id float64 1.55k 110k ⌀ | title stringlengths 1 256 ⌀ | template_id float64 0 6 ⌀ | doi stringlengths 39 49 ⌀ | url stringlengths 40 92 ⌀ | authors stringlengths 1 933 ⌀ | protocol_text stringlengths 34 1.08M | steps_list stringlengths 2 269k |
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null | null | null | dx.doi.org/10.17504/protocols.io.uqnevve | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol describes how to prepare a 100x M2
1x M2 media could be created from the stock and supplemental stocks and trace metals could be added afterwards.
Recipes for standard and alternative M2 for culturing freshwater cyanobacteria, such as Synechocystis sp. PCC 6803,... | ["[Important information] Always work under sterile conditions", "[Addition of ingredients for M2 in a 1 l bottle] Add CaCl2 2H2O (3.6 g · L-1)\nIf you do not have hydrated CaCl2, use 2.718 g CaCl2 (powder) for 1L of the stock.\n\n0.25 M Na2-EDTA stock: Dissolve 2.32 g Na2-EDTA (powder) and fill the bottle up with Mill... |
90,306 | Contaminated Liquid Disposal | 1 | null | https://www.protocols.io/view/contaminated-liquid-disposal-c4faytie | jack.hocking | TITLE: Contaminated Liquid Disposal
AUTHORS: jack.hocking
[DESCRIPTION]
This protocol is for the cleaning of contaminated glassware in our lab.
[BEFORE_START]
Virkon can be corrosive to lower-quality metals, where possible minimize contact with metal surfaces.
[GUIDELINES]
Virkon should only be used at the concentr... | ["[Erlenmeyer Flasks] Fill flask with Virkon solution to about 3/4 of the total volume and leave covered.", "[Bottles] If the bottle is less than half full, fill the remainder with Virkon.\nIf the bottle is more than half full, pour into a larger container and refill the smaller bottle with Virkon.\nIf the bottle conta... |
42,009 | Introduction to Primer Design | 3 | null | https://www.protocols.io/view/introduction-to-primer-design-bk9zkz76 | TITLE: Introduction to Primer Design
AUTHORS:
[STEPS] | [] | |
86,559 | ARMS-MBON 18S rRNA and COI gene metabarcoding: scanning for non-indigenous species | 5 | dx.doi.org/10.17504/protocols.io.n92ldmmmnl5b/v1 | https://www.protocols.io/view/arms-mbon-18s-rrna-and-coi-gene-metabarcoding-scan-cyr7xv9n | Nauras Daraghmeh | TITLE: ARMS-MBON 18S rRNA and COI gene metabarcoding: scanning for non-indigenous species
AUTHORS: Nauras Daraghmeh
[DESCRIPTION]
This workflow details how COI and 18S rRNA gene raw amplicon sequencing data from the European ARMS programme (ARMS-MBON) can be processed bioinformatically to generate read count and taxo... | ["[Primer trimming and amplicon sequence variant (ASV) inference using cutadapt and dada2] The downloaded fastq.gz files contain reads which were demultiplexed with two different strategies after MiSeq sequencing. The combined_OmicsData.csv file provided above holds information on this in the Gene_COI_demultiplexed and... |
80,811 | Evaluating Collaboratory Cultures | 1 | null | https://www.protocols.io/view/evaluating-collaboratory-cultures-cs6jwhcn | M Fox, Phil Bourne | TITLE: Evaluating Collaboratory Cultures
AUTHORS: M Fox, Phil Bourne
[DESCRIPTION]
The disciplinary silos in Higher Education were organized around defined fields of study in order to facilitate student instruction—law students receive their education in the Law College, medical students at the School of Medicine, etc... | ["[Landscaping | Facilitation | Framework Development & Testing] Phase I: Landscaping\nThis phase of the study is focused on document review to develop benchmarks and semi-structured interviews to examine the assumptions, values, practices, challenges, needs, perceptions, and services that constitute UVA’s research... |
52,329 | MPRA plasmid pool preparation | 1 | null | https://www.protocols.io/view/mpra-plasmid-pool-preparation-bxchpit6 | Gerald Raffl, Boyan Bonev | TITLE: MPRA plasmid pool preparation
AUTHORS: Gerald Raffl, Boyan Bonev
[DESCRIPTION]
Protocol to generate the MPRA plasmid pool.
[STEPS]
SECTION: PCR amplification of oligos
1. Design of single stranded oligo library:
5'-AGGACCGGATCAACT**CRE_270bp**CATTGCGTGAACCGA-3'
SECTION: PCR amplification of oligos
3. To trans... | ["[PCR amplification of oligos] Design of single stranded oligo library:\n5'-AGGACCGGATCAACT**CRE_270bp**CATTGCGTGAACCGA-3'", "[PCR amplification of oligos] To transform the single stranded oligos into double stranded DNA, set up the following PCR reaction:\n2 µL single stranded oligos \n5 µL primer pool_amp_F (10µM st... |
29,320 | A protocol for Agrobacterium mediated transformation of Mimulus guttatus from leaf petiole explants | null | dx.doi.org/10.17504/protocols.io.8vghw3w | null | Srinidhi Holalu, Benjamin Blackman | TITLE: A protocol for Agrobacterium mediated transformation of Mimulus guttatus from leaf petiole explants
AUTHORS: Srinidhi Holalu, Benjamin Blackman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">This is a protocol for Agrobacterium mediated transformation of Mim... | ["[Establishing invitro cultures for explant source (2.5-3 months): Surface sterilization of seeds]\nCollect mature seeds from plants grown in greenhouse or growth chamber to reduce contamination in tissue culture. Seeds collected from natural sites/fields may increase the risks of endogenous contaminations in cultures... |
52,404 | Genomic DNA Extraction | 4 | dx.doi.org/10.17504/protocols.io.bxeupjew | https://www.protocols.io/view/genomic-dna-extraction-bxeupjew | Likhithchandragiri | TITLE: Genomic DNA Extraction
AUTHORS: Likhithchandragiri
[DESCRIPTION]
Genomic DNA extraction from E. coli
[GUIDELINES]
1. Don't place any vials containing SDS into an ice tray as the SDS will precipitate
2. Use a laminar flow hood while working with any cultures in autoclaved reagents or cultures
3. Don't vorte... | ["[Preparing the cell pellet (E coli)] Prepare cell pellet by centrifuging an overnight culture of E. coli at 4 °C and 7000 rpm for 10 min", "[Extracting the genomic DNA (gDNA)] Gently resuspend the cell pellet in 500 µL of autoclaved MilliQ water by mixing with a pipette and transfer into a 2 mL microcentrifuge tube... |
null | null | null | dx.doi.org/10.17504/protocols.io.ejpbcmn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol outlines the analysis used to generate input files for CoNet for the phage-bacteria network. Based on methods from the following publication:<br /><br />Hannigan, Geoffrey D., et al. "The Human Skin Double-Stranded DNA Virome: Topographical and Temporal Diversity, ... | [] |
26,865 | CDH17: a New Diagnostic Marker for Digestive System Adenocarcinoma | null | dx.doi.org/10.17504/protocols.io.6grhbv6 | null | susan wind | TITLE: CDH17: a New Diagnostic Marker for Digestive System Adenocarcinoma
AUTHORS: susan wind
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">CDH17, also known as liver-cadherin or liver-intestine cadherin, belongs to 7D-cadherin family. Its coding gene is located on human chromosome 8 q22.1. Cadher... | [] |
86,576 | sCD40L ELISA Assay | 1 | dx.doi.org/10.17504/protocols.io.5jyl8pp2dg2w/v1 | https://www.protocols.io/view/scd40l-elisa-assay-cysqxwdw | fzhou | TITLE: sCD40L ELISA Assay
AUTHORS: fzhou
[DESCRIPTION]
This protocol for the sCD40L ELISA kit (Cat#BMS6010, Invitrogen) is used to measure the concentration of sCD40L in serum and CSF samples in mice.
[STEPS]
1. Prepare Wash Buffer.
2. Wash the microwell strips twice with 300 μL Wash Buffer per well. Allow the Wash b... | ["Prepare Wash Buffer.", "Wash the microwell strips twice with 300 μL Wash Buffer per well. Allow the Wash buffer to sit for 10-15s before harshly drop it in the strain. Wash again.", "Empty wells on the paper towel, use the strip immediately after washing.", "Prepare the standard dilution as the protocol. Using Sample... |
null | null | null | dx.doi.org/10.17504/protocols.io.qtrdwm6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
?. | [] |
39,777 | Antibody characterizations by BioLayer Interferometry (BLI) | 4 | dx.doi.org/10.17504/protocols.io.bi39kgr6 | https://www.protocols.io/view/antibody-characterizations-by-biolayer-interferome-bi39kgr6 | Rabiatul Adawiyah, Patricia Ng, Bei Wang, Cheng-I Wang | TITLE: Antibody characterizations by BioLayer Interferometry (BLI)
AUTHORS: Rabiatul Adawiyah, Patricia Ng, Bei Wang, Cheng-I Wang
[STEPS]
?. [ACE2 competition assay by BioLayer Interferometry (BLI)]
ACE2 competition assay by BioLayer Interferometry (BLI)
?. [Epitope binning by BioLayer Interferometry (BLI)]
Epitope b... | ["[ACE2 competition assay by BioLayer Interferometry (BLI)]\nACE2 competition assay by BioLayer Interferometry (BLI)", "[Epitope binning by BioLayer Interferometry (BLI)]\nEpitope binning by BioLayer Interferometry (BLI)", "[Fab affinity measurement by BioLayer Interferometry (BLI)]\nFab affinity measurement by BioLaye... |
28,675 | Overnight Bacterial Culture | null | dx.doi.org/10.17504/protocols.io.79bhr2n | null | Alba Balletbó | TITLE: Overnight Bacterial Culture
AUTHORS: Alba Balletbó
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to grow an overnight culture of bacteria in LB (Luria-Bertani) liquid media broth. </div></div>
[STEPS]
?. Pour appropriate volume of LB broth into the selected auto... | ["Pour appropriate volume of LB broth into the selected autoclaved container.", "Open and add the frozen aliquot of bacteria to the LB broth or making use of an inoculation loop, carefully select your isolated colony from the media plate and shake the loop in media until the fragment has come loose and is visibly float... |
54,434 | P1 Kidney Cold-Active Protease Single Cell Dissociation | 1 | dx.doi.org/10.17504/protocols.io.bzeap3ae | https://www.protocols.io/view/p1-kidney-cold-active-protease-single-cell-dissoci-bzeap3ae | Andrew Potter, Steve Potter | TITLE: P1 Kidney Cold-Active Protease Single Cell Dissociation
AUTHORS: Andrew Potter, Steve Potter
[DESCRIPTION]
Method used to derive single cell suspension from P1 mouse kidneys on ice, generating a cell suspension with greatly reduced artifact gene expresion changes and suitable for downstream analysis using 10x ... | ["Extract & isolate P1 kidneys in ice-cold PBS.", "Mince kidneys on top of petri dish, on ice, using razor blade.", "Weigh out 25 mg of tissue for each tube of B. Lich. enzyme mix (2 tubes total). \n\n25 5", "Incubate tissue + enzyme on ice for 7 minutes while triturating 15 strokes using 1 mL pipet every 2 minutes set... |
34,777 | Cell Interaction by Multiplet sequencing (CIM-seq) | 1 | dx.doi.org/10.17504/protocols.io.bd7zi9p6 | https://www.protocols.io/view/cell-interaction-by-multiplet-sequencing-cim-seq-bd7zi9p6 | Nathanael Andrews, Jason T. Serviss, Natalie Geyer (Karolinska Institute Stockholm), Agneta B. Andersson, Ewa Dzwonkowska, Iva Šutevski, Rosan Heijboer, Ninib Baryawno (Karolinska Institute Stockholm), Marco Gerling, Martin Enge | TITLE: Cell Interaction by Multiplet sequencing (CIM-seq)
AUTHORS: Nathanael Andrews, Jason T. Serviss, Natalie Geyer (Karolinska Institute Stockholm), Agneta B. Andersson, Ewa Dzwonkowska, Iva Šutevski, Rosan Heijboer, Ninib Baryawno (Karolinska Institute Stockholm), Marco Gerling, Martin Enge
[DESCRIPTION]
Single ... | ["[Prepare Lysis buffer] Prepare Lysis Buffer:\n \nNOTE: Reagents are prepared on ice, working quickly. ERCC is stored in single-use aliquots at -80 °C, thawed on ice and added last.\n\n 1H201.31Inhibitor0.05ERCC (1:600000)0.0510% Triton0.0410mM dNTP0.5100uM dT0.05Total2\nAdd 2 µL lysis buffer mix to each well. Cover ... |
59,633 | Detection of recombinant and endogenous LPPR3 by western blot | 1 | null | https://www.protocols.io/view/detection-of-recombinant-and-endogenous-lppr3-by-w-b6grrbv6 | cristina.kroon | TITLE: Detection of recombinant and endogenous LPPR3 by western blot
AUTHORS: cristina.kroon
[DESCRIPTION]
This is a protocol for detection of overexpressed and endogenous LPPR3 from N1E-115 cells and primary hippocampal neurons.
[STEPS]
SECTION: Sample preparation
1. N1E cells for detection of recombinant LPPR3
... | ["[Sample preparation] N1E cells for detection of recombinant LPPR3\n\nDIV 0: N1E cells were plated at a density of 150 000 cells/well (6-well plates) and grown overnight in DMEM medium (Gibco) with 10% FCS and 1% penicillin/streptomycin. \nDIV 1: The cells were transfected with 1 µg of DNA using Lipofectamine 2000 (Th... |
22,718 | Salt stress experiment in supported hydroponics examining the salt stress tolerance of durum wheat | null | dx.doi.org/10.17504/protocols.io.2e6gbhe | null | Magdalena Julkowska | TITLE: Salt stress experiment in supported hydroponics examining the salt stress tolerance of durum wheat
AUTHORS: Magdalena Julkowska
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a standard protocol for durum wheat treatment, which was initially developed by Genc et al., 2008 and Genc et... | ["Sterilize wheat seedsPut the wheat seeds in 50% household bleech for 10 minutes.Wash with sterile MiliQ water in laminar hood for 3-5 timesPut the seeds in 10 ml of sterile MQ and leave at 4C for over night to break the dormancy", "Germinate the wheat seedsPut the sterilized seeds on autoclaved germination paper (e.g... |
84,128 | Immunoprecipitation of NAP1-GFP | 4 | dx.doi.org/10.17504/protocols.io.5jyl8pmndg2w/v1 | https://www.protocols.io/view/immunoprecipitation-of-nap1-gfp-cwd8xa9w | Elias Adriaenssens | TITLE: Immunoprecipitation of NAP1-GFP
AUTHORS: Elias Adriaenssens
[DESCRIPTION]
This protocol describes immunoprecipitation of NAP1-GFP from HAP1 cells.
[STEPS]
SECTION: Immunoprecipitation
1. Transiently transfect FIP200 knockout HAP1 cells with pcDNA3.1 NAP1-EGFP (Addgene), or empty pcDNA3.1 vector as a negative c... | ["[Immunoprecipitation] Transiently transfect FIP200 knockout HAP1 cells with pcDNA3.1 NAP1-EGFP (Addgene), or empty pcDNA3.1 vector as a negative control, using Lipofectamine 2000 (Thermo Fisher).", "[Immunoprecipitation] After 48 h, collect the cells by trypsinization and wash the cell pellet with PBS once. Then, lys... |
57,899 | Von Stosch (VS) enriched seawater medium solution | 6 | dx.doi.org/10.17504/protocols.io.14egn77emv5d/v1 | https://www.protocols.io/view/von-stosch-vs-enriched-seawater-medium-solution-b4sjqwcn | Anton Kuech | TITLE: Von Stosch (VS) enriched seawater medium solution
AUTHORS: Anton Kuech
[DESCRIPTION]
This protocol outlines the steps required to prepare von Stosch (VS) enriched seawater medium modified according to Guiry & Cunningham (1984).
[BEFORE_START]
It is important to follow the order of chemicals added as shown i... | ["[Vitamin B12 stock solution] 5 mg in 500 mL", "[Primary solution] In 4 L dissolve:", "[Primary solution] 1.86 g (Na₂-EDTA 2 H₂O)", "[Primary solution] 21.26 g", "[Primary solution] 0.139 g", "[Primary solution] 0.98 g", "[Primary solution] 0.05 g", "[Primary solution] 0.1 g", "[Primary solution] 20 mL Vitamin ... |
65,595 | Cloning sgRNA in lentiCRISPR v2 plasmid | 4 | dx.doi.org/10.17504/protocols.io.eq2lyn5kpvx9/v1 | https://www.protocols.io/view/cloning-sgrna-in-lenticrispr-v2-plasmid-cca3ssgn | Goran Tomic | TITLE: Cloning sgRNA in lentiCRISPR v2 plasmid
AUTHORS: Goran Tomic
[DESCRIPTION]
This protocol describes cloning procedure for lentiviral vector for fast KO generation in a polyclonal or single-cell derived population. The sgRNA and Cas9 are expressed constitutively. If later injecting the cells into immunocompetent... | ["Design sgRNA on Benchling CRISPR tool with sticky ends to insert into lentiCRISPR v2 plasmid (Addgene #52961). Advised to include a non-targeting gRNA as a control.", "Order the oligos from Sigma (dry, suspend in Annealing buffer at 100 uM). Annealing Buffer Composition (1X): 10 mM Tris, pH 7.5 - 8.0, 50 mM NaCl, 1 m... |
null | null | null | dx.doi.org/10.17504/protocols.io.e7xbhpn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?. | [] |
100,973 | Subsampling Ethanol Preservative from Zooplankton Museum Collections for DNA Extractions | 1 | dx.doi.org/10.17504/protocols.io.j8nlk888wl5r/v1 | https://www.protocols.io/view/subsampling-ethanol-preservative-from-zooplankton-deum3eu6 | Andreas Novotny | TITLE: Subsampling Ethanol Preservative from Zooplankton Museum Collections for DNA Extractions
AUTHORS: Andreas Novotny
[DESCRIPTION]
This protocol is used to sample DNA from archived samples preserved in ethanol, without having to subsample or split the actual zooplankton biomass.
[BEFORE_START]
Read background inf... | ["[ETHANOL SUBSAMPLING] To re suspend DNA in the zooplankton sample, invert the sample jar three times.", "[ETHANOL SUBSAMPLING] Let settle for 30 minutes", "[ETHANOL SUBSAMPLING] Use a serological pipette to remove 50 ml of the ethanol preservative, and transfer to a 50 mL falcon tube.", "[ETHANOL SUBSAMPLING] Use a s... |
70,661 | Sample preparation and lysis of homogenized malaise trap samples | 4 | dx.doi.org/10.17504/protocols.io.dm6gpjrmjgzp/v1 | https://www.protocols.io/view/sample-preparation-and-lysis-of-homogenized-malais-cg9dtz26 | Dominik Buchner | TITLE: Sample preparation and lysis of homogenized malaise trap samples
AUTHORS: Dominik Buchner
[DESCRIPTION]
This protocol describes the steps of sample preparation and lysis before DNA extraction for the Malaise trap metabarcoding protocol of the LeeseLab.
[BEFORE_START]
Make sure all buffers are prepared before ... | ["Shake the sample well.\nTransfer 800 µL of the small size fraction and 200 µL of the large size fraction to a 2 mL screwcap tube. It might be beneficial to use wide-bore tips or cut off the tip when using regular pipette tips.", "11.000 x g, 3 min", "Remove as much ethanol as possible with a 1000 µL pipette.", "For e... |
88,602 | Carver et al., Aged Brain Spatial Profiling - Immunofluorescence Imaging | 1 | dx.doi.org/10.17504/protocols.io.rm7vzx6drgx1/v1 | https://www.protocols.io/view/carver-et-al-aged-brain-spatial-profiling-immunofl-c2r2yd8e | Chase Carver | TITLE: Carver et al., Aged Brain Spatial Profiling - Immunofluorescence Imaging
AUTHORS: Chase Carver
[DESCRIPTION]
This protocol provides the preparation and staining process to perform traditional immunohistochemistry on free-floating mouse brain section used in in Carver et al., "Senescent- and disease-associated ... | ["[Block and permeabilization] Transfer 30 μm free-floating brain section to well containing 8% donkey serum, 0.1% Triton-X, 0.1% Tween-20 in PBS. Incubate for 2 hours at 25C.", "[Block and permeabilization] Remove blocking solution and wash sections thoroughly in cold PBS 5 times for 5 minutes each on shaker", "[Quenc... |
62,922 | Extraction and selection of high-molecular-weight DNA for long-read sequencing from Chlamydomonas reinhardtii | 4 | dx.doi.org/10.17504/protocols.io.8epv59j9jg1b/v2 | https://www.protocols.io/view/extraction-and-selection-of-high-molecular-weight-b9pir5ke | Frédéric Chaux-Jukic, Nicolas Agier, Stephan Eberhard, Zhou Xu | TITLE: Extraction and selection of high-molecular-weight DNA for long-read sequencing from Chlamydomonas reinhardtii
AUTHORS: Frédéric Chaux-Jukic, Nicolas Agier, Stephan Eberhard, Zhou Xu
[DESCRIPTION]
Recent advances in long-read sequencing technologies have enabled the complete assembly of eukaryotic genomes from... | ["[Harvesting and storage of cells] Grow Chlamydomonas reinhardtii cells in 100 mL TAP medium under low light (~5 µmol photon.m-2.s-1) with constant shaking at , or in other conditions as appropriate for the specific experiment.", "[Harvesting and storage of cells] Harvest the cells at the end of exponential growth ph... |
42,087 | Protocols for CRISPR | 2 | null | https://www.protocols.io/view/protocols-for-crispr-bmcfk2tn | TITLE: Protocols for CRISPR
AUTHORS:
[STEPS] | [] | |
23,890 | Neuropathy Phentoyping Protocols - Hematoxylin and Eosin Staining | null | dx.doi.org/10.17504/protocols.io.3jsgkne | null | Eva Feldman | TITLE: Neuropathy Phentoyping Protocols - Hematoxylin and Eosin Staining
AUTHORS: Eva Feldman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block"><span style = "font-weight:bold;">Phenotyping of Rodents for the Presence of ... | ["[H&E Procedure:]\nFor paraffin sections and fixed cryosections, deparaffinize and hydrate to water.", "[H&E Procedure:]\nFor fresh cryosections, place in alcoholic formalin for 45 seconds and rinse in water.", "[H&E Procedure:]\nStain in Mayer’s hematoxylin for 15 min.", "[H&E Procedure:]\nWash in lukewarm running wa... |
20,477 | Preparation of tissue culture plates for neural rosettes and neural progenitors | null | dx.doi.org/10.17504/protocols.io.x85fry6 | null | Celeste Karch, Rita Martinez, Jacob Marsh | TITLE: Preparation of tissue culture plates for neural rosettes and neural progenitors
AUTHORS: Celeste Karch, Rita Martinez, Jacob Marsh
[STEPS]
?. Coat 3 wells of a 6-well plate with Poly-L-Ornithine (PLO) for or overnight in humidified incubator.
1 ml
?. Aspirate off PLO and rinse 3 times with DMEM/F12.
?. Dilute ... | ["Coat 3 wells of a 6-well plate with Poly-L-Ornithine (PLO) for or overnight in humidified incubator.\n1 ml", "Aspirate off PLO and rinse 3 times with DMEM/F12.", "Dilute laminin to 10 μg/mL final in cold DMEM/F12 and add 1 mL/well of solution to PLO coated plates.", "Incubate for or overnight in humidified incubato... |
48,558 | Sampling of tooth roots for ancient DNA | 4 | dx.doi.org/10.17504/protocols.io.6qpvrdr83gmk/v1 | https://www.protocols.io/view/sampling-of-tooth-roots-for-ancient-dna-btnnnmde | Marcel Keller, Christiana L Scheib | TITLE: Sampling of tooth roots for ancient DNA
AUTHORS: Marcel Keller, Christiana L Scheib
[DESCRIPTION]
Protocol for the sampling of tooth roots of archaeological human remains for the extraction of ancient DNA.
[BEFORE_START]
Previous step:
This protocol follows the introduction of samples into the ancient DNA lab ... | ["[Preparation] Place down sheets of aluminum foil to cover the entire surface of the drill hood.", "[Preparation] Make an L-shaped “wall” of folded foil that runs along the back of your work area and the side without the drill to keep flying dust from expanding across the hood.", "[Preparation] Place down a smaller pi... |
20,297 | U Mass - Non-esterified fatty acids | null | dx.doi.org/10.17504/protocols.io.x3hfqj6 | null | Jason Kim | TITLE: U Mass - Non-esterified fatty acids
AUTHORS: Jason Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span><span style = "font-weight:bold;"> </span></div><div class = "text-block">
This experiment measures serum and plasma concentrations of non-es... | ["Add 5 μl (or 1~10 μl) of serum or plasma sample to a well of Plate A.", "Add dilution buffer to each well to reach a total sample volume of 50 μl.", "Addition of 5 μl results in a 10x dilution of sample (5 μl of serum/plasma sample in 50 μl total sample volume).", "Add 50 μl of each standard to empty wells. Use Plate... |
53,166 | 跑膠 | 4 | null | https://www.protocols.io/view/protocol-bx6nprde | Yin-Tse Huang, Tina | TITLE: 跑膠
AUTHORS: Yin-Tse Huang, Tina
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">electrophoresis</div></div>
[STEPS]
?. + 配成1倍的buffer
[TBE]
[DDW]
?. 大片的膠大約小片的膠大約Agarose 1% 大塊的膠 表示加 和 DDW
30 mL
20 µl
0.3 g
30 mL
?. 把配好的Gel 1% 放入微波爐加熱 ，每 一次
?. 將Gel到入製膠模型，若有氣泡，可以吸管尖挑開，之後架上齒梳，等
?. 輕輕將齒梳向上拉開（注意要... | ["+ 配成1倍的buffer\n[TBE]\n[DDW]", "大片的膠大約小片的膠大約Agarose 1% 大塊的膠 表示加 和 DDW\n30 mL\n20 µl\n0.3 g\n30 mL", "把配好的Gel 1% 放入微波爐加熱 ，每 一次", "將Gel到入製膠模型，若有氣泡，可以吸管尖挑開，之後架上齒梳，等", "輕輕將齒梳向上拉開（注意要慢慢拉開，否則要加DNA樣品的孔洞會破掉)", "將膠體連同膠模一起放入電泳槽中", "加入 在電泳槽中\n[TBE buffer]", "混和滴在 parafilm 上\n[DNA]\n[dye]"] |
28,118 | The EV71 neutralizing antibody test | null | dx.doi.org/10.17504/protocols.io.7pwhmpe | null | Jian-Te Lee, Ting-Yu Yen, Chun-Yi Lu, Ding-Ping Liu, Yi-Chuan Huang, Luan-Yin Chang, Li-Min Huang, Tzou-Yien Lin | TITLE: The EV71 neutralizing antibody test
AUTHORS: Jian-Te Lee, Ting-Yu Yen, Chun-Yi Lu, Ding-Ping Liu, Yi-Chuan Huang, Luan-Yin Chang, Li-Min Huang, Tzou-Yien Lin
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the process for the neutralizing antibody test of EV71.</div></... | ["Inactivate serum (300 μl) at 56℃ for 30 min ABC1 Sample volumn (μl)\n 1x PBS (μl)\n Dilute factor\n 2 Ex. 75\n 225\n 1:4\nABC1 Sample volumn (μl)\n 1x PBS (μl)\n Dilute factor\n 2 Ex. 75\n 225\n 1:4", "Make 2 fold serial dilution of serum from 1:4 to 1:256 with 2% FBS DMEM\n\t\t\t\t\t\t... |
44,198 | Systematic review and meta-analysis of Mendelian randomisation studies on modifiable risk factors for dementia | 1 | dx.doi.org/10.17504/protocols.io.bpeemjbe | https://www.protocols.io/view/systematic-review-and-meta-analysis-of-mendelian-r-bpeemjbe | Liam Seungjin Lee, William Whiteley, Rosie Walker | TITLE: Systematic review and meta-analysis of Mendelian randomisation studies on modifiable risk factors for dementia
AUTHORS: Liam Seungjin Lee, William Whiteley, Rosie Walker
[STEPS]
?. [Data sources and search strategy]
Articles will be selected for consideration through three stages. Uncertainties will resolved by... | ["[Data sources and search strategy]\nArticles will be selected for consideration through three stages. Uncertainties will resolved by discussion between two reviewers. In stage 1, article relevance will be assessed from the title and abstract of the articles. Inclusion criteria in stage 1.- Published and pre-print pr... |
81,015 | Screening effects of excess copper on worm behaviour | 4 | dx.doi.org/10.17504/protocols.io.n2bvj84bbgk5/v1 | https://www.protocols.io/view/screening-effects-of-excess-copper-on-worm-behavio-ctcxwixn | Thomas J O'Brien | TITLE: Screening effects of excess copper on worm behaviour
AUTHORS: Thomas J O'Brien
[DESCRIPTION]
Protocol for tracking the behaviour of mutant (cua-1[H828Q], Wilson's Disease ortholog) vs wild-type (N2) worms: in the absence of treatment; exposed to 25-100uM CuCl₂ for 4h; reared for one generation on NGM+CuCl₂ plat... | ["[Pick L4 worms for bleaching (9 days prior to tracking)] Pick 10 x L4 worms onto 10 x 90mm NGM-agar plates pre-seeded with E. coli OP50 for each strain to be tested. In this protocol we are comparing the response of a mutant strain containing a H828Q mutation in the cua-1 gene, cua-1[H828Q], to WT control (N2). \n\nT... |
87,409 | Processing of LRRK2-RCKW:GZD-824:E11 | 1 | dx.doi.org/10.17504/protocols.io.81wgbxz81lpk/v1 | https://www.protocols.io/view/processing-of-lrrk2-rckw-gzd-824-e11-czkrx4v6 | Amalia Villagran Suarez | TITLE: Processing of LRRK2-RCKW:GZD-824:E11
AUTHORS: Amalia Villagran Suarez
[DESCRIPTION]
Protocol for processing of LRRK2RCKW bound to GZD-824 and DARPin-E11. This protocol covers everything from preprocessing to refinement.
[STEPS]
SECTION: Preprocessing data
1. Use your preferred software. The original publicati... | ["[Preprocessing data] Use your preferred software. The original publication used MotionCor 2 and CTFFIND4.\nAs a note, all of the data processed was collected on a UltrAuFoil Holey Gold 2/2 200 mesh grids and we used CryoSparc v.4.3.1 to process the data.", "[Particle picking] Blob picker\nWe used cryoSparc-live blob ... |
29,413 | Pathogenicity and immunogenicity of the FAdV CEL35 isolate in SPF chickens | null | dx.doi.org/10.17504/protocols.io.8ydhxs6 | null | Norfitriah Mohamed Sohaimi, Mohd Hair Bejo, Abdul Rahman Omar, Aini Ideris, Nurulfiza Mat | TITLE: Pathogenicity and immunogenicity of the FAdV CEL35 isolate in SPF chickens
AUTHORS: Norfitriah Mohamed Sohaimi, Mohd Hair Bejo, Abdul Rahman Omar, Aini Ideris, Nurulfiza Mat
[STEPS] | [] |
42,008 | Lab 3 Notebook | 3 | null | https://www.protocols.io/view/lab-3-notebook-bk9ykz7w | TITLE: Lab 3 Notebook
AUTHORS:
[STEPS] | [] | |
null | null | null | dx.doi.org/10.17504/protocols.io.j9bcr2n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol provides step-by-step instructions for implementing a perl script to easily automate quality checking of raw tag sequences. This was specifically constructed for the numerous 18S diversity projects (which target the V4 hypervariable specific for evaluting protis... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ks2cwge | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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81,156 | Strategies for optimizing the isolation and expansion of sensitive patient-derived duodenoids, ileoids and colonoids .pdf | 4 | dx.doi.org/10.17504/protocols.io.kxygx9d6og8j/v1 | https://www.protocols.io/view/strategies-for-optimizing-the-isolation-and-expans-cthcwj2w | Katlynn Bugda Gwilt, Jay R. Thiagarajah | TITLE: Strategies for optimizing the isolation and expansion of sensitive patient-derived duodenoids, ileoids and colonoids .pdf
AUTHORS: Katlynn Bugda Gwilt, Jay R. Thiagarajah
[DESCRIPTION]
These protocols are an optimization of previous protocols and the original work described in Sato et al., 2009 which provided a... | [] |
97,713 | Sterilizer (Consolidated SR-24A) | 1 | dx.doi.org/10.17504/protocols.io.6qpvr3e4zvmk/v3 | https://www.protocols.io/view/sterilizer-consolidated-sr-24a-dbnr2md6 | Rebecca Bennett, Nimalka Weerasuriya | TITLE: Sterilizer (Consolidated SR-24A)
AUTHORS: Rebecca Bennett, Nimalka Weerasuriya
[DESCRIPTION]
How to use a Sterilizer/Autoclave (general)
[GUIDELINES]
Anyone who uses the autoclave MUST sign a training log that will be kept by Angie Harting.
[STEPS]
SECTION: Prepare Autoclave
1. Sign up in advance to use the ... | ["[Prepare Autoclave] Sign up in advance to use the autoclave using the sign-up sheet next to the autoclave.\nTurn on using the power switch located on the right back side of the autoclave.", "[Prepare Autoclave] Make sure that the chamber as well as the drain strainer is free of debris. This should be done before ever... |
28,167 | Neuropathy Phentoyping Protocols - Immunohistochemistry for Tissue Sections | null | dx.doi.org/10.17504/protocols.io.7rfhm3n | null | Eva Feldman | TITLE: Neuropathy Phentoyping Protocols - Immunohistochemistry for Tissue Sections
AUTHORS: Eva Feldman
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block"><span style = "font-weight:bold;">Phenotyping of Rodents for the Pr... | ["General Concepts: • Keep buffers consistent through fix, rinses, antibody dilutions and chromogen development. • Antibodies are sticky, always use plastic tips and tubes for storing, diluting and pipeting antibodies. • Check slides after each major step in the protocol to make sure sections are still stuck to the sli... |
97,659 | BAF_Protocol_007a Chloroform/Methanol Precipitation | 0 | dx.doi.org/10.17504/protocols.io.n92ld83q9v5b/v1 | https://www.protocols.io/view/baf-protocol-007a-chloroform-methanol-precipitatio-dbk32kyn | Nicholas Sherman | TITLE: BAF_Protocol_007a Chloroform/Methanol Precipitation
AUTHORS: Nicholas Sherman
[DESCRIPTION]
This protocol extends BAF_Protocol_007 as an alternative to acetone precipitation (normal method). The chloroform/methanol precipitation is a better method if the sample is high in lipid or other hydrophobic small molecu... | ["[Chloroform/Methanol PPT] 100 uL of protein extract of sample added to Eppendorf tube.", "[Chloroform/Methanol PPT] 400 uL of Methanol was added, vortexed well.", "[Chloroform/Methanol PPT] 200 uL of Chloroform was added, vortexed well.", "[Chloroform/Methanol PPT] 300 uL of Water was added, vortexed well.", "[Chloro... |
48,555 | CD45 Depletion: Sorting for CD45 Negative Cells from a single cell suspension | 4 | null | https://www.protocols.io/view/cd45-depletion-sorting-for-cd45-negative-cells-fro-btnjnmcn | Morrisey Lab | TITLE: CD45 Depletion: Sorting for CD45 Negative Cells from a single cell suspension
AUTHORS: Morrisey Lab
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">CD45 Depletion: Sorting for CD45 Negative Cells from a single cell suspension</span></div><div class = "text-bl... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.hp5b5q6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol allows transformation of two species of <em>Pseudo-nitzschia </em>through biolistic method.</p>
<p>With this method it is possible to insert one (transformation) or two (co-transformation) plasmids in the cells. </p>
[STEPS]
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12,958 | Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition | null | dx.doi.org/10.17504/protocols.io.qv6dw9e | null | Adriana Alberti, Julie Poulain, Stefan Engelen, Karine Labadie, Sarah Romac, Isabel Ferrera, Guillaume Albini, Jean-Marc Aury, Caroline Belser, Alexis Bertrand, Corinne Cruaud, Corinne Da Silva, Carole Dossat, Frédéric Gavory, Shahinaz Gas, Julie Guy, Maud Haquelle, E'krame Jacoby, Olivier Jaillon, Arnaud Lemainque, E... | TITLE: Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition
AUTHORS: Adriana Alberti, Julie Poulain, Stefan Engelen, Karine Labadie, Sarah Romac, Isabel Ferrera, Guillaume Albini, Jean-Marc Aury, Caroline Belser, Alexis Bertrand, Corinne Cruaud, Corinne Da Silva, Carole Dossat, Frédér... | [] |
86,980 | Test_PDF_upload | 1 | dx.doi.org/10.17504/protocols.io.e6nvwddwzlmk/v2 | https://www.protocols.io/view/test-pdf-upload-cy7cxziw | Brian, Brian Lee, Brian | TITLE: Test_PDF_upload
AUTHORS: Brian, Brian Lee, Brian
[DESCRIPTION]
This is the update to a fake NGN2 protocol is an example of just a pdf upload of a process.
[STEPS] | [] |
33,351 | Matrix-Assisted Laser Desorption/Ionization-Mass Spectrometric Imaging (MALDI-MSI) | null | dx.doi.org/10.17504/protocols.io.bctfiwjn | null | Guanshi Zhang, Dusan Velickovic, Annapurna Pamreddy, Jessica Lukowski, Theodore Alexandrov, Chris Anderton, Kumar Sharma | TITLE: Matrix-Assisted Laser Desorption/Ionization-Mass Spectrometric Imaging (MALDI-MSI)
AUTHORS: Guanshi Zhang, Dusan Velickovic, Annapurna Pamreddy, Jessica Lukowski, Theodore Alexandrov, Chris Anderton, Kumar Sharma
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Mass spectrometry imaging is a c... | ["[MALDI-15T-FTICR MS (Bruker Solarix) with SmartBeam II laser source– Spatial Lipidomics]\nSlide(s) is (are) removed from the HTX sprayer, remounted in the MTP slide Adapter II and loaded into MS instrument.", "[MALDI-15T-FTICR MS (Bruker Solarix) with SmartBeam II laser source– Spatial Lipidomics]\nExternal calibrati... |
79,240 | Sistema de categorías para el estudio de la eficacia escolar | 1 | dx.doi.org/10.17504/protocols.io.5qpvor18dv4o/v1 | https://www.protocols.io/view/sistema-de-categor-as-para-el-estudio-de-la-eficac-crmgv43w | Carla Ortiz-de-Villate, Javier Rodríguez-Santero, Juan Jesus Torres-Gordillo | TITLE: Sistema de categorías para el estudio de la eficacia escolar
AUTHORS: Carla Ortiz-de-Villate, Javier Rodríguez-Santero, Juan Jesus Torres-Gordillo
[DESCRIPTION]
Sistema de categorías para el estudio de la eficacia escolar. Se ha calculado su confiabilidad y concordancia entre investigadores en nuestra investig... | [] |
74,041 | UPitt TriState SenNet TMC Donor acceptance criteria | 4 | dx.doi.org/10.17504/protocols.io.3byl4jwr2lo5/v1 | https://www.protocols.io/view/upitt-tristate-sennet-tmc-donor-acceptance-criteri-ckizuuf6 | John Sembrat, Alison Morris, koenigshoffm, Oliver Eickelberg | TITLE: UPitt TriState SenNet TMC Donor acceptance criteria
AUTHORS: John Sembrat, Alison Morris, koenigshoffm, Oliver Eickelberg
[DESCRIPTION]
This document outlines the required criteria for donor inclusion of lung and heart specimens in the TriState SenNet TMC Biospecimen Core at the University of Pittsburgh, as pa... | ["[Inclusion Criteria] Inclusion Criteria: \nAge: Adulthood -Young through middle age and senior years (approx. 18 to >95 years)\nAll sex, gender, race, ethnicity are eligible\nKnown state of health and diagnoses", "[Exclusion Criteria] Exclusion Criteria: \nUnknown time of death\nProlonged Warm Ischemic Time (more th... |
81,821 | NCEM Drop - Conventional (TM-014) | 4 | dx.doi.org/10.17504/protocols.io.36wgqjx95vk5/v2 | https://www.protocols.io/view/ncem-drop-conventional-tm-014-ct55wq86 | sandra.crameri | TITLE: NCEM Drop - Conventional (TM-014)
AUTHORS: sandra.crameri
[DESCRIPTION]
Standard routine conventional negative contrast EM.
[STEPS]
SECTION: HEADER
1. SAN:
SPEC No:
OPERATOR:
SECTION: Conventional
2. Adsorb 10 µL sample to grid 10 min , inspect to ensure sample does not dry out.
SECTION: Convention... | ["[HEADER] SAN:\n\n\n\n\nSPEC No:\n\n\n\n\nOPERATOR:", "[Conventional] Adsorb 10 µL sample to grid 10 min , inspect to ensure sample does not dry out.", "[Conventional] Drain excess sample from grid using filter paper, leave wet.", "[Conventional] Stain 1 min", "Drain & dry using filter paper"] |
22,970 | Human Kidney Tumor Dissociation for single-cell genomics | 1 | dx.doi.org/10.17504/protocols.io.2n2gdge | https://www.protocols.io/view/human-kidney-tumor-dissociation-for-single-cell-g-2n2gdge | Evrard Bertrand, Saout Judikael, Lardenois Aurelie, Kammerer-Jacquet Solène-Florence, Rioux-Leclercq Nathalie, Chalmel Frederic | TITLE: Human Kidney Tumor Dissociation for single-cell genomics
AUTHORS: Evrard Bertrand, Saout Judikael, Lardenois Aurelie, Kammerer-Jacquet Solène-Florence, Rioux-Leclercq Nathalie, Chalmel Frederic
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol was developed to dissociate (clea... | ["[Tumor Dissociation]\nMaterial AB1MaterialSupplier Info2Tumor Dissociation Kit, HumanMiltenyi Biotec (130-095-929)3Gentle MACS Octo DissociatorMiltenyi Biotec (130-096-427)4GentleMACS C tubesMiltenyi Biotec (130-096-334)5MACS SmartStrainers 70 µmMiltenyi Biotec (130-098-462)6RPMI 1640Thermofisher (11835030)7Surg... |
75,764 | P 1.- INFORMACIÓN Y DIFUSIÓN | 1 | dx.doi.org/10.17504/protocols.io.5qpvorq7zv4o/v1 | https://www.protocols.io/view/p-1-informaci-n-y-difusi-n-cm8uu9ww | cgarcia | TITLE: P 1.- INFORMACIÓN Y DIFUSIÓN
AUTHORS: cgarcia
[DESCRIPTION]
El Servicio de Información de Doctorado de la Escuela Internacional de Doctorado, está activo y es constante durante todo el curso académico. Se estructura atendiendo al tipo de información facilitada y al agente que demanda la información:
[STEPS]
SE... | ["[P 1.- INFORMACIÓN Y DIFUSIÓN] Información facilitada a futuros doctorandos nacionales e Internacionales\n\nSe debe orientar a los candidatos para que realicen su solicitud en la siguiente fase de resolución de admisiones identificando los siguientes aspectos:\n\nTitulaciones Previas: Esta información nos servirá par... |
null | null | null | dx.doi.org/10.17504/protocols.io.evcbe2w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is a protocol for making a trace metal clean 0.5 mol L<sup>-1 </sup>EPPS (<span style="font-weight: 400;">N-(2-hydroxyethyl)piperazine-N-(3-propanesulfonic acid) solution for dissolved cobalt analyses.</span>
[STEPS]
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103,595 | Immunofluorescent staining of dopaminergic neurons in brains of D. melanogaster | 0 | dx.doi.org/10.17504/protocols.io.eq2lyweyevx9/v1 | https://www.protocols.io/view/immunofluorescent-staining-of-dopaminergic-neurons-dhej33cn | Natalie Kaempf, Uli Pech, Patrik Verstreken | TITLE: Immunofluorescent staining of dopaminergic neurons in brains of D. melanogaster
AUTHORS: Natalie Kaempf, Uli Pech, Patrik Verstreken
[DESCRIPTION]
This protocol is used to visualize for dopaminergic neurons in Drosophila brains, but can be adapted for other targets as well.
[STEPS]
SECTION: Dissection of fly b... | ["[Dissection of fly brains, fixation, block and primary antibody incubation] Prepare fresh 3.7% paraformaldehyde in 1x PBS, 0.2% Triton X-100 (PBX), 500 µL per genotype and store on ice.", "[Dissection of fly brains, fixation, block and primary antibody incubation] Dissect fly brains in ice-cold PBS under stereomicros... |
79,906 | Higienização/esterilização de actígrafos - ActTrust | 5 | dx.doi.org/10.17504/protocols.io.eq2lyp5zwlx9/v3 | https://www.protocols.io/view/higieniza-o-esteriliza-o-de-act-grafos-acttrust-csaawaae | Daniel Vartanian | TITLE: Higienização/esterilização de actígrafos - ActTrust
AUTHORS: Daniel Vartanian
[DESCRIPTION]
Este protocolo faz parte do processo de coleta de dados actigráficos do Grupo Interdisciplinar de Pesquisa em Ritmos Biológicos (GIPERBIO). Ele foi desenhado para os actígrafos provenientes da companhia Condor Instrumen... | ["[Higienização/esterilização] Higienize/esterilize as pulseiras do actígrafo.", "[Higienização/esterilização] Higienize/esterilize o corpo do actígrafo.", "[Higienização/esterilização] Higienize/esterilize os cantos, dobras e parafusos de fixação do actígrafo.", "[Higienização/esterilização] Higienize/esterilize os pa... |
22,457 | UV Crosslinking of Adherent Cells for eCLIP | null | dx.doi.org/10.17504/protocols.io.z6zf9f6 | null | Eric Van Nostrand, Gene Yeo | TITLE: UV Crosslinking of Adherent Cells for eCLIP
AUTHORS: Eric Van Nostrand, Gene Yeo
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Profiling of RNA binding protein targets in vivo provides critical insights into the mechanistic roles they play in regulating RNA processing. The enhanced crosslin... | ["[Wash Cells]\nAspirate spent media", "[UV Crosslinking]\nPlace the tissue culture plate on leveled ice or a cooling block pre-chilled to 4°C", "[UV Crosslinking]\nPlace the above (plate plus ice or cooling block) into the UV cross-linker. Note: Ensure the plate is leveled. Remove tissue culture plate lid for cross-... |
null | null | null | dx.doi.org/10.17504/protocols.io.dpb5im | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The following methods are basically method “A” of Zillig et al. (1994) and were described recently in detail by Prangishvili (2006). These methods consist of enrichment cultures followed by host isolation and screening for virus production in both these isolates and ... | [] |
70,142 | dsRNAs treatment with RNase T1 and DNase I | 4 | dx.doi.org/10.17504/protocols.io.36wgqj9kyvk5/v1 | https://www.protocols.io/view/dsrnas-treatment-with-rnase-t1-and-dnase-i-cgq6tvze | Vahid Jalali Javaran | TITLE: dsRNAs treatment with RNase T1 and DNase I
AUTHORS: Vahid Jalali Javaran
[DESCRIPTION]
For dsRNA sequencing by nanopore sequencing, this protocol was used. Before treating samples with RNase T1, you should measure the total concentration of RNAs in the samples by using a nanodrop or Qubit device, as RNase T1 ha... | ["[Digestion] Add 50 units RNase T1 per 1µg of total RNA and 1 unit DNase I per 2µg of total RNA", "[Digestion] Add 10X DNase Buffer with MgCl2 (final concentration should be 1X).", "[Digestion] Incubate at 37 degrees C for 20 min.", "[Inactivation of enzymes] cleanup with phenol/chloroform extraction."] |
45,126 | U-uF-SM1-2/3 Serpentine Mixing Chips User Manual | 4 | dx.doi.org/10.17504/protocols.io.bqbemsje | https://www.protocols.io/view/u-uf-sm1-2-3-serpentine-mixing-chips-user-manual-bqbemsje | Serhat S | TITLE: U-uF-SM1-2/3 Serpentine Mixing Chips User Manual
AUTHORS: Serhat S
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is the user manual for U-uF-SM1-2/3 Serpentine Mixing Chips of uFluidic.com</div></div>
[STEPS]
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This is a PDMS microchannel on microscope glass chip, UV s... | ["[INTRODUCTION]\nThis is a PDMS microchannel on microscope glass chip, UV sterilized, and packaged. Serpentine mixing chips have multiple inlets and long channels for passive mixing of liquids by diffusion. Main application areas are flow chemistry and organic synthesis.", "[ABOUT COMPANY]\nWE'RE A DESIGN AND FABRICAT... |
100,508 | Integrated Bioinformatics Approach to Metabolite Detection from Metagenomic Data | 0 | dx.doi.org/10.17504/protocols.io.kxygxy35dl8j/v1 | https://www.protocols.io/view/integrated-bioinformatics-approach-to-metabolite-d-ded43a8w | Vidya Niranjan, Lavanya C, Pooja Hoovina Venkatesh, Karthik.V, Sahana R | TITLE: Integrated Bioinformatics Approach to Metabolite Detection from Metagenomic Data
AUTHORS: Vidya Niranjan, Lavanya C, Pooja Hoovina Venkatesh, Karthik.V, Sahana R
[DESCRIPTION]
The exploration of metabolites derived from metagenomic data holds immense potential for the discovery of novel bioactive compounds with... | ["[Retrieval of 16s Metagenomic Data] The Mulberry Rhizosphere 16s metagenomic samples were collected from NCBI SRA. The Illumina MiSeq platform was utilized for metagenomic analysis using an amplicon sequencing strategy. The source material consisted of environmental or biological samples from which DNA was extracted.... |
50,733 | protocols.ioでプロトコルを公開する | 1 | dx.doi.org/10.17504/protocols.io.bvsmn6c6 | https://www.protocols.io/view/protocols-io-bvsmn6c6 | Ayu Nagane Uchikawa, Anita Broellochs | TITLE: protocols.ioでプロトコルを公開する
AUTHORS: Ayu Nagane Uchikawa, Anita Broellochs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">protocol.ioでプロトコルを公開する方法についてのプロトコルです。</div></div>
[STEPS]
?. [PUBLISHボタンを見つける]
プロトコルのページ(viewモード)で「PUBLISH」ボタンを見つける:
?. [PUBLISHボタンをクリックする]
プロトコルを公開する準備ができたら、「PUBLISH」ボタンをク... | ["[PUBLISHボタンを見つける]\nプロトコルのページ(viewモード)で「PUBLISH」ボタンを見つける:", "[PUBLISHボタンをクリックする]\nプロトコルを公開する準備ができたら、「PUBLISH」ボタンをクリックします。", "[PUBLISHボタンをクリックする]\n新しいウィンドウが開きます。", "[著者の追加]\nこのプロトコルに貢献したすべての著者を追加してください。テキストフィールドに著者名（複数の場合はカンマで区切る）を入力して「ADD」をクリックするか、「add myself as an author」をクリックして自分を著者として追加してください。また、各著者の所属を追加してください。", ... |
null | null | null | dx.doi.org/10.17504/protocols.io.mkbc4sn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div title="Page 1">
<div>
<div>
<div>
<p>We have continued to optimize this protocol since doing the experiments in the<a href="http://www.sciencedirect.com/science/article/pii/S0092867415005498" target="_blank"> Macosko <em>et al. Cell</em> paper</a>. What we are sharing here ... | [] |
19,095 | Contrast-enhanced magnetic resonance imaging of gastric emptying and motility in rats | null | dx.doi.org/10.17504/protocols.io.wvxfe7n | null | Kun-Han Lu, Zhongming Liu, Jaiyue Cao | TITLE: Contrast-enhanced magnetic resonance imaging of gastric emptying and motility in rats
AUTHORS: Kun-Han Lu, Zhongming Liu, Jaiyue Cao
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><h2>Briefly, a gadolinium‐based contrast agent was mixed with the animal’s meal in order for chyme to appear “br... | ["[Animal protocol]\nThirty rats(male, 228‐330 g) were included in the study according to procedures approved by Purdue Animal Care and Use Committee. Rats were housed individually in ventilated cages with elevated stainless steel wire floors during all time to prevent the animals from accessing their feces. The enviro... |
20,513 | U Michigan - Optokinetic Measurements of Visual Acuity and Contrast Sensitivity | null | dx.doi.org/10.17504/protocols.io.x99fr96 | null | David A. Antonetti | TITLE: U Michigan - Optokinetic Measurements of Visual Acuity and Contrast Sensitivity
AUTHORS: David A. Antonetti
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">A virtual optometry system is used to quantify the spat... | ["Animal is placed inside a square box displaying a rotating cylinder comprised of a vertical sine wave grating is calculated and drawn in virtual three-dimensional coordinate space on four computer monitors facing the animal to form a square.", "Animal stands unrestrained on a platform in the center of the square", "T... |
null | null | null | dx.doi.org/10.17504/protocols.io.hhcb32w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><span style="color: #000339; font-family: Raleway, sans-serif; font-size: 14px; font-style: normal; font-variant-ligatures: normal; font-variant-caps: normal; letter-spacing: normal; orphans: 2; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; w... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.jn5cmg6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.n58dg9w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol is provided for optimization of miRNA mimics transfection in a 6-well plate. Lipofectamine® RNAiMAX Transfection Reagent is a proprietary formulation for transfecting small RNAs (e.g., siRNA, Silencer® Select siRNA, Stealth® RNAi, mirVana™ miRNA mimics and inhib... | [] |
67,283 | Protocol for vagus nerve stimulation in anesthetized pigs (subject-2) | 1 | dx.doi.org/10.17504/protocols.io.n92ldzdx7v5b/v1 | https://www.protocols.io/view/protocol-for-vagus-nerve-stimulation-in-anesthetiz-cdxts7nn | Oliver Armitage | TITLE: Protocol for vagus nerve stimulation in anesthetized pigs (subject-2)
AUTHORS: Oliver Armitage
[DESCRIPTION]
The Vagus nerve innervates a number of thoracic and visceral organs. Exogenous nervous signal, for example, Vagus nerve stimulation (VNS) provides a route to modulating their function for therapeutic pur... | ["[Surgery] We do the nerve preparation and device implantation.", "[Data Acquisition Validation] We validate the quality of the physiological and neural signals.", "[Equipment Setup] We do the setup of the BIOS A1 System (electrophysiology).", "We install vital signs monitoring. [respiratory pressure, ECG, blood press... |
64,827 | Pure Calms CBD Gummies *Soothes Stubborn Stress Away* Powerful Naturally Grown CBD! | 3 | dx.doi.org/10.17504/protocols.io.14egn7rnzv5d/v1 | https://www.protocols.io/view/pure-calms-cbd-gummies-soothes-stubborn-stress-awa-cbi3skgn | kennethqest | TITLE: Pure Calms CBD Gummies *Soothes Stubborn Stress Away* Powerful Naturally Grown CBD!
AUTHORS: kennethqest
[DESCRIPTION]
Pure Calms CBD Gummies *Soothes Stubborn Stress Away* Powerful Naturally Grown CBD!
[STEPS] | [] |
36,618 | SPARC Cat - Sham Control Chronic Implant Cat 4, Day 0 | 1 | dx.doi.org/10.17504/protocols.io.bfzijp4e | https://www.protocols.io/view/sparc-cat-sham-control-chronic-implant-cat-4-day-0-bfzijp4e | Brett Hanzlicek, Margot Damaser | TITLE: SPARC Cat - Sham Control Chronic Implant Cat 4, Day 0
AUTHORS: Brett Hanzlicek, Margot Damaser
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a procedure for a sham control chronic implant cat experiment (Day 0) for cystotomy (bladder surgery). The cystotomy is performed and... | ["[Transport Cat]\nTransport cat from housing site to surgery site.", "[Animal Prep and catheter placement]\nAnimal is anesthetized and abdomen is shaved by the vet team. The cat is then moved into the surgery room and attached to monitors by the vet team.", "[Animal Prep and catheter placement]\nDrape animal and perf... |
null | null | null | dx.doi.org/10.17504/protocols.io.pnfdmbn | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?. | [] |
44,958 | Improved methods for high yield genomic DNA of cat stools using DNeasy PowerSoil Pro Kit. | 1 | dx.doi.org/10.17504/protocols.io.bp56mq9e | https://www.protocols.io/view/improved-methods-for-high-yield-genomic-dna-of-cat-bp56mq9e | Hajar Fauzan Ahmad | TITLE: Improved methods for high yield genomic DNA of cat stools using DNeasy PowerSoil Pro Kit.
AUTHORS: Hajar Fauzan Ahmad
[STEPS]
?. Spin the PowerBead Pro Tube briefly to ensure that the beads have settled at the bottom. Add up to 250 mg (ideally 200 to 250 mg) of cat stool and 800 µl of Solution CD1, together wit... | ["Spin the PowerBead Pro Tube briefly to ensure that the beads have settled at the bottom. Add up to 250 mg (ideally 200 to 250 mg) of cat stool and 800 µl of Solution CD1, together with 25 µL of Proteinase K. Vortex briefly to mix.", "Vortex at maximum speed for 10 min. Upon completion, transfer to Eppendorf ThermoMix... |
53,382 | Effectiveness of rehabilitation for osteoarthritis of the knee associated with isolated meniscus injury: a scoping review protocol | 1 | dx.doi.org/10.17504/protocols.io.bydeps3e | https://www.protocols.io/view/effectiveness-of-rehabilitation-for-osteoarthritis-bydeps3e | Masateru Hayashi, Shusaku Koga, Takashi Kitagawa | TITLE: Effectiveness of rehabilitation for osteoarthritis of the knee associated with isolated meniscus injury: a scoping review protocol
AUTHORS: Masateru Hayashi, Shusaku Koga, Takashi Kitagawa
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Objective: The purpose of this scoping review is to exam... | [] |
45,713 | Isolation of clean single-cell samples for physiological or molecular experiments (Radiolaria, Acantharia) | 4 | dx.doi.org/10.17504/protocols.io.bqvrmw56 | https://www.protocols.io/view/isolation-of-clean-single-cell-samples-for-physiol-bqvrmw56 | Joost Mansour, Fabrice Not | TITLE: Isolation of clean single-cell samples for physiological or molecular experiments (Radiolaria, Acantharia)
AUTHORS: Joost Mansour, Fabrice Not
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Many marine protists are not culturable and therefore... | ["[Preparations]\nPrepare filter-sterilised seawater (FSW, 0.2 μm-pore-size)", "[Preparations]\nPrepare your Pasteur pipet isolation tool by elongating the pipet tip under a flame. Carefully break the tip of the pipet to the desired length (and width, longer is thinner).Attach the tubing and optionally a filter on the ... |
94,667 | Basic Operant Behavioral Training | 1 | dx.doi.org/10.17504/protocols.io.4r3l22k93l1y/v1 | https://www.protocols.io/view/basic-operant-behavioral-training-c8pjzvkn | Alexandra Nelson, Xiaowen Zhuang | TITLE: Basic Operant Behavioral Training
AUTHORS: Alexandra Nelson, Xiaowen Zhuang
[DESCRIPTION]
This protocol includes information about the operant chamber, mouse preparation, initial shaping (training), and instrumental learning. This can be followed by other behavioral tasks, such as probabilistic reversal learnin... | ["[Operant Box Setup] Ensure the correct SD cards are inserted into the logging shield of each chamber.", "[Operant Box Setup] Connect the USB cable of each Arduino to the computer.", "[Operant Box Setup] Turn on the 12-volt power supply.", "[Operant Box Setup] Pour 10 mL diluted milk into each falcon tube for each beh... |
66,313 | Detoxil 600mg Kapseln Avis France 2020- Avantage or Medical Forum Arnaque | 1 | dx.doi.org/10.17504/protocols.io.dm6gpbkw8lzp/v1 | https://www.protocols.io/view/detoxil-600mg-kapseln-avis-france-2020-avantage-or-cczhsx36 | health | TITLE: Detoxil 600mg Kapseln Avis France 2020- Avantage or Medical Forum Arnaque
AUTHORS: health
[DESCRIPTION]
L'utilisation régulière des pilules doit obtenir les résultats souhaités nécessaires. La seule chose que l'utilisateur doit garder à l'esprit est que sauter des repas ne l'aidera pas à perdre du poids, il d... | ["Detoxil : Vous sentez-vous gêné en regardant votre silhouette dans le miroir ? Tu sais ce que je veux dire? Eh bien, cela fait très mal parce que vous faites de votre mieux pour vous mettre en forme même en faisant des heures régulières et en faisant de l'exercice, mais vous êtes déçu maintenant et je vous dis pourq... |
20,729 | Determination of Total Hydrogen Cyanide Levels in Fresh Cassava Roots using the picrate paper method | null | dx.doi.org/10.17504/protocols.io.ygzftx6 | null | Matema Imakumbili | TITLE: Determination of Total Hydrogen Cyanide Levels in Fresh Cassava Roots using the picrate paper method
AUTHORS: Matema Imakumbili
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">This protocol describes how to analyse total cyanide (HCN) levels in... | ["Place the small plastic balance on its U-shaped mount so that it swings freely. It has a 100 mg weight glued inside one spoon. \n\t\t\t\t\t\t\t .justify:after {\n\t\t\t\t\t\t\t content: \"\";\n\t\t\t\t\t\t\t display:inline-block;\n\t\t\t\t\t\t\t width: 100%;\n\t\t\t\t\t\t\t }\n\t\t\t\t\t\t\tNotes: \n\t\t\t... |
69,737 | Processing PBMCs for multiplexed scRNA-seq | 4 | dx.doi.org/10.17504/protocols.io.dm6gpj881gzp/v1 | https://www.protocols.io/view/processing-pbmcs-for-multiplexed-scrna-seq-cgchtst6 | Ning Xie, Fang Zhang, Yuanqing Feng, Sarah Tishkoff | TITLE: Processing PBMCs for multiplexed scRNA-seq
AUTHORS: Ning Xie, Fang Zhang, Yuanqing Feng, Sarah Tishkoff
[DESCRIPTION]
Purpose: to prepare viable single cells from frozen PBMCs for scRNA-seq, multiplexing strategy is applied to reduce batch effect and cost.
[BEFORE_START]
Carefully determine the PBMCs will be u... | ["[Thawing PBMCs] Prepare Complete medium and Washing medium, and warm to 37°C in a water bath. \nPrepare 50 mL Falcon tubes with 25 mL Washing medium each.", "[Thawing PBMCs] Remove cryovials from liquid nitrogen storage and place them on dry ice.", "[Thawing PBMCs] Thaw frozen vials in the water bath at 37°C for 1 mi... |
43,751 | DNT Induction | 1 | dx.doi.org/10.17504/protocols.io.bnyfmftn | https://www.protocols.io/view/dnt-induction-bnyfmftn | Zhujun Wei | TITLE: DNT Induction
AUTHORS: Zhujun Wei
[STEPS]
?. The DNT powder (>99%) was dissolved in 80% acetonitrile solution, prepared as 10g/L stock solution, and stored at 4℃.
?. The glycerin strains were first grown overnight in LB medium at 37℃ supplied with appropriate antibiotics.
?. The bacteria cultured overnight were... | ["The DNT powder (>99%) was dissolved in 80% acetonitrile solution, prepared as 10g/L stock solution, and stored at 4℃.", "The glycerin strains were first grown overnight in LB medium at 37℃ supplied with appropriate antibiotics.", "The bacteria cultured overnight were diluted by 1/100 times into fresh LB medium, and a... |
63,918 | Biologic Trim Keto Gummies Reviews 2022 – Is this worth buying? | 1 | dx.doi.org/10.17504/protocols.io.36wgq7y23vk5/v1 | https://www.protocols.io/view/biologic-trim-keto-gummies-reviews-2022-is-this-wo-cannsdde | GenevaSatterfield | TITLE: Biologic Trim Keto Gummies Reviews 2022 – Is this worth buying?
AUTHORS: GenevaSatterfield
[DESCRIPTION]
Biologic Trim Keto GummiesWork · Keto Blast Gummies can assist you with getting more fit and shape your body
[STEPS]
1. ➢ Product Name — Biologic Trim Keto Gummies
➢ Composition — Natural Organic Compou... | ["➢ Product Name — Biologic Trim Keto Gummies\n\n➢ Composition — Natural Organic Compound\n\n➢ Side-Effects — NA\n\n➢ Availability — Online\n\n➢ Rating — ⭐⭐⭐⭐⭐\n\n➢ Official Website (Sale Is Live) — Biologic Trim Keto Gummies\n\n➢VISIT THE OFFICIAL WEBSITE TO BUY TODAY SPECIAL OFFER!!\n\n➢VISIT THE OFFICIAL WEBSITE TO... |
91,254 | Single cell passaging of hPSC | 4 | dx.doi.org/10.17504/protocols.io.261gedjwdv47/v1 | https://www.protocols.io/view/single-cell-passaging-of-hpsc-c5cwy2xe | Valeria Fernandez Vallone, Lyn Healy, Nathalie Lefort, Katarzyna Ludwik, Tamer Onder, Lisa Pavinato, Fatma Visal FVO OKUR, Harald Stachelscheid | TITLE: Single cell passaging of hPSC
AUTHORS: Valeria Fernandez Vallone, Lyn Healy, Nathalie Lefort, Katarzyna Ludwik, Tamer Onder, Lisa Pavinato, Fatma Visal FVO OKUR, Harald Stachelscheid
[DESCRIPTION]
This protocol describes single cell passaging of hPSC using enzymatic dissociation reagents.
[GUIDELINES]
The pr... | ["[hPSC single-cell passaging] Transfer hPSC suspension to a 15 or 50 mL conical tube.", "[hPSC single-cell passaging] Centrifuge at 300 x g for 5 min.", "[hPSC single-cell passaging] Add enzymatic dissociation reagent, refer to Table 1 for recommended working volumes.", "[hPSC single-cell passaging] Add hPSC media sup... |
27,866 | SmartSeq2 for HTP Generation of Bulk RNA Libraries- with Pipetting plan | null | dx.doi.org/10.17504/protocols.io.7f2hjqe | null | Sasa T, Matjaž H | TITLE: SmartSeq2 for HTP Generation of Bulk RNA Libraries- with Pipetting plan
AUTHORS: Sasa T, Matjaž H
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">[insert abstract from MACA_Bulk paper]</div></div>
[STEPS]
?. [cDNA Synthesis]
First Strand Synthesis cDNA synthesis was performed using the Smar... | ["[cDNA Synthesis]\nFirst Strand Synthesis cDNA synthesis was performed using the Smart-seq2 protocol1. Briefly, 96-well plates containing bulk RNA were thawed on ice followed by first-strand synthesis. 6 μl of RT Master Mix was added to each well and mixed by hand. Reverse transcription was carried out by incubating w... |
null | null | null | dx.doi.org/10.17504/protocols.io.ihgcb3w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><a target="_blank"></a>Extracted DNA is quantified using the Quantus fluorometer (Promega) with QuantiFluor®</p>
<p>Double stranded DNA (dsDNA) system according to the instructions in the user manual. The QuantiFluor® dsDNA System contains a fluorescent DNA binding dye which ... | [] |
36,813 | NCBI_rRNA_Submission | 1 | dx.doi.org/10.17504/protocols.io.dm6gprqppvzp/v1 | https://www.protocols.io/view/ncbi-rrna-submission-bf7mjrk6 | Avery S Hiley | TITLE: NCBI_rRNA_Submission
AUTHORS: Avery S Hiley
[DESCRIPTION]
A short tutorial on uploading rRNA sequences to genBank.
[STEPS]
1. First and foremost, gather your rRNA (e.g. mitochondrial 16S, 12S and nuclear 18S, 28S) sequences that need to be uploaded and align them in either Geneious, Mesquite, or using the onli... | ["First and foremost, gather your rRNA (e.g. mitochondrial 16S, 12S and nuclear 18S, 28S) sequences that need to be uploaded and align them in either Geneious, Mesquite, or using the online MAFFT version 7 server: https://mafft.cbrc.jp/alignment/server/.\n\n*Note: Each rRNA gene must be aligned and submitted separately... |
82,682 | Immunohistochemistry Protocol | 4 | dx.doi.org/10.17504/protocols.io.6qpvr417ogmk/v1 | https://www.protocols.click/view/immunohistochemistry-protocol-cuy2wxye | Hong-Yuan Chu | TITLE: Immunohistochemistry Protocol
AUTHORS: Hong-Yuan Chu
[DESCRIPTION]
This protocol describes immunohistochemistry.
[STEPS]
SECTION: Preparation
1. Make up 1 L of fresh Phosphate Buffered Saline (PBS) from 10x stock solution.
SECTION: Preparation
2. Make up PBS-T: 0.2–0.5% Triton X-100 in PBS (stir 100-250 mg Tr... | ["[Preparation] Make up 1 L of fresh Phosphate Buffered Saline (PBS) from 10x stock solution.", "[Preparation] Make up PBS-T: 0.2–0.5% Triton X-100 in PBS (stir 100-250 mg Triton in 50 mL of PBS).", "[Primary reactions] Place each series in a glass vial and rinse mouse brain sections with PBS 3 times before starting pr... |
null | null | null | dx.doi.org/10.17504/protocols.io.gsfbwbn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This collection contains various In-Cell Western Assay protocols that utilize several cell lines. </p>
[STEPS] | [] |
55,783 | Ancient DNA protocol collection – University of Tartu, Institute of Genomics | 2 | dx.doi.org/10.17504/protocols.io.n92ldzbd8v5b/v1 | https://www.protocols.io/view/ancient-dna-protocol-collection-university-of-tart-b2qfqdtn | Marcel Keller, Christiana L Scheib | TITLE: Ancient DNA protocol collection – University of Tartu, Institute of Genomics
AUTHORS: Marcel Keller, Christiana L Scheib
[DESCRIPTION]
Ancient DNA protocols from sampling to library preparation for shotgun Illumina sequencing - aDNA lab UTIG. All protocols except the indexing PCR and purification need to be per... | [] |
43,770 | Keeping beetles alive in transport with wood-flour media | 3 | dx.doi.org/10.17504/protocols.io.bny2mfye | https://www.protocols.io/view/keeping-beetles-alive-in-transport-with-wood-flour-bny2mfye | Allan Gonzalez, Jiri Hulcr | TITLE: Keeping beetles alive in transport with wood-flour media
AUTHORS: Allan Gonzalez, Jiri Hulcr
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes how to safely transport bark and ambrosia beetles. </div><div class = "text-block"><span>This protocol is part of the Bark Beetl... | [] |
49,471 | SARS-CoV-2 NCBI submission protocol: SRA, BioSample, and BioProject | 1 | dx.doi.org/10.17504/protocols.io.bui7nuhn | https://www.protocols.io/view/sars-cov-2-ncbi-submission-protocol-sra-biosample-bui7nuhn | Ruth Timme, Emma Griffiths, Heather Blankenship, Erin Young, Duncan MacCannell, Stacia Wyman, Lee Katz | TITLE: SARS-CoV-2 NCBI submission protocol: SRA, BioSample, and BioProject
AUTHORS: Ruth Timme, Emma Griffiths, Heather Blankenship, Erin Young, Duncan MacCannell, Stacia Wyman, Lee Katz
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">PURPOSE: </span></div><div clas... | ["[\"Ingredients\" to have in place before starting your submissions]\nSet up a new NCBI submission environment for your lab1.1: Create an NCBI user account1.2: Set up an NCBI submission user group for your lab1.4: Bookmark the link to your Submission Portal1.5. Identify or establish new BioProjects (detailed in Step 3... |
96,445 | Exp02 | 0 | dx.doi.org/10.17504/protocols.io.ewov1qez7gr2/v1 | https://www.protocols.io/view/exp02-dae52bg6 | Mayleth Medina Cárdenas, Estefanía Sauceda Camacho, Sofía Morga Benítez | TITLE: Exp02
AUTHORS: Mayleth Medina Cárdenas, Estefanía Sauceda Camacho, Sofía Morga Benítez
[DESCRIPTION]
En este experimento se buscó analizar el cambio de la temperatura del agua con respecto a la ley cero de la termodinámica, de acuerdo al equilibrio térmico. Se planteó la posibilidad de una variación en el cambi... | ["[Circuito Arduino y software] Armar el siguiente circuito:", "[Circuito Arduino y software] En el software de Arduino seleccionar la placa y puertos correspondientes.", "[Circuito Arduino y software] Subir / cargar los programas en Arduino.", "[Circuito Arduino y software] Configurar CoolTerms para registrar la lectu... |
82,371 | DQ-BSA quantification | 4 | dx.doi.org/10.17504/protocols.io.eq2ly7mzplx9/v1 | https://www.protocols.io/view/dq-bsa-quantification-cupbwvin | Narayana Yadavalli, Shawn M. Ferguson | TITLE: DQ-BSA quantification
AUTHORS: Narayana Yadavalli, Shawn M. Ferguson
[DESCRIPTION]
This protocol describes DQ-BSA quantification.
[STEPS]
SECTION: DQ-BSA quantification
1. Segment maximal projection images from z-stacks spanning complete cells by using the find maxima function.
SECTION: DQ-BSA quantification
2... | ["[DQ-BSA quantification] Segment maximal projection images from z-stacks spanning complete cells by using the find maxima function.", "[DQ-BSA quantification] Threshold the duplicated images by default algorithm.", "[DQ-BSA quantification] Combine the segmented and thresholder images by AND function to create a mask."... |
91,443 | Tetraspeck Bead Imaging | 1 | dx.doi.org/10.17504/protocols.io.4r3l22br4l1y/v1 | https://www.protocols.io/view/tetraspeck-bead-imaging-c5ity4en | Joseph S Beckwith | TITLE: Tetraspeck Bead Imaging
AUTHORS: Joseph S Beckwith
[DESCRIPTION]
Protocol for imaging tetraspeck beads on glass coverslips.
[STEPS]
SECTION: Slide Preparation
1. Glass coverslips (Fisher Scientific, 12373128, #1 thickness 22 mm x 50 mm) were plasma cleaned for 30 min (Ar plasma cleaner, PDC-002, Harrick Plasm... | ["[Slide Preparation] Glass coverslips (Fisher Scientific, 12373128, #1 thickness 22 mm x 50 mm) were plasma cleaned for 30 min (Ar plasma cleaner, PDC-002, Harrick Plasma).", "[Slide Preparation] Stick a frame-seal slide chamber (9 mm x 9 mm, SLF0201, Biorad) on the cover glass. Use some blunt tweezers to press down t... |
null | null | null | dx.doi.org/10.17504/protocols.io.c32yqd | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
This protocol comes from a group of other protocols. This protocol is (2) of (4): <br />1. <a href="https://www.protocols.io/view/Large-Volume-Marine-Cyanophage-Phage-Protocols-c3iykd" target="_blank">'Large Volume Marine Cyanophage Phage Protocols'</a><br />2. <a href="https://w... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.qhedt3e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is an example of a simple short read mapping analysis that could be used as part of a transcriptomics or RNA-seq workflow. </p>
<p>Code is intended for use on an Ubuntu 16.04 LTS OS, but it may work on other Unix or Unix-like systems.</p>
<p> </p>
<p>This tutorial uses ... | [] |
40,856 | Preparation of staphylococcal protein-A conjugated to horseradish peroxidase. | 6 | dx.doi.org/10.17504/protocols.io.bj5ykq7w | https://www.protocols.io/view/preparation-of-staphylococcal-protein-a-conjugated-bj5ykq7w | Angel Justiz-Vaillant | TITLE: Preparation of staphylococcal protein-A conjugated to horseradish peroxidase.
AUTHORS: Angel Justiz-Vaillant
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This reagent can be used in ELISA, Western blotting and Dot blot to detect antigens and antibodies. It is important in the immunodiagno... | ["Horseradish peroxidase (500 µg in 50 µl NaCO3 , pH 9.6) is mixed with freshly made sodium periodate solution (1.71 mg/ml) followed by incubation in the dark for 2 h.", "Mix 500 µg of staphylococcal protein-A (SpA) with an equal amount (500 micrograms) of a mix of horseradish peroxidase-sodium periodate.", "The mixtur... |
84,904 | Whole Organoids Harvesting Procedure (Cultrex) | 4 | null | https://www.protocols.io/view/whole-organoids-harvesting-procedure-cultrex-cw6gxhbw | Gabriela Vallejo Flores | TITLE: Whole Organoids Harvesting Procedure (Cultrex)
AUTHORS: Gabriela Vallejo Flores
[DESCRIPTION]
This protocol is use for whole organoids isolation, after isolation organoiods may be:
a. Resuspended in basement membrane matrix for further organoid culture.
b. Resuspended in freezing medium for cryopreservation.
c.... | ["Working on ice, aspirate cell culture media and gently wash each well with 10 volumes of cold (2-8 °C) PBS (Table 1). Be careful not to disrupt the basement membrane matrix containing organoids.", "Aspirate the PBS, and add 10 volumes of cold (2-8 °C) Cultrex™ Organoid Harvesting Solution to each well (Table 1).", "I... |
31,592 | Shitty Models | null | dx.doi.org/10.17504/protocols.io.ba4gigtw | null | Thorsten Sommer, Nina Schiffeler, Sebastian Zachow, Laura Platte | TITLE: Shitty Models
AUTHORS: Thorsten Sommer, Nina Schiffeler, Sebastian Zachow, Laura Platte
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This is the description of how the Shitty Models approach can be integrated e.g. into a lecture. The corresponding article can be found at Github (</sp... | ["FramingIn this first step a context should be established. Why do we work with Shitty Models now? What is the intention behind it? What are the learning objectives? How is the method integrated into the course?", "Kick-offAt this point the group can learn about the background, for example the Shitty Robots. It als... |
63,997 | MEMBER-OWNER 001 | 1 | dx.doi.org/10.17504/protocols.io.caq5sdy6 | https://www.protocols.io/view/member-owner-001-caq5sdy6 | rober | TITLE: MEMBER-OWNER 001
AUTHORS: rober
[DESCRIPTION]
test
[STEPS]
1. test
Lorem ipsum dolor sit amet, consectetur adipiscing elit. Quisque hendrerit mauris quis nibh tincidunt pellentesque. Praesent congue justo vitae molestie dictum. Vivamus odio ipsum, consectetur eu nisi nec, posuere interdum metus. Class apte... | ["test \n\nLorem ipsum dolor sit amet, consectetur adipiscing elit. Quisque hendrerit mauris quis nibh tincidunt pellentesque. Praesent congue justo vitae molestie dictum. Vivamus odio ipsum, consectetur eu nisi nec, posuere interdum metus. Class aptent taciti sociosqu ad litora torquent per conubia nostra, per incepto... |
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