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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29,262 | Protocol for Standard RNA Synthesis with Hi-T7 RNA Polymerase (NEB #M0658) | null | dx.doi.org/10.17504/protocols.io.8tnhwme | https://www.protocols.io/view/protocol-for-standard-rna-synthesis-with-hi-t7-rna-8tnhwme | New England Biolabs | TITLE: Protocol for Standard RNA Synthesis with Hi-T7 RNA Polymerase (NEB #M0658)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. [Assemble the reaction]
Thaw the necessary kit components, mix and pulse-spin in microfuge to collect solutions to the bottom of the tubes.Assemble... | ["[Assemble the reaction]\nThaw the necessary kit components, mix and pulse-spin in microfuge to collect solutions to the bottom of the tubes.Assemble the reaction at in the following order.\n0 Room temperature\nThe total reaction volume is .", "[Assemble the reaction]\nAdd Nuclease-free H2O: X µl", "[Assemble the re... |
52,118 | Nanovesicles extraction | 4 | dx.doi.org/10.17504/protocols.io.bw5wpg7e | https://www.protocols.io/view/nanovesicles-extraction-bw5wpg7e | Veerle Baekelandt | TITLE: Nanovesicles extraction
AUTHORS: Veerle Baekelandt
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Nanovesicles extraction (Exosomal isolation, SHSY-5Y)</span></div></div>
[STEPS]
?. seed cells for in 3 x 15 cm dishes at a density of 20 x 106 cells per plat... | ["seed cells for in 3 x 15 cm dishes at a density of 20 x 106 cells per plate", "wash cells of all the plates with 2 times of 1x PBS\n10 mL", "Add DMEM with 1% exosome depleted FBS to each plate for Preparation of exosome depleted FBS:Commercial FBS was filtrated through 0.22 µm filter and\n10 mL\nCentrifuge: 140000... |
93,187 | TAB-PAINT imaging of alpha-synuclein fibrils using Nile Red | 4 | dx.doi.org/10.17504/protocols.io.n2bvj31mwlk5/v1 | https://www.protocols.io/view/tab-paint-imaging-of-alpha-synuclein-fibrils-using-c69bzh2n | Ezra Bruggeman | TITLE: TAB-PAINT imaging of alpha-synuclein fibrils using Nile Red
AUTHORS: Ezra Bruggeman
[DESCRIPTION]
This is a protocol for the preparation of a sample of alpha-synuclein fibrils on a PLL-coated cover glass for TAB-PAINT imaging with Nile Red. This protocol was used to generate the data shown in Figure 3 of the fo... | ["[Protocol] Prepare alpha-synuclein fibrils by diluting alpha-synuclein monomer 70 micromolar (µM) in PBS (with 0.01% NaN3) and incubating at 37 °C in a shaker (200 rpm) for over 1440 min. You can store the fibrils at 4 °C for later use.", "[Protocol] Argon plasma clean cover glass (VWR collection, 631-0124) for 30 mi... |
62,743 | Immunostaining of Bodo saltans | 4 | dx.doi.org/10.17504/protocols.io.yxmvmnwp5g3p/v2 | https://www.protocols.io/view/immunostaining-of-bodo-saltans-b9hxr37n | Ewa Chrostek, Mastaneh Ahrar, Gregory Dd Hurst | TITLE: Immunostaining of Bodo saltans
AUTHORS: Ewa Chrostek, Mastaneh Ahrar, Gregory Dd Hurst
[DESCRIPTION]
This protocol is used in our Laboratory in Liverpool to perform IF on Bodo saltans cells.
[STEPS]
SECTION: Culture conditions
1. Bodo saltans was cultured in a cerophyl-based medium enriched with 3.5 mM s... | ["[Culture conditions] Bodo saltans was cultured in a cerophyl-based medium enriched with 3.5 mM sodium phosphate dibasic (Na2HPO4)1. Cultures were incubated at 22 °C in T25 tissue culture flasks containing 20 ml of media bacterized with Klebsiella pneumoniae subsp. Pneumoniae (ATCC® 700831).", "[Immunostaining] Please... |
27,886 | Pt_Cas9-2A-ShBle, g24739-A, mRFP, g24739-B | null | dx.doi.org/10.17504/protocols.io.7gnhjve | null | Mark Moosburner | TITLE: Pt_Cas9-2A-ShBle, g24739-A, mRFP, g24739-B
AUTHORS: Mark Moosburner
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">I am creating this protocol to deposit a plasmid sequence and map. </div><div class = "text-block">The episome contains Cas9-2A-ShBle expression cassette and 2 sgRNA expression ... | [] |
26,699 | Imaging on the multicamera worm tracker-Phenix | null | dx.doi.org/10.17504/protocols.io.6bjhakn | null | Priota Islam | TITLE: Imaging on the multicamera worm tracker-Phenix
AUTHORS: Priota Islam
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Caenorhabditis elegans, a small (adults are ~1 mm long), free-living soil nematode that feeds on bacteria, is an ideal organism for applying various live microscopy techniques.... | ["[Pre-Imaging set-up]\nClean the rectangular glass plate with ethanol and lint free tissue Switch ON the rig (Switch is at the back of the machine) Align the movable part till desired position and lock it by pressing ON (If you want to move it again press EMO, to lock again twist the EMO knob and press ON again) Log i... |
53,921 | Preparation of oleylethylene glycol-sreptavidin surfaces for SPR | 1 | dx.doi.org/10.17504/protocols.io.byv9pw96 | https://www.protocols.io/view/preparation-of-oleylethylene-glycol-sreptavidin-su-byv9pw96 | Dave Fernig, Dunhao Su | TITLE: Preparation of oleylethylene glycol-sreptavidin surfaces for SPR
AUTHORS: Dave Fernig, Dunhao Su
[DESCRIPTION]
Surface plasmon resonance uses gold surfaces for sensing. Manufacturers provide a range of pre-functionalised surfaces, but these are often prone to non-specific binding problems. In other surface sc... | ["[Prepare stock solutions of the thiolated ligands] Using standard plastic micropipettes, with tips that have been autoclaved (this prevents plasticiser on tips transferring into solutions) prepare 5 mL stock solution in cleaned glass vials:\n100 mM thiol PEG in ethanol\n1 mM biotin PEG in ethanol\nThese can be stored... |
50,551 | Efficacy and safety of drug therapy aimed at reducing alcohol consumption in the treatment of alcohol dependence or alcohol use disorders: a systematic review and network meta-analysis | 1 | null | https://www.protocols.io/view/efficacy-and-safety-of-drug-therapy-aimed-at-reduc-bvkxn4xn | Kazumasa Kotake, Tomonari Hosokawa, Masuo Tanaka, Ryuhei So, Masahiro Banno, Yuki Kataoka, Yasuhiko Hashimoto | TITLE: Efficacy and safety of drug therapy aimed at reducing alcohol consumption in the treatment of alcohol dependence or alcohol use disorders: a systematic review and network meta-analysis
AUTHORS: Kazumasa Kotake, Tomonari Hosokawa, Masuo Tanaka, Ryuhei So, Masahiro Banno, Yuki Kataoka, Yasuhiko Hashimoto
[DESCRIP... | [] |
77,191 | PIP MRI Magnetization Transfer Ratio (MTR) Measurement of Myelofibrosis in Mouse Tibia | 1 | dx.doi.org/10.17504/protocols.io.5jyl8jwy8g2w/v2 | https://www.protocols.io/view/pip-mri-magnetization-transfer-ratio-mtr-measureme-cpmfvk3n | Thomas L Chenevert | TITLE: PIP MRI Magnetization Transfer Ratio (MTR) Measurement of Myelofibrosis in Mouse Tibia
AUTHORS: Thomas L Chenevert
[DESCRIPTION]
The goal of this Co-Clinical Imaging Research Program (CIRP) pre-clinical imaging protocol (PIP) is to provide detailed description of key steps used to achieve a stated level of tech... | [] |
64,066 | Open Field Protocol | 1 | dx.doi.org/10.17504/protocols.io.36wgq7qjovk5/v1 | https://www.protocols.io/view/open-field-protocol-cataseie | Michael Lee | TITLE: Open Field Protocol
AUTHORS: Michael Lee
[DESCRIPTION]
This protocol details about Open Field procedure.
[GUIDELINES]
Detailed records should be kept on every experiment, noting date, timing, subject test order, procedural details followed and any relevant observations pertaining to the assay (e.g. specific be... | ["[Set up] 20 x 20 x 10 inch chamber (LxWxH).", "[Test] Record locomotor activity and track how much time the animal spends in each zone for 30 min.", "[Set up] Opaque chambers or dividers between chambers.", "[Set up] Have chambers on enclosed rack to diminish outside light.", "[Set up] Light intensity = 250 lux.", "[... |
93,033 | Optical Density Analysis for DAB Staining of Mouse Brain Sections | 1 | dx.doi.org/10.17504/protocols.io.81wgbxo2nlpk/v1 | https://www.protocols.io/view/optical-density-analysis-for-dab-staining-of-mouse-c64hzgt6 | Katerina Rademacher, Ken Nakamura | TITLE: Optical Density Analysis for DAB Staining of Mouse Brain Sections
AUTHORS: Katerina Rademacher, Ken Nakamura
[DESCRIPTION]
This protocol describes steps for optical density analysis of immunohistochemical 3,3′-Diaminobenzidine (DAB) staining of mouse brain sections using ImageJ.
[STEPS]
1. Open ImageJ, then ca... | ["Open ImageJ, then calibrate for analysis.", "See https://imagej.net/ij/docs/examples/calibration/ for calibration setup steps and files.", "Select Analyze > Calibrate, then select the following:\ni.\tRodbard (NIH Image)\nii.\tUnit: O.D.\niii.\tOpen the calibration.txt file\niv.\tUncheck ‘show plot’\nv.\tCheck ‘Global... |
60,613 | Western blotting in Chlamydomonas reinhardtii | 1 | dx.doi.org/10.17504/protocols.io.14egnjnpv5dy/v2 | https://www.protocols.io/view/western-blotting-in-chlamydomonas-reinhardtii-b7fdrji6 | João Vitor Molino | TITLE: Western blotting in Chlamydomonas reinhardtii
AUTHORS: João Vitor Molino
[DESCRIPTION]
This protocols describe the steps to perform a western blot in Chlamydomonas reinhardtii cell lysate and supernatant samples.
[BEFORE_START]
Check antibody dilutions
Check buffers disponibility
Prepare 5% milk solution
[GUI... | ["[Sample preparation - Supernatant] Centrifuge algae culture at 2000xg for 10 min\nRecover supernatant \n10 min", "[Sample preparation - Lysate] Centrifuge algae culture at 2000xg for 10 min\nRemove supernatant, and re-suspend cells in lysis buffer (50 mM Tris·HCL (pH 8.0), 0.1% Triton X-100), concentrating cells 100-... |
62,601 | Kelly Clarkson CBD Gummies Reduce Anxiousness, Stress, Release Pain of the Body! | 3 | dx.doi.org/10.17504/protocols.io.j8nlkknydl5r/v1 | https://www.protocols.io/view/kelly-clarkson-cbd-gummies-reduce-anxiousness-stre-b9dhr236 | kelly Clarkson CBD Gummies | TITLE: Kelly Clarkson CBD Gummies Reduce Anxiousness, Stress, Release Pain of the Body!
AUTHORS: kelly Clarkson CBD Gummies
[DESCRIPTION]
Kelly Clarkson CBD Gummies *Natural* & *Effective* Wellness Product!
[STEPS] | [] |
72,506 | Flow Cytometer Fluorescence Voltration for FCMPASS | 1 | dx.doi.org/10.17504/protocols.io.14egnz4bqg5d/v2 | https://www.protocols.io/view/flow-cytometer-fluorescence-voltration-for-fcmpass-ci22ugge | Joshua A Welsh, Sean M Cook, Jennifer Jones | TITLE: Flow Cytometer Fluorescence Voltration for FCMPASS
AUTHORS: Joshua A Welsh, Sean M Cook, Jennifer Jones
[DESCRIPTION]
Protocol to perform flow cytometer voltration to identify optimal detector settings for small particle analysis. Data acquired from this protocol are compatible with semi-automated analysis tool... | ["[Sample preparation] Vortex bottle on a high setting for 5 s.", "[Sample preparation] Pipette 500 µL of to two . Label one tube 'DPBS\" and the second tube 'Beads'.", "[Sample preparation] Add 3 drops of to the 'Beads' and vortex for r 5 s.", "[Cytometer Setup] Ensure cytometer is clean and that -Height and... |
95,179 | Coupling of TMEM192 antibody to MyOne™ Epoxy Dynabeads™ | 1 | dx.doi.org/10.17504/protocols.io.q26g7p2ykgwz/v1 | https://www.protocols.io/view/coupling-of-tmem192-antibody-to-myone-epoxy-dynabe-c87jzzkn | Pawel Lis, Daniel Saarela, Dario R Alessi | TITLE: Coupling of TMEM192 antibody to MyOne™ Epoxy Dynabeads™
AUTHORS: Pawel Lis, Daniel Saarela, Dario R Alessi
[DESCRIPTION]
This protocol describes coupling of 600 µg of rabbit monoclonal TMEM192 antibody (Abcam recombinant Anti-TMEM192 antibody [EPR14330-67], BSA and Azide free, ab232600) to 20 mg of MyOne™ Epoxy... | ["[Protocol] Before opening the vial containing dried magnetic beads, equilibrate to Room temperature.", "[Protocol] Thaw the antibody on ice and keep on ice until it is needed in step 8.", "[Protocol] Calculate the volume of antibody needed, so that 600 µg is used – this volume should\nbe ≤500 µL.", "[Protocol] Weigh ... |
12,095 | Hornwort DNA extraction | null | dx.doi.org/10.17504/protocols.io.p27dqhn | null | Eftychis Frangedakis | TITLE: Hornwort DNA extraction
AUTHORS: Eftychis Frangedakis
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The gametophytic tissue of hornworts is rich in polysaccharides (Renzaglia et al., 2009) and it also seems to be rich in polyphenolics. Both compounds pose a problem for DNA. </div><div class... | ["Grind 0.5-2 g of tissue using mortar and pestle in the presence of liquid nitrogen until finely ground. Transfer frozen ground tissue to a 30 ml tube.", "Add 10 ml of 60 oC extraction buffer and 100 mg PVP-40/g tissue (5μl of RNAse A (100mg/ml)). Mix by inversion and incubate in a water bath in 60 oC for 30 min.", "A... |
89,876 | Targeted detection of SNCA CNVs in SOX10+ nuclei from oligodendrocytes containing alpha-synuclein inclusions isolated from human post-mortem brain | 4 | dx.doi.org/10.17504/protocols.io.5jyl8p6r7g2w/v1 | https://www.protocols.io/view/targeted-detection-of-snca-cnvs-in-sox10-nuclei-fr-c3zuyp6w | Caoimhe Morley, Diego-Perez Rodriguez, Monica Emili Garcia-Segura, Christos Proukakis, Ester Kalef-Ezra | TITLE: Targeted detection of SNCA CNVs in SOX10+ nuclei from oligodendrocytes containing alpha-synuclein inclusions isolated from human post-mortem brain
AUTHORS: Caoimhe Morley, Diego-Perez Rodriguez, Monica Emili Garcia-Segura, Christos Proukakis, Ester Kalef-Ezra
[DESCRIPTION]
There has been a growing recognition ... | ["[Nuclei isolation from human post-mortem brain tissue using iodixanol gradient] Set the centrifuge to 4 °C.", "[Nuclei isolation from human post-mortem brain tissue using iodixanol gradient] Prepare ice-cold Carnoy’s fixative (3:1 Methanol: Glacial acetic acid) and 1X PBS.", "[Nuclei isolation from human post-mortem ... |
84,067 | Expression and purification of mCherry-OPTN | 4 | dx.doi.org/10.17504/protocols.io.4r3l225djl1y/v1 | https://www.protocols.io/view/expression-and-purification-of-mcherry-optn-cwcbxasn | Elias Adriaenssens | TITLE: Expression and purification of mCherry-OPTN
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol describes the purification of mCherry-OPTN.
[STEPS]
SECTION: mCherry-OPTN
1. For mCherry-OPTN, clone human OPTN cDNA in a pETDuet-1 vector with an N-terminal 6x His tag follow it by a TEV cleavage site (Addgene... | ["[mCherry-OPTN] For mCherry-OPTN, clone human OPTN cDNA in a pETDuet-1 vector with an N-terminal 6x His tag follow it by a TEV cleavage site (Addgene #190191).", "[mCherry-OPTN] After the transformation of the pETDuet-1 vector encoding 6xHis-TEV-mCherry-OPTN in E. coli Rosetta pLySS cells, grow cells in 2x TY medium... |
61,621 | DESI imaging mass spectrometry on liver tissue | 1 | null | https://www.protocols.io/view/desi-imaging-mass-spectrometry-on-liver-tissue-b8evrte6 | Presha Rajbhandari, Brent Stockwell, bs | TITLE: DESI imaging mass spectrometry on liver tissue
AUTHORS: Presha Rajbhandari, Brent Stockwell, bs
[DESCRIPTION]
Acquire DESI imaging mass spectrometry data on liver tissue sections at 40µm spatial resolution - to assess distribution of lipids and metabolites within the tissue.
[STEPS]
1. Perform mass calib... | ["Perform mass calibration of the instrument using Sodium formate and ion mobility using CCS Major Mix using electrospray ionization source.", "Prepare spray solvent: 98:2 methanol:water with 0.1% formic acid and 20pg/µl leucine-enkephalin as lockmass", "Fill the syringe and start the flow at 1.5µl/min", "Set the DESI ... |
22,577 | Euplotes crassus transfection through microinjection into the macronucleus | null | dx.doi.org/10.17504/protocols.io.2argad6 | null | Rachele Cesaroni | TITLE: Euplotes crassus transfection through microinjection into the macronucleus
AUTHORS: Rachele Cesaroni
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. Dilute 1:10 Euplotes crassus cultures of two different mating types in artificial sea water (prepare 20 ml culture for each mating type), and feed them... | ["Dilute 1:10 Euplotes crassus cultures of two different mating types in artificial sea water (prepare 20 ml culture for each mating type), and feed them with E.coli (3 ml for each mating type). For bacteria preparation see protocol 'Culturing Euplotes crassus to high densities using E.coli as the only food source'.\nR... |
17,659 | Size Exclusion Chromatography coupled to Multi Angle Light Scattering (SECMALS) | null | dx.doi.org/10.17504/protocols.io.vg3e3yn | null | PALOMA VARELA | TITLE: Size Exclusion Chromatography coupled to Multi Angle Light Scattering (SECMALS)
AUTHORS: PALOMA VARELA
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.rqyd5xw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | ["Placing about 210 eggs from each fly line onto instant Drosophila media (Carolina Biological Supply Company, NC, USA) in bottles.", "Bottles, each with a different mitotype, were placed into population cages (22 cm x 21 cm x 36 cm) such that there were ~850 flies/ cage.", "To establish a homogeneous gut flora each ge... |
null | null | null | dx.doi.org/10.17504/protocols.io.p3adqie | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A genome is assembled by connecting large scaffolds via a collection of thousands of mate-paired ends of various sizes (3-20 kbp). Terminal ends of long DNA fragments can be obtained by sequencing large insert clones by Sanger sequencing, a labour-intensive and expensive appr... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.q5bdy2n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div title="Page 1">
<p>Protocol for thymus dissociation (10-week old CD-1 female). </p>
</div>
[GUIDELINES]
<div title="Page 1">
<div>
<div>
<p><strong><em>Bacillus Licheniformis</em> enzyme mix (1 mg/mL enzyme): </strong></p>
<p>492 µL DPBS (No added Ca, Mg)<br /> 0.5 mM EDTA... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.nxcdfiw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.sm2ec8e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>Bakgrunn</strong></p>
<p>Kvar tredje nye brukar av omsorgstenester blir re-innlagt i sjukehuset, og det er ein samanheng mellom dette, tilhøve ved sjukehus og lengd av opphald. Sjukdom påverkar den helserelaterte livskvaliteten og pasientar si vurdering av helse og fu... | [] |
62,215 | XP Nutrition Keto Gummies Reviews - Where To Buy It? | 1 | dx.doi.org/10.17504/protocols.io.n2bvj6zonlk5/v1 | https://www.protocols.io/view/xp-nutrition-keto-gummies-reviews-where-to-buy-it-b8zfrx3n | keto-x-reviews | TITLE: XP Nutrition Keto Gummies Reviews - Where To Buy It?
AUTHORS: keto-x-reviews
[DESCRIPTION]
XP Nutrition Keto Gummies Reviews - Where To Buy It?
[STEPS]
SECTION: XP Nutrition Keto Gummies Reviews - Where To Buy It? XP Nutrition Keto Gummies- Reduce Redundant Body Weight. Dealing with low stamina, poor metab... | ["[XP Nutrition Keto Gummies Reviews - Where To Buy It? XP Nutrition Keto Gummies- Reduce Redundant Body Weight. Dealing with low stamina, poor metabolism position, low energy position, poor digestion, and impunity power and other health issues are some of the health issues which you might face due to rotundity or fa... |
30,904 | CRISPR/Cas9 based knockout generation in Aurantiochytrium limacinum (ATCC MYA-1381) | null | dx.doi.org/10.17504/protocols.io.baeyibfw | null | Anbarasu Karthikaichamy, Jackie Collier | TITLE: CRISPR/Cas9 based knockout generation in Aurantiochytrium limacinum (ATCC MYA-1381)
AUTHORS: Anbarasu Karthikaichamy, Jackie Collier
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Transformation protocol for electroporation of CRISPR/Cas9 ribonucleoprotein (RNP) complex in urantiochytrium li... | ["[Grow cells]\nStart a pre-culture (4 days) prior to electroporation by inoculating of GPY (0.5% Yeast Extract, 1% Peptone, 3% D+-Glucose, 1.8% instant ocean) in tube with a colony of Aurantiochytrium limacinum (ATCC MYA-1381). Incubate at .Use preculture to inoculate of GPY in flask. Culture for 3 days at , .\n... |
42,829 | A costum-made hydroponic culture system to study plant roots during root infection with Plasmodiophora brassicae | 4 | dx.doi.org/10.17504/protocols.io.bm3mk8k6 | https://www.protocols.io/view/a-costum-made-hydroponic-culture-system-to-study-p-bm3mk8k6 | Susann Auer | TITLE: A costum-made hydroponic culture system to study plant roots during root infection with Plasmodiophora brassicae
AUTHORS: Susann Auer
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Plant roots are fascinating organs that anchor the plant in the ground, take up water and nutrients and are the... | ["[Setup of the system ]\nPlace tip rack in the clean container and fill 10 ml pipette tips with sand to the top.", "[Setup of the system ]\nTap the tip lightly on a hard surface to make sure the sand does spread evenly in the tip. Fill tip up again to the top if necessary. You don´t want the sand to be packed too tigh... |
42,458 | Artificial Intelligence-Assisted Loop Mediated Isothermal Amplification (AI-LAMP) for Rapid Detection of SARS-CoV-2 | 3 | dx.doi.org/10.17504/protocols.io.bmp2k5qe | https://www.protocols.io/view/artificial-intelligence-assisted-loop-mediated-iso-bmp2k5qe | Don Cooper | TITLE: Artificial Intelligence-Assisted Loop Mediated Isothermal Amplification (AI-LAMP) for Rapid Detection of SARS-CoV-2
AUTHORS: Don Cooper
[STEPS] | [] |
107,186 | Cell Invasion in Direct Co-Culture | 0 | dx.doi.org/10.17504/protocols.io.e6nvw1799lmk/v1 | https://www.protocols.io/view/cell-invasion-in-direct-co-culture-dkws4xee | Bianca Cruz Pachane, Heloisa Sobreiro Selistre de Araujo | TITLE: Cell Invasion in Direct Co-Culture
AUTHORS: Bianca Cruz Pachane, Heloisa Sobreiro Selistre de Araujo
[DESCRIPTION]
The fluorescent gelatin degradation assay is a method to study cell invasion by detecting gelatinase activity in vitro upon epifluorescence microscopy analysis. In this protocol, the method has bee... | ["[Experimental Design and Plate Coating] Open a new 96-well black plate under sterile conditions and label groups in technical triplicates to contain a vehicle (PBS) control (i.e., untreated cells in OptiMEM) and the EVh-treated group (i.e., EVh-treated cells in OptiMEM) for each co-culture combination:\nMDA-MB-231 + ... |
null | null | null | dx.doi.org/10.17504/protocols.io.e3gbgjw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol has been optimized to remove washing steps after antibody and nanobeads incubation, resulting in a shorter and more convenient protocol. This procedure is optimized for the isolation of 107 to 2 x 108 cells per tube. If working with fewer cells keep volumes as i... | [] |
59,573 | Processing human frontal cortex brain tissue for population-scale Oxford Nanopore long-read DNA sequencing SOP | 4 | dx.doi.org/10.17504/protocols.io.kxygxzmmov8j/v2 | https://www.protocols.io/view/processing-human-frontal-cortex-brain-tissue-for-p-b6evrbe6 | Kimberley J Billingsley, Ramita Dewan, Laksh Malik, Pilar Alvarez Jerez, Stith Kiley, Cornelis Blauwendraat, on behalf of the CARD Long-read Team | TITLE: Processing human frontal cortex brain tissue for population-scale Oxford Nanopore long-read DNA sequencing SOP
AUTHORS: Kimberley J Billingsley, Ramita Dewan, Laksh Malik, Pilar Alvarez Jerez, Stith Kiley, Cornelis Blauwendraat, on behalf of the CARD Long-read Team
[DESCRIPTION]
Processing human frontal cortex ... | ["Part 1: Brain Tissue Cutting (~2.5 hours for 16 samples)", "Add dry ice to a ice bucket", "Place supplies (sterile weigh boat, razor blade, labeled empty 2mL protein LoBind microcentrifuge tubes and cooling block) in dry ice and allow to chill for ~ 5 min", "Obtain tissue samples from -80 °Cfreezer and place in dry i... |
41,310 | Bitdefender does not update automatically 2020 | 3 | null | https://www.protocols.io/view/bitdefender-does-not-update-automatically-2020-bkj6kure | George more | TITLE: Bitdefender does not update automatically 2020
AUTHORS: George more
[STEPS] | [] |
77,863 | Comprehensive analysis methods for developmental GC exposed zebrafish | 3 | dx.doi.org/10.17504/protocols.io.kxygx9ooog8j/v2 | https://www.protocols.io/view/comprehensive-analysis-methods-for-developmental-g-cqafvsbn | Min-Kyeung Choi, Alex Cook, Helen Eachus, Anna Tochwin, Sara Kuntz, Soojin Ryu | TITLE: Comprehensive analysis methods for developmental GC exposed zebrafish
AUTHORS: Min-Kyeung Choi, Alex Cook, Helen Eachus, Anna Tochwin, Sara Kuntz, Soojin Ryu
[DESCRIPTION]
This protocol describes methods for the molecular, behavioral, and bioinformatic analyses of GC-exposed zebrafish. All procedures were used ... | [] |
34,650 | Protein expression in Komagataella phaffii (formerly Pichia pastoris) | 1 | dx.doi.org/10.17504/protocols.io.bd32i8qe | https://www.protocols.io/view/protein-expression-in-komagataella-phaffii-formerl-bd32i8qe | Maja Rennig, Kristoffer Bach Falkenberg, Cristina Hernandez Rollan, Andreas Birk Bertelsen, Morten Norholm | TITLE: Protein expression in Komagataella phaffii (formerly Pichia pastoris)
AUTHORS: Maja Rennig, Kristoffer Bach Falkenberg, Cristina Hernandez Rollan, Andreas Birk Bertelsen, Morten Norholm
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The methylotrophic yeast </span><span style = "font-s... | ["[Prepare media and stock solutions]\nPrepare BMGY and BMMY mediaIngredients (final concentrations): yeast extract peptone mM potassium phosphate, pH 6.0 YNB biotin glycerol (BMGY) or methanol (BMMY)\nK. phaffii cells exhibit optimal growth with higher YNB concentrations than S. cerevisiae", "[Prepare media and st... |
107,643 | Fabrication of dip-and-read orthophosphate chemosensor based on laser inscribed graphene | 0 | null | https://www.protocols.io/view/fabrication-of-dip-and-read-orthophosphate-chemose-dmc342yn | Geisianny A Moreira, Alex Shaw, Eric S McLamore | TITLE: Fabrication of dip-and-read orthophosphate chemosensor based on laser inscribed graphene
AUTHORS: Geisianny A Moreira, Alex Shaw, Eric S McLamore
[DESCRIPTION]
This protocol describes the fabrication of a LIG dip-and-read orthophosphate sensor based on a 2 dimensional sorbent structure (poly[diallydimethylammon... | ["[Step 1) Prepare working solutions] Prepare Solution 1: 1 mg/mL GO-PDDA solution\nPrepare a working solution for GO-PDDA at 1 mg/mL by diluting the stock solution (5 mg/mL) in DI water.\nAgitate using a vortex mixer until the solution is dispersed", "[Step 1) Prepare working solutions] Prepare Solution 2: 2X Sodium c... |
64,446 | Preparation of M9 worm buffer | 1 | dx.doi.org/10.17504/protocols.io.x54v9yo6pg3e/v1 | https://www.protocols.io/view/preparation-of-m9-worm-buffer-ca66shhe | Alfonso Pérez Escudero, Alid Al-Asmar, Gabriel Madirolas | TITLE: Preparation of M9 worm buffer
AUTHORS: Alfonso Pérez Escudero, Alid Al-Asmar, Gabriel Madirolas
[DESCRIPTION]
Preparation of M9 worm buffer, used to maintain Caenorhabditis elegans in liquid for short periods of time. Protocol taken from the WormBook Methods http://www.wormbook.org/chapters/www_strainmaintain/... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.rtyd6pw | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
90,736 | Plasmid construction | 4 | dx.doi.org/10.17504/protocols.io.yxmvm3z5bl3p/v1 | https://www.protocols.io/view/plasmid-construction-c4uqywvw | Dan Tudorica | TITLE: Plasmid construction
AUTHORS: Dan Tudorica
[DESCRIPTION]
Via restriction enzyme digest and ligation
[STEPS]
1. Design PCR primers such that they contain a BglII restriction site upstream of the gene, and SalI downstream of the gene. Design cut sites such that gene will still be in frame post ligation.
2. Acqui... | ["Design PCR primers such that they contain a BglII restriction site upstream of the gene, and SalI downstream of the gene. Design cut sites such that gene will still be in frame post ligation.", "Acquire purified pmCherryC1 stock, and cleave using BglII and SalI using the standard NEB protocol. Simultaneously cleave P... |
25,085 | RNA Isolation from Plant Tissue Protocol 4: CTAB-PVP-TRIzol Method | null | dx.doi.org/10.17504/protocols.io.4q5gvy6 | null | null | TITLE: RNA Isolation from Plant Tissue Protocol 4: CTAB-PVP-TRIzol Method
AUTHORS:
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Implemented by: Beijing Genomics Institute</div><div class = "text-block"><span>This protocol is part of a collection of eighteen protocols used to isolate total RNA fr... | ["Grind tissue to a powder in liquid nitrogen.", "Add – of ground tissue to of pre-heated extraction buffer in a 5 ml tube.\n200 mg\n500 mg\n3 ml", "Vortex the tube until the tissue is mixed with the buffer.", "Incubate the tube at for , vortexing briefly () every 2–3 min during the incubation.\n65 °C", "Aliquot the ... |
41,210 | Protocol : Cement augmentation of internal fixation for trochanteric fracture: protocol for a systematic review and meta-analysis | 3 | dx.doi.org/10.17504/protocols.io.bkg2ktye | https://www.protocols.io/view/protocol-cement-augmentation-of-internal-fixation-bkg2ktye | Norio Yamamoto, Takahisa Ogawa, Masahiro Banno, Jun Watanabe, Tomoyuki Noda, Haggai Schermann, Toshifumi Ozaki | TITLE: Protocol : Cement augmentation of internal fixation for trochanteric fracture: protocol for a systematic review and meta-analysis
AUTHORS: Norio Yamamoto, Takahisa Ogawa, Masahiro Banno, Jun Watanabe, Tomoyuki Noda, Haggai Schermann, Toshifumi Ozaki
[STEPS] | [] |
39,915 | LightsheetSampleProcessing-EmbryonicBrain | 4 | dx.doi.org/10.17504/protocols.io.bi8jkhun | https://www.protocols.io/view/lightsheetsampleprocessing-embryonicbrain-bi8jkhun | Nagham Khouri-Farah | TITLE: LightsheetSampleProcessing-EmbryonicBrain
AUTHORS: Nagham Khouri-Farah
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>An imropved method for Lightsheet imaging sample preparation. We use this protocol for embryonic brain tissue (the embryonic cerebellum in particular), it could also be... | ["[Tissue Fixation ]\nDissect the embryonic brain tissue and rinse with PBS.", "[Tissue Fixation ]\nFix brain tissue with 4% PFA for 2h\non ice\nPerform this step under the fume hood. Wear gloves and avoid inhaling.", "[Tissue Fixation ]\nWash with PBS for 10 min.", "[Tissue Fixation ]\nRepeat Step 4 twice.", "[Whole ... |
90,594 | Rye Broth Recipe | 4 | dx.doi.org/10.17504/protocols.io.x54v9pwp4g3e/v1 | https://www.protocols.io/view/rye-broth-recipe-c4qayvse | Diana Lee | TITLE: Rye Broth Recipe
AUTHORS: Diana Lee
[DESCRIPTION]
This method describes the systematic preparation of a Rye-Based Broth for use in microbiological cultures. The broth consists of rye flour, sucrose, and, optionally, B-sitosterol dissolved in dichloromethane. The method involves the careful mixing of ingredients... | ["[Preparation of Rye-Based Broth] In a 1.5-liter beaker or jug, combine 60 g of rye flour and 20 g of sucrose with 500 ml of water.", "[Preparation of Rye-Based Broth] Mix the contents thoroughly.", "[Preparation of Rye-Based Broth] Add 500 ml of boiling water to the mixture. Avoid boiling the solution, as starch may ... |
100,256 | Modelling Insulin resistance in vitro | 0 | dx.doi.org/10.17504/protocols.io.kxygxy3mwl8j/v1 | https://www.protocols.io/view/modelling-insulin-resistance-in-vitro-dd58289w | Laura Mahoney-Sanchez | TITLE: Modelling Insulin resistance in vitro
AUTHORS: Laura Mahoney-Sanchez
[DESCRIPTION]
This protocol contains the instruction for modelling insulin resistance in iPSC-derived neurons by depriving the cells of insulin overnight followed by a 30 minutes insulin treatment the following day.
[STEPS]
1. The media is r... | ["The media is removed from the cells", "Cells are washed 1x with PBS", "Fresh media is added the cells supplemented with B27 without insulin (Thermofisher A1895601).", "Cells are left back in the incubator 1080 min at 37 °C", "The following day, insulin was added to the media at either 100 nanomolar (nM) , 250 nanomo... |
21,751 | Criminal Justice Policy Document Analysis | null | dx.doi.org/10.17504/protocols.io.zgxf3xn | null | Drew Gitomer | TITLE: Criminal Justice Policy Document Analysis
AUTHORS: Drew Gitomer
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is an adaptation of Yanovitzky & Weber - because we were interested adapting Yanovitzky and Weber's tool for criminal justice reform.
All of the policymaking process stuff w... | [] |
74,080 | Degranulation and cytokine production (functional assay) | 1 | dx.doi.org/10.17504/protocols.io.8epv51me6l1b/v2 | https://www.protocols.click/view/degranulation-and-cytokine-production-functional-a-ckj8uurw | Philippa R Kennedy | TITLE: Degranulation and cytokine production (functional assay)
AUTHORS: Philippa R Kennedy
[DESCRIPTION]
Two primary functions of NK cells - their cytotoxcity and ability to produce cytokines, are measured in a flow-based assay that assesses these responses at the single cell level when NK cells are challenged with t... | ["[Preparing effector and target cells] Effector cells (PBMCs or enriched NK cells) are resuspended in R10.\nInduced pluripotent stem cell (iPSC)-derived NK cells should be resuspended in B0.", "[Preparing effector and target cells] Target cells are added to each well at an effector:target ratio of 2:1. At the same tim... |
71,180 | RNAi feeding | 4 | dx.doi.org/10.17504/protocols.io.kxygx9p1dg8j/v1 | https://www.protocols.io/view/rnai-feeding-chrkt54w | Ben Jenkins | TITLE: RNAi feeding
AUTHORS: Ben Jenkins
[DESCRIPTION]
Daily resuspension and feeding of P. bursaria cultures
[STEPS]
SECTION: Remove supernatant
1. Spin down P. bursaria plate at 800 x g, 10 min, 4 °C
# Ensure that centrifuge is loaded with balance plate.
SECTION: Remove supernatant
2. Transfer P. bursaria plate t... | ["[Remove supernatant] Spin down P. bursaria plate at 800 x g, 10 min, 4 °C\n\n# Ensure that centrifuge is loaded with balance plate.", "[Remove supernatant] Transfer P. bursaria plate to OpenTrons OT-2 Liquid Handler.\n\n# Ensure that: P. bursaria plate is in position 7; Fresh waste plate is in position 10; and Pipett... |
null | null | null | dx.doi.org/10.17504/protocols.io.ugfettn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
Antibiotic Disk Testing, to check for antibiotic resistance genes
[STEPS]
SECTION: Liquid Culture
?.
SECTION: Disk assays
?. | ["[Liquid Culture] Fill Eppendorf tube with 1mL of media (LB or TSA)\n\nUsing sterile loop pick up one colony from the plate and suspend in media tube (being sure to match medias, LB plate -> LB liquid media)\n\nLeave to grow overnight (Or for 2 or 3 days)", "[Disk assays] {\"blocks\":[{\"key\":\"9h2kr\",\"text\":\"Tak... |
89,232 | HumidOSH: A Self-Contained Environmental Chamber with Controls for Relative Humidity and Fan Speed | 1 | dx.doi.org/10.17504/protocols.io.dm6gp87zplzp/v2 | https://www.protocols.io/view/humidosh-a-self-contained-environmental-chamber-wi-c3dqyi5w | Soon Kiat Lau, Jeyamkondan Subbiah | TITLE: HumidOSH: A Self-Contained Environmental Chamber with Controls for Relative Humidity and Fan Speed
AUTHORS: Soon Kiat Lau, Jeyamkondan Subbiah
[DESCRIPTION]
Relative humidity is a measure of water availability in air that can affect physical, biological, and chemical changes in biological samples through modifi... | ["[Printed Circuit Boards] There are two printed circuit boards (PCB) used in HumidOSH: the control box PCB and the relative humidity sensor PCB. The PCB design files (https://osf.io/579fq/) can be sent to a PCB manufacturer (e.g. JLCPCB or OSHPark) for manufacturing. When ordering the PCB, it is recommended to order P... |
19,715 | Tache_Mulugeta_OT2OD024899_Thoracolumbar and sacral nerve roots acute electrical stimulation and colonic motility measurements | 1 | dx.doi.org/10.17504/protocols.io.xhbfj2n | https://www.protocols.io/view/tache-mulugeta-ot2od024899-thoracolumbar-and-sacra-xhbfj2n | Muriel Larauche, Yushan Wang, Yan-Peng Chen, Wentai Liu, Mulugeta Million | TITLE: Tache_Mulugeta_OT2OD024899_Thoracolumbar and sacral nerve roots acute electrical stimulation and colonic motility measurements
AUTHORS: Muriel Larauche, Yushan Wang, Yan-Peng Chen, Wentai Liu, Mulugeta Million
[DESCRIPTION]
This protocol describes a process for the measurement of acute electrical stimulation-in... | ["[Animals] Six-to-seven months old (25-36 kg) male Yucatan minipigs (S&S farms, Ramona, CA), castrated at 7 days of age, are group housed in pens (either bedding or grate floor depending on housing availabilities - 2 pigs/pen, 42ft2) in an environmentally controlled room (lights on/off 6AM/6PM, 61-81ºF) under SPF cond... |
94,363 | Cortical neuron differentiation using forced NGN2 expression | 4 | dx.doi.org/10.17504/protocols.io.n2bvj3wwwlk5/v1 | https://www.protocols.io/view/cortical-neuron-differentiation-using-forced-ngn2-c8d3zs8n | Beatrice Weykopf | TITLE: Cortical neuron differentiation using forced NGN2 expression
AUTHORS: Beatrice Weykopf
[DESCRIPTION]
This is a modified protocol based on (Zhang et al.2013 and Meijer et al., 2019) to generate cryopreserved NGN2 neurons, using hPSCs that carry a doxycline-inducible NGN2 cassette.
The voluming are calculated fo... | ["[Overview]", "[D0] Seed 4x106 single cells onto 1x10 cm dish (coating MG-GFR or with GF 2mg) in iPSC medium supplemented with 10 µM RI in 7ml medium", "[D1] Add 8ml KSR with 2µg/ml DOX", "[D2] 9ml 1:1 KSR/N2B w/o B27 2µg/ml DOX and 5µg/ml Puro \n\nEnsure 24h window between this media change and the previous one", "[D... |
45,637 | IF-FISH of cells on 22mm glass coverslips | 4 | dx.doi.org/10.17504/protocols.io.bqtdmwi6 | https://www.protocols.io/view/if-fish-of-cells-on-22mm-glass-coverslips-bqtdmwi6 | t.a.mcdougall | TITLE: IF-FISH of cells on 22mm glass coverslips
AUTHORS: t.a.mcdougall
[STEPS]
?. [Fixing cells on coverslips]
Adherent cells were cultured under the same conditions on glass 22mm x 22mm square coverslips one to two days before they were to be permeabilized and fixed.
?. [Fixing cells on coverslips]
At the start of ... | ["[Fixing cells on coverslips]\nAdherent cells were cultured under the same conditions on glass 22mm x 22mm square coverslips one to two days before they were to be permeabilized and fixed.", "[Fixing cells on coverslips]\nAt the start of the permeabilization and fixing procedure, coverslips were transferred into Copli... |
32,418 | MojoSort™ Human CD14+ Monocyte Isolation Kit Column Protocol | null | dx.doi.org/10.17504/protocols.io.bbwaipae | null | Sam Li | TITLE: MojoSort™ Human CD14+ Monocyte Isolation Kit Column Protocol
AUTHORS: Sam Li
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>BioLegend MojoSort™ nanobeads work in commonly used separation columns, based on our internal research as well as validation by external testing by academic labs.... | ["[Platelet Removal Protocol]\nDilute blood with 2-4 times (volume/volume) 1X PBS.", "[Platelet Removal Protocol]\nCarefully layer diluted blood over 12.5 mL of isolation medium in a 50mL tube.", "[Platelet Removal Protocol]\nCentrifuge at 400xg for 25 minutes at room temperature in a swinging-bucket rotor without the ... |
62,209 | Investigation of the pain factors of rotator cuff tears: a protocol for a scoping review | 1 | dx.doi.org/10.17504/protocols.io.81wgb62d1lpk/v1 | https://www.protocols.io/view/investigation-of-the-pain-factors-of-rotator-cuff-b8y9rxz6 | Tomohisa Yuda, Takashi Saito, Hayato Shigetoh, Takashi Kitagawa | TITLE: Investigation of the pain factors of rotator cuff tears: a protocol for a scoping review
AUTHORS: Tomohisa Yuda, Takashi Saito, Hayato Shigetoh, Takashi Kitagawa
[DESCRIPTION]
Objective：
The purpose of this scoping review was to investigate the factors associated with rotator cuff tear pain and summarize them... | [] |
77,699 | Quality guidance on the use of run controls for direct detection of poliovirus by nanopore sequencing | 3 | dx.doi.org/10.17504/protocols.io.14egn2jdmg5d/v1 | https://www.protocols.io/view/quality-guidance-on-the-use-of-run-controls-for-di-cp5bvq2n | Joyce Akello, Manasi Majumdar, Alex Shaw, Catherine Troman, Erika Bujaki, Javier Martin, Nick Grassly | TITLE: Quality guidance on the use of run controls for direct detection of poliovirus by nanopore sequencing
AUTHORS: Joyce Akello, Manasi Majumdar, Alex Shaw, Catherine Troman, Erika Bujaki, Javier Martin, Nick Grassly
[DESCRIPTION]
This document describes the laboratory process for the use of run controls (positive ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.dan2dd | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
Materials:<br /><strong>Part 1:</strong><br />Black 96-well microtiter plate<br />Pipet<br />25% glutaraldehyde<br />Liquid nitrogen<br /><br /><strong>Part II:</strong><br />None<br /><br /><strong>Part III:</strong><br />10<sup>8</sup> cell hosts & 10<sup>7</sup> phages for... | [] |
22,302 | Transmission electron microscopy | null | dx.doi.org/10.17504/protocols.io.zz6f79e | null | Sue Lin | TITLE: Transmission electron microscopy
AUTHORS: Sue Lin
[STEPS]
?. Double fixation: The specimen was first fixed with 2.5% glutaraldehyde in phosphate buffer (pH7.0) for more than 4 hours; washed three times in the phosphate buffer; then postfixed with 1% OsO4 in phosphate buffer (pH7.0) for 1 hour and washed three t... | ["Double fixation: The specimen was first fixed with 2.5% glutaraldehyde in phosphate buffer (pH7.0) for more than 4 hours; washed three times in the phosphate buffer; then postfixed with 1% OsO4 in phosphate buffer (pH7.0) for 1 hour and washed three times in the phosphate buffer.", "Dehydration: The specimen was firs... |
108,213 | Novel Ex-situ Stony Coral Tissue Loss Disease Treatment Protocol | 0 | dx.doi.org/10.17504/protocols.io.dm6gpzknplzp/v1 | https://www.protocols.io/view/novel-ex-situ-stony-coral-tissue-loss-disease-trea-dmwv47e6 | Gregory Pelose, Macarena Blanco-Pimentel, Johanna Calle-Triviño, Ariadna Leon, Victor Galván, Stephanie Schopmeyer, Delaney Foster, Erika Harms, Cullin Burdett, Megan K. Morikawa | TITLE: Novel Ex-situ Stony Coral Tissue Loss Disease Treatment Protocol
AUTHORS: Gregory Pelose, Macarena Blanco-Pimentel, Johanna Calle-Triviño, Ariadna Leon, Victor Galván, Stephanie Schopmeyer, Delaney Foster, Erika Harms, Cullin Burdett, Megan K. Morikawa
[DESCRIPTION]
Stony Coral Tissue Loss Disease (SCTLD) is a ... | ["[Reasoning for Protocol] Stony Coral Tissue Loss Disease (SCTLD) was first observed in 2014 near Miami, Florida and has rapidly spread across the Caribbean (Precht et al. 2016; Walton et al., 2018; Estrada-Saldívar et al., 2020). SCTLD affects at least 22 species of Caribbean stony corals and has resulted in the loss... |
91,648 | dopaminergic neurons from iPSC | 4 | dx.doi.org/10.17504/protocols.io.bp2l6xynzlqe/v1 | https://www.protocols.io/view/dopaminergic-neurons-from-ipsc-c5q8y5zw | Rachel Bates | TITLE: dopaminergic neurons from iPSC
AUTHORS: Rachel Bates
[DESCRIPTION]
This protocol describes our method for the differentiation of human floor plate neural progenitor cells into human midbrain-dopaminergic neurons. This protocol has been developed using a combination of several published protocols.
Adapted from ... | ["[Day 0] Human floor plate neuronal progenitor cells (mfNPC) were derived using Smits 2019 protocol. They were maintained for a minimum of 5 passages before being used to generate dopaminergic neurons.", "[Day 0] mfNPCs were detached using accutase at 37 °C for 3 min .", "[Day 0] Re-suspend cells in d0 induction mediu... |
26,458 | Freezing a strain of C. elegans for long-term storage | null | dx.doi.org/10.17504/protocols.io.532g8qe | null | Cristian Riccio | TITLE: Freezing a strain of C. elegans for long-term storage
AUTHORS: Cristian Riccio
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Freezing down a strain of C. elegans for long-term storage. The larval stage is the best at surviving freezing. It does not make sense to freeze down post-reproductiv... | ["If starting with a Falcon tube of arrested L1 worms, add an equal amount of 2X freezing buffer (ideally adding 3 ml to 3 ml) and distribute 1 ml to each of five cryovials. Work in sterile conditions.If starting with a plate full of early stage worms, collect worms, wash three times in M9, resuspend in 3 ml and add 3 ... |
29,162 | The Alliance Formation Puzzle in Contests with Capacity-Constraints: A Test using American Football Reception-Coverage Contest Data | null | dx.doi.org/10.17504/protocols.io.8qihvue | null | Justin Ehrlich, Yang-Ming Chang, Matthew Harmon, Shane Sanders | TITLE: The Alliance Formation Puzzle in Contests with Capacity-Constraints: A Test using American Football Reception-Coverage Contest Data
AUTHORS: Justin Ehrlich, Yang-Ming Chang, Matthew Harmon, Shane Sanders
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>We utilize a contest-theoretic mode... | ["Load football.do in Stata/SE 14.2 or newer. The latest version is located here: https://github.com/Syracuse-University-Sport-Analytics/Alliance-Formation-Puzzle-in-Professional-Football", "Download football data.dta from https://dataverse.harvard.edu/dataset.xhtml?persistentId=doi:10.7910/DVN/ZIQQXO", "Change line 2:... |
72,424 | DNA Isolation from Snake Skin Shed | 4 | dx.doi.org/10.17504/protocols.io.bp2l699ezlqe/v1 | https://www.protocols.io/view/dna-isolation-from-snake-skin-shed-ciyguftw | Agl0032, tss | TITLE: DNA Isolation from Snake Skin Shed
AUTHORS: Agl0032, tss
[DESCRIPTION]
Purpose:
This protocol was developed for the Memphis Zoo’s Louisiana Pine Snake Breeding Project.The protocol for skin shed DNA isolation was adapted from Fetzner (1999).
The time estimates assumes you are processing 24 samples and you are... | ["[Set Up] Turn on shaking incubator and set to 55 °C \nObtain Ice \nPrint list of samples", "[Set Up] Clean the razors, scissors, and dissection boards with RNAase away; rinse with molecular-grade water.", "[Set Up] Set out and label 1.5 mL microcentrifuge tube for each sample to use in Step 6 (Digestion).\nAdd 900 µL... |
84,077 | Nuclei isolation from frozen tissue | 1 | dx.doi.org/10.17504/protocols.io.8epv5x6wjg1b/v1 | https://www.protocols.click/view/nuclei-isolation-from-frozen-tissue-cwcmxau6 | Emily Stephenson, Elena Prigmore, agnes oszlanczi, di zhou | TITLE: Nuclei isolation from frozen tissue
AUTHORS: Emily Stephenson, Elena Prigmore, agnes oszlanczi, di zhou
[DESCRIPTION]
This protocol describes a method for the isolation of intact nuclei for further downstream methods such as single nuclei RNA-seq, ATAC-seq or 10x Multiome.
The protocol is adapted from Nadelman... | ["[Prepare reagents and buffers] Prepare nuclei isolation buffer 1 (NIM1) according to the table below. NIM1 can be made, filtered and stored at 4°C for 6 months. Record date on top of tube.", "[Prepare reagents and buffers] Prepare nuclei isolation buffer 2 (NIM2) according to the table below. NIM2 must be made on the... |
null | null | null | dx.doi.org/10.17504/protocols.io.hh2b38e | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?. | [] |
47,864 | Automated Protein Quantification with the Biomek-FX Liquid Handler System | 4 | dx.doi.org/10.17504/protocols.io.bsyynfxw | https://www.protocols.io/view/automated-protein-quantification-with-the-biomek-f-bsyynfxw | Yan Chen, Nurgul Kaplan Lease, Tad Ogorzalek, Jennifer Gin, Christopher J Petzold | TITLE: Automated Protein Quantification with the Biomek-FX Liquid Handler System
AUTHORS: Yan Chen, Nurgul Kaplan Lease, Tad Ogorzalek, Jennifer Gin, Christopher J Petzold
[DESCRIPTION]
This protocol details steps to perform the protein quantification (Lowry-based) assay by using a Biomek FX liquid handler system.... | ["[Spectrophotometer reading for protein Quantification] Transfer plates to the microplate reader (MD Spectramax 250) to read absorbance at 750 nm and calculate protein concentration.", "[DC protein assay] Method will pause until user resume it again. Set a timer for 5 minutes.", "[DC protein assay] Transfer 5 µl from ... |
72,609 | Completeness in reporting of surrogate primary endpoints in Randomised Controlled Trials: A targeted review protocol | 4 | dx.doi.org/10.17504/protocols.io.81wgbyx1nvpk/v1 | https://www.protocols.io/view/completeness-in-reporting-of-surrogate-primary-end-ci59ug96 | Anthony Muchai Manyara, Sathish Venkatasamy Dhayalan, Philippa Davies, Amber Young, Imad Adamestam, Onyeka Obuaya, Valerie Wells, Christopher J Weir, Jane Blazeby, Rod S Taylor, Oriana Ciani | TITLE: Completeness in reporting of surrogate primary endpoints in Randomised Controlled Trials: A targeted review protocol
AUTHORS: Anthony Muchai Manyara, Sathish Venkatasamy Dhayalan, Philippa Davies, Amber Young, Imad Adamestam, Onyeka Obuaya, Valerie Wells, Christopher J Weir, Jane Blazeby, Rod S Taylor, Oriana Ci... | ["[Working definition] Our working definition of a surrogate endpoint is ‘A biomarker or intermediate outcome used to substitute for a patient or participant relevant final outcome (i.e., severe morbidity; health related quality of life or mortality) and reliably predicts benefit or harm based on epidemiologic; therape... |
null | null | null | dx.doi.org/10.17504/protocols.io.hhqb35w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Extraction of high molecular weight DNA after Bolger et al. </p>
<p> </p>
<p>Carried out for <em>eucalyptus grandis. </em></p>
<p>DNA fragments were ranging up to 270 kb on a Pulsfield Electrophoresis Gel </p>
[GUIDELINES]
<p>Modified from Section 1.3 of Supplementary mater... | [] |
28,823 | Chlorophyll Extraction and Spectral Analysis | null | dx.doi.org/10.17504/protocols.io.8dxhs7n | null | Victor Rodriguez | TITLE: Chlorophyll Extraction and Spectral Analysis
AUTHORS: Victor Rodriguez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol is designed to be able to extract and analyze the concentration of chlorophyll within a sample of a given plant. The procedures of this protocol require using... | ["[Extraction of Chlorophyll ]\nWeigh out of sample subject and add it to a pestle.\n0.25 g", "[Extraction of Chlorophyll ]\nWeigh out of and add it to a pestle.\n0.13 g", "[Extraction of Chlorophyll ]\nAdd of to the pestle.\n1 ml", "[Extraction of Chlorophyll ]\nGrind the entire mixture until the sample is consist... |
83,442 | A comparative cytogenetic study of Hypsibarbus malcolmi and H. wetmorei (Cyprinidae: Tribe Poropuntiini) | 4 | dx.doi.org/10.17504/protocols.io.36wgq3r8klk5/v1 | https://www.protocols.click/view/a-comparative-cytogenetic-study-of-hypsibarbus-mal-cvqsw5we | Sudarat Khensuwan, Alongklod Tanomtong | TITLE: A comparative cytogenetic study of Hypsibarbus malcolmi and H. wetmorei (Cyprinidae: Tribe Poropuntiini)
AUTHORS: Sudarat Khensuwan, Alongklod Tanomtong
[DESCRIPTION]
The cyprinids, freshwater perciform fish belong to the subfamily Cyprininae. Among them, the genus Osteochilus contains 11 recognized valid spe... | ["[Classical and molecular Cytogenetics] Animals\nIndividuals of H. malcolmi (12♂ and 6♀) and H. wetmorei (8♂ and 8♀) were collected in the Mekong river basin (Thailand)(Fig 1.). Fishes were transferred to the laboratory and identified according to morphological criteria of Rainboth et al. (2012). Experiments were perf... |
66,223 | Jibe Wellness CBD Gummies [Top Rated] Reviews “Real or Fake” Full Info? | 3 | dx.doi.org/10.17504/protocols.io.eq2lynbmwvx9/v1 | https://www.protocols.io/view/jibe-wellness-cbd-gummies-top-rated-reviews-real-o-ccwpsxdn | Tzachi H | TITLE: Jibe Wellness CBD Gummies [Top Rated] Reviews “Real or Fake” Full Info?
AUTHORS: Tzachi H
[DESCRIPTION]
Straightforward and you probably definitely know how to naturally utilize it. Since we need to ensure that you know all that you want to, we can give the guidelines here and now.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.qpndvme | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>To analyze a specific genome region using <span lang="EN-US">next-generation sequencing technologies</span>, the enrichment of DNA libraries with targeted capture methods has been standardized. For enrichment of mitochondrial genome, a previous study developed an original tar... | [] |
38,355 | Chloroform-Methanol Protein Extraction with Zymolyase Treatment for Yeast (High Throughput) | 1 | dx.doi.org/10.17504/protocols.io.bhptj5nn | https://www.protocols.io/view/chloroform-methanol-protein-extraction-with-zymoly-bhptj5nn | Jennifer Gin, Yan Chen, Christopher Petzold | TITLE: Chloroform-Methanol Protein Extraction with Zymolyase Treatment for Yeast (High Throughput)
AUTHORS: Jennifer Gin, Yan Chen, Christopher Petzold
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">We adapted a high-throughput sample preparation workflow for Gram-negative bacteria to work with yea... | ["[Zymolyase cell wall treatment]\nThaw cells at\n0 Room temperature\nNote: If transferring directly from active cultures, omit this step. Adapt as needed for your specific organism and culturing conditions.", "[Zymolyase cell wall treatment]\nTransfer 2-4 OD*mLs of cells to 8-Strip PCR tubes (Axygen, Cat.#14-222-251) ... |
36,745 | Buffer 1 and Buffer 2 for magnetic bead-based CD4+ T cell isolation with Dynabeads | null | null | https://www.protocols.io/view/buffer-1-and-buffer-2-for-magnetic-bead-based-cd4-bf5hjq36 | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: Buffer 1 and Buffer 2 for magnetic bead-based CD4+ T cell isolation with Dynabeads
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[STEPS] | [] |
60,961 | DNA extraction and Nanopore library prep from single wild-caught drosophilids | 1 | dx.doi.org/10.17504/protocols.io.dm6gpbdn8lzp/v1 | https://www.protocols.io/view/dna-extraction-and-nanopore-library-prep-from-sing-b7r9rm96 | Bernard Y Kim | TITLE: DNA extraction and Nanopore library prep from single wild-caught drosophilids
AUTHORS: Bernard Y Kim
[DESCRIPTION]
We have been assembling the genomes of many Drosophila species. This protocol fork allows for the sequencing of single wild-caught flies using Nanopore MinION sequencers, in contrast to our previou... | ["[(Optional) Hydration of ethanol-fixed tissue] Place flies on a sheet of filter paper and briefly dab with a Kimwipe to remove excess ethanol, then transfer the fly to a 1.5 mL tube.", "[(Optional) Hydration of ethanol-fixed tissue] Add 500 µL Buffer STE to the tube with the flies.", "[(Optional) Hydration of ethanol... |
28,225 | Glucose "Clamp" for measurement of whole body insulin-stimulated glucose disposal | null | dx.doi.org/10.17504/protocols.io.7s9hnh6 | null | Donald McClain | TITLE: Glucose "Clamp" for measurement of whole body insulin-stimulated glucose disposal
AUTHORS: Donald McClain
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This is the standard protocol for measuring insulin actio... | ["Jugular Vein Catheterization:a. Anesthetize mouse by injection of 12.5mg/ml Avertin (0.15ml/10 grams body weight, ip). Recipe for Avertin: dissolve 0.625g of 2,2,2-Tribromoethanol (Aldrich Chemical Company, Inc. T4,840-2) in 1.25ml tertiary amyl alcohol, bring solution up to 50ml with sterile water, store at 4C in th... |
38,037 | Determining IIDP Minimal Donor Criteria | 1 | dx.doi.org/10.17504/protocols.io.bhdvj266 | https://www.protocols.io/view/determining-iidp-minimal-donor-criteria-bhdvj266 | Integrated Islet Distribution Program | TITLE: Determining IIDP Minimal Donor Criteria
AUTHORS: Integrated Islet Distribution Program
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">This SOP defines the pancreas donor profile acceptable for use in the National Institute of Diabetes and Dige... | ["[I.\tIIDP Donor Inclusion Criteria]\nThe following are IIDP Inclusion Criteria for Pancreas Donors for Human Islet Isolation:", "[I.\tIIDP Donor Inclusion Criteria]\nA multi-organ donor or pancreas-only donor if the donor meets all the criteria for multi-organ donation", "[I.\tIIDP Donor Inclusion Criteria]\nAdequate... |
20,908 | UC Davis - Gut Microbiome Analysis (454-3K reads) | null | dx.doi.org/10.17504/protocols.io.ynkfvcw | null | Trina Knotts | TITLE: UC Davis - Gut Microbiome Analysis (454-3K reads)
AUTHORS: Trina Knotts
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block"><span>The work of Gordon and colleagues (i.e., Nature. 2006 Dec 21;444(7122):1027-31) has s... | ["Mice are singly housed in clean cages with fresh food and water and low bedding.", "Weigh mouse and “food-in” (grams of rodent diet provided at start of experiment).", "Save several pellets of rodent diet for analysis (e.g., for energy or macronutrient content)-Store at 4C in airtight container.", "At 24h, weigh mou... |
32,054 | Optical coherence tomography angiography in age-related macular degeneration | null | dx.doi.org/10.17504/protocols.io.bbiwikfe | null | Miklos Resch | TITLE: Optical coherence tomography angiography in age-related macular degeneration
AUTHORS: Miklos Resch
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">All subjects underwent a comprehensive ophthalmic examination, including best-corrected visual acuity (VA) assessment (ETDRS Charts), slit lamp, a... | [] |
86,828 | Automation Protocol for High-Efficiency and High-Quality Genomic DNA Extraction from Saccharomyces Cerevisiae | 4 | dx.doi.org/10.17504/protocols.io.8epv592p5g1b/v3 | https://www.protocols.io/view/automation-protocol-for-high-efficiency-and-high-q-cy2kxycw | Nina Alperovich, David Ross, Benjamin M Scott | TITLE: Automation Protocol for High-Efficiency and High-Quality Genomic DNA Extraction from Saccharomyces Cerevisiae
AUTHORS: Nina Alperovich, David Ross, Benjamin M Scott
[DESCRIPTION]
Here, we describe a protocol for automated extraction of genomic DNA (gDNA) from yeast liquid culture and colonies. The protocol uses... | ["[Preparation of Zymolyase Stock] Prepare stock of Zymolyase 20T by dissolving to a concentration of 1 U/µL in 1x PBS.", "[Preparation of Zymolyase Stock] Divide Zymolyase solution into 800 µL aliquots and store at -20 °C until use.", "[Preparation of 2-Mercaptoethanol Stock] Prepare 0.001 % stock of 2-Mercaptoethanol... |
101,452 | CRISPRi of regulatory elements upon degron operation (CRUDO) | 0 | null | https://www.protocols.io/view/crispri-of-regulatory-elements-upon-degron-operati-dfbk3ikw | Philine Guckelberger, Benjamin R. Doughty, Glen Munson, Charles P. Fulco, Drew T. Bergman, Judhajeet Ray, Evelyn Jagoda, Chad J. Munger, Andreas R. Gschwind, Lars M. Steinmetz, Eric S. Lander, Jesse Engreitz | TITLE: CRISPRi of regulatory elements upon degron operation (CRUDO)
AUTHORS: Philine Guckelberger, Benjamin R. Doughty, Glen Munson, Charles P. Fulco, Drew T. Bergman, Judhajeet Ray, Evelyn Jagoda, Chad J. Munger, Andreas R. Gschwind, Lars M. Steinmetz, Eric S. Lander, Jesse Engreitz
[DESCRIPTION]
Enhancers are key dr... | ["[Designing a CRUDO experiment] General considerations for selection of a gene targets for CRUDO.\nTo optimize experimental outcomes when applying CRUDO, we recommend selecting target genes with relatively high expression levels (e.g., RNA-seq TPM >20). This is especially crucial if you anticipate perturbations to dec... |
101,751 | The Effects of Tai Chi on Insomnia Based on Multi-modal Brain Functional Connection and Signal Extraction: A Protocol for Randomized Controlled Trial | 0 | dx.doi.org/10.17504/protocols.io.14egn69yyl5d/v1 | https://www.protocols.io/view/the-effects-of-tai-chi-on-insomnia-based-on-multi-dfkx3kxn | Jinying Li | TITLE: The Effects of Tai Chi on Insomnia Based on Multi-modal Brain Functional Connection and Signal Extraction: A Protocol for Randomized Controlled Trial
AUTHORS: Jinying Li
[DESCRIPTION]
Background: Insomnia is a prevalent and costly disorder that poses a significant health burden and may be associated with abnorm... | ["[Introduction] Insomnia is a prevalent clinical condition that is characterized by difficulties in either initiating or maintaining sleep, often leading to symptoms during waking hours, including fatigue, decreased attention span, impaired cognitive functioning, irritability, anxiety, and depressed mood.1 The prevale... |
95,794 | CUT&Tag Data Processing and Analysis Tutorial for Time Series | 5 | null | https://www.protocols.io/view/cut-amp-tag-data-processing-and-analysis-tutorial-c9ssz6ee | Ye Zheng, Kami Ahmad, Steven Henikoff | TITLE: CUT&Tag Data Processing and Analysis Tutorial for Time Series
AUTHORS: Ye Zheng, Kami Ahmad, Steven Henikoff
[DESCRIPTION]
This tutorial is largely based off of Ye Zheng's CUT&Tag analysis https://www.protocols.io/view/cut-amp-tag-data-processing-and-analysis-tutorial-e6nvw93x7gmk/v1?step=9 and has been edi... | ["[I. Introduction] Overview of CUT&Tag \n\nThis tutorial is a time series tweaked approach based off of a CUT&Tag processing and analysis pipeline created by Ye Zheng, https://www.protocols.io/view/cut-amp-tag-data-processing-and-analysis-tutorial-e6nvw93x7gmk/v1 (Zheng Y et al (2020). Protocol.io). Some sections and ... |
68,589 | An X-HTDC method for estimating particulate phosphorus from microalgae | 6 | dx.doi.org/10.17504/protocols.io.kqdg35dq7v25/v6 | https://www.protocols.io/view/an-x-htdc-method-for-estimating-particulate-phosph-ce8mthu6 | Yingyu Hu, Zoe V. Finkel | TITLE: An X-HTDC method for estimating particulate phosphorus from microalgae
AUTHORS: Yingyu Hu, Zoe V. Finkel
[DESCRIPTION]
Total particulate phosphorus (TPP) is often determined using the High Temperature Dry Combustion (HTDC) method followed by hydrolysis of the ash and then molybdenum colorimetry. Here we show th... | ["[Sampling] Sampling microalgae for total particulate phosphorus (i.e. intracellular phosphorus and adsorbed phosphorus)", "[Sampling] Filter microalgae in liquid media onto polycarbonate filters, using gentle vacuum pressure (130 mmHg).", "[Sampling] Rinse filter tunnel with filtered artificial seawater (phosphate fr... |
48,421 | Effects of salbutamol on the kinetics of sevoflurane and the occurrence of early PPC in patients with mild to moderate COPD: a randomized controlled study | 1 | dx.doi.org/10.17504/protocols.io.btidnka6 | https://www.protocols.io/view/effects-of-salbutamol-on-the-kinetics-of-sevoflura-btidnka6 | jixueyang | TITLE: Effects of salbutamol on the kinetics of sevoflurane and the occurrence of early PPC in patients with mild to moderate COPD: a randomized controlled study
AUTHORS: jixueyang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Previous studies have demonstrated that bronchodilators can attenuate ... | ["[Purposes]\nWe speculated that salbutamol aerosol used preoperatively ameliorates the bronchoconstriction, improves lung volume and gas distribution, eventually affects the alveolar-capillary interface.To investigate the effects of salbutamol used preoperatively on the kinetics of volatile sevoflurane(wash-in) and th... |
null | null | null | dx.doi.org/10.17504/protocols.io.pbndime | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Standard RNA isolation protocol using TRIzol</p>
[STEPS]
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?.
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?.
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?. | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.s6xehfn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Leukemia is a malignant clonal disease of hematopoietic stem cells, also known as "blood cancer." Leukemia cells proliferate and accumulate in bone marrow and other hematopoietic tissues due to uncontrolled proliferation, differentiation disorders, and blocked apoptosis, and ... | [] |
84,962 | StyroStone: A protocol for scanning and extracting three-dimensional meshes of stone artefacts using Micro-CT scanners | 1 | dx.doi.org/10.17504/protocols.io.4r3l24d9qg1y/v3 | https://www.protocols.click/view/styrostone-a-protocol-for-scanning-and-extracting-cw8axhse | Dominik Göldner, Fotios Alexandros Karakostis, Armando Falcucci | TITLE: StyroStone: A protocol for scanning and extracting three-dimensional meshes of stone artefacts using Micro-CT scanners
AUTHORS: Dominik Göldner, Fotios Alexandros Karakostis, Armando Falcucci
[DESCRIPTION]
This protocol presents the first detailed step-by-step pipeline for the 3D scanning and post processing ... | ["[Part 1 - Styrofoam preparation] Note: Depending on the number of lithics that need to be scanned, this section might take several hours.\n\nSelect a blank Styrofoam body (or similar material) to hold the artefacts. It should be thick enough to carve holes on both sides (Face A and Face B).", "[Part 1 - Styrofoam pre... |
null | null | null | dx.doi.org/10.17504/protocols.io.jytcpwn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><em>Asterionella formosa</em> is a freshwater pennate diatom that forms star-shaped colonies, whose mitochondrial DNA was recently sequenced <span style="font-size: 10.8333px;">[1]</span>. This diatom is of interest for genetic studies <span style="font-size: 10.8333px;">[2,3... | [] |
62,425 | ViaKeto BHB Apple Gummies - FDA-Approved Weight-Loss Diet Gummys Magic Bullet For Weight Loss? | 3 | dx.doi.org/10.17504/protocols.io.j8nlkknd5l5r/v1 | https://www.protocols.io/view/viaketo-bhb-apple-gummies-fda-approved-weight-loss-b87zrzp6 | ViaKeto Apple Gummies | TITLE: ViaKeto BHB Apple Gummies - FDA-Approved Weight-Loss Diet Gummys Magic Bullet For Weight Loss?
AUTHORS: ViaKeto Apple Gummies
[DESCRIPTION]
ViaKeto Apple Gummies
[STEPS] | [] |
89,441 | Production of High-Purity Cell Suspensions from Human Precision Cut Lung Slices for Single-Cell RNA Sequencing | 1 | null | https://www.protocols.io/view/production-of-high-purity-cell-suspensions-from-hu-c3j9ykr6 | Michael Peasley, William_Bender, Alexis Owen, Heidie Huyck, Gautam Bandyopadhyay, Jeffrey Malik, Ravi Misra, John Ashton, Edward E. Walsh, Gloria S Pryhuber, tom mariani, Christopher S. Anderson | TITLE: Production of High-Purity Cell Suspensions from Human Precision Cut Lung Slices for Single-Cell RNA Sequencing
AUTHORS: Michael Peasley, William_Bender, Alexis Owen, Heidie Huyck, Gautam Bandyopadhyay, Jeffrey Malik, Ravi Misra, John Ashton, Edward E. Walsh, Gloria S Pryhuber, tom mariani, Christopher S. Anders... | ["[PPE:] Lab coat, gloves and face shield should be worn at all times. All consumables (e.g. tips) should be disinfected in 10% bleach after use. Surfaces should be cleaned prior and after use with Virex followed by 70% ethanol. Experimenter should not open door to hall while working with tissue. No one is allowed into... |
24,414 | Cell deposition and drug sensitivity assay | null | dx.doi.org/10.17504/protocols.io.336gqre | null | Lev Tsypin, Aaron Turkewitz | TITLE: Cell deposition and drug sensitivity assay
AUTHORS: Lev Tsypin, Aaron Turkewitz
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol describes how to deposit several cells of </span><span style = "font-style:italic;">S. robusta</span><span> in droplets on a petri dish, allowing... | ["[Measure density of floating cells in culture]\nGrow 100 mL volume of cells in a 175 cm2 flask for three to four days, until there is a substantial number of healthy, floating cells", "[Measure density of floating cells in culture]\nStand flask vertically and take a 15 mL volume of the floating culture (so as to not ... |
95,294 | Vanillin Assay-Modified Protocol for Longitudinal Nutrition Utilization Study | 6 | dx.doi.org/10.17504/protocols.io.x54v9p61zg3e/v1 | https://www.protocols.io/view/vanillin-assay-modified-protocol-for-longitudinal-c9a6z2he | Vanessa Corby-Harris | TITLE: Vanillin Assay-Modified Protocol for Longitudinal Nutrition Utilization Study
AUTHORS: Vanessa Corby-Harris
[DESCRIPTION]
This protocol is a modified version of the vanillin assay based off Van Handel's 1985 manuscript: "Rapid Determination of Total Lipids in Mosquitoes."
This method is tailored for determini... | ["[Vanillin Reagent Preparation] Prepare 2:1 chloroform:methanol \n■ 200 mL chloroform\n■ 100 mL methanol", "[Vanillin Reagent Preparation] Prepare 0.25% KCl \n■ 0.25 g KCl\n■ 100 mL distilled water", "[Vanillin Reagent Preparation] Prepare vanillin-phosphoric acid\n○ Use an amber bottle or wrap a clear bottle in foil\... |
83,960 | Analysis of ER structures in Cultured Induced Neuron axons | 4 | null | https://www.protocols.click/view/analysis-of-er-structures-in-cultured-induced-neur-cv8yw9xw | Melissa Hoyer, Harper JW | TITLE: Analysis of ER structures in Cultured Induced Neuron axons
AUTHORS: Melissa Hoyer, Harper JW
[DESCRIPTION]
The endoplasmic reticulum (ER) has a vast proteomic landscape to preform many diverse functions including protein and lipid synthesis, calcium ion flux, and inter-organelle communication. The ER proteome i... | ["[Genetically modify Ngn2-inducible embryonic stem (ES) cell H9 line using Cas9] 1. Genetic editing of Ngn2-inducible ES cells is done using the following protocol “Electroporation of Cas9 protein into human pluripotent stem cells” (dx.doi.org/10.17504/protocols.io.br87m9zn)", "[Differentiation of Stable Cell ES H9 li... |
43,648 | General DNA Extraction with Sigma Extract-N-Amp | 3 | dx.doi.org/10.17504/protocols.io.bnu8mezw | https://www.protocols.io/view/general-dna-extraction-with-sigma-extract-n-amp-bnu8mezw | Jiri Hulcr | TITLE: General DNA Extraction with Sigma Extract-N-Amp
AUTHORS: Jiri Hulcr
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes general DNA Extraction with Sigma Extract-N-Amp.</div><div class = "text-block"><span>This protocol is part of the Bark Beetle Mycobiome (BBM) Research C... | [] |
93,146 | Imaging single SYTOX Orange molecules on a PLL-coated cover glass | 1 | dx.doi.org/10.17504/protocols.io.x54v9pbbmg3e/v1 | https://www.protocols.io/view/imaging-single-sytox-orange-molecules-on-a-pll-coa-c672zhqe | Ezra Bruggeman | TITLE: Imaging single SYTOX Orange molecules on a PLL-coated cover glass
AUTHORS: Ezra Bruggeman
[DESCRIPTION]
This is a protocol for the preparation of a microscopy sample of single SYTOX Orange molecules on a PLL-coated cover glass. This protocol was used to generate the data shown in Figure 1a, 1b and 1c of the fol... | ["[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] Create a sample well on the cleaned cover glass by sticking a frame-seal slide chamber (9x9 mm, SLF0201, Bio-rad) on the cover glass.", "[Protocol] Use ... |
52,765 | Part 2: Custom QXT | 1 | dx.doi.org/10.17504/protocols.io.bxr5pm86 | https://www.protocols.io/view/part-2-custom-qxt-bxr5pm86 | cecilia , Suzie Alarcon, Alessandro Sette | TITLE: Part 2: Custom QXT
AUTHORS: cecilia , Suzie Alarcon, Alessandro Sette
[DESCRIPTION]
This protocol details the procedure of Custom QXT.
[STEPS]
SECTION: A: Fragmentation and Adaptor-tagging
1. FIRST, IF POSSIBLE: Normalize cDNA samples to 2x the input mass (for 1 ng cDNA input will be 2 ng/10.13 µL, for the 5... | ["[A: Fragmentation and Adaptor-tagging] FIRST, IF POSSIBLE: Normalize cDNA samples to 2x the input mass (for 1 ng cDNA input will be 2 ng/10.13 µL, for the 5 ng input will be 10 ng/10.13 µL). Run quants (picogreen) to assess concentration. If normalization was successful, add one volume of water to the samples to brin... |
77,806 | Lagash Archaeological Survey and Recording System (LASRS) - Importing ArcGIS Field Maps Data to QGIS | 5 | dx.doi.org/10.17504/protocols.io.261ge386yl47/v1 | https://www.protocols.io/view/lagash-archaeological-survey-and-recording-system-cp8nvrve | Paul C. Zimmerman | TITLE: Lagash Archaeological Survey and Recording System (LASRS) - Importing ArcGIS Field Maps Data to QGIS
AUTHORS: Paul C. Zimmerman
[DESCRIPTION]
This protocol describes how data collected with ArcGIS Field Maps, using forms generated according to the Rectangular Survey Grid Creation with QGIS and Creating Collect... | ["[Export the Targets Shapefile from ArcGIS Field Maps] Log into your ArcGIS Online account with the web browser of your choice.", "[Export Observations Recorded with ArcGIS Field Maps] Click on Content in the page header, navigate to where your Observations feature layer is stored, and click on its name.", "[Export Ob... |
62,839 | Mouse Stereotaxic Surgery | 4 | dx.doi.org/10.17504/protocols.io.b9kxr4xn | https://www.protocols.io/view/mouse-stereotaxic-surgery-b9kxr4xn | Alexandra Nelson | TITLE: Mouse Stereotaxic Surgery
AUTHORS: Alexandra Nelson
[DESCRIPTION]
This protocol describes the steps for performing stereotaxic surgery in mice. It is applicable to intracranial injections (e.g. virus, drug) and placement of implants (e.g. optical fibers, electrode arrays) into targeted regions of mouse brains.
... | ["Prepare drugs and viruses", "Surgery room setup", "Mouse preparation.", "Anesthesia and incision.", "Drilling and skull preparation.", "Injection.", "Implants", "Closing/Suturing\nAfter completion of all injections and implants, the scalp can be sutured. \nFor non-implant surgery, this typically involves 3-4 sutures ... |
32,666 | Standard Operating Procedure (SOP) for the Analysis of benoxacor in subcellular fraction incubations by gas chromatography mass spectrometry/electron capture detector | 1 | dx.doi.org/10.17504/protocols.io.bb52iq8e | https://www.protocols.io/view/standard-operating-procedure-sop-for-the-analysis-bb52iq8e | Derek Simonsen, Hans-Joachim Lehmler | TITLE: Standard Operating Procedure (SOP) for the Analysis of benoxacor in subcellular fraction incubations by gas chromatography mass spectrometry/electron capture detector
AUTHORS: Derek Simonsen, Hans-Joachim Lehmler
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This standard operating procedur... | ["[Sample preparation]\nLabel disposable culture tubes and GC vials. Tubes and vials that need to be labeled include quality assurance/quality control (QA/QC) samples (i.e., buffer, cofactor with no benoxacor, inactivated subcellular fractions, subcellular fractions without c-substrate, and DMSO spiked buffer with cofa... |
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