id float64 1.55k 110k ⌀ | title stringlengths 1 256 ⌀ | template_id float64 0 6 ⌀ | doi stringlengths 39 49 ⌀ | url stringlengths 40 92 ⌀ | authors stringlengths 1 933 ⌀ | protocol_text stringlengths 34 1.08M | steps_list stringlengths 2 269k |
|---|---|---|---|---|---|---|---|
null | null | null | dx.doi.org/10.17504/protocols.io.vbne2me | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol describes how to grow an overnight culture of bacteria in LB (Luria-Bertani) liquid media broth.
The overnight culture can be used directly, reinoculated into a larger volume of LB broth or plated to acquire either a lawn of bacterial growth or single isolated co... | ["{\"blocks\":[{\"key\":\"dg2lr\",\"text\":\"Pour appropriate volume of LB broth into your selected autoclaved conical container.\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"8qj0a\",\"text\":\" \",\"type\":\"atomic\",\"depth\":0,\"inlineStyleRanges\":[],\"ent... |
56,687 | Bogus data acquisition protocol II | 1 | dx.doi.org/10.17504/protocols.io.b3kpqkvn | https://www.protocols.io/view/bogus-data-acquisition-protocol-ii-b3kpqkvn | Abby Moore | TITLE: Bogus data acquisition protocol II
AUTHORS: Abby Moore
[DESCRIPTION]
The purpose of this protocol is to demo protocol development.
[BEFORE_START]
These are my warnings.
[GUIDELINES]
These are my guidelines.
[STEPS]
2. In this step, I'll use embed code for Box to display an image of software.
3.... | ["In this step, I'll use embed code for Box to display an image of software.", "In this step, I'll use the command component to refer to a command.", "Before starting, you need to run a test using the following protocol. I referred to this protocol using a hyperlink: Bogus Data Acquisition Protocol I."] |
43,849 | Cross-Linking and Cell Harvesting | 4 | dx.doi.org/10.17504/protocols.io.bn3hmgj6 | https://www.protocols.io/view/cross-linking-and-cell-harvesting-bn3hmgj6 | Vasso Makrantoni, Daniel Robertson, Adele L. Marston | TITLE: Cross-Linking and Cell Harvesting
AUTHORS: Vasso Makrantoni, Daniel Robertson, Adele L. Marston
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A plethora of biological processes like gene transcription, DNA replication, DNA recombination, and chromosome segregation are mediated through prote... | ["[Cross-Linking and Cell Harvesting]\nCross-link cells by adding to give a final concentration of 1% formaldehyde in the culture.\n[11% formaldehyde in diluent buffer]", "[Cross-Linking and Cell Harvesting]\nGently rotate on an orbital shaker at for Scc1, Rec8, Scc2, and Brn1.\n33\nThe cross-linking time and formald... |
72,331 | Synthesis of Silver Nanoparticles | 6 | dx.doi.org/10.17504/protocols.io.q26g7yywkgwz/v1 | https://www.protocols.io/view/synthesis-of-silver-nanoparticles-civjue4n | rdayivi, Bukola Adesanmi, Eric S McLamore, Sherine O. Obare | TITLE: Synthesis of Silver Nanoparticles
AUTHORS: rdayivi, Bukola Adesanmi, Eric S McLamore, Sherine O. Obare
[DESCRIPTION]
This protocol describes the synthesis of silver nanoparticles for colorimetric sensing of environmental samples and for other biochemical applications. The protocol requires 110 minutes to comple... | ["[SECTION 1) Preparation] Prepare stabilizer solution (0.01 M Sodium citrate; Na3C6H5O7) \nPrepare a glass beaker with 50 ml of deionized water and label\nWeigh 0.1290 g of trisodium citrate on scale\nDissolve sodium citrate powder in prepared glass beaker with deionized water\nPlace magnetic stir bar in beaker and pl... |
33,980 | Basic Protocol 1: Generation of eGFP-ARF-P2A-TIR1 or ARF-HA-P2A-TIR1 progenitor cells | null | dx.doi.org/10.17504/protocols.io.bde4i3gw | null | Kizhakke Mattada Sathyan, Thomas G. Scott, Michael J. Guertin | TITLE: Basic Protocol 1: Generation of eGFP-ARF-P2A-TIR1 or ARF-HA-P2A-TIR1 progenitor cells
AUTHORS: Kizhakke Mattada Sathyan, Thomas G. Scott, Michael J. Guertin
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The first procedure for implementing the ARF-AID system is to establish ARF-TIR1 progeni... | ["[Cotransfection of eGFP-ARF-P2A-TIR1 or ARF-HA-P2A-TIR1 and AAVS1 sgRNA]\nRemove media from the HEK293T cells and wash with PBS. Add trypsin to the plate. Incubate the cells for to , rinse and collect cells with of media.\n0.5 ml\n10 ml", "[Cotransfection of eGFP-ARF-P2A-TIR1 or ARF-HA-P2A-TIR1 and AAVS1 sgRNA]\nR... |
73,398 | Procedure for Detection of Aflatoxin B1 and M1 in Urine by High Performance Liquid Chromatography with Fluorescence Detection. | 6 | dx.doi.org/10.17504/protocols.io.rm7vzbj5xvx1/v1 | https://www.protocols.io/view/procedure-for-detection-of-aflatoxin-b1-and-m1-in-cjwwupfe | x.du | TITLE: Procedure for Detection of Aflatoxin B1 and M1 in Urine by High Performance Liquid Chromatography with Fluorescence Detection.
AUTHORS: x.du
[DESCRIPTION]
The purpose of this SOP is to describe how to determine the presence of aflatoxin B1 (AFB1) and aflatoxin M1 (AFM1) in urine with pre-column derivatization b... | ["[Preparation of Standard Stock Solutions and Reagents] The standard stock solutions of each aflatoxin is prepared by dissolving the pre-weighed standard in methanol (AFB1) or chloroform (AFM1) and stored in -20 °C when not in use.", "[Preparation of Standard Stock Solutions and Reagents] A working mixed standard solu... |
76,952 | HCR-fluorescent in situ hybridization (HCR-FISH) of gemmule-hatched freshwater sponges | 4 | dx.doi.org/10.17504/protocols.io.5jyl8jwkdg2w/v1 | https://www.protocols.io/view/hcr-fluorescent-in-situ-hybridization-hcr-fish-of-cpdyvi7w | Scott Nichols | TITLE: HCR-fluorescent in situ hybridization (HCR-FISH) of gemmule-hatched freshwater sponges
AUTHORS: Scott Nichols
[DESCRIPTION]
This HCR-FISH protocol using probes and amplifiers from Molecular Instruments is intended for gemmule-hatched freshwater sponges grown in 35 mm coverslip bottom cell-culture dishes with a ... | ["[Grow sponges in coverslip bottom dishes] Briefly, add 3-4 mL of culture medium to a 35 mm, coverslip bottom culture dish with an inner well diameter of 10mm. Place 1-2 gemmules in the center of the inner well.", "[Membrane counterstaining and fixation] Remove culture medium from the outer well and inner well areas b... |
58,672 | DAB precipitation by Laccase Oxidation | 4 | dx.doi.org/10.17504/protocols.io.bp2l6195zvqe/v1 | https://www.protocols.io/view/dab-precipitation-by-laccase-oxidation-b5iqq4dw | Song-Yi Lee, Heegwang Roh, Mason Mackey, Alice Y. Ting, Mark Ellisman | TITLE: DAB precipitation by Laccase Oxidation
AUTHORS: Song-Yi Lee, Heegwang Roh, Mason Mackey, Alice Y. Ting, Mark Ellisman
[DESCRIPTION]
Genetically-encoded oxidase, LaccID, oxidizes and precipitates DAB with oxygen and therefore without the need for H2O2 or light. LaccID-expressing HEX293T cells precipitated DAB ... | ["[Cell Fixation] LaccID-expressing HEX293T cells are plated onto MatTek dishes containing 35mm glass bottom No. 0 coverslips coated with poly-d-lysine (P35GC-0-14C, MatTek Corporation).", "[Cell Fixation] Cells are washed five times for 2 min each on ice with cold 0.1M sodium cacodylate with 2 mM CaCl2, pH 7.4", "[Cel... |
20,041 | Traditional Chinese Medicine for Helicobacter Pylori infection: An Evidence Assessment for Systemic Reviews and Meta-analysesl | null | dx.doi.org/10.17504/protocols.io.xthfnj6 | null | Xiao-bei Si, Shuai Wang, Xu-min Zhang, Yu Lan | TITLE: Traditional Chinese Medicine for Helicobacter Pylori infection: An Evidence Assessment for Systemic Reviews and Meta-analysesl
AUTHORS: Xiao-bei Si, Shuai Wang, Xu-min Zhang, Yu Lan
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;font-style:italic;">Background:... | [] |
63,304 | Preparation of α-synuclein fibrils amplified from clinical material | 4 | null | https://www.protocols.io/view/preparation-of-synuclein-fibrils-amplified-from-cl-b93gr8jw | arpine.sokratian | TITLE: Preparation of α-synuclein fibrils amplified from clinical material
AUTHORS: arpine.sokratian
[DESCRIPTION]
This protocol describes the preparation of alpha-synuclein fibrils from clinical tissue with a quality control.
Optional conjugation step with phRodo STP ester dye is indicated
[STEPS]
1. Thaw down an a... | ["Thaw down an aliquot of alpha-synuclein monomer stock (track down a batch number with identified EU number, concentration, A260/280 ratio) on ice", "Spin down an aliquot of alpha-synuclein monomer stock solution ( , 10 min4 °C ) and measure the concentration using nanodrop \n\nAdd 3 µL of 10x diluted aliquot in PBS o... |
36,632 | SPARC Cat - Sham Control Chronic Cat 3 Day 30 | 1 | dx.doi.org/10.17504/protocols.io.bfzyjp7w | https://www.protocols.io/view/sparc-cat-sham-control-chronic-cat-3-day-30-bfzyjp7w | Brett Hanzlicek, Anna Rietsch, Margot Damaser | TITLE: SPARC Cat - Sham Control Chronic Cat 3 Day 30
AUTHORS: Brett Hanzlicek, Anna Rietsch, Margot Damaser
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is a procedure for a sham control chronic cat experiment (Day 30-terminal) for cystotomy (bladder surgery). The cystotomy is p... | ["[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... |
71,033 | Ex Vivo Electrophysiology | 4 | dx.doi.org/10.17504/protocols.io.81wgby7zovpk/v1 | https://www.protocols.io/view/ex-vivo-electrophysiology-chkzt4x6 | Harry Xenias, Savio Chan, Loukia Parisiadou | TITLE: Ex Vivo Electrophysiology
AUTHORS: Harry Xenias, Savio Chan, Loukia Parisiadou
[DESCRIPTION]
This protocol describes the preparation of brain slices, setup of the electrophysiology rig, and solutions for collecting whole-cell recordings.
[STEPS]
SECTION: Setup
1. First prepare a 10x stock aCSF solution by fist... | ["[Setup] First prepare a 10x stock aCSF solution by fist add about 200 mL of ddH20 water into a clean 2L flask. Then add each of the following powders:\n§NaCl: 1250 mM\n§KCl: 25 mM\n§NaHCO3: 250 mM\n§NaH2PO4: 12.5 mM", "[Setup] Next, fill the flask approximately three quarters with ddH2O and using a magnetic stirrer, ... |
106,778 | Probabilistic Reversal Learning Task | 0 | dx.doi.org/10.17504/protocols.io.261ge51eog47/v1 | https://www.protocols.io/view/probabilistic-reversal-learning-task-dkh24t8e | Alexandra Nelson, Berenice Coutant, Xiaowen Zhuang | TITLE: Probabilistic Reversal Learning Task
AUTHORS: Alexandra Nelson, Berenice Coutant, Xiaowen Zhuang
[DESCRIPTION]
This is a protocol used to assess mouse reversal learning in an operant box. Food-deprived mice are initially trained in the operant box (milk as the reward) using the related "Basic Operant Behavioral... | ["[Overview/Setup] Setup: This protocol can be used after following the Basic Operant Training protocol listed separately in the same folder on protocols.io. This related protocol includes information about operant box design and implementation, as well as training/shaping that is used prior to using the Probabilistic ... |
79,093 | Frailty in European Emergency Departments (the FEED study) | 1 | dx.doi.org/10.17504/protocols.io.ewov1ok97lr2/v1 | https://www.protocols.io/view/frailty-in-european-emergency-departments-the-feed-crgvv3w6 | James D van Oppen | TITLE: Frailty in European Emergency Departments (the FEED study)
AUTHORS: James D van Oppen
[DESCRIPTION]
This study will describe the prevalence of frailty and methods in use for its assessment in European emergency departments. This knowledge will inform population-attuned configuration of healthcare services and e... | ["Survey to determine site characteristics and availability of frailty-attuned healthcare services.", "Cross-sectional study to determine the prevalence of older age and frailty in emergency care."] |
71,405 | Human Liver Core-Needle Biopsy Processing Protocol | 4 | dx.doi.org/10.17504/protocols.io.8epv5jzwjl1b/v1 | https://www.protocols.io/view/human-liver-core-needle-biopsy-processing-protocol-chymt7u6 | Diana Nakib, Catia Perciani, Ian McGilvray, Sonya Macparland | TITLE: Human Liver Core-Needle Biopsy Processing Protocol
AUTHORS: Diana Nakib, Catia Perciani, Ian McGilvray, Sonya Macparland
[DESCRIPTION]
Dissociating and isolating cells from a liver biopsy for single cell RNA-sequencing and storage for additional multiomic applications. We have developed a high-thoughput method ... | ["[Buffers and Solutions] Biopsy collection tube: \n\nAdd 10 mL HBSS 1X to a 50 mL tube and keep it on ice or in the fridge for the liver biopsy collection (label the tube with the sample ID and date). All catalogue numbers in materials.", "[Buffers and Solutions] PBS-0.04% BSA: \n\nAdd 100 µL of 2% BSA (same as 20 mg/... |
87,996 | Protocol for "Neuromelanin accumulation drives endogenous synuclienopathy in non-human primates" | 2 | dx.doi.org/10.17504/protocols.io.bp2l6xdwrlqe/v1 | https://www.protocols.io/view/protocol-for-34-neuromelanin-accumulation-drives-e-cz64x9gw | jlanciego | TITLE: Protocol for "Neuromelanin accumulation drives endogenous synuclienopathy in non-human primates"
AUTHORS: jlanciego
[DESCRIPTION]
This study was aimed to develop and characterize
a non-human primate (NHP) model of Parkinson’s disease mimicking the known
neuropathological hallmarks of Parkinson’s disease... | [] |
60,285 | Low cost methods for Hydra care | 4 | dx.doi.org/10.17504/protocols.io.ewov14bxkvr2/v2 | https://www.protocols.io/view/low-cost-methods-for-hydra-care-b645rgy6 | Callen Hyland, Jennifer DeSantis | TITLE: Low cost methods for Hydra care
AUTHORS: Callen Hyland, Jennifer DeSantis
[DESCRIPTION]
Hydra is genus of freshwater cnidarian polyp found in lakes, ponds, and streams all over the world. Its remarkable ability to regenerate missing body parts, and even its whole body from fragments, has made Hydra a model s... | ["[Brine shrimp cyst storage] Store brine shrimp cysts:\n\nBrine shrimp eggs can form thick-shelled cysts that remain dormant for many years until exposed to water. Freshly hatched nauplii (first developmental stage) of the brine shrimp Artemia franciscana are a convenient food for Hydra because they are easily stored ... |
null | null | null | dx.doi.org/10.17504/protocols.io.ncbdasn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A step-by-step procedure for autologous platelet-rich plasma production was developed for topical percutaneous injection in donkeys.</p>
<p>This protocol was used in the following publication:</p>
<p>Faillace V, Tambella AM, Fratini M, Paggi E, Dini F, Laus F. Use of autologo... | [] |
100,554 | Delivery via SMDNAS02 | 0 | null | https://www.protocols.io/view/delivery-via-smdnas02-defi3bke | Cameron Baker | TITLE: Delivery via SMDNAS02
AUTHORS: Cameron Baker
[DESCRIPTION]
Instructions for delivery of investigator data via the SMDNAS02 drive.
[STEPS]
SECTION: Introduction
1. On July 1st 2024, URMC Genomics Research Center will be moving away from web delivery links and to direct delivery via SMDNAS (specifically SMDNAS02... | ["[Introduction] On July 1st 2024, URMC Genomics Research Center will be moving away from web delivery links and to direct delivery via SMDNAS (specifically SMDNAS02) for internal university users.\n\nThis change in delivery method is being introduced to streamline delivery of data away from links that expire, links th... |
73,801 | HotSHOT genomic DNA extraction | 4 | null | https://www.protocols.io/view/hotshot-genomic-dna-extraction-ckbhusj6 | FishFloorUCL | TITLE: HotSHOT genomic DNA extraction
AUTHORS: FishFloorUCL
[DESCRIPTION]
How to extract genomic DNA from larvae or finclips using the HotSHOT method.
[STEPS]
SECTION: Materials
1. Prepare the BASE solution (50X):
14.03 g KOH crystals (1.25M final concentration)
4 mL of 0.5M EDTA (10 mM final concentration)
ddH2O to ... | ["[Materials] Prepare the BASE solution (50X):\n14.03 g KOH crystals (1.25M final concentration)\n4 mL of 0.5M EDTA (10 mM final concentration)\nddH2O to 200 mL total volume", "[Materials] Prepare the NEUTRALISATION solution (50X)\n63.04 g Tris-HCL (2M final concentration); also called Trizma HCl\nddH2O to 200 mL total... |
62,620 | Weight Crasher Keto Gummies Reviews - Fake Or Trusted? | 1 | dx.doi.org/10.17504/protocols.io.kqdg3p7npl25/v1 | https://www.protocols.io/view/weight-crasher-keto-gummies-reviews-fake-or-truste-b9d4r28w | weightcrasherreviews | TITLE: Weight Crasher Keto Gummies Reviews - Fake Or Trusted?
AUTHORS: weightcrasherreviews
[DESCRIPTION]
Weight Crasher Keto Gummies Reviews - Fake Or Trusted?
[STEPS]
1. Weight Crasher Keto Gummies Reviews - Fake Or Trusted?
Weight Crasher Keto Gummies Review Rotundity is a wide problem that most individualities... | ["Weight Crasher Keto Gummies Reviews - Fake Or Trusted?\nWeight Crasher Keto Gummies Review Rotundity is a wide problem that most individualities are dealing with. People who have poor eating habits and don't engage in visionary conditioning gain weight because their bodies warrant fat- burning mechanisms. There are t... |
80,499 | Construction and Culture Protocol of Neural Stem Cells | 4 | dx.doi.org/10.17504/protocols.io.14egn2qozg5d/v1 | https://www.protocols.io/view/construction-and-culture-protocol-of-neural-stem-c-csutwewn | Creative Bioarray | TITLE: Construction and Culture Protocol of Neural Stem Cells
AUTHORS: Creative Bioarray
[DESCRIPTION]
Because neural stem cells (NSCs) have the potential of self-renewal and multidirectional differentiation, the method of suspended neural bulb culture can be used to obtain and study.
[GUIDELINES]
Because neural stem... | ["[Method] Transfer the culture medium containing nerve balls into a 15 mL conical tube.\nClean the plate with a few of DPBS to maximize cell recovery.\nCentrifuge at 5-7 g for 100-130 minutes according to the size of the global nerve bulb.\nCarefully suck out the supernatant and add 200 μL of solution. Gently re-suspe... |
null | null | null | dx.doi.org/10.17504/protocols.io.sp2edqe | null | null | TITLE: No Title
AUTHORS:
[BEFORE_START]
<p>Prepare 5 μM primer solutions:</p>
<p> </p>
<div title="Page 1">
<p>ITS2 primers used in the 1st PCR:</p>
<p>ITS2-4R GTGACTGGAGTTCAGACGTGTGCTCTTCCGATCTNNNNNNTCCTCCGCTTATTGATATGC</p>
<p>ITS2-S2F ACACTCTTTCCCTACACGACGCTCTTCCGATCTNNNNNNATGCGATACTTGGTGTGAAT</p>
<p> </p>
<p>Index... | [] |
60,325 | iTracer-perturb Plasmid Prep | 4 | null | https://www.protocols.io/view/itracer-perturb-plasmid-prep-b66drha6 | Ashley Maynard, Hsiu-Chuan Lin | TITLE: iTracer-perturb Plasmid Prep
AUTHORS: Ashley Maynard, Hsiu-Chuan Lin
[DESCRIPTION]
Induced pluripotent stem cell (iPSC)-derived organoids provide models to study human organ development. Single-cell transcriptomics enable highly resolved descriptions of cell states within these systems; however, approaches ar... | ["[Order iTracer plasmids] Please order iTracer from the European Plasmid Repository (https://www.plasmids.eu/).\n\npSBbi-iTracer-perturb-R2AG-gG\npSBbi-iTracer-perturb-B2AG-gG", "[Order barcodes] To ensure the greatest barcode diversity please order the barcode components below:\n\nbarcode template: GGACGAGCTGTACAAGTA... |
64,027 | GUARDS Statistical Analysis Plan | 3 | dx.doi.org/10.17504/protocols.io.14egn7yzqv5d/v1 | https://www.protocols.io/view/guards-statistical-analysis-plan-car3sd8n | Professor Catherine Williamson, Dr Jose Blanco Carnero, Dr Catalina de Paco Matallana, Dr Alice Mitchell, Dr Caroline Ovadia, Professor David Wright | TITLE: GUARDS Statistical Analysis Plan
AUTHORS: Professor Catherine Williamson, Dr Jose Blanco Carnero, Dr Catalina de Paco Matallana, Dr Alice Mitchell, Dr Caroline Ovadia, Professor David Wright
[DESCRIPTION]
GUARDS is a double-blind randomised placebo-controlled single site trial. The participating centre in S... | [] |
90,522 | Protocol to isolate and fix nuclei from flash frozen mouse gastrocnemius for IGVF | 4 | null | https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-flash-froz-c4m2yu8e | Elisabeth Rebboah | TITLE: Protocol to isolate and fix nuclei from flash frozen mouse gastrocnemius for IGVF
AUTHORS: Elisabeth Rebboah
[DESCRIPTION]
This protocol describes isolation of nuclei from 10 week old left or right mouse gastrocnemius muscle (tissue ID: 16) from 8 founder strains (B6J, AJ, 129S1J, NZOJ, WSBJ, NODJ, PWKJ, and CA... | ["[Setup] Pre-chill centrifuge to 4C.", "[Setup] Prepare 2 large ice buckets.", "[Setup] Prepare 35 ml lysis buffer on ice in a 50 mL conical tube. Distribute 2 mL into 8 gentleMACS C Tubes on ice. Add 175 ul RNase inhibitor to the lysis buffer aliquot the day of the experiment.", "[Setup] Prepare 3.5 ml NB + BSA. Add ... |
28,748 | Colony Formation Unit Assay | null | dx.doi.org/10.17504/protocols.io.8bkhskw | null | NUS iGEM | TITLE: Colony Formation Unit Assay
AUTHORS: NUS iGEM
[STEPS]
?. Dilute cell culture with 1x PBS to a final concentration of 106, 107 and 108
?. Aliquot of each sample onto the agar plate containing appropriate antibiotic
40 µl
?. Spread the cells evenly
?. Incubate at overnight
37 °C | ["Dilute cell culture with 1x PBS to a final concentration of 106, 107 and 108", "Aliquot of each sample onto the agar plate containing appropriate antibiotic\n40 µl", "Spread the cells evenly", "Incubate at overnight\n37 °C"] |
28,866 | Removal and Preservation of the Urinary Bladder | null | dx.doi.org/10.17504/protocols.io.8fahtie | null | Firuoz Danashgeri | TITLE: Removal and Preservation of the Urinary Bladder
AUTHORS: Firuoz Danashgeri
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">This protocol describes the proper procedure for harvesting bladders from rats or mice f... | ["Bladder removal:1. Anesthetize or euthanize aniamls using approved methods and laid on its back. 2. Make a midline incision in the lower abdominal wall up to the pubic sympheysis. 3. Dissect sharply through the muscle layer by lifting up the muscles of the abdominal wall with a pick up on your left hand and making an... |
36,560 | Recombinant Protein Expression of MMLV-RT H+ | null | dx.doi.org/10.17504/protocols.io.bfxqjpmw | https://www.protocols.io/view/recombinant-protein-expression-of-mmlv-rt-h-bfxqjpmw | Alex Brown | TITLE: Recombinant Protein Expression of MMLV-RT H+
AUTHORS: Alex Brown
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"> This protocol has been optimized for recombinant expression of molony virus based reverse transcriptases (RT). The plasmid used contains a reverse transcriptase gene which is d... | ["[Protein Expression]\nStreak CarbrCamr LB plate supplemented with from frozen stock of Rosetta DE3 . Grow plate overnight at 37°C.", "[Protein Expression]\nSelect single colony from overnight streak plate and inoculate 5mL of LB broth supplemented with Carb and Cam. Grow overnight at 37°C shaking at 250rpm.Prepare 50... |
83,934 | Using Amira to manually segment cell bodies in C.Elegans | 1 | null | https://www.protocols.click/view/using-amira-to-manually-segment-cell-bodies-in-c-e-cv76w9re | Grace Park, Aubrey Weigel, Alyson Petruncio | TITLE: Using Amira to manually segment cell bodies in C.Elegans
AUTHORS: Grace Park, Aubrey Weigel, Alyson Petruncio
[DESCRIPTION]
This protocol describes the techniques used to annotate the cell bodies in C.Elegans. Please reference the Using Amira to manually segment organelles in vEM for machine learning protocol ... | ["[Introduction] This protocol describes the techniques used to annotate the cell bodies in C.Elegans. Please reference the Using Amira to manually segment organelles in vEM for machine learning protocol to find details of the annotation techniques and Amira software.", "[Annotation] Filters can transform the raw image... |
58,932 | Fear Conditioning | 4 | dx.doi.org/10.17504/protocols.io.b5suq6ew | https://www.protocols.io/view/fear-conditioning-b5suq6ew | Haley Geertsma | TITLE: Fear Conditioning
AUTHORS: Haley Geertsma
[DESCRIPTION]
This protocol is used to test mice in the Fear Conditioning behavioural test.
[STEPS]
1. On day 1, confirm that EthoVision is set up properly for a 6-minute test (with 3 tone-shock pairings of a 30-second tone co-terminated with a 2-second foot shock).
... | ["On day 1, confirm that EthoVision is set up properly for a 6-minute test (with 3 tone-shock pairings of a 30-second tone co-terminated with a 2-second foot shock).", "Place mice into the Fear Conditioning apparatus and start the testing.", "Once testing is complete, return mice to their home cage overnight.", "On day... |
44,755 | CELL COUNT- 03 - Automated cell count with Trypan Blue Solution by Cellometer Auto T4 Cell Counter | 4 | dx.doi.org/10.17504/protocols.io.bpxtmpnn | https://www.protocols.io/view/cell-count-03-automated-cell-count-with-trypan-blu-bpxtmpnn | Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino | TITLE: CELL COUNT- 03 - Automated cell count with Trypan Blue Solution by Cellometer Auto T4 Cell Counter
AUTHORS: Marco Cosentino, Elisa Storelli, Alessandra Luini, Massimiliano Legnaro, Emanuela Rasini, Marco Ferrari, Franca Marino
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Published work usi... | ["For automatic cell count with Cellometer machine use Trypan Blue.The machine will calculate the n°of cells/ml and the % of viability.Take of cell suspention and add an equal amount of Trypan Blue. Use all the volume to place it in the given counting chamber. Place the chamber inside Cellometer and count.\n10 µl\n{\"... |
86,909 | DoTA-seq V3.1 | 4 | dx.doi.org/10.17504/protocols.io.81wgbxx3ylpk/v1 | https://www.protocols.io/view/dota-seq-v3-1-cy45xyy6 | freeman.lan | TITLE: DoTA-seq V3.1
AUTHORS: freeman.lan
[DESCRIPTION]
This protocol describes the process of DoTA-seq generating a single cell sequencing library from a cell suspension. This workflow can be performed in two days, with the PCR step happening overnight. Before beginning this workflow make sure to have:
1. The necess... | ["[Preparing Cells] Prepare a cell suspension by washing twice in 1mL of by spinning down at 5000 x g, 1 min", "[Preparing Cells] Resuspend cells in 100 µL", "[Preparing Cells] Add 1 µL 10,000X dye to the cells to stain them", "[Preparing Cells] Count cells using a hemacytometer using the SYBR signal, calculate co... |
80,066 | Ovarian tissue processing from organ donor | 1 | dx.doi.org/10.17504/protocols.io.8epv5jp4dl1b/v1 | https://www.protocols.io/view/ovarian-tissue-processing-from-organ-donor-csfawbie | Hannah McDowell, Elizabeth L Tsui, Monica M Laronda | TITLE: Ovarian tissue processing from organ donor
AUTHORS: Hannah McDowell, Elizabeth L Tsui, Monica M Laronda
[DESCRIPTION]
Purpose: This protocol is intended to be used for human ovarian tissue processing from organ donors in a research setting. This details initial processing of the female reproductive tract, isol... | ["[Ovarian Tissue Processing] Record donor information. This may include: sample ID, location of procurement, date received, age, cause of death, sex, race, ethnicity, infectious disease serologies, weight, height, and body mass index (BMI). \n\nTissue must be processed within 24 hours of procurement in order to mainta... |
45,486 | Protein Transfer using Bio-rad TransBlot Turbo | 4 | null | https://www.protocols.io/view/protein-transfer-using-bio-rad-transblot-turbo-bqnnmvde | Steven Burgess | TITLE: Protein Transfer using Bio-rad TransBlot Turbo
AUTHORS: Steven Burgess
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">A protocol for transfer of proteins from acrylamide gels onto nitrocellulose membrane for immunoblot analysis. This protocol is based on the assumption that TGX pre-cast gels... | ["Place the membrane and bottom stack in the middle of the cassette base", "Place the pre-cast gel (following SDS-PAGE electrophoresis) in the middle of the membrane and roll to remove air-bubbles", "Place the top stack on top of the gel, gently roll", "Close the cassette lid, taking care not to disturb the gel", "Plac... |
72,053 | Freely moving recording: Chronic recoverable Neuropixels in mice | 1 | null | https://www.protocols.io/view/freely-moving-recording-chronic-recoverable-neurop-cikvucw6 | Emily A Aery Jones | TITLE: Freely moving recording: Chronic recoverable Neuropixels in mice
AUTHORS: Emily A Aery Jones
[DESCRIPTION]
This protocol collection explains how to build a low-cost, lightweight system to implant Neuropixels 1.0 probes into mice, record during freely moving behavior, then recover the probe for future use. This ... | ["[Design the enclosure] Consider what acrylic to use (e.g. 1/4\" P95 matte black acrylic).\nUse black if you're planning to track LEDs in the dark or white if you're planning to track a Black6 mouse based on center of mass.\nUse matte finish to reduce reflections from LEDs and overhead lights.\nThicker material makes ... |
81,371 | Parse Evercode WT Mini v2.0.1 Protocol -- University of Minnesota TMCs | 1 | dx.doi.org/10.17504/protocols.io.eq2ly7kjelx9/v1 | https://www.protocols.io/view/parse-evercode-wt-mini-v2-0-1-protocol-university-ctp3wmqn | Parse Biosciences, Laura J Niedernhofer, David A Bernlohr | TITLE: Parse Evercode WT Mini v2.0.1 Protocol -- University of Minnesota TMCs
AUTHORS: Parse Biosciences, Laura J Niedernhofer, David A Bernlohr
[DESCRIPTION]
https://www.parsebiosciences.com/products/evercode-whole-transcriptome
Protocol for Parse Biosciences Evercode, MINI WT -- for trials/pilots, capable of taggin... | [] |
43,713 | Bioinformatics Analysis of Estrogen-Responsive Genes | 1 | dx.doi.org/10.17504/protocols.io.bnw9mfh6 | https://www.protocols.io/view/bioinformatics-analysis-of-estrogen-responsive-gen-bnw9mfh6 | Adam E. Handel | TITLE: Bioinformatics Analysis of Estrogen-Responsive Genes
AUTHORS: Adam E. Handel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Estrogen is a steroid hormone that plays critical roles in a myriad of intracellular pathways. The expression of many genes is regulated through the steroid hormo... | ["[3.1 The Genomic HyperBrowser]\nRegister for the Genomic HyperBrowser (https://hyperbrowser.uio.no/hb/).", "[3.1 The Genomic HyperBrowser]\nPrepare ChIP-seq and transciptomic datasets for upload. ChIP-seq files should be a set of tab-delimited genomic coordinates corresponding to each peak in the format:Chromosome St... |
28,730 | Phenotypic Characterization of the Working Heart | null | dx.doi.org/10.17504/protocols.io.8a2hsge | null | E. Dale Abel | TITLE: Phenotypic Characterization of the Working Heart
AUTHORS: E. Dale Abel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">This protocol describes the procedure used by the DiaComp for cardiac performance, oxygen con... | ["Protocol for Determining Substrate Metabolism in Isolated Working Mouse Hearts.Cardiac metabolism is measured in hearts isolated from mice as early as four weeks of age. Mice are heparinized by intraperitoneal injection of 200μl of heparin (1000USP units/ml) and then subjected to deep anesthesia by injecting chloral ... |
80,891 | MEDI: Macronutrient Extraction and Determination from Invertebrates | 6 | dx.doi.org/10.17504/protocols.io.8epv5zdy5v1b/v2 | https://www.protocols.io/view/medi-macronutrient-extraction-and-determination-fr-cs83whyn | Jordan P Cuff, Shawn M. Wilder | TITLE: MEDI: Macronutrient Extraction and Determination from Invertebrates
AUTHORS: Jordan P Cuff, Shawn M. Wilder
[DESCRIPTION]
Macronutrients, comprising carbohydrates, proteins and lipids, underpin many ecological processes, but their quantification in ecological studies is often inaccurate and laborious, requiring... | ["[Welcome to MEDI!] Welcome to Macronutrient Extraction and Determination from Invertebrates! Here's an overview of the extraction protocol:\n \n\n \n\nThere are several overnight incubation steps, so don't be alarmed by some of the long procedure times!", "[Collection and preparation of materials] Collect invertebra... |
53,877 | Preparation of electrocompetent cells | 4 | dx.doi.org/10.17504/protocols.io.byuvpww6 | https://www.protocols.io/view/preparation-of-electrocompetent-cells-byuvpww6 | Shuning Guo | TITLE: Preparation of electrocompetent cells
AUTHORS: Shuning Guo
[DESCRIPTION]
This protocol is used to prepare electrocompetent cells with high transformation efficiency.
[BEFORE_START]
All the medium and containers used in the protocol should be sterilized by high temperature autoclave.
All the steps that expos... | ["Line the E. coli strain on a solid LB medium without resistance and culture at 37℃ for 12h.", "Pick monoclonal cells from the medium and culture them in 5 ml LB medium at 37℃ for 12h.", "Inoculate 100 ml of LB medium with 1% volume of E. coli culture from step 2.", "Grow the cells at 37℃ shaking at 200 rpm to an OD60... |
null | null | null | dx.doi.org/10.17504/protocols.io.jhtcj6n | null | null | TITLE: No Title
AUTHORS:
[STEPS] | [] |
69,713 | 城市微生物菌相調查計畫——採集土壤教學 | 1 | dx.doi.org/10.17504/protocols.io.4r3l2oxzpv1y/v2 | https://www.protocols.io/view/protocol-cgbrtsm6 | Hsin-Mao Wu | TITLE: 城市微生物菌相調查計畫——採集土壤教學
AUTHORS: Hsin-Mao Wu
[DESCRIPTION]
Soil sample, citizen scientist, 土壤樣本採集，公民科學家
[STEPS]
SECTION: 如何加入專案
1. 開啟Line app，將頁面切換成「聊天」，並按下頂部的掃描圖示(紅框處)
SECTION: 如何加入專案
2. 掃描以下QR code或點選此連結微生物公民科學
SECTION: 如何加入專案
3. 加入成功後會顯示以下畫面
SECTION: 如何加入專案
4. 接著等待採集工具包寄送即可開始採集！
SECTION: 採土
5. 移除表土... | ["[如何加入專案] 開啟Line app，將頁面切換成「聊天」，並按下頂部的掃描圖示(紅框處)", "[如何加入專案] 掃描以下QR code或點選此連結微生物公民科學", "[如何加入專案] 加入成功後會顯示以下畫面", "[如何加入專案] 接著等待採集工具包寄送即可開始採集！", "[採土] 移除表土，取距離土表5~7公分之處的土，裝入塑膠夾鏈袋中\n[示意圖片待補]", "[採土] 將塑膠袋中的土均勻混合，倒入採集罐之中", "[採土] 在採集紀錄紙上勾選採樣地點、採樣種類，以及填寫日期、城市、鄉鎮、地點、採集者等資訊", "[採土] 最後拍兩張照片", "[採土] 打開iNaturalist app，上傳剛剛拍攝的兩張照片... |
null | null | null | dx.doi.org/10.17504/protocols.io.ufdeti6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
SECTION: Day 1 Materials to Prepare
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day 1 Procedure
?.
SECTION: Day ... | ["[Day 1 Materials to Prepare] Stimulation media\nAdd 500 μl fetal bovine serum and 50 μl pen-strep to 4.45 ml RPMI, sterile filter\n\nCell-Tak coated XFp plate.\nPrepare Cell-Tak. Add Cell-Tak and sodium hydroxide to 0.1 M sodium bicarbonate so that each well will receive 0.56 μg Cell-Tak, and sodium hydroxide concent... |
93,177 | ssDNA2.0: Dephosphorylation mix | 3 | dx.doi.org/10.17504/protocols.io.8epv5x5png1b/v1 | https://www.protocols.io/view/ssdna2-0-dephosphorylation-mix-c68zzhx6 | Sarah Nagel, Anna Schmidt, Matthias Meyer | TITLE: ssDNA2.0: Dephosphorylation mix
AUTHORS: Sarah Nagel, Anna Schmidt, Matthias Meyer
[DESCRIPTION]
Protocol for the preparation of Dephosphorylation mix for automated single-stranded DNA library preparation using the ssDNA2.0 method (Gansauge et al. 2020).
References
Gansauge, M.-T., Aximu-Petri, A., Nagel, S.,... | [] |
38,726 | Elevated Plus Maze | 1 | null | https://www.protocols.io/view/elevated-plus-maze-bh3ej8je | Lauren Smith, Lani Tieu, Olivier George | TITLE: Elevated Plus Maze
AUTHORS: Lauren Smith, Lani Tieu, Olivier George
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The elevated plus maze is used to measure anxiety-like behavior in rodents, and to assess the anxiolytic effects of pharmacological compounds. Time in the open arms of the maze ... | ["[Procedure]\nPlace rat in center of elevated plus maze and set the timer to 5 minutes.", "[Procedure]\nUse stopwatch to record the amount of time spent in open arms.In addition, tally the number of entries into each arm (open or closed).\nAt least 3/4 of the rat's body must enter the arm to count as time spent in tha... |
78,693 | Transformation of Bacillus subtilis with DNA obtained from natural donor cell lysis | 4 | dx.doi.org/10.17504/protocols.io.ewov1o1xplr2/v1 | https://www.protocols.io/view/transformation-of-bacillus-subtilis-with-dna-obtai-cq4dvys6 | James P. Finn IV, Sina A. Riazi, Mitchell T. Armstrong, Briana M. Burton | TITLE: Transformation of Bacillus subtilis with DNA obtained from natural donor cell lysis
AUTHORS: James P. Finn IV, Sina A. Riazi, Mitchell T. Armstrong, Briana M. Burton
[DESCRIPTION]
Natural transformation is a mechanism many bacteria use to acquire free DNA from the environment. Bacillus subtilis (B. subtilis... | ["[Two days before the transformation: Preparing donor and recipient strains.] Streak out the donor strain onto a LB agar plate with appropriate antibiotics and incubate at 37 °C for approximately 18 hours to obtain fresh, single colonies.", "[Two days before the transformation: Preparing donor and recipient strains.] ... |
45,670 | MuscleForEveryOne | 5 | null | https://www.protocols.io/view/muscleforeveryone-bquemwte | Keita Fukuyama | TITLE: MuscleForEveryOne
AUTHORS: Keita Fukuyama
[STEPS]
?. We look at "muscle for every one"https://www.nhk.jp/p/kinnikutaisou/
?. Our muscles require training!Push Up!Squat!Superman!Crunch!
?. Go Hard! or Go More Hard!
?. Muscle Never Lie!
?. | ["We look at \"muscle for every one\"https://www.nhk.jp/p/kinnikutaisou/", "Our muscles require training!Push Up!Squat!Superman!Crunch!", "Go Hard! or Go More Hard!", "Muscle Never Lie!"] |
88,481 | UroMOCA and StimPod Device Implantation | 1 | dx.doi.org/10.17504/protocols.io.81wgbxn9olpk/v1 | https://www.protocols.io/view/uromoca-and-stimpod-device-implantation-c2m9yc96 | Dennis Bourbeau, Brett Hanzlicek | TITLE: UroMOCA and StimPod Device Implantation
AUTHORS: Dennis Bourbeau, Brett Hanzlicek
[DESCRIPTION]
This protocol describes the implantation procedure of the wireless bladder device (UroMOCA) and of the wireless stimulation device (StimPods) into pigs.
[BEFORE_START]
Perform standard surgical prep.
[STEPS]
SECTIO... | ["[UroMOCA implantation into bladder] Clean the incision site using Betadine solution and isolate the prep area with sterile towels. Sterile instruments will be used.", "[UroMOCA implantation into bladder] Place animal in supine position.", "[UroMOCA implantation into bladder] Insert single lumen 8 Fr catheter.", "[Ur... |
39,804 | TMTpro HUNTER N-terminomics | 4 | null | https://www.protocols.io/view/tmtpro-hunter-n-terminomics-bi44kgyw | Edward Emmott | TITLE: TMTpro HUNTER N-terminomics
AUTHORS: Edward Emmott
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Protocol for N-terminomic analysis of protease substrates. This method is an adaption of the Weng et al. 2019 Mol. Cell. Proteomics (</span><a href="https://www.ncbi.nlm.nih.gov/pmc/articl... | ["[Day 2 - Sample cleanup]\nCell pellets resuspended in 200uL lysis buffer consisting of:- 1% SDS- 2x Thermo HALT protease inhibitor- 100mM HEPES, pH8- 1% NP40", "[Day 1]\nOne T25 dish of ACE2-A549 cells/sample was collected by centrifugation, washed 3x with PBS, and the pellet frozen in a 5mL low-bind Eppendorf for us... |
100,759 | Protocol for Gibson Assembly | 0 | dx.doi.org/10.17504/protocols.io.n92ld8m48v5b/v1 | https://www.protocols.io/view/protocol-for-gibson-assembly-demx3c7n | Carolina Lopez | TITLE: Protocol for Gibson Assembly
AUTHORS: Carolina Lopez
[DESCRIPTION]
Procedure for cloning using Gibson Assembly
[STEPS]
SECTION: Isolation of Purified Vector:
2. 1. Digest Vector with Restriction Enzymes:
2. Incubate for 180 min at 37 °C.
3. Add 10 µL of 6x loading buffer to reaction
4. Make 1% low melt-agaro... | ["[Isolation of Purified Vector:] 1. Digest Vector with Restriction Enzymes:\n \n2. Incubate for 180 min at 37 °C.\n3. Add 10 µL of 6x loading buffer to reaction\n4. Make 1% low melt-agarose gel.\n a) Mix 1 g of Agar with 100 mL of TAE Buffer.\n b) Microwave to boil agarose and let cool until you can touc... |
27,622 | UC Davis - Glutathione Reductase | null | dx.doi.org/10.17504/protocols.io.68ehhte | null | Peter Havel | TITLE: UC Davis - Glutathione Reductase
AUTHORS: Peter Havel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">
Glutathione reductase (GR, EC 1.6.4.2) is a flavoprotein that catalyzes the NADPH- dependent reduction of oxi... | ["Background or Non-enzymatic Wells - add 120 µl of Assay Buffer and 20 µl of GSSG to three wells.", "Positive Control Wells (Baker's yeast GR) - add 100 µl of Assay Buffer, 20 µl of GSSG, and 20 µl of diluted GR (control) to three wells.", "Sample Wells - add 100 µl of Assay Buffer, 20 µl of GSSG, and 20 µl of sample ... |
26,095 | Make a worm picker | null | dx.doi.org/10.17504/protocols.io.5qpg5vn | null | Cristian Riccio | TITLE: Make a worm picker
AUTHORS: Cristian Riccio
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Make a worm picker. Platinum is used because it cools down very quickly after sterilisation under a flame.</div></div>
[STEPS]
?. Unscrew the loop holder.
?. Cut 8 cm of platinum wire
?. Stick the pla... | ["Unscrew the loop holder.", "Cut 8 cm of platinum wire", "Stick the platinum wire into the loop holder and screw the loop holder.", "With your nails, flatten the end of the platinum wire. This is so as to make it into a bit of a spoon to collect the worms.", "Your worm picker is ready! Sterilise under the flame before... |
97,107 | USDA LTAR Common Experiment measurement: Best practices for collection, handling, and analyses of water quality samples | 1 | dx.doi.org/10.17504/protocols.io.q26g71z68gwz/v1 | https://www.protocols.io/view/usda-ltar-common-experiment-measurement-best-pract-da3t2gnn | Oliva Pisani, Richard Lizotte, Kristen S. Veum, John L. Kovar, Stephen K. Hamilton, Robert W. Malone | TITLE: USDA LTAR Common Experiment measurement: Best practices for collection, handling, and analyses of water quality samples
AUTHORS: Oliva Pisani, Richard Lizotte, Kristen S. Veum, John L. Kovar, Stephen K. Hamilton, Robert W. Malone
[DESCRIPTION]
Following best practices during sample collection and analysis will ... | ["[Sample collection and handling for the analysis of primary water quality metrics] Measure the primary water quality metrics in water leaving croplands from surface runoff, subsurface flow or drain tile, and leaching or percolating water below the rooting zone.", "[Sample collection and handling for the analysis of p... |
45,475 | Protein Concentration Determination using Qubit 4 Fluorometer | 4 | dx.doi.org/10.17504/protocols.io.bqnbmvan | https://www.protocols.io/view/protein-concentration-determination-using-qubit-4-bqnbmvan | Steven Burgess | TITLE: Protein Concentration Determination using Qubit 4 Fluorometer
AUTHORS: Steven Burgess
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Procedure for quantification of protein concentration using a Qubit 4 Fluorometer. The procedure follows the manufacturer's instructions, this version is adapt... | ["[Create Working Solution for Analysis]\nCreate a working solution of Qubit assay buffer by diluting the reagent 1:200 in the provided buffer.\nThe final volume in each tube must be 200 µL. Each standard tube requires 190 µL of Qubit working solution, and each sample tube requires anywhere from 180–199 µL. Therefore p... |
22,995 | DNA extraction protocol | null | dx.doi.org/10.17504/protocols.io.2ptgdnn | null | Unai Baroja, Inazio Garin, Joxerra Aihartza, Aitor Arrizabalaga-Escudero, Nerea Vallejo, Miren Aldasoro, Urtzi Goiti | TITLE: DNA extraction protocol
AUTHORS: Unai Baroja, Inazio Garin, Joxerra Aihartza, Aitor Arrizabalaga-Escudero, Nerea Vallejo, Miren Aldasoro, Urtzi Goiti
[STEPS]
?. Heat the tubes for 15 minutes at in the heatblock
65 °C
Meanwhile add C2 solution to empty 1.5 ml tubes and label them(for step 7)
Meanwhile add C3 ... | ["Heat the tubes for 15 minutes at in the heatblock\n65 °C\nMeanwhile add C2 solution to empty 1.5 ml tubes and label them(for step 7)\nMeanwhile add C3 solution to empty 1.5 ml tubes and label them(for step 10)", "Add the pellets to sterilised weigh trays and weigh the sample (note down numberof pellets + total wei... |
67,457 | Prodentim Australia, NZ, Ireland, Canada or UK | 1 | dx.doi.org/10.17504/protocols.io.81wgb63polpk/v1 | https://www.protocols.io/view/prodentim-australia-nz-ireland-canada-or-uk-cd49s8z6 | Prodentim Australia | TITLE: Prodentim Australia, NZ, Ireland, Canada or UK
AUTHORS: Prodentim Australia
[DESCRIPTION]
ProDentim supplements include several ingredients that work on the mouth, tooth, gum, and breath. In addition, the components are beneficial for the whole body.
ProDentim works on many levels to improve dental health gr... | [] |
98,839 | Crystallization of Zika NS5 RdRp | 1 | dx.doi.org/10.17504/protocols.io.n2bvjnxjngk5/v1 | https://www.protocols.io/view/crystallization-of-zika-ns5-rdrp-dcrx2v7n | anu.chandran, Peter Marples, Martin Walsh | TITLE: Crystallization of Zika NS5 RdRp
AUTHORS: anu.chandran, Peter Marples, Martin Walsh
[DESCRIPTION]
The main aim of this work was to identify small molecules that bind Zika NS5 RdRp (catalytic RNA-dependent RNA polymerase domain) through X-ray fragment-based screening. The Zika NS5 RDRP domain was cloned, express... | ["[Crystallization experiment] Protein and buffer requirements:\n28.8 µL5 mg/mL \n3.264 mL", "[Crystallization experiment] Dispense 34 µL into SwissCI 3 lens plate reservoir wells using a 100 µl multi-channel pipette.\nDispense 100 28615 mg/mL to each lens using the SPT mosquito.\nDispense 50 2861 to each lens usi... |
71,687 | A GIS workflow for the identification of corridors of geomorphic river recovery across landscapes | 1 | dx.doi.org/10.17504/protocols.io.n2bvj8625gk5/v1 | https://www.protocols.io/view/a-gis-workflow-for-the-identification-of-corridors-ch9ft93n | Danelle Agnew, Bradley Graves, Kirstie Fryirs | TITLE: A GIS workflow for the identification of corridors of geomorphic river recovery across landscapes
AUTHORS: Danelle Agnew, Bradley Graves, Kirstie Fryirs
[DESCRIPTION]
The provision of a simplified GIS workflow to analyse the Open Access NSW River Styles database provides non-technical GIS users in river managem... | ["[A. Preliminary Steps] Combine selected River Styles (RS) datasets.\n\nMerge [Data Management] > Input dataset (selected coastal River Styles polyline feature classes) > Output dataset (Coast_RS).", "[A. Preliminary Steps] Extract freshwater reaches. Using (Coast_RS), select all freshwater reaches, by removing all ti... |
64,830 | Steve Harvey CBD Gummies - 100% Natural Reviews, Work Ingredients! Price | 3 | dx.doi.org/10.17504/protocols.io.261genk9dg47/v1 | https://www.protocols.io/view/steve-harvey-cbd-gummies-100-natural-reviews-work-cbi6skhe | Steve Harvey CBD Gummies | TITLE: Steve Harvey CBD Gummies - 100% Natural Reviews, Work Ingredients! Price
AUTHORS: Steve Harvey CBD Gummies
[DESCRIPTION]
Steve Harvey CBD Gummies
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.rkyd4xw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Young people in Ghana, like young people globally, need access to information and services to have safe, healthy sexual and reproductive lives. Young people in Ghana, though, face a number of challenges accessing the sexual and reproductive health information and services the... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.etebeje | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong>Supplemental notes:</strong></p>
<p>1) An A<sub>260</sub> may be determined on a UV spectrophotometer (usually a 1:100 dilution works well).</p>
<p> 1 A<sub>260</sub> unit of PBCV-1 routinely yields 1.5-2.5 X 10<sup>10</sup> PFU/ml of virus.</p>
<p>2) ... | [] |
77,448 | Expansion and maintenance of human induced pluripotent stem cells (iPSCs) | 1 | dx.doi.org/10.17504/protocols.io.36wgqjew3vk5/v1 | https://www.protocols.io/view/expansion-and-maintenance-of-human-induced-pluripo-cpvgvn3w | Quyen Do, kaitlyn.cramb, Richard Wade-Martins | TITLE: Expansion and maintenance of human induced pluripotent stem cells (iPSCs)
AUTHORS: Quyen Do, kaitlyn.cramb, Richard Wade-Martins
[DESCRIPTION]
This protocol describes the maintenance and expansion of iPSCs in the adherent culture via single-cell passaging.
[BEFORE_START]
Sterile working techniques are an abso... | ["[Expansion of iPSCs by thawing onto Matrigel] Day -1: Preparing plates for replating", "[Expansion of iPSCs by thawing onto Matrigel] Add 1 mL/well of Matrigel to each well of a 6-well plate one day prior to thawing the iPSCs.", "[Expansion of iPSCs by thawing onto Matrigel] Place at 37ºC overnight (for at least 1 ho... |
106,977 | Size Exclusion Chromatography | 0 | dx.doi.org/10.17504/protocols.io.8epv5r55ng1b/v1 | https://www.protocols.io/view/size-exclusion-chromatography-dkp94vr6 | Verena Dederer, Stefan Knapp, Sebastian Mathea | TITLE: Size Exclusion Chromatography
AUTHORS: Verena Dederer, Stefan Knapp, Sebastian Mathea
[DESCRIPTION]
Size-exclusion chromatography (SEC) is a method for separating proteins according to their size. To achieve this, a protein sample is applied to a column that is tightly packed with porous beads.
The size separat... | ["[Sample Preparation] Mix the two purified interacting proteins in appropriate buffer with the appropriate ratio.\n\nIn our case: LRRK2RCKW + DARPin E11 with a ratio of 1:5 in 2 mL", "[Sample Analysis] 2 mL sample were subjected to a S200 gel filtration column combined with an ÄKTA XPress system in running buffer: ... |
51,172 | BD Influx Cell Sorter Start Up and Shut Down for Viral Tagging and Grow | 4 | null | https://www.protocols.io/view/bd-influx-cell-sorter-start-up-and-shut-down-for-v-bv8cn9sw | Courtney Sanderson, Ho Bin Jang | TITLE: BD Influx Cell Sorter Start Up and Shut Down for Viral Tagging and Grow
AUTHORS: Courtney Sanderson, Ho Bin Jang
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The microbiome is now seen as the engine behind Earth’s nutrient and energy cycles, bioreactor and crop yields, and many diseases in... | ["[Start up from Dry Shutdown]\nAfter connecting to cytometer, go to file->workspace->QC Daily-> Courtney URFP file + click “restore laser delays”", "[Start up from Dry Shutdown]\nPlace empty sheath tank on scale (with lid) and zero the scale and put the waste tank next to it", "[Start up from Dry Shutdown]\nAdd 3L of ... |
null | null | null | dx.doi.org/10.17504/protocols.io.hwgb7bw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol describes methods for detecting cell-surface markers by indirect immunofluorescence after treatment with BiTE®. Cells are analyzed by cellular imaging.</p>
[STEPS]
?.
?.
?.
?. | [] |
21,972 | E gene amplification | null | dx.doi.org/10.17504/protocols.io.zpuf5nw | null | Bo Yi, Yi Chen, Xiao Ma, Haibin Wang, Rong Wang, Keqin Ding, Lei Xie, Dongliang Zhang, Shuli Jiao, Xuying Lao, Yi-Chen Chiang, Yanhua Su, Benhua Zhao, Guozhang Xu, Tianmu Chen | TITLE: E gene amplification
AUTHORS: Bo Yi, Yi Chen, Xiao Ma, Haibin Wang, Rong Wang, Keqin Ding, Lei Xie, Dongliang Zhang, Shuli Jiao, Xuying Lao, Yi-Chen Chiang, Yanhua Su, Benhua Zhao, Guozhang Xu, Tianmu Chen
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. The dengue virus strains obtained from cell cu... | ["The dengue virus strains obtained from cell culture were extracted by TGuide S32 magnetic bead method DNA/RNA extraction kit of Tiangen Biochemical Technology (Beijing) Co., Ltd. and amplified by one step RNA PCR Kit (Code No: DRR057A) reagent of Bao Bioengineering (Dalian) Co., Ltd.", "The full sequence of E gene am... |
null | null | null | dx.doi.org/10.17504/protocols.io.m8jc9un | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol aims to amplify the PreS1/PreS2 region of the Hepatitis B genome. It can be obtained from a single PCR giving an amplified product of 479 bp. However genotype D stains have typically a deletion in this region of 33 nucleotides, giving an amplified product of 446... | [] |
64,350 | Protocol for Modified Standard Method 9260.B2 for the Isolation of Salmonella from Surface Water | 4 | dx.doi.org/10.17504/protocols.io.rm7vzy72xlx1/v2 | https://www.protocols.io/view/protocol-for-modified-standard-method-9260-b2-for-ca36sgre | Autumn L Kraft, Manan Sharma, Jonathan G Frye, James E Wells, Abasiofiok Mark Ibekwe, NARMS EWG | TITLE: Protocol for Modified Standard Method 9260.B2 for the Isolation of Salmonella from Surface Water
AUTHORS: Autumn L Kraft, Manan Sharma, Jonathan G Frye, James E Wells, Abasiofiok Mark Ibekwe, NARMS EWG
[DESCRIPTION]
This protocol details the Modified Standard Method 9260.B2 for the recovery and isolation ... | ["[Protocol] Prepare for filtration by assembling vacuum set up, including a Buchner flask (collection) that fits the Pall magnetic filter funnel and can hold 1 L of water.", "[Protocol] Prepare a decontamination station for magnetic filter funnel by filling 2 1 L beakers with 900 mL 70% EtOH.", "[Protocol] Place one 4... |
null | null | null | dx.doi.org/10.17504/protocols.io.chgt3v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This is the correct protocol if you are using the C2987H cells. If you are using the C2987I cells, please refer to <a href="http://protocols.io/view/High-Efficiency-Transformation-Protocol-C2987I-imst35" target="_blank">this protocol</a>.
[GUIDELINES]
<strong>Transfor... | [] |
19,982 | The estimation of the relative gene expression in the hypothalamus and liver of agouti mice using quantitative reverse transcription PCR | null | dx.doi.org/10.17504/protocols.io.xrnfm5e | null | Kira V. Derkach, Irina O. Zakharova, Inna I. Zorina, Andrey Bakhtyukov, Irina V. Romanova, Liubov V. Bayunova, Alexander O. Shpakov | TITLE: The estimation of the relative gene expression in the hypothalamus and liver of agouti mice using quantitative reverse transcription PCR
AUTHORS: Kira V. Derkach, Irina O. Zakharova, Inna I. Zorina, Andrey Bakhtyukov, Irina V. Romanova, Liubov V. Bayunova, Alexander O. Shpakov
[DESCRIPTION]
<div class = "text-b... | ["[Preparation of samples]\nTotal RNA was isolated from the sections of the hypothalamus and liver using the ExtractRNA Reagent (TRIzol analogue) (“Evrogen”, Moscow, Russia) according to the manufacturer‘s protocol. (http://evrogen.com/)", "[Preparation of samples]\nThe samples containing 1 μg of RNA were reverse-trans... |
null | null | null | dx.doi.org/10.17504/protocols.io.qmtdu6n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div title="Page 3">
<div>
<div>
<p>REVERT™ Total Protein Stain is a near-infrared fluorescent membrane stain used for total protein detection and normalization. REVERT staining is imaged at 700 nm, and fluorescent signals are proportional to sample loading.</p>
<p> </p>
<p>This... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.e33bgqn | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p><strong>INTRODUCTION </strong></p>
<p>Protein assays are routinely used in many research fields to estimate proteins in a vast array of buffers and conditions. A major problem for researchers is to select a protein assay from the vast selection on the market that is compatible... | [] |
51,810 | Wholemount immunolabeling of mouse gut tissue | 1 | dx.doi.org/10.17504/protocols.io.bwuapese | https://www.protocols.io/view/wholemount-immunolabeling-of-mouse-gut-tissue-bwuapese | Marthe Howard, Andrea Kalinoski | TITLE: Wholemount immunolabeling of mouse gut tissue
AUTHORS: Marthe Howard, Andrea Kalinoski
[DESCRIPTION]
Wholemount Immunolabeling-Gut
The application was developed for large pieces of mouse gut tissue.
Animal care, breeding procedures, and experimental protocols were approved by the UTHSC animal care and use c... | ["[Mouse dissection protocol for wholemount immunolabeling-gut] Fixation in 4% PFA/PBS pH 7.0-7.4 @ RT for 2-4 hours depending on the tissue size or 40C overnight, followed by washing in PBS over 4-6hrs and overnight in 30% sucrose in PBS if you want to cut sections. \nWe store in PBS if only for immunostaining.", "[M... |
28,935 | Cell Counting | null | dx.doi.org/10.17504/protocols.io.8hfht3n | null | Laura Sánchez | TITLE: Cell Counting
AUTHORS: Laura Sánchez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Bacterial concentration can be measured by several methods. One of them is turbidity. Turbidity, or light scattering, is measured in a spectrophotometer such as a Spectronic 20. This method has the advantage ... | ["[Making an absorbance curve for Escherichia coli]\nTurn on the spectrophotometer and set the wavelength to 425 nm. Let it warm up for at least 15 min.", "[Making an absorbance curve for Escherichia coli]\nLabel the culture tubes 1 – 21. Using different pipets, add turbid E. coli culture and TSB to each tube in the vo... |
47,576 | Tissue Staining for Imaging Mass Cytometry | 4 | null | https://www.protocols.io/view/tissue-staining-for-imaging-mass-cytometry-bspyndpw | John Herndon, Madelyn Carmody | TITLE: Tissue Staining for Imaging Mass Cytometry
AUTHORS: John Herndon, Madelyn Carmody
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the preparation and staining of human FFPE material for multiplex visualization using Imaging Mass Cytometry (IMC). This protocol uses basi... | ["Place positively charged slides with thick tissue section in a oven for\n60 °C", "Place slides in fresh xylene for", "RehydratePlace slides in to 100% Ethanol,", "Antigen RetrievalIncubate slides for in antigen retrieval solution from step 4Make sure the is maintained consistently throughout the 30 minute in... |
90,475 | C-SOP-202: Genomic DNA Purity Measurement using a Nanodrop Spectrophotometer | 4 | null | https://www.protocols.io/view/c-sop-202-genomic-dna-purity-measurement-using-a-n-c4kjyuun | Mihir Kekre, Ben Pascoe | TITLE: C-SOP-202: Genomic DNA Purity Measurement using a Nanodrop Spectrophotometer
AUTHORS: Mihir Kekre, Ben Pascoe
[DESCRIPTION]
A standard technique for performing purity measurements is UV absorbance with a spectrophotometer. Microvolume spectrophotometers are commonly used for the analysis of nucleic acid samples... | ["[Before Starting] An initial cleaning of measurement surfaces with nuclease-free (NF) water is recommended prior to making the blank measurement. \n\nTo clean the pedestal, pipette 2 µL of NF water onto the pedestal and lower the arm. Leave to sit for 1 min and then wipe away with lint-free tissue. \nFig. 1a and 1b ... |
17,661 | Holo-ZitRMG binding to dsDNA fragments by ITC | null | dx.doi.org/10.17504/protocols.io.vg5e3y6 | null | PALOMA VARELA | TITLE: Holo-ZitRMG binding to dsDNA fragments by ITC
AUTHORS: PALOMA VARELA
[STEPS] | [] |
70,840 | DNA extraction | CTAB-chloroform | 96 wells plate | 1 | dx.doi.org/10.17504/protocols.io.5qpvor5jdv4o/v1 | https://www.protocols.io/view/dna-extraction-ctab-chloroform-96-wells-plate-cheyt3fw | Lila Fishman, Simon Joly, Andrea Corkal, Jérôme Burkiewicz | TITLE: DNA extraction | CTAB-chloroform | 96 wells plate
AUTHORS: Lila Fishman, Simon Joly, Andrea Corkal, Jérôme Burkiewicz
[DESCRIPTION]
This is a 96-well version of the classic CTAB-chloroform plant DNA extraction (Doyle & Doyle 1987), developed by John Willis and Lila Fishman in ~2000 and since optimized by multi... | ["[Tissue collection] Pre-label the tubes", "[Tissue collection] Pre-load cleaned and autoclaved beads into plate of tubes (could use a bead dispenser if available).", "[Tissue collection] Add 10mg of leaves (max. 30 mg) to each tube. Try to be consistent to have a similar yield for each extraction.", "[Tissue grinding... |
null | null | null | dx.doi.org/10.17504/protocols.io.fswbnfe | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?. | [] |
20,900 | GEP analysis of BM CD34+/lin- cells of patients with CML | null | dx.doi.org/10.17504/protocols.io.yncfvaw | null | Alessandra Trojani | TITLE: GEP analysis of BM CD34+/lin- cells of patients with CML
AUTHORS: Alessandra Trojani
[DESCRIPTION]
<div class = "text-blocks"></div>
[STEPS]
?. Automated isolation of bone marrow CD34+/lin- using immunomagnetic beads
?. 1 Isolate Mononuclear cells (MNCs) from the bone marrow (BM) blood samples (range, 1-25 ml)... | ["Automated isolation of bone marrow CD34+/lin- using immunomagnetic beads", "1\tIsolate Mononuclear cells (MNCs) from the bone marrow (BM) blood samples (range, 1-25 ml) using Ficoll density gradient centrifugation at 800 rpm for 20 minutes.", "2\tImmediately after, select the BM CD34+/lin- cells using Diamond CD34 Is... |
73,278 | SH-SY5Y Transduced with HLA-A2 mCherry Lentivirus Sorting Protocol | 4 | dx.doi.org/10.17504/protocols.io.261ge353dl47/v1 | https://www.protocols.io/view/sh-sy5y-transduced-with-hla-a2-mcherry-lentivirus-cjs6unhe | Ali Albalakhi, Ning Xia | TITLE: SH-SY5Y Transduced with HLA-A2 mCherry Lentivirus Sorting Protocol
AUTHORS: Ali Albalakhi, Ning Xia
[DESCRIPTION]
This is the cell sorting protocol.
[STEPS]
1. Aspirate the medium, wash with 2mL DPBS twice
2. Add 2mL Trypsin to the 60mm dishes and incubate for 2mins to lift the cells
3. Add 2ml complete medium... | ["Aspirate the medium, wash with 2mL DPBS twice", "Add 2mL Trypsin to the 60mm dishes and incubate for 2mins to lift the cells", "Add 2ml complete medium to stop trypsinization, and pipette up and down to collect all cells", "Transfer all cell suspension into a 15ml conical tube, spin down to get the cell pellet 200g f... |
63,317 | Experiment 1 | 1 | dx.doi.org/10.17504/protocols.io.3byl4brpjvo5/v1 | https://www.protocols.io/view/experiment-1-b93vr8n6 | ma | TITLE: Experiment 1
AUTHORS: ma
[DESCRIPTION]
werwerwer
[STEPS]
1. 21 mL
2. ghghgjghjkgkjgkjg
3.
4.
5.
| ["21 mL", "ghghgjghjkgkjgkjg"] |
null | null | null | dx.doi.org/10.17504/protocols.io.pbgdijw | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>For the past several decades, due to technical limitations, the field of transcriptomics has focused on population‐level measurements that can mask significant differences between individual cells. With the advent of single‐cell RNA‐Seq, it is now possible to profile the resp... | [] |
20,661 | UC Davis - Blood Pressure/Heart Rate by Telemetry | null | dx.doi.org/10.17504/protocols.io.yevfte6 | null | Lynette Bower | TITLE: UC Davis - Blood Pressure/Heart Rate by Telemetry
AUTHORS: Lynette Bower
[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">Utilizing this telemetry we have the ability to ... | ["Surgical Preparation\n1. Administer the appropriate concentration of Isoflurane anesthesia so animal is in deep anesthetic plane. Isoflurane will be administered throughout the duration of the procedure.\n2. Remove the body hair from all intended incision sites by shaveing.\n3. Surgically scrub the incision sites.\n4... |
89,613 | Prognostic value of combining 24-hour ASPECTS, and hemoglobin to red cell distribution width ratio on the THRIVE-score in predicting in-hospital mortality among ischemic stroke patients treated with intravenous thrombolysis. | 1 | dx.doi.org/10.17504/protocols.io.dm6gp3o5pvzp/v1 | https://www.protocols.io/view/prognostic-value-of-combining-24-hour-aspects-and-c3rmym46 | Sarawut Krongsut, Wipasiri Naraphong, Surachet Srikaew, Niyada Anusasnee | TITLE: Prognostic value of combining 24-hour ASPECTS, and hemoglobin to red cell distribution width ratio on the THRIVE-score in predicting in-hospital mortality among ischemic stroke patients treated with intravenous thrombolysis.
AUTHORS: Sarawut Krongsut, Wipasiri Naraphong, Surachet Srikaew, Niyada Anusasnee
[DESC... | ["Prognostic value of combining 24-hour ASPECTS, and hemoglobin to red cell\ndistribution width ratio on the THRIVE-score in predicting in-hospital\nmortality among ischemic stroke patients treated with intravenous thrombolysis"] |
null | null | null | dx.doi.org/10.17504/protocols.io.cjsund | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?. | [] |
57,662 | FISH in Ashbya | 4 | null | https://www.protocols.click/view/fish-in-ashbya-b4i6quhe | sierrajc | TITLE: FISH in Ashbya
AUTHORS: sierrajc
[DESCRIPTION]
Abstract: This is Fluorescent in situ Hybridization for looking at transcripts in Ashbya. If using this to look at RNA, then try to use all RNase-free material at the RNA bench. This was adapted from Therese Gerbich's protocol.
Keywords: Ashbya, Fluorescence, RNA... | ["[Day 1] Grow 100mL culture of Ashbya from dirty spores, seeded at2-3 µL spores/mL culture at 30 deg for 15 hours in 1000 ml baffled flask. Start around 4.30 PM.", "[Day 2] Add 10ml of 37% formaldehyde (final 3.7%) and shake for 1hr at 30 deg. Alternatively, first, spin cells down in 15 mL tubes, resuspend in 9 mL use... |
34,278 | WHO-recommended handrub formulations | null | dx.doi.org/10.17504/protocols.io.bdqei5te | null | WHO | TITLE: WHO-recommended handrub formulations
AUTHORS: WHO
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Composition of alcohol-based formulations for in-house/local production </span></div><div class = "text-block">The choice of components for WHO handrubs takes in... | ["Method for preparations\n10 L\nThese can be prepared in 10-liter glass or plastic bottles with screw-threaded stoppers.", "Pour into the large bottle or tank up to the graduated mark.\n[Ethanol 96%]", "Add using the measuring cylinder.\n[Hydrogen peroxide 3%]", "Add using a measuring cylinder.\n[Glycerol]\nAs gly... |
71,591 | DNA extraction protocol from frozen filtration capsules | 1 | dx.doi.org/10.17504/protocols.io.4r3l27o2xg1y/v1 | https://www.protocols.io/view/dna-extraction-protocol-from-frozen-filtration-cap-ch6ft9bn | Camilla Capelli | TITLE: DNA extraction protocol from frozen filtration capsules
AUTHORS: Camilla Capelli
[DESCRIPTION]
The DNA extraction protocol presented below is based on the FISH DNA extraction protocol developed in the Eco-AlpsWater Project (https://www.alpine-space.org/projects/eco-alpswater/deliverables-final/dt1.1.2.--8.2-fis... | ["[Precautions before sampling] -Wear gloves throughout the extraction process\n-Clean the bench with DNA off or 10% commercial bleach before and after manipulation\n-Use tips with filters to avoid contaminations\n-All steps have to be performed under a specific DNA-work station (sterile area equipped with air filtrati... |
85,900 | Immunofluorescence and live-cell Imaging | 4 | dx.doi.org/10.17504/protocols.io.bp2l6x9b1lqe/v1 | https://www.protocols.io/view/immunofluorescence-and-live-cell-imaging-cx5kxq4w | Shenjie Wu, Nancy C. Hernandez Villegas, Iona Thomas-Wright, Richard Wade-Martins, schekman | TITLE: Immunofluorescence and live-cell Imaging
AUTHORS: Shenjie Wu, Nancy C. Hernandez Villegas, Iona Thomas-Wright, Richard Wade-Martins, schekman
[DESCRIPTION]
This protocol contains a detail description of how to perform immunostaining on two different cell types, U2OS and iPSCs cells.
It also describes how to pe... | ["[Immunofluorescence of U2 cells] U2OS cells were washed once with PBS and immediately fixed by 4% EM-grade paraformaldehyde for 10 min at Room temperature", "[Immunofluorescence of U2 cells] Cells were washed three times with PBS for 10 min each time.", "[Immunofluorescence of U2 cells] Blocked and permeabilized for ... |
29,168 | ChroPlate - IMAC | null | dx.doi.org/10.17504/protocols.io.8qqhvvw | null | Alexandra Ehl, David Frommholz, Nadine Stefanczyk | TITLE: ChroPlate - IMAC
AUTHORS: Alexandra Ehl, David Frommholz, Nadine Stefanczyk
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Purification Guide for the Isolation of Histidine-tagged Proteins with ChroPlate Filtration Plates by DALEX Biotech.</span></div><div c... | ["[Equilibration]\nAdd 200 µl of nickel or cobalt solution to each well. Place the ChroPlate on a deep-well plate and centrifuge at 400 g for 60 seconds in a swing-out rotor. For counterbalance of the centrifuge a dummy filter plate is included in the kit.\nApart from Ni2+ and Co2+, you can also use Cu2+ or Zn2+.The a... |
87,667 | Rapid and robust cloning of sgRNA expression plasmids | 1 | dx.doi.org/10.17504/protocols.io.4r3l229ojl1y/v1 | https://www.protocols.io/view/rapid-and-robust-cloning-of-sgrna-expression-plasm-czutx6wn | ghanem.elkassem, micboe | TITLE: Rapid and robust cloning of sgRNA expression plasmids
AUTHORS: ghanem.elkassem, micboe
[DESCRIPTION]
In this lab protocol, we will outline a step-by-step procedure for cloning of spCas9 sgRNAs using oligo annealing and T4 ligation. This protocol will guide you through the crucial steps of designing, annealing, ... | ["[Oligo Design] Order TOP and BOTTOM strand oligos, where the TOP sequence is the desired 20 nt sgRNA 'spacer' sequence and the BOTTOM sequence is the reverse complement of the TOP strand. After annealing of both oligos, the 5' overhangs should result in compatible sticky ends for T4 ligation into the target vector. S... |
null | null | null | dx.doi.org/10.17504/protocols.io.def3bm | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<span data-reactid=".0.1.0.1.0.0.0.4.0">This mixture is is used with <a href="https://www.protocols.io/view/Cesium-Chloride-Dialysis-for-Viruses-c7jzkm" target="_blank">Cesium Chloride Dialysis for Viruses</a></span>
[STEPS]
?.
?.
?.
?. | [] |
49,692 | A method to recapitulate early embryonic spatial patterning in human embryonic stem cells | 1 | dx.doi.org/10.17504/protocols.io.bur4nv8w | https://www.protocols.io/view/a-method-to-recapitulate-early-embryonic-spatial-p-bur4nv8w | Aryeh Warmflash, Benoit Sorre, Fred Etoc, Eric D. Siggia, Ali H. Brivanlou | TITLE: A method to recapitulate early embryonic spatial patterning in human embryonic stem cells
AUTHORS: Aryeh Warmflash, Benoit Sorre, Fred Etoc, Eric D. Siggia, Ali H. Brivanlou
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Embryos allocate cells to the three germ layers in a spatially ordered ... | ["[Cell culture]\nFor routine culture for maintenance, grow RUES2 cells in HUESM medium that was conditioned by mouse embryonic fibroblasts (MEF-CM) and supplement with bFGF.\nAll experiments are performed with the RUES2 hESC line derived in our laboratory and described previously.", "[Cell culture]\nTest cells for my... |
58,127 | 608.1 Donor Acceptance Criteria for URMC HTC SARS-CoV-2 / COVID-19 Cases | 4 | dx.doi.org/10.17504/protocols.io.b4zpqx5n | https://www.protocols.io/view/608-1-donor-acceptance-criteria-for-urmc-htc-sars-b4zpqx5n | Gloria S Pryhuber | TITLE: 608.1 Donor Acceptance Criteria for URMC HTC SARS-CoV-2 / COVID-19 Cases
AUTHORS: Gloria S Pryhuber
[DESCRIPTION]
Purpose and Scope of the Procedure
Standardize process for receiving lung donations for COVID-19 studies
Scope: Coordination of screening, acceptance and receipt of tissue for research program
Prin... | ["[Review Case: accept or decline based on eligibility] Take referral call or BRINDL screening report", "[Review Case: accept or decline based on eligibility] Review Eligibility Criteria", "[Review Case: accept or decline based on eligibility] Start Case Record in BRINDL Inventory Screening Log", "[Review Case: accept ... |
33,033 | HMW gDNA purification and ONT ultra-long-read data generation | null | dx.doi.org/10.17504/protocols.io.bchhit36 | null | Glennis Logsdon | TITLE: HMW gDNA purification and ONT ultra-long-read data generation
AUTHORS: Glennis Logsdon
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the purification of high-molecular-weight genomic DNA from mammalian cells and the generation of ultra-long (N50 >100 kbp) Oxford Nano... | ["[Cell collection and lysis]\nFreeze down 2-7 x 10^7 cells as a cell pellet, and store at -80C.", "[Cell collection and lysis]\nWhen you are ready to purify the DNA, thaw the cell pellet on ice (usually takes ~30 mins).", "[Cell collection and lysis]\nResuspend thawed cells in ice-cold TE (pH 8.0) at a concentration o... |
90,571 | Protocol to isolate and fix nuclei from flash frozen mouse left cortex and hippocampus for IGVF | 4 | null | https://www.protocols.io/view/protocol-to-isolate-and-fix-nuclei-from-flash-froz-c4pjyvkn | Elisabeth Rebboah | TITLE: Protocol to isolate and fix nuclei from flash frozen mouse left cortex and hippocampus for IGVF
AUTHORS: Elisabeth Rebboah
[DESCRIPTION]
This protocol describes isolation of nuclei from 10 week old mouse left cortex and hippocampus (tissue ID: 03) from 8 founder strains (B6J, AJ, 129S1J, NZOJ, WSBJ, NODJ, PWKJ,... | ["[Setup] Coat SHARE-seq nuclei prep tubes with BSA. Fill 8 1.5 ml tubes with 1.5 ml 1% BSA-DEPC and incubate for 30 minutes. After incubation, aspirate BSA solution and dry for 30 minutes. Store at 4C.", "[Setup] Label tubes.", "[Setup] Pre-chill centrifuge to 4C.", "[Setup] Prepare ice buckets.", "[Setup] Prepare 35 ... |
26,542 | UC Davis - Immunohistochemistry Mitochondrial marker | null | dx.doi.org/10.17504/protocols.io.56ng9de | null | Jennifer Rutkowsky | TITLE: UC Davis - Immunohistochemistry Mitochondrial marker
AUTHORS: Jennifer Rutkowsky
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary: </span></div><div class = "text-block">Mitochondria are the power house of the cell. They are distinct organelles with tw... | ["Frozen tissue sections (10μM) on slides (tissues embedded in OCT) are then fixed in 4% paraformaldehyde for 5 minutes.\na. Alternatively paraffin embedded sections are deparaffinized through 3 100% xylene 3 min wash\nb. Sections were rehydrated through 100%, 95%, 70%, 50%, and 30% then into deionized water (3min each... |
51,843 | Thromboelastometry measurements in severe and non-severe COVID-19 patients | 4 | dx.doi.org/10.17504/protocols.io.bwvbpe2n | https://www.protocols.io/view/thromboelastometry-measurements-in-severe-and-non-bwvbpe2n | Rodrigo Aires, Alexandre A. de S. M. Soares, Ana Paula M. Gomides, Andre M. Nicola, Andrea Teixeira-Carvalho, Dayde Lane M. da Silva, Eliana T. de Góis, Flávia D. Xavier, Francielle P. Martins, Gabriela P. J. Santos, Heide Luise Schulte, Isabelle S. Luz, Laila S. Espíndola, Laurence R. do Amaral, Liza F. Felicori, Luc... | TITLE: Thromboelastometry measurements in severe and non-severe COVID-19 patients
AUTHORS: Rodrigo Aires, Alexandre A. de S. M. Soares, Ana Paula M. Gomides, Andre M. Nicola, Andrea Teixeira-Carvalho, Dayde Lane M. da Silva, Eliana T. de Góis, Flávia D. Xavier, Francielle P. Martins, Gabriela P. J. Santos, Heide Luis... | ["[Quality control]\n1) Quality control must be performed weekly, using standardized system controls ROTROL N and ROTROL P.", "[Quality control]\n2) Daily maintenance: outer surface, cup holder, pipette and filter", "[Quality control]\n3) Weekly maintenance: replace pipette filter", "[Quality control]\n4) Q... |
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