancer are the main problems of liver disease, and liver
cirrhosis is the 11th leading ... | ["[MSC Isolation and Culture] MSCs were obtained from the healthy donor's umbilical cord and processed\nwithin 48 hours after cesarean section. Umbilical cords were delivered in a\nsterilized bottle with buffer saline. Under the biosafety cabinet, cords were\nwashed with phosphate buffer saline (PBS) to remove any cont... |
97,075 | Nanopore Sequencing of poliovirus isolates | 0 | dx.doi.org/10.17504/protocols.io.14egn6beql5d/v1 | https://www.protocols.io/view/nanopore-sequencing-of-poliovirus-isolates-da2t2gen | Catherine Troman, Erika Bujaki, Joyce Akello, Shannon Fitz, Alex Shaw, Javier Martin, Nick Grassly | TITLE: Nanopore Sequencing of poliovirus isolates
AUTHORS: Catherine Troman, Erika Bujaki, Joyce Akello, Shannon Fitz, Alex Shaw, Javier Martin, Nick Grassly
[DESCRIPTION]
This protocol is adapted from "Direct Detection of poliovirus and Nanopore Sequencing (DDNS) - Stool" to make it suitable for use with cell culture... | ["[Sample Organisation] Pairs of samples (with the same EPID) can have consecutive barcodes but try not to group samples from the same geographic area together. This helps detect any potential cross-contamination because identical sequences are then unlikely to be detected in samples with consecutive barcodes that are ... |
51,837 | SMART-Seq | 1 | dx.doi.org/10.17504/protocols.io.bwu5pey6 | https://www.protocols.io/view/smart-seq-bwu5pey6 | cecilia , Suzie Alarcon, Alessandro Sette | TITLE: SMART-Seq
AUTHORS: cecilia , Suzie Alarcon, Alessandro Sette
[DESCRIPTION]
This protocol details the cell lysis / Oligot-dT priming, reverse transcription, PCR preamplification and quality Check cDNA and tagmentation reaction.
[STEPS]
SECTION: Cell Lysis / Oligot-dT Priming
1.
Dilute the oligo-dT30VN prim... | ["[Cell Lysis / Oligot-dT Priming] Dilute the oligo-dT30VN primer to 10 Micromolar (µM) by adding 10 µL of 100 Micromolar (µM) oligo-dT primers and 90 µL of nuclease-free water to a tube and mix well.", "[Cell Lysis / Oligot-dT Priming] Prepare cell lysis buffer by adding 1 µL of RNase inhibitor to 19 µL of a 0.2% (vol... |
13,885 | Nipah virus real-time RT-PCR (NiV-TM2018) | null | dx.doi.org/10.17504/protocols.io.rs5d6g6 | null | Ian Mackay, Judy Northill | TITLE: Nipah virus real-time RT-PCR (NiV-TM2018)
AUTHORS: Ian Mackay, Judy Northill
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The protocol aims to specifically amplify Nipah viruses (NiV) and not other viruses.</div><div class = "text-block">This is a modified version of a published assay. </d... | ["[Oligonucleotide sequences]\nAB1NameSequence 5'-3'2NiV-N-TM2018_ForCTGGTCTCTGCAGTTATCACCATCGA3NiV-N-TM2018_RevACGTAYTTAGCCCATCTTCTAGTTTCA4NiV-N-TM2018_PrbFAM – CAGCTCCMGACACTGCCGAGGA– BHQ1MODIFICATIONS TO THE PUBLISHED ASSAY:Forward primer is unmodified from that described in the original paperReverse primer has a de... |
null | null | null | dx.doi.org/10.17504/protocols.io.ktbcwin | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A broth used to grow bacteria</p>
[BEFORE_START]
<p>Need an autoclave machine</p>
[STEPS]
?.
?.
?. | [] |
40,765 | ELISA for quantification of IL-5 in human serum. | 6 | dx.doi.org/10.17504/protocols.io.bj25kqg6 | https://www.protocols.io/view/elisa-for-quantification-of-il-5-in-human-serum-bj25kqg6 | Angel Justiz-Vaillant | TITLE: ELISA for quantification of IL-5 in human serum.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>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-5 coating antibody is adsorbed onto microwells by incubation overnight at 4°C.", "Add 50 µl of human serum. Human IL-5 present in the serum sample binds to antibodies adsorbed to the microwells.", "The microplate is blocked with 3% non-fat milk-PBS buffer and later wash o remove unbound proteins.", ... |
null | null | null | dx.doi.org/10.17504/protocols.io.j9gcr3w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Genomic DNA was extracted from white blood cells (PAXgene-RNA tubes) using the PAXgene blood RNA kit (QIAGEN, Hilden, Germany) according to the manufacturer's instructions (PAXgene blood RNA kit handbook version 2, April 2008). Taget gene and adjacent DNA exons and SNP analys... | [] |
92,932 | Identification of Cancer-specific Constituent Elements inside Super-enhancers (cSEAdb) | 5 | dx.doi.org/10.17504/protocols.io.kxygx38wzg8j/v1 | https://www.protocols.io/view/identification-of-cancer-specific-constituent-elem-c6zczf2w | Xiang Liu, Nancy Gillis, Chang Jiang, Anthony McCofie, Timothy I Shaw, Aik-Choon Tan, Bo Zhao, Lixin Wan, Derek R Duckett, Mingxiang Teng | TITLE: Identification of Cancer-specific Constituent Elements inside Super-enhancers (cSEAdb)
AUTHORS: Xiang Liu, Nancy Gillis, Chang Jiang, Anthony McCofie, Timothy I Shaw, Aik-Choon Tan, Bo Zhao, Lixin Wan, Derek R Duckett, Mingxiang Teng
[DESCRIPTION]
Super enhancers (SE) are large genomic elements composed of mul... | ["[Enhancer and super-enhancer identification in each cancer cell line/sample] H3K27Ac ChIP-seq data acquisition\n\nDownload raw H3K27ac ChIP-seq data of NCI-60 human cancer cell lines from GEO\nrepositories with accession ID GSE143653. Fastq files of 60 cancer cell lines with two H3K27Ac replicates and one INPUT repli... |
83,666 | Pythium Zoospore Production Soaking Solution | 4 | null | https://www.protocols.click/view/pythium-zoospore-production-soaking-solution-cvxsw7ne | Nimalka M Weerasuriya | TITLE: Pythium Zoospore Production Soaking Solution
AUTHORS: Nimalka M Weerasuriya
[DESCRIPTION]
Creation of soaking solutions for Pythium myriotylum to be used for large-scale zoospore production.
[STEPS]
SECTION: Soaking Solutions
2. Make soaking solutions 1, 2 and 3:
SECTION: Preparation
1. Have mature colonie... | ["[Soaking Solutions] Make soaking solutions 1, 2 and 3:", "[Preparation] Have mature colonies of verified Pythium myriotylum growing on CMA or 1.5-2% WA. Colony maturity ~7 days, with visible oospores.", "[Soaking Solutions] Soaking Solution #1, 0.01 Molarity (m) (1 L):\n1 L RO water at pH 7 in 1 L beaker\nAdd 1 g CaC... |
28,933 | Quantitative paper ELONA | null | dx.doi.org/10.17504/protocols.io.8hdht26 | null | Manuela de las Casas | TITLE: Quantitative paper ELONA
AUTHORS: Manuela de las Casas
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The aim of this protocol is to check the efficiency of the detection system that will be present in the strips. </div><div class = "text-block">Like the qualitative assay, this is a dot blot... | ["[Preparing the nitrocellulose strip]\nSet the hot plate to 100ºC or at least warm enough to melt the wax. Cut a small amount from one of the wax pencils and place it on a Petri dish. Set the Petri dish on the hot plate and wait for the wax to melt. Cut a strip from the nitrocellulose sheet with the desired size.Once... |
null | null | null | dx.doi.org/10.17504/protocols.io.sdpea5n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A basic Western Blot protocol that has been optimized specifically for cell lysates.</p>
[BEFORE_START]
<p>You will need to optimize the weight of your running gel before you begin. Most proteins will be separated with 8%-12% acrylamide gels. If your protein runs off your ge... | [] |
60,564 | Human_Tissue_Nuclei_Isolation_Protocol_2021_10_18 | 1 | dx.doi.org/10.17504/protocols.io.5qpvoboy7l4o/v1 | https://www.protocols.io/view/human-tissue-nuclei-isolation-protocol-2021-10-18-b7duri6w | Kimberly Paquette | TITLE: Human_Tissue_Nuclei_Isolation_Protocol_2021_10_18
AUTHORS: Kimberly Paquette
[DESCRIPTION]
Homebrew protocol to isolate nuclei from human frozen brain tissue.
[STEPS]
SECTION: Working Solutions: PBSTA (3mL) without TritonX-100
3.
Solution Final Conc 1 RXN 5.2 RXN 10x PBS 1x 300uL 1560uL ... | ["[Working Solutions: PBSTA (3mL) without TritonX-100] Solution Final Conc 1 RXN 5.2 RXN 10x PBS 1x 300uL 1560uL 1M MgCl2 3mM 9uL 46.8uL D-Sucrose (342.29) 0.3M 0.3081g 1.602g ** RNasein (add on day) 0.4 U/uL 30uL 156uL Ultrapure Water Fill to: 3mL Fill to: 15.6mL \n Add most of the U... |
30,122 | Safety Study of Wireless Fecobionics Device | 1 | dx.doi.org/10.17504/protocols.io.9nih5ce | https://www.protocols.io/view/safety-study-of-wireless-fecobionics-device-9nih5ce | Yanmin Wang, Ghassan Kassab, Hans Gregersen, Patel Bhavesh | TITLE: Safety Study of Wireless Fecobionics Device
AUTHORS: Yanmin Wang, Ghassan Kassab, Hans Gregersen, Patel Bhavesh
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">We developed a novel wireless device (Fecobionics) for mapping colonic and anorectal neuromuscular function. Our hypothesis is that t... | [] |
56,563 | Automated Protein Normalization and Tryptic Digestion on a Biomek-NX Liquid Handler System | 1 | dx.doi.org/10.17504/protocols.io.b3gtqjwn | https://www.protocols.io/view/automated-protein-normalization-and-tryptic-digest-b3gtqjwn | Yan Chen, Tad Ogorzalek, Nurgul Kaplan Lease, Jennifer Gin, Christopher J Petzold | TITLE: Automated Protein Normalization and Tryptic Digestion on a Biomek-NX Liquid Handler System
AUTHORS: Yan Chen, Tad Ogorzalek, Nurgul Kaplan Lease, Jennifer Gin, Christopher J Petzold
[DESCRIPTION]
This protocol details steps to normalize the amount of protein for tryptic digestion in quantitative proteomic w... | ["[Biomek NX-S8 input file preparation] After measuring protein concentration by the DC (Detergent Compatible) protein assay (Bio-Rad), export protein concentration report through MD Spectramax 250 software that controls the microplate reader. Copy the content in the exported text file and paste it into Excel, and the... |
105,090 | ANTIBIOGRAM AND PREVALENCE OF ESBL GENES IN COMMENSAL E. COLI ISOLATED FROM THE RESIDENTS OF GHANAIAN ELDERLY NURSING CARE HOMES | 0 | dx.doi.org/10.17504/protocols.io.36wgqnyokgk5/v1 | https://www.protocols.io/view/antibiogram-and-prevalence-of-esbl-genes-in-commen-diva4e2e | Emmanuel Odartei Armah, Lawrencia Osae Nyarko, Mawutor Kwame Ahiabu, Agyapong Isaac, Idun Bright, Kwarteng Freda Boampong, Oppong Mercy, Mohammed Naael, Fleischer C. N Kotey, Osei-Atweneboana Mike Yaw, Dayie Nicholas | TITLE: ANTIBIOGRAM AND PREVALENCE OF ESBL GENES IN COMMENSAL E. COLI ISOLATED FROM THE RESIDENTS OF GHANAIAN ELDERLY NURSING CARE HOMES
AUTHORS: Emmanuel Odartei Armah, Lawrencia Osae Nyarko, Mawutor Kwame Ahiabu, Agyapong Isaac, Idun Bright, Kwarteng Freda Boampong, Oppong Mercy, Mohammed Naael, Fleischer C. N Kotey,... | ["[Isolation of Escherichia coli.] The urine samples were cultured on\nCystine-Lactose-Electrolyte-Deficient CLED agar for primary isolation.\nPresumptive E. coli, which appeared\nas yellow colonies, smooth, round, and moist after 24 hours of incubation were\nkept in nutrient broth to await secondary isolations. For s... |
92,095 | Toe separators - a systematic review protocol. | 1 | dx.doi.org/10.17504/protocols.io.eq2lyjqkwlx9/v1 | https://www.protocols.io/view/toe-separators-a-systematic-review-protocol-c567y9hn | Hanna Krześniak, Aleksandra Truszczynska-Baszak | TITLE: Toe separators - a systematic review protocol.
AUTHORS: Hanna Krześniak, Aleksandra Truszczynska-Baszak
[DESCRIPTION]
Toe separators, also known as toe spacers or toe spreaders, have gained significant attention in recent years for their potential therapeutic benefits in various foot conditions. This scientific... | ["[Toe separators - a systematic review protocol] 1. Define the Research Question: Clearly articulate the research question or objective of the systematic review on toe separators. This should include the specific population, intervention (toe separators), comparison (if applicable), outcomes of interest, and study des... |
88,668 | Village Nuclei Isolation With Optiprep | 4 | dx.doi.org/10.17504/protocols.io.n2bvj3dxblk5/v1 | https://www.protocols.io/view/village-nuclei-isolation-with-optiprep-c2t4yeqw | liv_spina, Tara McDonald, Nora Reed, Alyssa Lutservitz | TITLE: Village Nuclei Isolation With Optiprep
AUTHORS: liv_spina, Tara McDonald, Nora Reed, Alyssa Lutservitz
[DESCRIPTION]
Isolation of nuclei from fresh-frozen brain tissue from sets of multiple (typically 2-20) human donors for analysis as a “cell village” (Wells et al., PMID 36796362) in which nuclei from all dono... | ["[Before Starting] Gather Supplies\nScalpels\nGlass slides\n14 mL Dounce\n20 µm vacuum filter\nEppendorf tubes (1.5 mL and 5 mL)\nEppendorf or Rainin pipette tips\nDry ice\nMetal plate\nOCT (Optimal cutting temperature compound)\nRNAse free water\nCell counting supplies (LUNA-FL)\nOther Reagents:\nPBS\nBSA\nRNAse inhi... |
52,232 | Measuring non-healthcare occupational exposure to SARS-CoV-2 across occupational groups in the United States | 1 | dx.doi.org/10.17504/protocols.io.bw9gph3w | https://www.protocols.io/view/measuring-non-healthcare-occupational-exposure-to-bw9gph3w | Michael Walsh | TITLE: Measuring non-healthcare occupational exposure to SARS-CoV-2 across occupational groups in the United States
AUTHORS: Michael Walsh
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">This protocol explains how to characterize non-healthcare occupa... | ["Implement the steps outlined in Protocol_Final_Walsh_2021.pdf. (Attached)"] |
65,555 | Colony formation assay in Matrigel | 4 | dx.doi.org/10.17504/protocols.io.q26g747k3gwz/v1 | https://www.protocols.io/view/colony-formation-assay-in-matrigel-cb9tsr6n | Goran Tomic | TITLE: Colony formation assay in Matrigel
AUTHORS: Goran Tomic
[DESCRIPTION]
This is a colony formation assay that I have set up as an alternative to soft-agar assay. It is based on a 3D on-top assay (Lee et al. 2007, 4, 4, 359) https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2933182/
[STEPS]
1.
Thaw Matrigel on ice a... | ["Thaw Matrigel on ice at 4 C overnight. Prechill one 48-well plate, 200 uL box of tips.", "Coat prechilled culture surface with a thin layer of Matrigel (80 uL per well in a 48-well plate)\nIncubate for 20 min at 37C to allow to gel", "Trypsinise cells (Filter through a 40 um mesh to make single cells)\nAliquot cells ... |
null | null | null | dx.doi.org/10.17504/protocols.io.jwucpew | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>These are the recipes for blocking and rinsing agents for the quantitative immunoblotting protocol from the Campbell Lab.</p>
[STEPS] | [] |
29,713 | DIFFPREP for DTI Processing and Corrections | null | dx.doi.org/10.17504/protocols.io.89rhz56 | null | Courtney Comrie | TITLE: DIFFPREP for DTI Processing and Corrections
AUTHORS: Courtney Comrie
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol will provide a basic guide to utilizing the DIFFPREP tool in TORTIOSE.</div><div class = "text-block">Note: Steps may vary based upon image.</div></div>
[STEPS]
... | ["[Introduction]\nDIFFPREP is a distortion and motion correction module in TORTOISE. When processing MR images you will commonly start with DIFFPREP for corrections.", "[Beginning Steps]\nBuild your directory in the terminal, and make sure to use copied raw data for processing", "[Beginning Steps]\nIn the terminal go t... |
55,563 | Factors associated with dementia-related stigma and associated domains in adolescents: A Systematic Review Protocol | 3 | dx.doi.org/10.17504/protocols.io.b2hjqb4n | https://www.protocols.io/view/factors-associated-with-dementia-related-stigma-an-b2hjqb4n | Mrs Esra Hassan, Prof Naji Tabet, Nicolas Farina | TITLE: Factors associated with dementia-related stigma and associated domains in adolescents: A Systematic Review Protocol
AUTHORS: Mrs Esra Hassan, Prof Naji Tabet, Nicolas Farina
[DESCRIPTION]
Background: To develop evidence-based anti-stigma programmes for adolescents, underlying factors that drive dementia-rel... | [] |
67,819 | Production of cellular reagents using IPTG | 4 | null | https://www.protocols.io/view/production-of-cellular-reagents-using-iptg-cegjtbun | Shalo Minette, Jenny Molloy, Nadine Mowoh, Stephane Fadanka | TITLE: Production of cellular reagents using IPTG
AUTHORS: Shalo Minette, Jenny Molloy, Nadine Mowoh, Stephane Fadanka
[DESCRIPTION]
This protocol documents the production of cellular reagents.
Cellular reagents are defined as common molecular biology enzymes expressed in E.coli but not subsequently pu... | ["[Preparation of overnight starter culture] From glycerol stock\n\nRemove the glycerol stock from -20°C.\nOpen the tube and use a sterile loop, sterile toothpick or sterile pipette tip to scrape some of the frozen bacteria off the top. Do not let the glycerol stock thaw!\nStreak onto LB agar plate which contains appro... |
47,480 | Microalgae fixation for FCM | 4 | null | https://www.protocols.io/view/microalgae-fixation-for-fcm-bskyncxw | Victoria Jackson | TITLE: Microalgae fixation for FCM
AUTHORS: Victoria Jackson
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for fixing microalgae for later enumeration by flow cytometry.</div></div>
[STEPS]
?. [Preparation]
Aliquot of 50% gluteraldehyde into each of 3 cryovials.
2 µl
Use a fume hood for... | ["[Preparation]\nAliquot of 50% gluteraldehyde into each of 3 cryovials.\n2 µl\nUse a fume hood for this step.", "[Sample fixation]\nAdd of microalgal cell culture sample to each of the 3 cryovials for a final concentration of gluteraldehyde.\n198 µl", "[Sample fixation]\nMix the sample with the gluteraldehyde by fl... |
85,222 | Research on ERIH PLUS approved SSH journals present in OpenCitations Meta database | 5 | dx.doi.org/10.17504/protocols.io.5jyl8jo1rg2w/v4 | https://www.protocols.click/view/research-on-erih-plus-approved-ssh-journals-presen-cxgexjte | Ali Ghasempouri, maddalena.ghiotto, sebastiano.giacomini | TITLE: Research on ERIH PLUS approved SSH journals present in OpenCitations Meta database
AUTHORS: Ali Ghasempouri, maddalena.ghiotto, sebastiano.giacomini
[DESCRIPTION]
In this study, we present a comprehensive workflow to assess the coverage of publications in Social Science and Humanities (SSH) journals indexed in... | ["[Retrieve OpenCitation Meta publication and Journals that are registered in ERIH-PLUS index] Starting from the ERIH-PLUS index of Social Science and Humanities approved journals dataset \n (downloaded 27/04/2023) we want to retrieve all the publications belonging to one of those journals, included in OpenCitations M... |
null | null | null | dx.doi.org/10.17504/protocols.io.dnj5cm | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
-I prepare 8% PFA (w/v) because I like to fix cells without even removing medium (because of the microtubules). If you want to use it 4% you can just dilute 1:1 with fresh PBS1X.<br /><br />- Usually prepare about 250ml batches each time so you'd need ~20g of paraformaldehyde. B... | [] |
51,695 | Cell culture, transfection, immunocytochemistry, and imaging | 1 | dx.doi.org/10.17504/protocols.io.eq2lyp55mlx9/v1 | https://www.protocols.io/view/cell-culture-transfection-immunocytochemistry-and-bwqppdvn | Michael G G Hanna, Pietro De Camilli | TITLE: Cell culture, transfection, immunocytochemistry, and imaging
AUTHORS: Michael G G Hanna, Pietro De Camilli
[DESCRIPTION]
This protocol is to help with the maintenance, transfection, immunocytochemistry, and imaging of adherent mammalian cells associated with the publication DOI above.
[STEPS]
SECTION: A. Gener... | ["[A. General cell culture] Culture COS-7 or HeLa (wild-type, parental control, and all knock-in lines) cells at 37 °C and 5 % in DMEM (Gibco, #11965118) containing 10 %, 1 millimolar (mM), 100 U/mL, 100 mg/mL (Gibco/LifeTech, #15140-122) and 2 millimolar (mM) (Gibco/LifeTech, #25030-081).", "[A. General cell culture] ... |
62,993 | Liberty CBD Gummy Bears - ALERT! YOU WON’T BELIEVE THIS REPORT! | 3 | dx.doi.org/10.17504/protocols.io.ewov1n7dkgr2/v1 | https://www.protocols.io/view/liberty-cbd-gummy-bears-alert-you-won-t-believe-th-b9rrr556 | H Shi | TITLE: Liberty CBD Gummy Bears - ALERT! YOU WON’T BELIEVE THIS REPORT!
AUTHORS: H Shi
[DESCRIPTION]
These are the significant medical advantages which an individual can undoubtedly acquire from this arrangement. There will be no further issues in the body while consuming this enhancement. One simply should be customa... | [] |
78,631 | Preparing ONT-tagged Primers and Master Mix for Fungal DNA Barcoding | 4 | dx.doi.org/10.17504/protocols.io.yxmvmnzxng3p/v3 | https://www.protocols.io/view/preparing-ont-tagged-primers-and-master-mix-for-fu-cq2fvybn | Stephen Douglas Russell | TITLE: Preparing ONT-tagged Primers and Master Mix for Fungal DNA Barcoding
AUTHORS: Stephen Douglas Russell
[DESCRIPTION]
ONT primer preparation has two specific aspects that are unique when comparing to Sanger sequencing protocols. The first is that each primer needs to be "tagged" - a unique ~10-15bp sequence... | ["[Ordering ONT-tagged Primers] - Determine how many unique primers you need to order. Ex - If you are planning to utilize a Flongle cell with up to 960 specimens, you would need to order ten unique forward ONT-tagged primers. If you hope to use a 10.4.1 cell with 10,000+ specimens, you would need to order at least 105... |
33,189 | The prognostic role of serum uric acid levels in preeclampsia: a meta-analysis | null | dx.doi.org/10.17504/protocols.io.bcndiva6 | null | Ioannis Bellos, Vasilios Pergialiotis, Dimitrios Loutradis, Georgios Daskalakis | TITLE: The prognostic role of serum uric acid levels in preeclampsia: a meta-analysis
AUTHORS: Ioannis Bellos, Vasilios Pergialiotis, Dimitrios Loutradis, Georgios Daskalakis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The present meta-analysis will assess the possible association of serum uric ... | ["Review title: The prognostic role of serum uric acid levels in preeclampsia: a meta-analysis", "Review question: The meta-analysis aims to clarify whether uric acid levels are altered in preeclampsia compared to normotensive pregnant women. Also, it will be evaluated whether uric acid levels differ in the severe form... |
60,199 | Ganglia dissociation and single-cell sorting | 4 | dx.doi.org/10.17504/protocols.io.14egn79e6v5d/v1 | https://www.protocols.io/view/ganglia-dissociation-and-single-cell-sorting-b62frgbn | Seoeun Lee, Daniele Neri, Lori Zeltser | TITLE: Ganglia dissociation and single-cell sorting
AUTHORS: Seoeun Lee, Daniele Neri, Lori Zeltser
[DESCRIPTION]
Protocol to dissociate freshly harvested stellate ganglia into single neurons and to sort them based on fluorescence
[BEFORE_START]
We modified the dissociation methods from protocols previously publis... | ["[Cleaning the tissue] Place a freshly harvested Stellate Ganglion (SG) into an ice-chilled Earle’s Balanced Salt Solution (EBSS) that was equilibrated to 95% CO2/ 5% O2 for 1 hour", "[Cleaning the tissue] Carefully remove fat and connective tissue from the SG, and then transfer the SG to a new dish containing cold eq... |
23,004 | Anxiety, depression and associated factors among patients with epilepsy attending at outpatients of Ayder Referral, Mekelle and Adigrat Hospitals, Tigray, Ethiopia: A cross - sectional study | 3 | dx.doi.org/10.17504/protocols.io.2p4gdqw | https://www.protocols.click/view/anxiety-depression-and-associated-factors-among-pa-2p4gdqw | Gessessew Teklebrhan Gebrehiwot, Bizuneh Tesfaye Molla, Asrat Chaka Gizaw, Yodit Habtamu Bezabh | TITLE: Anxiety, depression and associated factors among patients with epilepsy attending at outpatients of Ayder Referral, Mekelle and Adigrat Hospitals, Tigray, Ethiopia: A cross - sectional study
AUTHORS: Gessessew Teklebrhan Gebrehiwot, Bizuneh Tesfaye Molla, Asrat Chaka Gizaw, Yodit Habtamu Bezabh
[DESCRIPTION]
In... | [] |
57,357 | Post-IMS Autofluorescence Microscopy | 1 | dx.doi.org/10.17504/protocols.io.3byl47kx2lo5/v2 | https://www.protocols.io/view/post-ims-autofluorescence-microscopy-b39mqr46 | Heath Patterson, Angela Kruse, Jamie Allen, Katerina V Djambazova, Madeline E. Colley, Danielle Gutierrez, Jeff Spraggins | TITLE: Post-IMS Autofluorescence Microscopy
AUTHORS: Heath Patterson, Angela Kruse, Jamie Allen, Katerina V Djambazova, Madeline E. Colley, Danielle Gutierrez, Jeff Spraggins
[DESCRIPTION]
Scope:
Obtain autofluorescence microscopy images of tissues after IMS analysis
Expected Outcome:
A brightfield and green autof... | ["Place microscope slide within adapter and insert into the Zeiss AxioScan Z1 Slide Scanner. Be sure to orient the slide with the label facing downward in the adapter. \n\nFor registration with IMS, match the orientation of the slides within the Zeiss adapter and the Bruker two-slide holder.", "Press 'Start Scan' to be... |
92,123 | Protocol for longitudinal imaging of the taste bud in vivo with two-photon laser scanning microscopy | 1 | dx.doi.org/10.17504/protocols.io.eq2lyjqoelx9/v1 | https://www.protocols.io/view/protocol-for-longitudinal-imaging-of-the-taste-bud-c573y9qn | Brittany N Walters, Zachary D Whiddon, Aaron W McGee, Robin F Krimm | TITLE: Protocol for longitudinal imaging of the taste bud in vivo with two-photon laser scanning microscopy
AUTHORS: Brittany N Walters, Zachary D Whiddon, Aaron W McGee, Robin F Krimm
[DESCRIPTION]
Here we combined chronic in vivo two-photon laser scanning microscopy with genetic sparse labeling of gustatory neurons ... | ["[Preparation of Materials] Construct the breadboard, nosecone, metal plate, and cover glass holder from the products listed under the 'Materials' section.", "[Preparation of Materials] Construct the custom-built imaging platform from the products listed under the 'Materials' section.", "[Preparation of Materials] Sec... |
36,742 | Magnetic bead-based CD4+ T cell isolation from PBMCs with Dynabeads: CD4 Positive Isolation Kit | null | null | https://www.protocols.io/view/magnetic-bead-based-cd4-t-cell-isolation-from-pbmc-bf5ejq3e | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: Magnetic bead-based CD4+ T cell isolation from PBMCs with Dynabeads: CD4 Positive Isolation Kit
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 wor... | ["Isolate PBMCs according either to the standard protocol from fresh blood or from buffy coat.", "Count the cells with Cellometer machine or by manual count, using either Trypan Blue or Türk solutions accordingly.For automatic cell count with Cellometer machine use Trypan Blue. The machine will calculate the n° of cell... |
34,207 | Library preparation from a single amplicon pool | null | dx.doi.org/10.17504/protocols.io.bdm7i49n | null | Josh Quick | TITLE: Library preparation from a single amplicon pool
AUTHORS: Josh Quick
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a subprotocol for generating a library from a single amplicon pool</div></div>
[STEPS]
?. Set up the following reaction for each sample:Component ... | ["Set up the following reaction for each sample:Component VolumeDNA amplicons (5ng/ul) Nuclease-free water Ultra II End Prep Reaction Buffer Ultra II End Prep Enzyme Mix Total\n10 µl\n2.5 µl\n1.75 µl\n0.75 µl\n15 µl", "I... |
44,824 | Discharge preparation and discharge readiness in facilities prior to discharge after birth: a scoping review of the global policies, guidelines and literature | 1 | dx.doi.org/10.17504/protocols.io.bpzymp7w | https://www.protocols.io/view/discharge-preparation-and-discharge-readiness-in-f-bpzymp7w | Helen Smith, portelaa , Chloe Harvey | TITLE: Discharge preparation and discharge readiness in facilities prior to discharge after birth: a scoping review of the global policies, guidelines and literature
AUTHORS: Helen Smith, portelaa , Chloe Harvey
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Despite existence of global recommendat... | [] |
58,666 | Modified Phenol Chloroform Genomic DNA Extraction Protocol from the Christner Lab (University of Florida) | 1 | dx.doi.org/10.17504/protocols.io.b5iiq4ce | https://www.protocols.io/view/modified-phenol-chloroform-genomic-dna-extraction-b5iiq4ce | Shelby J Barnes, Noelle Bryan, Brent Christner, Cameron Thrash | TITLE: Modified Phenol Chloroform Genomic DNA Extraction Protocol from the Christner Lab (University of Florida)
AUTHORS: Shelby J Barnes, Noelle Bryan, Brent Christner, Cameron Thrash
[DESCRIPTION]
Modified Phenol Chloroform genomic DNA Extraction Protocol from the Christner Lab (University of Florida)
[STEPS]
SE... | ["[Lysis] Start with filtered cells OR spin to get pellet from liquid culture.", "[Lysis] Pipette off supernatant, if any.", "[Lysis] Add 380 uL 1x TE Buffer + 20 uL Lysozyme to sample.", "[Lysis] Incubate for 1 h at 37˚C.", "[Lysis] Add 60 uL SDS + 30 uL Proteinase K + 110 uL 1x TE Buffer (total volume = 600 uL) to ... |
null | null | null | dx.doi.org/10.17504/protocols.io.fd2bi8e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Enzyme solution for the isolation of protoplasts suitable for <em>Arabidopsis thaliana</em> and <em>Nicotiana benthamiana</em>. Adapted from Yoo et al. 2007 http://www.nature.com/nprot/journal/v2/n7/full/nprot.2007.199.html</p>
<p>And excellent video from the Sheen Lab is ava... | [] |
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