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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98,525 | Protocol for Mouse IP Anesthesia (Ketamine-Xylazine) | 4 | dx.doi.org/10.17504/protocols.io.14egnzr9qg5d/v2 | https://www.protocols.io/view/protocol-for-mouse-ip-anesthesia-ketamine-xylazine-dcf52tq6 | Haowei Li, Markus Holzl, Mohsen Khosravi-Maharlooei, Nichole Danzl, Austin Chen, Megan Sykes | TITLE: Protocol for Mouse IP Anesthesia (Ketamine-Xylazine)
AUTHORS: Haowei Li, Markus Holzl, Mohsen Khosravi-Maharlooei, Nichole Danzl, Austin Chen, Megan Sykes
[DESCRIPTION]
This protocol details the constitution of our anesthesia cocktail that we use for sedating our mice when performing surgeries. The surgeries we... | ["[For Intraperitoneal (IP) Approach:] Use 10 uL/gram of anesthesia\n\nComments:\n1. It takes time until the mice fall asleep \n\n2. Very often, mice do not fall asleep but move around like zombies. This requires another small dose of IP ketamine-xylazine injection or a small dose of IV injection\n\na. When doing IP in... |
40,504 | Isolation of cyanobacterial packets from Azolla ferns | 4 | dx.doi.org/10.17504/protocols.io.bjsyknfw | https://www.protocols.io/view/isolation-of-cyanobacterial-packets-from-azolla-fe-bjsyknfw | Dave Armitage | TITLE: Isolation of cyanobacterial packets from Azolla ferns
AUTHORS: Dave Armitage
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>Protocol for extracting intact cyanobacterial packets from leaves of living </span><span style = "font-style:italic;">Azolla</span><span> ferns using enzymatic di... | ["[Day 1]\nSETUP:Prepare vacuum dessicator. Make sure it holds vacuum of 15 to 20 in Hg.Prepare enzyme solutions, dispense into separate 50 mL centrifuge tubes, and store on icePrepare 200 mL Triton-X solution in erlenmeyer flasksFor each Azolla strain that will be digested, prepare the following and label with ID mark... |
80,330 | Infection of Biomphalaria glabrata snails with Schistosoma mansoni miracidia | 4 | dx.doi.org/10.17504/protocols.io.36wgqjkkxvk5/v2 | https://www.protocols.io/view/infection-of-biomphalaria-glabrata-snails-with-sch-cspiwdke | Sarah K Buddenborg | TITLE: Infection of Biomphalaria glabrata snails with Schistosoma mansoni miracidia
AUTHORS: Sarah K Buddenborg
[DESCRIPTION]
To infect Biomphalaria glabrata snails with miracidia hatched from Schistosoma mansoni eggs
[STEPS]
SECTION: Liver preparation
1. Collect livers from patent mice into 50ml Falcon tubes contain... | ["[Liver preparation] Collect livers from patent mice into 50ml Falcon tubes containing pre-warmed 37°C 1x DPBS", "[Liver preparation] Remove livers from PBS and place in large mortar or laboratory blender", "[Liver preparation] Gently homogenise liver tissue", "[Liver preparation] Place homogenised liver slurry into a... |
86,591 | Free floating immunofluorescent staining protocol on mouse brain sections | 4 | dx.doi.org/10.17504/protocols.io.j8nlkoo55v5r/v2 | https://www.protocols.io/view/free-floating-immunofluorescent-staining-protocol-cys7xwhn | Giselle Sagredo, YuHong Fu, Hongyun Li | TITLE: Free floating immunofluorescent staining protocol on mouse brain sections
AUTHORS: Giselle Sagredo, YuHong Fu, Hongyun Li
[DESCRIPTION]
This protocol describes our free-floating immunofluorescence staining protocol used to investigate the fate and pathology
of human iPSC-derived cells grafted in the mouse brain... | ["[Day 1 - Tissue preparation] 30 um mouse brain sections were stored in anti-freeze solution at -20 °C until required. \nRemove samples from freezer and equilibrate at Room temperature for 10 min - 20 min\nPour sections into a well insert in a 6-well plate to separate storage solution from section\n Move the well inse... |
69,590 | Native-PAGE analysis of VCP hexamer | 4 | dx.doi.org/10.17504/protocols.io.36wgqjrzyvk5/v1 | https://www.protocols.io/view/native-page-analysis-of-vcp-hexamer-cf7wtrpe | Itika Saha, F. Ulrich Hartl, Mark S. Hipp | TITLE: Native-PAGE analysis of VCP hexamer
AUTHORS: Itika Saha, F. Ulrich Hartl, Mark S. Hipp
[DESCRIPTION]
Valosin-containing protein (VCP) is a homo-hexameric AAA+ ATPase in eukaryotic cells. This protocol describes the analysis of myc-tagged versions of VCP transiently transfected in HEK293 cells (stably expressing... | ["Plate 1.5x105 cells in 12-well plate.", "Next day, transfect with plasmids expressing myc-tagged VCP variants (Saha et al. BioRxiv, 2022) using a standard transfection protocol.", "Two days later, collect cells and lyse them in 50 µL 0.5% Triton X-100/PBS supplemented with protease inhibitor cocktail (Roche) and DNas... |
15,164 | Select, load, annotate, normalize, and process toxicogenomic raw data from GEO and ArrayExpress | null | dx.doi.org/10.17504/protocols.io.s24eggw | null | Andreas Schüttler | TITLE: Select, load, annotate, normalize, and process toxicogenomic raw data from GEO and ArrayExpress
AUTHORS: Andreas Schüttler
[DESCRIPTION]
<p>Gene expression databases like Gene Expression Omnibus or ArrayExpress by now contain a wealth of toxicogenomic datasets. This is a offers great possibilities for advanced ... | ["[Select data from Gene expression databases]\n1. GEO: The first step is to retrieve metadata from Gene Expression Omnibus. This is achieved with the help of the R-package 'GEOmetadb'.From the metadata and from manually curated information, datasets are selected and list for downloading data are created.", "2. ArrayEx... |
27,801 | IPA Core Training Guide | null | dx.doi.org/10.17504/protocols.io.7dzhi76 | null | Courtney Comrie | TITLE: IPA Core Training Guide
AUTHORS: Courtney Comrie
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol serves as the master plan for new IPA Core trainees. </div><div class = "text-block">For questions on the different trainings reach out to Courtney Comrie.</div></div>
[STEPS]
?. [G... | ["[Gain Access to Linux Boxes]\nSpeak to Dr. Hutchinson or one of the graduate students about getting access to the linux box.After being added to the linux box access list, go to https://dx.doi.org/10.17504/protocols.io.62whgfe for directions on how to enter the linux box through X2Go Client.", "[Linux Training]\nThe ... |
null | null | null | dx.doi.org/10.17504/protocols.io.nuqdevw | null | null | TITLE: No Title
AUTHORS:
[BEFORE_START]
<p><strong>Equipment</strong></p>
<p> </p>
<p><strong><img id="s-mce-img" class="s-mce-img" src="https://s3.amazonaws.com/pr-journal/usmerye.png" width="327" height="224" data-src="https://s3.amazonaws.com/pr-journal/uskerye.png" data-ofn="Bildschirmfoto 2018-03-15 um 20.32.37.... | [] |
34,806 | Leica SP8 Confocal Imaging | null | dx.doi.org/10.17504/protocols.io.bd8wi9xe | null | Allen Institute for Brain Science | TITLE: Leica SP8 Confocal Imaging
AUTHORS: Allen Institute for Brain Science
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the basic setup and scanning using the Leica SP8 confocal microscope of fluorescently-labeled mouse brain tissue sections mounted on positively charged... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.tdwei7e | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Breast cancer originates in the mammary gland epithelium, however growing evidence demonstrates that the diverse array of stromal tissues influence the behavior of breast epithelium and has key roles in the pathogenesis of breast cancer. Despite increased recognition and rese... | ["[Prepare Materials] {\"blocks\":[{\"key\":\"dn3vc\",\"text\":\" \",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"key\":\"54cl1\",\"text\":\"Nuclear Isolation Buffer (NIB)\",\"type\":\"unstyled\",\"depth\":0,\"inlineStyleRanges\":[],\"entityRanges\":[],\"data\":[]},{\"k... |
84,037 | E7805 NEBNext® Ultra™ II FS DNA Library Prep Kit for Illumina® Protocol to use with Inputs ≥ 100 ng (Chapter 2) | 1 | dx.doi.org/10.17504/protocols.io.n92ldeonv5br/v2 | https://www.protocols.io/view/e7805-nebnext-ultra-ii-fs-dna-library-prep-kit-for-cwbdxai6 | New England Biolabs, jbonnevie | TITLE: E7805 NEBNext® Ultra™ II FS DNA Library Prep Kit for Illumina® Protocol to use with Inputs ≥ 100 ng (Chapter 2)
AUTHORS: New England Biolabs, jbonnevie
[DESCRIPTION]
The NEBNext Ultra II FS DNA Library Prep Kit for Illumina contains the enzymes and buffers required to convert a broad range of input amounts of... | ["[Fragmentation/End Prep] Fragmentation occurs during the 37°C incubation step. Use the chart below to determine the incubation time required to generate the desired fragment sizes. Incubation time may need to be optimized for individual samples. See Figure 2.1 for a typical fragmentation pattern.\n Fragmentation Si... |
73,842 | Preparing_Duckweed-Bacteria_Cultures | 4 | dx.doi.org/10.17504/protocols.io.36wgqjd7kvk5/v1 | https://www.protocols.io/view/preparing-duckweed-bacteria-cultures-ckcsuswe | Kenneth Acosta | TITLE: Preparing_Duckweed-Bacteria_Cultures
AUTHORS: Kenneth Acosta
[DESCRIPTION]
Protocol to generate duckweed-bacteria cultures to study duckweed-bacteria interactions.
[GUIDELINES]
Some bacteria may grow slowly. In this case, more time is needed for bacterial cultures to grow to sufficient concentrations.
Some ba... | ["[Day 1] Inoculate 5 mL liquid cultures from bacterial glycerol stocks.", "[Day 1] Grow 5 mL liquid bacterial cultures overnight at 28C at 250 rpm.", "[Day 2] Use 500 uL of liquid bacterial culture from Day 1 to inoculate 50 mL liquid cultures.", "[Day 2] Grow 50 mL liquid bacterial cultures overnight at 28C at 250 rp... |
60,561 | Visualize Data with Brainrender | 1 | dx.doi.org/10.17504/protocols.io.dm6gpbdwdlzp/v1 | https://www.protocols.io/view/visualize-data-with-brainrender-b7drri56 | Moritz Negwer | TITLE: Visualize Data with Brainrender
AUTHORS: Moritz Negwer
[DESCRIPTION]
Supplemementary protocol for our submitted paper "FriendlyClearMap: An optimized toolkit for mouse brain mapping and analysis".
This protocol describes how to pre-process cell locations in mouse brains (in different reference atlases) and visu... | ["[Setup] After you have generated your cell table with Clearmap 1 or 2, do the following: \n(Note this has only been tested on Ubuntu Linux 20.04 and 21.10) \n\n1. If you haven't, install Conda and Spyder \n\nhttps://docs.anaconda.com/anaconda/install/linux/\n \n\nCreate a new conda environment:\n \n(this might take s... |
84,366 | LTEE Media Recipes | 1 | dx.doi.org/10.17504/protocols.io.81wgbyr31vpk/v2 | https://www.protocols.click/view/ltee-media-recipes-cwmnxc5e | Jesus E Chavarria-Palma, Zachary D Blount, Jeffrey E Barrick | TITLE: LTEE Media Recipes
AUTHORS: Jesus E Chavarria-Palma, Zachary D Blount, Jeffrey E Barrick
[DESCRIPTION]
This protocol describes recipes to prepare growth media and reagents used in the E. coli long-term evolution experiment (LTEE).
Section 1: DM-glucose, Davis-Mingioli liquid medium supplemented with glucose
... | ["[DM-glucose: Davis-Mingioli liquid medium supplemented with glucose] To prepare 1 L of DM, follow these steps.", "[DM-glucose: Davis-Mingioli liquid medium supplemented with glucose] Weigh dry components:\na. 5.34 g of or 7 gof \nb. 2 g of \nc. 1 g of \nd. 0.5 g of", "[DM-glucose: Davis-Mingioli liquid medi... |
null | null | null | dx.doi.org/10.17504/protocols.io.cryv7v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The kit formulation allows for efficient capped RNA synthesis using cap analog (ARCA).
[BEFORE_START]
We strongly recommend wearing gloves and using nuclease-free tubes and reagents to avoid RNase contamination. Reactions are typically 20 μl but can be scaled up as needed. R... | [] |
27,765 | Taq PCR (Protocol for ZymoTaq™ PreMix) | null | dx.doi.org/10.17504/protocols.io.7cvhiw6 | null | Alba Balletbó | TITLE: Taq PCR (Protocol for ZymoTaq™ PreMix)
AUTHORS: Alba Balletbó
[STEPS]
?. Add all components in a 250 μL tube making up to a 25 or 50 μl reaction. If performing various PCR with different templates, a Master Mix is recommended to be done. ABC1ReagentVolumeFinal Concentration2ZymoTaq™ PreMix25 µL1X3Forward Prim... | ["Add all components in a 250 μL tube making up to a 25 or 50 μl reaction. If performing various PCR with different templates, a Master Mix is recommended to be done. ABC1ReagentVolumeFinal Concentration2ZymoTaq™ PreMix25 µL1X3Forward Primer (10 µM)Variable 0.3 to 1 µM 4Reverse Primer (10 µM) Variable 0.3 to 1 µM 5Te... |
93,616 | Lentivirus Production | 4 | null | https://www.protocols.io/view/lentivirus-production-c7nqzmdw | Yiqin Shen | TITLE: Lentivirus Production
AUTHORS: Yiqin Shen
[DESCRIPTION]
A protocol to produce lentivirus through cell transfection
[STEPS]
SECTION: Day 1
1. Coat 15ml cell culture plates with D-poly-lysine (50ug/ml) for 30 min to60 min .
Wash plates with cell culture water for 1 to 3 times. Let the plates to air dry.
SECTIO... | ["[Day 1] Coat 15ml cell culture plates with D-poly-lysine (50ug/ml) for 30 min to60 min . \nWash plates with cell culture water for 1 to 3 times. Let the plates to air dry.", "[Day 2] Change media about 3 hours prior to transfection.", "[Day 3] Change media for all of the plates. Add 20 mL fresh media.", "[Day 4] Coll... |
61,845 | Membrane Tube Assay | 1 | dx.doi.org/10.17504/protocols.io.ewov1n3dpgr2/v1 | https://www.protocols.io/view/membrane-tube-assay-b8mvru66 | Liv Jensen | TITLE: Membrane Tube Assay
AUTHORS: Liv Jensen
[DESCRIPTION]
This protocol details about the Membrane Tube Assay.
[STEPS]
SECTION: Membrane Tube Assay
1. Passivate flow cell with 1 mg/mL BSA in imaging buffer.
SECTION: Membrane Tube Assay
2. Rinse flow cell with 2 flow cell volumes of imaging buffer.
SECTION: Membr... | ["[Membrane Tube Assay] Passivate flow cell with 1 mg/mL BSA in imaging buffer.", "[Membrane Tube Assay] Rinse flow cell with 2 flow cell volumes of imaging buffer.", "[Membrane Tube Assay] Mix GUVs with fluorescent protein and add to flow cell, allowing GUVs to settle on the bottom surface of the flow cell.", "[Membra... |
null | null | null | dx.doi.org/10.17504/protocols.io.ezvbf66 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a collection of BioLegend protocols for Immunofluorescence Staining.</p>
[STEPS]
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53,001 | Gibson assembly for 1 insert the easiest way | 1 | null | https://www.protocols.io/view/gibson-assembly-for-1-insert-the-easiest-way-bxzhpp36 | Zaki Molvi | TITLE: Gibson assembly for 1 insert the easiest way
AUTHORS: Zaki Molvi
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This is the easiest way I've found to do Gibson Assembly of 1 insert into a recipient plasmid after many failed attempts.</div></div>
[STEPS]
?. [Introduction]
This is the easiest... | ["[Introduction]\nThis is the easiest way I've found to do Gibson Assembly of 1 insert into a recipient plasmid after many failed attempts.", "[Protocol]\nDesign and order primers for insert and vector using Benchling's Gibson Assembly wizard.", "[Protocol]\nForward primer checklist for cloning coding sequences:Kozak s... |
40,606 | Vezina Lab Mouse Kidney Capsule Implant Protocol | 1 | null | https://www.protocols.io/view/vezina-lab-mouse-kidney-capsule-implant-protocol-bjv6kn9e | Chad Vezina | TITLE: Vezina Lab Mouse Kidney Capsule Implant Protocol
AUTHORS: Chad Vezina
[STEPS]
?. [Two days prior to experiment]
Collect following supplies and ensure that isoflurane and buprenorphine are still in date):Betadine scrub, 32 oz (*RARC pharmacy; Check Expiration Date)Surgical drape, non-sterile, 38.5 in X 100 yd (V... | ["[Two days prior to experiment]\nCollect following supplies and ensure that isoflurane and buprenorphine are still in date):Betadine scrub, 32 oz (*RARC pharmacy; Check Expiration Date)Surgical drape, non-sterile, 38.5 in X 100 yd (VWR 34300-532)Procedure face masks, 2 Ply with Earloops, 50/bpx (*RARC pharmacy)Sterile... |
94,881 | ASO transfection of iPSC-derived cells | 1 | dx.doi.org/10.17504/protocols.io.81wgbxbonlpk/v1 | https://www.protocols.io/view/aso-transfection-of-ipsc-derived-cells-c8v9zw96 | james.evans | TITLE: ASO transfection of iPSC-derived cells
AUTHORS: james.evans
[DESCRIPTION]
A protocol for transfecting iPSC-derived midbrain dopaminergic neurons with antisense oligonucleotides (ASOs).
[STEPS]
SECTION: ASO transfection of iPSC-derived mDA neurons
1. Make up transfection mix in N2B27. The transfection mix shou... | ["[ASO transfection of iPSC-derived mDA neurons] Make up transfection mix in N2B27. The transfection mix should be 1/5 of the final volume in the well. \nTransfection mix should have:\n1. 0.48 % DharmaFECT transfection reagent\n2. ASO (adjust concentration depending on cell type, ASO chemical modification, and knockdow... |
21,850 | Selection of stable transformants in Ostreococcus tauri, Ostreococcus lucimarinus and Bathycoccus prasinos | null | dx.doi.org/10.17504/protocols.io.zj2f4qe | null | Francois-Yves bouget | TITLE: Selection of stable transformants in Ostreococcus tauri, Ostreococcus lucimarinus and Bathycoccus prasinos
AUTHORS: Francois-Yves bouget
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the selection and growth of stable transformants in semi solid agarose medium. Deve... | ["[Inclusion of cells in semi-solid agarose medium]\nAutoclave a solution of 2.1% low melting agarose in H2O. Keep at 65-90 °C in a water bath.", "[Inclusion of cells in semi-solid agarose medium]\nAdd 1 ml of LMP agarose to the 9 ml in one of the tubes. Close the tube, and mix gently by inverting.", "[Inclusion of ce... |
20,471 | SYSB 3036 W04: Homology searches | null | dx.doi.org/10.17504/protocols.io.x8xfrxn | null | Frank Aylward | TITLE: SYSB 3036 W04: Homology searches
AUTHORS: Frank Aylward
[STEPS]
?. Here we will use proteins predicted from the genomes of two Prochlorococcus bacteriophage genomes. We can use the wget command, which is already available as part of the base Ubuntu command line. Wget allows us to download files from a web serve... | ["Here we will use proteins predicted from the genomes of two Prochlorococcus bacteriophage genomes. We can use the wget command, which is already available as part of the base Ubuntu command line. Wget allows us to download files from a web server directly into the folder we are working in, and we need to know the URL... |
27,835 | Autofluorescence Microscopy Data Acquisition | null | dx.doi.org/10.17504/protocols.io.7e3hjgn | null | Elizabeth Neumann, Heath Patterson, Jamie Allen, Maya Brewer, Mark de Caestecker, Danielle Gutierrez, Jeff Spraggins | TITLE: Autofluorescence Microscopy Data Acquisition
AUTHORS: Elizabeth Neumann, Heath Patterson, Jamie Allen, Maya Brewer, Mark de Caestecker, Danielle Gutierrez, Jeff Spraggins
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Scope:</div><div class = "text-block">Obtain autofluorescence microscopy i... | ["If sectioned tissue is frozen, return to room temperature (~20oC) within a vacuum desiccator (~30 min), otherwise proceed directly to step 2.", "Place microscope slide within adapter and insert into the Zeiss AxioScan Slide Scanner", "Perform coarse focusing of the tissue using:DAPI filter set (ex. 335-383 nm; em. 42... |
95,978 | T cell differentiation from mice spleen tissue | 0 | dx.doi.org/10.17504/protocols.io.261gedy8ov47/v1 | https://www.protocols.io/view/t-cell-differentiation-from-mice-spleen-tissue-c9yiz7ue | Ningbo Zheng, Weiyi Peng | TITLE: T cell differentiation from mice spleen tissue
AUTHORS: Ningbo Zheng, Weiyi Peng
[DESCRIPTION]
This protocol is for T cell differentiation from mice spleen tissue to investigate T cell function (including differentiation and proliferation) in vitro.
[STEPS]
SECTION: Day 0
1. Prepare precoated 96-well plate usi... | ["[Day 0] Prepare precoated 96-well plate using antibodies described in materials section.", "[Day 1] Prepare single-cell suspensions of mice spleen tissues as per steps below", "[Day 1] Euthanize mice by CO2 inhalation or other means of euthanasia.", "[Day 1] Collect the spleen from the mice.", "[Day 1] Add 5mL of RPM... |
null | null | null | dx.doi.org/10.17504/protocols.io.czwx7d | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
KAPA Express Extract is a novel thermostable protease and buffer system that allows for the extraction of PCR-ready DNA from various tissue types in as little as 10 min. This protocol uses half the normal reaction mix.
[GUIDELINES]
When running program on PCR machine incubate a... | [] |
98,808 | surveillance of antimicrobial-resistant bacteria causing community-acquired urinary tract infections in low-income countries | 1 | dx.doi.org/10.17504/protocols.io.kqdg3xdneg25/v3 | https://www.protocols.io/view/surveillance-of-antimicrobial-resistant-bacteria-c-dcqy2vxw | Mtebe Majigo, Stephen Mshana, Erick Komba, Nyambura Moremi, Mecky Matee | TITLE: surveillance of antimicrobial-resistant bacteria causing community-acquired urinary tract infections in low-income countries
AUTHORS: Mtebe Majigo, Stephen Mshana, Erick Komba, Nyambura Moremi, Mecky Matee
[DESCRIPTION]
The protocol intends to assist users in designing a sustainable surveillance program for AMR... | ["TARGET POPULATION AND ENROLMENT CRITERIA\nSampling needs to involve children above two years of age and adults (pregnant and non-pregnant women and men) who are residents of a given surveillance area presenting to a health facility for health care within that same surveillance area to ensure linkage of surveillance d... |
null | null | null | dx.doi.org/10.17504/protocols.io.g6tbzen | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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91,362 | Sanger Tree of Life HMW DNA Extraction: Automated Plant Organic HMW gDNA Extraction (POE) | 4 | dx.doi.org/10.17504/protocols.io.e6nvwd227lmk/v1 | https://www.protocols.io/view/sanger-tree-of-life-hmw-dna-extraction-automated-c5gay3se | Benjamin Jackson, Caroline Howard | TITLE: Sanger Tree of Life HMW DNA Extraction: Automated Plant Organic HMW gDNA Extraction (POE)
AUTHORS: Benjamin Jackson, Caroline Howard
[DESCRIPTION]
The Plant Organic HMW gDNA Extraction (POE) protocol acts as the Sanger Tree of Life's programmes mid-throughput, reserve gDNA extraction procedure for all plant sp... | ["[Sample lysis] Prepare an adequate volume of the ‘Direct Plant Lysis Buffer’ (recipe in Materials).\n\nPreheat the direct plant lysis buffer for 15–30 mins, 65 °C at 400 rpm prior to use, ensuring that all reagents are completely dissolved. \n\nAdd DTT and Proteinase K to the direct plant lysis buffer immediately pri... |
66,875 | Keto Luxe *PEOPLE REACTS* Best Keto Diet for Weight Loss! | 3 | dx.doi.org/10.17504/protocols.io.14egn7k8mv5d/v1 | https://www.protocols.io/view/keto-luxe-people-reacts-best-keto-diet-for-weight-cdi3s4gn | R H | TITLE: Keto Luxe *PEOPLE REACTS* Best Keto Diet for Weight Loss!
AUTHORS: R H
[DESCRIPTION]
Towards the finish of these plugs, you'll perpetually hear a rundown of the multitude of dreadful things that could happen to you when you utilize the item.
[STEPS] | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.ii5ccg6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
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99,998 | Western blot - alpha-synuclein | 4 | dx.doi.org/10.17504/protocols.io.rm7vzjb22lx1/v1 | https://www.protocols.io/view/western-blot-alpha-synuclein-ddv6269e | Pietro La Vitola, Eva M. Szegö | TITLE: Western blot - alpha-synuclein
AUTHORS: Pietro La Vitola, Eva M. Szegö
[DESCRIPTION]
This protocol describes how to detect alpha-synuclein protein in mouse dorsal medulla oblongata tissue by western blot
[STEPS]
SECTION: Sample preparation
1. Tissue homogenization
SECTION: Sample preparation
2. Electrophore... | ["[Sample preparation] Tissue homogenization", "[Sample preparation] Electrophoresis and transfer", "[Sample preparation] Homogenise samples in 150 µL ice-cold lysis buffer (1% Triton X-100 in 0.1 M phosphate buffered saline solution, pH 7.6 , supplemented with protease and phosphatase inhibitors.", "[Sample preparati... |
20,768 | Micromorphological thin section manufacture AMBI Lab, Universidad de La Laguna, Tenerife, Spain | null | dx.doi.org/10.17504/protocols.io.yh8ft9w | null | Lucia Leierer, Caterina Rodríguez, Carolina Mallol | TITLE: Micromorphological thin section manufacture AMBI Lab, Universidad de La Laguna, Tenerife, Spain
AUTHORS: Lucia Leierer, Caterina Rodríguez, Carolina Mallol
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Protocol for the manufacture of micromorphological thin sections performed at AMBI Lab, U... | ["Oven drying of intact sediment blocks at for", "Impregnating of sample with a 7:3:0.1 ratio of a mixture of of polyester resin (Palatal strained resin UN1866, TNK composites), styrene (Styrene monomer (CAS: 100-42-5) UN2055, TNK composites) and a catalyzer (Methyl-ethyl-ketone (Luperox, CAS: ... |
28,186 | Protocol for Dephosphorylation of 5′ ends of DNA using Quick CIP (NEB #M0525) | null | dx.doi.org/10.17504/protocols.io.7r2hm8e | https://www.protocols.io/view/protocol-for-dephosphorylation-of-5-ends-of-dna-us-7r2hm8e | New England Biolabs | TITLE: Protocol for Dephosphorylation of 5′ ends of DNA using Quick CIP (NEB #M0525)
AUTHORS: New England Biolabs
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:left">Quick CIP is a heat-labile version of calf intestinal alkaline phosphatase (CIP) purifie... | ["Prepare a reaction as follows: AB1DNA1 pmol of DNA ends*2CutSmart® Buffer (10X)2 μl3Quick CIP1 μl4H2O, purifiedto 20 μl** * Note: 1 pmol of DNA ends is about 1 μg of a 3 kb plasmid.** Scale larger reaction volumes proportionally.\n20 µl\nAB1DNA1 pmol of DNA ends*2CutSmart® Buffer (10X)2 μl3Quick C... |
null | null | null | dx.doi.org/10.17504/protocols.io.q9mdz46 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>A single prospective cohort of women submitted to cesarean section who received spinal anesthesia will be assessed for the proposed risk factors and the incidence of nausea or vomiting will be observed during the first 48 hours.</p>
[STEPS]
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null | null | null | dx.doi.org/10.17504/protocols.io.e3bbgin | null | null | TITLE: No Title
AUTHORS:
[GUIDELINES]
<p>Prior to following the staining procedure, dilute one (1) part Nuclear Factor Fixation Buffer (4X) with three (3) parts PBS, and dilute one (1) part Nuclear Factor Permeabilization Buffer with nine (9) parts PBS.</p>
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
87,187 | Field assessment protocol for non-destructive estimation of single- and multi-species cover crop biomass | 4 | dx.doi.org/10.17504/protocols.io.n2bvj3n9wlk5/v1 | https://www.protocols.io/view/field-assessment-protocol-for-non-destructive-esti-czdtx26n | Etienne Sutton, Jennifer Blesh | TITLE: Field assessment protocol for non-destructive estimation of single- and multi-species cover crop biomass
AUTHORS: Etienne Sutton, Jennifer Blesh
[DESCRIPTION]
This protocol provides step-by-step instructions for estimating cover crop biomass using ground cover photos and height measurements. Compared to traditi... | ["[Single-species cover crops: Field survey] Walk to a location in the first third of the field with representative cover crop growth, making sure to avoid field edges.", "[Single-species cover crops: Field survey] Holding your arm out parallel to the ground at shoulder height, take a photo of the cover crop canopy. Th... |
null | null | null | dx.doi.org/10.17504/protocols.io.uzhex36 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
This protocol series will guide students through the experience of analyzing metagenomic data.
[STEPS]
SECTION: DNA quality assessment and assurance
?.
SECTION: Metagenomic assembly
?.
SECTION: Assessing the quality of the assemblies
?.
SECTION: Binning assembled metagenome... | ["[DNA quality assessment and assurance] {\"blocks\":[{\"key\":\"d4427\",\"text\":\"The first step in analyzing the sequencing data set is to asses the quality of the sequence, and then to edit the dataset in order to retain only the highest quality sequences for the following analysis. \",\"type\":\"unstyled\",\"depth... |
83,532 | Kidney Functional Tissue Unit (FTU) Segmentation | 1 | dx.doi.org/10.17504/protocols.io.kxygx3mkog8j/v1 | https://www.protocols.click/view/kidney-functional-tissue-unit-ftu-segmentation-cvtkw6kw | Nathan Heath Patterson, ellie.l.pingry, Katerina V Djambazova, Melissa Farrow, Raf Van De Plas, Jeff Spraggins | TITLE: Kidney Functional Tissue Unit (FTU) Segmentation
AUTHORS: Nathan Heath Patterson, ellie.l.pingry, Katerina V Djambazova, Melissa Farrow, Raf Van De Plas, Jeff Spraggins
[DESCRIPTION]
This protocol explains how to apply a segmentation model to autofluorescence microscopy images to find kidney functional tissue u... | ["[Apply kidney FTU segmentation to autofluorescence images] Create the python environment needed to run wsimap. See instructions at the wsimap GitHub.", "[Apply kidney FTU segmentation to autofluorescence images] Configure the segmentation prediction by creating the dataset .yaml file. Add the path to the saved model... |
35,223 | 3D Printed Nasopharyngeal Swabs with Wrapped Rayon Fibers Developed and validated by SCREEN (San Diego Covid19 Research Enterprise Network) | null | dx.doi.org/10.17504/protocols.io.bemxjc7n | null | Justin Ryan, Nicole Coufal, Sage Aronson, Kelsey Ladt, Catelyn Andersen, Mark Zeller, Stephen Rawlings, Denise Malicki, Gene Yeo | TITLE: 3D Printed Nasopharyngeal Swabs with Wrapped Rayon Fibers Developed and validated by SCREEN (San Diego Covid19 Research Enterprise Network)
AUTHORS: Justin Ryan, Nicole Coufal, Sage Aronson, Kelsey Ladt, Catelyn Andersen, Mark Zeller, Stephen Rawlings, Denise Malicki, Gene Yeo
[DESCRIPTION]
<div class = "text-b... | ["[3D Printing]\nPrint the SCREEN design in a nylon-based media and ensure additional adhesives or binding agents are not used unless additional validation is performed.", "[Swab Procedure]\nWhile wearing gloves, open the supplied 3D print file.\nNote the following: The file was designed to not need support structures ... |
33,298 | Headbar implantation | null | dx.doi.org/10.17504/protocols.io.bcrsiv6e | null | Liu Liu, Arseny Finkelstein, Susu Chen, Nuo Li, Karel Svoboda | TITLE: Headbar implantation
AUTHORS: Liu Liu, Arseny Finkelstein, Susu Chen, Nuo Li, Karel Svoboda
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol is to prepare a mouse for head-restrained electrophysiological recordings or behavior by attaching a headbar (small titanium bar) to... | ["Spray stereotax and surrounding bench top area with Virkon 1% solution (antimicrobial agent). Wipe down all surfaces. Wipe down the metal with 70% ethanol after Virkon to remove all residues.", "Turn on all machines including the self-regulating heating pad and light source.", "Check Oxygen and Isoflurane levels and ... |
null | null | null | dx.doi.org/10.17504/protocols.io.u2teyen | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
In the late years, the interest in optoelectronic material is attribute to the discovery of electroluminescence in molecular crystals and conducting polymers. Organic materials have received considerable attention due to their application in electronic and optoelectronic devices... | [] |
29,219 | Dynabeads™ Cell Separation | null | dx.doi.org/10.17504/protocols.io.8sbhwan | null | Manuela de las Casas, Laura Sánchez, Claudia Troncone Clemente, Laura Armero | TITLE: Dynabeads™ Cell Separation
AUTHORS: Manuela de las Casas, Laura Sánchez, Claudia Troncone Clemente, Laura Armero
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">The aim of this protocol is to separate the aptamers that bind to the cells from the ones that don't. The cells used have a histidin... | ["Thoroughly resuspend the Dynabeads™ magnetic beads in the vial using a pipette or a vortex. This must be done each time the beads are going to be used.", "Transfer 100 μL (4 mg) Dynabeads™ to a 1.5 mL eppendorf tube. Place the tube in the magnetic rack for 2 min, to ensure separation. Then aspirate and discard the su... |
null | null | null | dx.doi.org/10.17504/protocols.io.n4udgww | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>Purpose </strong></p>
<p> </p>
<p>To describe the procedure of RNA extraction on post mortem brain tissue specimen using the Direct-zol™ RNA MiniPrep kit (Zymo). The extracted RNA is used in the diagnosis of lyssavirus infection by the LN34 pan-lyssavirus real-time RT... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.imgcc3w | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p><strong>Step 1: Enrolment of inmates eligible for study participation</strong></p>
<p><strong>Step 2: Study implementation</strong></p>
<ul>
<li>1<sup>st</sup> day of study: Inclusion of participants and questionnaire administration</li>
<li>2<sup>nd</sup> day of study: Prepa... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.e2bbgan | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This is a collection of Western Blotting protocols from BioLegend. Please use the appropriate protocol, depending on your application.</p>
[STEPS]
?. | [] |
20,278 | U Mass - Insulin clearance | null | dx.doi.org/10.17504/protocols.io.x2wfqfe | null | Jason Kim | TITLE: U Mass - Insulin clearance
AUTHORS: Jason Kim
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">
Insulin clearance test measure systemic clearance of insulin following a bolus injection. Liver accounts for the majo... | ["Mice are fasted for 5 hours prior to the start of experiment.", "Collect plasma sample (20 µl) before the start of experiment (basal-0 min) to measurebasal insulin and glucose levels.", "Administer intraperitoneal injection of insulin (0.5 or 0.75 unit/kg body weight) using aninsulin syringe.", "Collect plasma sample... |
null | null | null | dx.doi.org/10.17504/protocols.io.fvfbn3n | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>Lysis buffer for extraction of DNA from fungal material. Contains ionic and non-ionic detergents. Contains RNAse-A.</p>
<p> </p>
<p>Composition:</p>
<table style="border-collapse: collapse; width: 130pt;" border="0" width="130" cellspacing="0" cellpadding="0">
<tbody>
<tr sty... | [] |
46,751 | Keller (K) Medium in Artificial Sea Water (ASW) for Culturing Microalgae (Ostreococcus tauri) | 1 | dx.doi.org/10.17504/protocols.io.brv7m69n | https://www.protocols.io/view/keller-k-medium-in-artificial-sea-water-asw-for-cu-brv7m69n | Roscoff Culture Collection, Lynn Doran, Steven Burgess | TITLE: Keller (K) Medium in Artificial Sea Water (ASW) for Culturing Microalgae (Ostreococcus tauri)
AUTHORS: Roscoff Culture Collection, Lynn Doran, Steven Burgess
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Medium to grow most phytoplankton species in small eukaryotes (Mamiellophyceae, Pelago... | ["[Prepare Artificial Sea Water (ASW)]\nPrepare artificial sea water (ASW) ().\n1 L\nPlease note not all algae cultures tolerate artificial sea water and many culture stock centers will not guarantee culture growth in artificial seawater based media.To prepare natural seawater per the Roscoff Center: Collect seawater (... |
93,402 | Guidance for populating and validating GenomeTrakr metadata templates (BioSample and SRA) | 1 | dx.doi.org/10.17504/protocols.io.eq2ly3x1pgx9/v11 | https://www.protocols.io/view/guidance-for-populating-and-validating-genometrakr-c7f2zjqe | Maria Balkey, Ruth Timme, Candace Hope Bias, Errol Strain, Tina Lusk Pfefer | TITLE: Guidance for populating and validating GenomeTrakr metadata templates (BioSample and SRA)
AUTHORS: Maria Balkey, Ruth Timme, Candace Hope Bias, Errol Strain, Tina Lusk Pfefer
[DESCRIPTION]
PURPOSE: This protocol provides instructions for preparing and filling out the metadata templates necessary for direct subm... | ["[Overview] This protocol provides instructions on acquiring and completing two distinct metadata templates essential for the submission of enteric bacterial pathogen surveillance data to the National Center for Biotechnology Information (NCBI).\n\nTwo metadata templates are required for each NCBI submission:\n1. BioS... |
86,279 | W-1 WATER FIELD SAMPLING | 4 | dx.doi.org/10.17504/protocols.io.q26g7p8m9gwz/v1 | https://www.protocols.io/view/w-1-water-field-sampling-cyhfxt3n | REDI-NET Consortium | TITLE: W-1 WATER FIELD SAMPLING
AUTHORS: REDI-NET Consortium
[DESCRIPTION]
This protocol describes water field sampling.
[GUIDELINES]
OBJECTIVE
To outline steps to properly collect water samples and evaluate the risk of zoonotic disease transmission by the detection of pathogens from environmental DNA (eDNA).
SUMMA... | ["[SAMPLING TEAMS] Field sampling of eDNA water samples involves two people. One person serves as the ‘sampler’ and the other person serves as a ‘helper’. The helper can look up details in these instructions when needed, keep track of samples, handle objects that are contamination risks, serve as a second set of eyes f... |
27,667 | Next Generation Sequencing and RNA-Seq Characterization of adipose tissue in the Nile crocodile | null | dx.doi.org/10.17504/protocols.io.69thh6n | null | Odunayo Azeez | TITLE: Next Generation Sequencing and RNA-Seq Characterization of adipose tissue in the Nile crocodile
AUTHORS: Odunayo Azeez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><div class = "justify" style = "text-align:justify">Next Generation sequencing by RNA-Seq of the adipose tissue in health and ... | ["Total RNA Extraction for Next-Generation Sequencing Total RNA for NGS was extracted from normal adipose tissue, pansteatitis samples and the liver using TRIzol, a phenol and guanidium isothiocyanate based RNA extraction and purification protocol according to Rio et al. (2010).", "Extraction involved homogenization of... |
32,594 | An error-corrected panel-based next-generation sequencing assay for ultra-sensitive somatic mutation detection in ctDNA | null | dx.doi.org/10.17504/protocols.io.bb3siqne | null | Heidi Fettke | TITLE: An error-corrected panel-based next-generation sequencing assay for ultra-sensitive somatic mutation detection in ctDNA
AUTHORS: Heidi Fettke
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Circulating tumour DNA (ctDNA), fragmented DNA shed into the circulation from tumour cells, holds the p... | ["[Blood collection]\nCollect whole peripheral blood in either an EDTA tube or a dedicated cfDNA stabilising tube such as a Streck Cell-Free DNA BCT tube depending on the estimated time to processing (within 4 hours for an EDTA tube otherwise use a stabilising tube). 21-23 gauge needle or larger preferred to reduce cha... |
72,127 | Construction of ultra-high-density genetic linkage map of a sorghum-sudangrass hybrid using whole genome resequencing | 4 | dx.doi.org/10.17504/protocols.io.14egn2226g5d/v1 | https://www.protocols.io/view/construction-of-ultra-high-density-genetic-linkage-cin7udhn | Qianqian Lu | TITLE: Construction of ultra-high-density genetic linkage map of a sorghum-sudangrass hybrid using whole genome resequencing
AUTHORS: Qianqian Lu
[DESCRIPTION]
The sorghum-sudangrass hybrid is a vital annual gramineous herbage. Few reports exist on its ultra-high-density genetic map. In this study, an ultra-high-de... | ["[Genomic DNA extraction] During the early jointing stage, young leaves from the F2 individuals and their parents were flash frozen in liquid nitrogen. The quality of the extracted gDNA was confirmed via electrophoresis in a 0.8% (w/v) agarose gel.", "[Library construction and genotyping by WGRS] The 152 gDNA samples ... |
72,408 | Calibration Protocol | 1 | dx.doi.org/10.17504/protocols.io.kxygx998kg8j/v1 | https://www.protocols.io/view/calibration-protocol-cixyufpw | Olga Khmelnitsky, Magdalena M Julkowska, Hayley Sussman | TITLE: Calibration Protocol
AUTHORS: Olga Khmelnitsky, Magdalena M Julkowska, Hayley Sussman
[DESCRIPTION]
This is a quick calibration protocol for the Arduino AAWsmo box.
Use this protocol at the beginning of every new experiment and as needed.
This is part of a larger phenotyping project in the Julkowska Lab at t... | ["[Code and Uploading] Download the calibrate.ino file from GitHub (insert GitHub link here) to a location in your computer that is easy to access with all other Arduino codes that you will be using.", "[Code and Uploading] Open Arduino IDE and open the calibrate.ino file", "[Code and Uploading] Select the 'Verify' but... |
109,358 | A protocol for the isolation of IgE antibodies from human plasma using magnetic beads | 0 | dx.doi.org/10.17504/protocols.io.6qpvr8j52lmk/v1 | https://www.protocols.io/view/a-protocol-for-the-isolation-of-ige-antibodies-fro-dn2n5gde | Gudrun Baersch | TITLE: A protocol for the isolation of IgE antibodies from human plasma using magnetic beads
AUTHORS: Gudrun Baersch
[DESCRIPTION]
A protocol for the isolation of IgE antibodies from human plasma using magnetic beads
Human IgE antibodies are also present in plasma and there are many situations where isolation of thes... | ["Preparatory work:\nLabel the tubes and calculate the chemicals required.", "The user must first wash the specified quantity of magnetic beads (Tube A) in 1000µl buffer solution (Tube B). For this purpose, 1000µl buffer solution is added to the beads, the tube is placed in the magnetic rack and the liquid is pipetted ... |
null | null | null | dx.doi.org/10.17504/protocols.io.chkt4v | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
The following is a "typical" restriction endonuclease reaction. Please see the "guidelines" tab below for the NEB tips on optimizing restriction digests.
[GUIDELINES]
<strong>Guidelines for Optimizing Restriction Endonuclease Reactions<br /></strong><br /> If you are using a Ma... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.eczbax6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<strong>Viral Bioinformatic Resource Centre</strong>
<ul>
<li><strong>Provide databases of viral genomic information.</strong>
<ul>
<li>Please check the <strong><em>Organisms</em></strong> menu to see which viruses we support: we’re now focusing on large DNA viruses</li>
<li>The... | [] |
76,948 | Preparing Biolog Growth Plates | 1 | dx.doi.org/10.17504/protocols.io.e6nvwj5ndlmk/v2 | https://www.protocols.io/view/preparing-biolog-growth-plates-cpduvi6w | Carlos Carlos Goller, Carly Sjogren | TITLE: Preparing Biolog Growth Plates
AUTHORS: Carlos Carlos Goller, Carly Sjogren
[DESCRIPTION]
Overview and Goals
Your bacterial isolate has been grown on agar plates. You practiced pipetting. Now, let’s learn about how your organism grows! What nutrients help your bacterium grow? We will use plates with ninety-six ... | ["[Activity 1-Multichannel pipetting] Set your p200 multichannel pipet to 100 µL", "[Activity 1-Multichannel pipetting] Load 8 tips onto each gasket of the multichannel pipet.", "[Activity 1-Multichannel pipetting] Press the plunger to the first stop.", "[Activity 1-Multichannel pipetting] Submerge all 8 tips into the ... |
101,460 | Análise de metabarcoding de DNA | 0 | dx.doi.org/10.17504/protocols.io.yxmvme9k5g3p/v1 | https://www.protocols.io/view/an-lise-de-metabarcoding-de-dna-dfbu3inw | Thiago Mafra Batista | TITLE: Análise de metabarcoding de DNA
AUTHORS: Thiago Mafra Batista
[DESCRIPTION]
Este tutorial conduzirá estudantes e pesquisadores a realizarem análise metataxonômica de microrganismos a partir da amplificação das regiões V3V4 do gene 16S ribossomal. Iniciando pela união dos pares de reads com usearch, em seguida, ... | ["[Análise da qualidade das reads] Vamos avaliar o perfil de qualidade das reads com o software FastQC.", "[União dos pares de reads] Cada par de leitura é oriunda de um fragmento de amplicon sequenciado. Este fragmento precisa ser reconstruído. O parâmetro -fastq_mergepairs do usearch faz isso. Troque \"{AMOSTRAS}\" p... |
55,301 | Illumina Whole Genome Sequencing | 1 | null | https://www.protocols.io/view/illumina-whole-genome-sequencing-bz9dp926 | Rita Kuo | TITLE: Illumina Whole Genome Sequencing
AUTHORS: Rita Kuo
[DESCRIPTION]
This protocol is used to produce Ilumina libraries for whole genome sequencing. DNA input is 100 ng. User provide at least 300 ng of gDNA if it's possible to get enough materials for 2 attempts of library prep and sample QC. The enzymatic fragme... | ["[Sample QC] Use Dano Drop and Gel electrophoresis to quantify and qualify samples. If the sample is contaminated with RNA, inhibitors or degraded, do not proceed. A 260/280 ratio of ~1.8 is generally accepted as pure for DNA. If samples contain EDTA, proceed with bead clean up.", "[Bead clean up] Bring the sample vol... |
63,880 | Atttention! Simpli Health ACV Keto Gummies Reviews | Scam Or Legit (SimpliHealth ACV Keto) | 3 | dx.doi.org/10.17504/protocols.io.kxygxz264v8j/v1 | https://www.protocols.io/view/atttention-simpli-health-acv-keto-gummies-reviews-camgsc3w | John A, john | TITLE: Atttention! Simpli Health ACV Keto Gummies Reviews | Scam Or Legit (SimpliHealth ACV Keto)
AUTHORS: John A, john
[DESCRIPTION]
There are many ways to combat obesity. In some cases, however, this may not be enough. Simpli Health ACV Keto are great options.
[STEPS] | [] |
21,724 | Using CTT for comprehensive superfamily gene annotations | null | dx.doi.org/10.17504/protocols.io.zf4f3qw | null | Zhihua Hua | TITLE: Using CTT for comprehensive superfamily gene annotations
AUTHORS: Zhihua Hua
[STEPS]
?. Get the CTT package (Under the home directory, type "git clone https://github.com/hua-lab/ctt.git" to clone the ctt package. e.g., [user@localhost ~]$ git clone https://github.com/hua-lab/ctt.git
?. Compile dependenci... | ["Get the CTT package (Under the home directory, type \"git clone https://github.com/hua-lab/ctt.git\" to clone the ctt package. e.g., [user@localhost ~]$ git clone https://github.com/hua-lab/ctt.git", "Compile dependencies (~10 min). Under the home directory, type \"cd ./ctt/dependencies/\" to enter the ... |
39,647 | Clever Pennies: Honesty Oaths, Misreporting Performance, and MTurk | 3 | dx.doi.org/10.17504/protocols.io.bix7kfrn | https://www.protocols.io/view/clever-pennies-honesty-oaths-misreporting-performa-bix7kfrn | J Jobu Babin, Haritima Chauhan, Feng Liu | TITLE: Clever Pennies: Honesty Oaths, Misreporting Performance, and MTurk
AUTHORS: J Jobu Babin, Haritima Chauhan, Feng Liu
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Workers in online labor markets routinely misrepresent the value of effort, both through shirking and misreporting performance. ... | [] |
63,920 | The 10 Scariest Things About Prima Weight Loss Dragons Den UK | 1 | dx.doi.org/10.17504/protocols.io.kqdg3pyrql25/v1 | https://www.protocols.io/view/the-10-scariest-things-about-prima-weight-loss-dra-canqsddw | hotofferforyou | TITLE: The 10 Scariest Things About Prima Weight Loss Dragons Den UK
AUTHORS: hotofferforyou
[DESCRIPTION]
(Restricted SUPPLIES) Click Here to Order prima weight loss dragons den United Kingdom at a Special Discounted Price Today!
What is prima weight loss dragons den United Kingdom ?
prima weight loss dragons den... | ["[The 10 Scariest Things About Prima Weight Loss Dragons Den UK]"] |
74,719 | DNA Extraction from Arabidopsis thaliana | 4 | dx.doi.org/10.17504/protocols.io.4r3l276zqg1y/v1 | https://www.protocols.io/view/dna-extraction-from-arabidopsis-thaliana-ck77uzrn | lilyli | TITLE: DNA Extraction from Arabidopsis thaliana
AUTHORS: lilyli
[DESCRIPTION]
This is a protocol for extract DNA from arabidopsis thialiana.
[STEPS]
1. Add 400 mL DNA extraction solution into 1.5 mL centrifuge tube.
2. Grind 3 small leaves or 1 large leaf with a grinding stick in the centrifuge tube with the extrac... | ["Add 400 mL DNA extraction solution into 1.5 mL centrifuge tube.", "Grind 3 small leaves or 1 large leaf with a grinding stick in the centrifuge tube with the extract.", "Shake the oscillator for 5 s, and place it at room temperature until other preparations are completed.", "Centrifuge at 16 000 rpm for 2 minutes at ... |
30,339 | Electrophysiological Recordings | 1 | null | https://www.protocols.io/view/electrophysiological-recordings-9vbh62n | Yingchao Xue, Xiping Zhan, Shisheng Sun, Senthilkumar S. Karuppagounder, Shuli Xia, Valina L Dawson, Ted M Dawson, John Laterra, Jianmin Zhang, Mingyao Ying | TITLE: Electrophysiological Recordings
AUTHORS: Yingchao Xue, Xiping Zhan, Shisheng Sun, Senthilkumar S. Karuppagounder, Shuli Xia, Valina L Dawson, Ted M Dawson, John Laterra, Jianmin Zhang, Mingyao Ying
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>This protocol explains Quantitative Real‐... | ["[Voltage-Clamp Recording]\nPerform voltage-clamp recordings at in a chamber perfused with regular artificial cerebrospinal fluid flowing at 3 ml/minute.Regular artificial cerebrospinal fluid: at , equilibrated with 95% O2 and 5% CO2, ∼310 mosm)\n35 °C\n[NaCl]\n[KCl]\n[MgCl2]\n[CaCl2]\n[NaH2PO4]\n[NaHCO3]\n[glucose]... |
69,579 | Nano-CUT&Tag for multimodal profiling of the chromatin | 4 | dx.doi.org/10.17504/protocols.io.8epv59o8dg1b/v2 | https://www.protocols.io/view/nano-cut-amp-tag-for-multimodal-profiling-of-the-c-cf7jtrkn | Marek Bartosovic, Goncalo Castelo-Branco | TITLE: Nano-CUT&Tag for multimodal profiling of the chromatin
AUTHORS: Marek Bartosovic, Goncalo Castelo-Branco
[DESCRIPTION]
Nano-CUT&Tag is a multimodal technology to profile several histone modifications at the same with single-cell resolution. Nano-CUT&Tag implements a novel Tn5 fusion proteins to anti-mouse ... | ["[Tn5 loading] Annealing adaptor sequences:\n\nTn5_MeA_P5_noBCD. \n5' TCGTCGGCAGCGTCAGATGTGTATAAGAGACAG\n\nTn5_MeA_P5_bcdA. \t \n5'-TCGTCGGCAGCGTCTCCACGC TATAGCCT GCGATCGAGGACGGCAGATGTGTATAAGAGACAG\n\nTn5_MeA_P5_bcdB\t \n5'-TCGTCGGCAGCGTCTCCACGC ATAGAGGC GCGATCGAGGACGGCAGATGTGTATAAGAGACAG\n\nTn5_... |
null | null | null | dx.doi.org/10.17504/protocols.io.r7sd9ne | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
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?.
?.
?.
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?.
?. | [] |
87,462 | Neural differentiation on EM grids - iNeurons sample preparation for cryo-ET and CLEM | 4 | dx.doi.org/10.17504/protocols.io.5jyl8jz36g2w/v2 | https://www.protocols.io/view/neural-differentiation-on-em-grids-ineurons-sample-cznex5be | Cristina Capitanio, Victoria Trinkaus, Melissa Hoyer | TITLE: Neural differentiation on EM grids - iNeurons sample preparation for cryo-ET and CLEM
AUTHORS: Cristina Capitanio, Victoria Trinkaus, Melissa Hoyer
[DESCRIPTION]
This is a protocol for differentiating AAVS1-TRE3G-NGN2 iPSCs and hESCs to iNeurons directly on EM grids for cryo-ET and cryo-CLEM. The protocol comp... | ["[Starting the neural differentiation (Day 0-Day6)] We based our neural differentiation protocol, for both iPSCs and hESCs AAVS1-TRE3G-NGN2 cells, on: \n \nWe also refer to that protocol for a complete list of media and reagents. \n\nFollow the neural differentiation protocol until cell splitting on Day 6;\nOne well o... |
88,455 | Preparation of Competent Cells (10β E. coli Strain) | 4 | dx.doi.org/10.17504/protocols.io.q26g7p5w9gwz/v1 | https://www.protocols.io/view/preparation-of-competent-cells-10-e-coli-strain-c2mfyc3n | NUS iGEM | TITLE: Preparation of Competent Cells (10β E. coli Strain)
AUTHORS: NUS iGEM
[DESCRIPTION]
2023 NUS-Singapore iGEM team followed this protocol to make competent cells that would be used for transformation.
[GUIDELINES]
This protocol demonstrates the process of making 5 tubes of competent cells from a 5 mL cell cult... | ["[Cell Culture from Cell Stock] Prepare a Falcon tube with 5 mL of LB media.", "[Cell Culture from Cell Stock] Prepare an ice box.", "[Cell Culture from Cell Stock] Take out a tube of cell stock from the -80 °C fridge and put it into the ice box.", "[Refresh Cell Culture] Prepare a new Falcon tube and add 10 mL of L... |
63,162 | Concentration, extraction and quantification of SARS-CoV-2 in wastewater via droplet digital PCR | 1 | dx.doi.org/10.17504/protocols.io.dm6gpbb31lzp/v1 | https://www.protocols.io/view/concentration-extraction-and-quantification-of-sar-b9w2r7ge | Jim Huang, August Luc, Sarah Kane, Rose Nash, Susan De Long, Carol Wilusz | TITLE: Concentration, extraction and quantification of SARS-CoV-2 in wastewater via droplet digital PCR
AUTHORS: Jim Huang, August Luc, Sarah Kane, Rose Nash, Susan De Long, Carol Wilusz
[DESCRIPTION]
This protocol describes the method used at Colorado State University to extract and quantify SARS-CoV-2 in wastewater ... | ["[Preparation] Sample Description and Treatment\nThis protocol is designed for use with untreated influent from wastewater treatment plants. Samples should be provided in 50ml conical tubes with ~40ml of influent in each tube. Optimally, the samples should be flow proportional, collected over a 24 hour time period, ... |
48,013 | EPCAM Sorting Protocol March | 1 | null | https://www.protocols.io/view/epcam-sorting-protocol-march-bs5mng46 | Morrisey Lab | TITLE: EPCAM Sorting Protocol March
AUTHORS: Morrisey Lab
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Epcam sorting Protocol</span></div><div class = "text-block"><div class = "justify" style = "text-align:justify"><span style = "font-weight:bold;">FACS Buffer: ... | ["Make sure 4C centrifuge is on and at correct temperature.", "After completing HT2-280 sorting protocol centrifuge HT2-280 – cells for 5 min @ 300g(rcf).", "Resuspend pellet in 100uls αEpcam microbeads and 900uls FACS.", "Incubate in 4C for 30 min in darkness.", "Wash pellet with 20mL FACS and spin for 5 min @ 300g(rc... |
69,299 | Light microscopy immunoperoxidase staining protocol | 1 | dx.doi.org/10.17504/protocols.io.14egn2b6mg5d/v1 | https://www.protocols.io/view/light-microscopy-immunoperoxidase-staining-protoco-cfwttpen | Yoland Smith | TITLE: Light microscopy immunoperoxidase staining protocol
AUTHORS: Yoland Smith
[DESCRIPTION]
This protocol details the procedure of light microscopy immunoperoxidase staining protocol.
[STEPS]
SECTION: Light microscopy immunoperoxidase staining protocol
1. Select sections to process from the brain tissue bank.
SECT... | ["[Light microscopy immunoperoxidase staining protocol] Select sections to process from the brain tissue bank.", "[Light microscopy immunoperoxidase staining protocol] Wash sections thoroughly with a phosphate-buffered saline(PBS, 0.01 Molarity (M), pH 7.4) solution.", "[Light microscopy immunoperoxidase staining proto... |
98,402 | SARS-CoV-2 Mpro small scale expression and purification protocol | 1 | dx.doi.org/10.17504/protocols.io.rm7vzj8p8lx1/v1 | https://www.protocols.io/view/sars-cov-2-mpro-small-scale-expression-and-purifi-dcca2sse | Korvus Wang, michael fairhead, Eleanor Williams | TITLE: SARS-CoV-2 Mpro small scale expression and purification protocol
AUTHORS: Korvus Wang, michael fairhead, Eleanor Williams
[DESCRIPTION]
This protocol details the expression and purification of SARS Mpro construct bearing a N-terminal His-SUMO tag at small scale (<6L).
[GUIDELINES]
Construct / plasmid resourc... | ["[Plasmid Transformation] Transform the SARS-Cov-2 Mpro construct into BL21(DE3) and store a glycerol stock of this at -80 °C", "[Protein expression] When the OD600 reaches approximately 1.8, add 0.5 mM IPTG. Lower the temperature and shaker speed to and incubate", "[Protein Purifcation] Perform IMAC to extract tar... |
79,567 | Modified NEBNext® VarSkip Long SARS-CoV-2 Enrichment and library prep (SMRTbell prep kit 3.0 Pacific Biosciences)- adapted for wastewater samples | 4 | dx.doi.org/10.17504/protocols.io.4r3l27r4qg1y/v1 | https://www.protocols.io/view/modified-nebnext-varskip-long-sars-cov-2-enrichmen-crxpv7mn | Kathryn Judy, Padmini Ramachandran, Amanda Windsor, Tamara Walsky, Chris Grim, Maria Hoffmann | TITLE: Modified NEBNext® VarSkip Long SARS-CoV-2 Enrichment and library prep (SMRTbell prep kit 3.0 Pacific Biosciences)- adapted for wastewater samples
AUTHORS: Kathryn Judy, Padmini Ramachandran, Amanda Windsor, Tamara Walsky, Chris Grim, Maria Hoffmann
[DESCRIPTION]
This protocol details methods for the preparati... | ["[Before you start]", "[Targeted cDNA Amplification]", "[Targeted cDNA Amplification] Prepare master mixes fresh immediately before performing cDNA amplification. \n\nQ5 Hot Start High-Fidelity Polymerase should stay on ice at all times. Do not vortex.\nThaw Q5 Reaction Buffer, MgCl2, dNTPs, and water.\nMix thawed tub... |
null | null | null | dx.doi.org/10.17504/protocols.io.mc5c2y6 | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>The NEBNext Ultra II DNA Library Prep Kit for Illumina contains the enzymes and buffers required to convert a broad range of input amounts of DNA into high quality libraries for next-generation sequencing on the Illumina platform. The fast, user-friendly workflow also has min... | [] |
70,334 | Differentiation of mature neurons from mouse NPCs | 4 | dx.doi.org/10.17504/protocols.io.6qpvr4oo2gmk/v1 | https://www.protocols.click/view/differentiation-of-mature-neurons-from-mouse-npcs-cgw6txhe | Sonia Cruciani, Jacqueline Severo, Laura Batlle, Eva Maria Novoa | TITLE: Differentiation of mature neurons from mouse NPCs
AUTHORS: Sonia Cruciani, Jacqueline Severo, Laura Batlle, Eva Maria Novoa
[DESCRIPTION]
This is a step by step protocol used to differentiate mouse NPCs to mature neurons.
[STEPS]
SECTION: Coating
1. -Dilute Poly-L-Ornithine (PLO) 1:6 in H2O
SECTION: Coating
... | ["[Coating] -Dilute Poly-L-Ornithine (PLO) 1:6 in H2O", "[Coating] -Fully coat the wells with diluted PLO (i.e. 500 ul per well in a 12WP)", "[Coating] -Leave in the incubator for minimum 2h (also overnight works)", "[Coating] -Aspirate the PLO and wash three times with sterile H2O", "[Coating] -Dilute Laminin 1:500 in... |
78,768 | 3D Mesh Cleanup Tutorial | 2 | dx.doi.org/10.17504/protocols.io.kqdg391deg25/v1 | https://www.protocols.io/view/3d-mesh-cleanup-tutorial-cq6qvzdw | Elizabeth G. Clark, Kelsey M Jenkins, Craig R Brodersen | TITLE: 3D Mesh Cleanup Tutorial
AUTHORS: Elizabeth G. Clark, Kelsey M Jenkins, Craig R Brodersen
[DESCRIPTION]
This is the collection of protocols for developing 3D reconstructions of animals and plants from digitized specimens (see Clark et al. 2023). 3D Object files for use in the protocols are available at https://... | [] |
27,468 | Pouring LB Agar Plates | null | dx.doi.org/10.17504/protocols.io.63khgkw | null | Addgene the nonprofit plasmid repository | TITLE: Pouring LB Agar Plates
AUTHORS: Addgene the nonprofit plasmid repository
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span>The following protocol is for making LB agar plates for the purpose of bacterial selection (500mL of LB agar makes about 25 LB agar plates). For the full abstract and... | ["Measure of pre-mixed LB-agar powder per L of molten agar you’d like to make. The precise mass you measure out will be based on the number of plates you’d like to pour.\n37 g\nExample: Because we’d like to make 20 plates, and our plates can hold a maximum of , we’ll want of media total.Importantly, we’ll actually ... |
87,559 | Rapid, environmentally friendly and cost effective human DNA isolation method from buccal swab for molecular analysis within 10 minutes | 1 | dx.doi.org/10.17504/protocols.io.n92ldmrb8l5b/v1 | https://www.protocols.io/view/rapid-environmentally-friendly-and-cost-effective-czrfx53n | Sudhir Bhatia, Gudrun Baersch | TITLE: Rapid, environmentally friendly and cost effective human DNA isolation method from buccal swab for molecular analysis within 10 minutes
AUTHORS: Sudhir Bhatia, Gudrun Baersch
[DESCRIPTION]
Isolation of human DNA from buccal swab is an important part of molecular biology. It is conducted to perform the differe... | ["Label the microtube.", "Switch on the heating block and set the temperature to 88 0C.", "Cut the head of buccal swab with a scissor in such a way that it falls in microtube.", "Add 100 µl of 1:10 diluted tube A (lysis solution) to the microtube.", "Put this microtube in the heating block at 88 0C for 8 minutes.", "Vo... |
44,126 | Lab 4 Notebook | 3 | null | https://www.protocols.io/view/lab-4-notebook-bpb6mire | TITLE: Lab 4 Notebook
AUTHORS:
[STEPS] | [] | |
41,649 | Saliva Vapor Tests in a Home Environment for Point-of-care COVID-19 Tests | 1 | dx.doi.org/10.17504/protocols.io.bkwrkxd6 | https://www.protocols.io/view/saliva-vapor-tests-in-a-home-environment-for-point-bkwrkxd6 | Shadi Emam, nasrollahpourmotla.m , n.sun | TITLE: Saliva Vapor Tests in a Home Environment for Point-of-care COVID-19 Tests
AUTHORS: Shadi Emam, nasrollahpourmotla.m , n.sun
[STEPS]
?. Saliva collection: the person to be tested by the COVID-19 sensor uses a one-time pipette for collecting a couple of drops (0.1mL) of saliva.
?. The pipette with a couple of d... | ["Saliva collection: the person to be tested by the COVID-19 sensor uses a one-time pipette for collecting a couple of drops (0.1mL) of saliva.", "The pipette with a couple of drops of saliva will be placed at 1-inch distance beneath the SARS-COV-2 gas sensor in the handheld system with its sensor cover open.", "Wait f... |
69,173 | qPCR and RT-PCR | 1 | dx.doi.org/10.17504/protocols.io.j8nlkwbewl5r/v1 | https://www.protocols.io/view/qpcr-and-rt-pcr-cfsvtne6 | Ayse Ulusoy, Michael Klinkenberg, Michael Helwig, Angela Rollar, Shirley Lee, Rita Pinto-Costa, Donato Di Monte | TITLE: qPCR and RT-PCR
AUTHORS: Ayse Ulusoy, Michael Klinkenberg, Michael Helwig, Angela Rollar, Shirley Lee, Rita Pinto-Costa, Donato Di Monte
[DESCRIPTION]
The protocol describes the methodology and materials we use in the Di Monte lab for mRNA extraction and q-PCR/or RT-PCR analyses from fixed tissue samples.
[ST... | ["Dissect the dorsal medulla oblongata from paraformaldehyde-fixed coronal sections\nof the medulla oblongata.", "Extract total RNA using Nucleic Acid Isolation Kit (Ambion), and measure yield using a nanodrop.", "Mix the PCR products with 6x sample buffer (New England\nBiolabs) and 5% DMSO and load on 2.0% SeaKem agar... |
20,514 | U Michigan - Retinal Cell Death | null | dx.doi.org/10.17504/protocols.io.yaafsae | null | David A. Antonetti | TITLE: U Michigan - Retinal Cell Death
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">Capture nucleosomes from the cytoplasm of apoptotic cells on a micro titer plate and detect the associat... | ["Weigh the microcentrifuge tube", "Add the retina sample and weigh the retina with tube to obtain the retinal weight", "Freeze the retina in liquid nitrogen and store at -80°C (or use fresh retina)", "Add 50 µl 1x Lysis buffer to each mouse retina", "Homogenize the retina and keep it on ice", "Vortex and incubate the ... |
null | null | null | dx.doi.org/10.17504/protocols.io.gutbwwn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<div class="page" title="Page 2">
<div class="section">
<div class="layoutArea">
<div class="column">
<p>The Odyssey Fc Imager, with 600 channel capabilities, can image agarose gels stained with popular DNA stains, such as ethidium bromide and SYBR Safe DNA stain, with sub-nanog... | ["[Gel Preparation] Prepare desired agarose (0.8%, 1.0%, 1.2%, etc.) in 1X TAE or 1X TBE buffer.", "[Gel Preparation] Heat to dissolve agarose.", "[Gel Preparation] Cool solution until warm to the touch (60°F) prior to adding DNA stain.\n Ethidium Bromide— Stock solutions are typically 10 mg/mL. Add ethidium brom... |
47,582 | Typha (Cattail) Crosslinking and Nuclei Isolation | 1 | dx.doi.org/10.17504/protocols.io.bsp6ndre | https://www.protocols.io/view/typha-cattail-crosslinking-and-nuclei-isolation-bsp6ndre | Kelly Colt | TITLE: Typha (Cattail) Crosslinking and Nuclei Isolation
AUTHORS: Kelly Colt
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">Typha Crosslinking and Nuclei Isolation protcol</div><div class = "text-block">Key notes:</div><div class = "text-block"><ul style = "list-style-type:disc;"><li style = "count... | ["[Buffers]\nFormaldehyde Buffer1% FormaldehydeWaterFinal Volume 50mL", "[Buffers]\n125mM Glycine125mM GlycineWaterFinal Volume 50mL", "[Buffers]\nNuclei Isolation Buffer (NIB)Prepare this buffer the same day that you will perform the nuclei isolation. Prepare 30mL of NIB, chilled to 4C, per sample:250mM Sucrose20mM HE... |
98,293 | Tissue H&E Staining | HuBMAP | JHU-TMC | 0 | dx.doi.org/10.17504/protocols.io.kqdg3242qv25/v3 | https://www.protocols.io/view/tissue-h-amp-e-staining-hubmap-jhu-tmc-db8v2rw6 | Kyu Sang Han, Pei-Hsun Wu, Joel Sunshine, Ashley Kiemen, Miklhail James, Sashank Reddy, Denis Wirtz | TITLE: Tissue H&E Staining | HuBMAP | JHU-TMC
AUTHORS: Kyu Sang Han, Pei-Hsun Wu, Joel Sunshine, Ashley Kiemen, Miklhail James, Sashank Reddy, Denis Wirtz
[DESCRIPTION]
The following are guidelines that will have an effective staining window of 2 to 5 minutes. Developed as progressive stains, the intensity of nucl... | ["[H&E staining] Final Step: Mount and Coverslip with Covermount", "Set 2 stations with 100% ethanol. Submerge the slide for a minute in each station.", "[H&E staining] Wash the slide in running warm water for a minute", "[H&E staining] Submerge the slide in Optik Hematoxylin for 3 minutes", "[H&E stain... |
64,469 | ONT dA-tailing for Fungal Barcoding | 4 | dx.doi.org/10.17504/protocols.io.yxmvmnze9g3p/v2 | https://www.protocols.io/view/ont-da-tailing-for-fungal-barcoding-ca7vshn6 | Stephen Douglas Russell, Stephen Douglas Russell | TITLE: ONT dA-tailing for Fungal Barcoding
AUTHORS: Stephen Douglas Russell, Stephen Douglas Russell
[DESCRIPTION]
Tailing is an enzymatic method for adding a non-templated nucleotide to the 3' end of a blunt, double-stranded DNA molecule. This puts A-chains on the end of our PCR product, creating a site for... | ["[End repair/A-tailing] Put a 1.5mL tube of molecular water on a heat block at 55 °C.\n\nThaw the End-prep Reaction Buffer and End-prep Enzyme Mix at room temperature. (Won't take long.)\n\nAlso if continuing on with adapter ligation (next protocol) once this one is done, it would be good to set the chems from that ne... |
29,078 | Guide for Supporting Diverse Career Exploration of Trainees | null | dx.doi.org/10.17504/protocols.io.8mwhu7e | null | Lenny Teytelman, Liz Silva, Joanne Kamens, Lex Flagel | TITLE: Guide for Supporting Diverse Career Exploration of Trainees
AUTHORS: Lenny Teytelman, Liz Silva, Joanne Kamens, Lex Flagel
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">[Please use the commenting functionality to suggest edits and additional resources. Also... | ["[Encouragement]\nLet the trainee know that you support them and are glad they are proactively thinking about their career and how to find the best fit for them.", "[Encouragement]\nAcknowledge that while you personally may not have experience in non-academic careers, you do know that there are many and that professio... |
101,314 | Adoption of Information and Communication Technologies by Brazilian public libraries | 0 | dx.doi.org/10.17504/protocols.io.e6nvw113zlmk/v1 | https://www.protocols.io/view/adoption-of-information-and-communication-technolo-de7a3hie | Michelângelo M Viana, GIOVANA DELIBERALI MAIMONE | TITLE: Adoption of Information and Communication Technologies by Brazilian public libraries
AUTHORS: Michelângelo M Viana, GIOVANA DELIBERALI MAIMONE
[DESCRIPTION]
This research protocol was used for an academic master's degree research, the objective of which was to analyze the current panorama of Brazilian public li... | ["[Phase 1] Carry out a bibliographic and exploratory research on the topics:\nPublic Library: purpose, resources and services;\nInformation and Communication;\nInformational and communication technologies adopted by public libraries;\nExperiences in the adoption of Information and Communication Technologies (ICTs) by ... |
20,725 | Histological staining of fish gonadal tissue | null | dx.doi.org/10.17504/protocols.io.ygvftw6 | null | Jhennifer Gomes Cordeiro, Caio Maximino, Diógenes Henrique de Siqueira-Silva | TITLE: Histological staining of fish gonadal tissue
AUTHORS: Jhennifer Gomes Cordeiro, Caio Maximino, Diógenes Henrique de Siqueira-Silva
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes the dissection, fixation, and histological processing of gonadal tissue of small and mediu... | ["[Collection and fixation of gonads]\nAnesthetize and euthanize the animals", "[Collection and fixation of gonads]\nPerform a ventro-longitudinal incision to expose the gonads, Bouin's fixative must be immediately applied on the gonads aiming the prefixation. Then, gonads are removed and immediately placed in the fixa... |
102,412 | Protocol for Nuclei/ Cell Isolation and 10X Genomics Fixed RNA profiling for Human Ovary | 0 | dx.doi.org/10.17504/protocols.io.n92ld8rwxv5b/v2 | https://www.protocols.io/view/protocol-for-nuclei-cell-isolation-and-10x-genomic-df9k3r4w | Nicolas Martin | TITLE: Protocol for Nuclei/ Cell Isolation and 10X Genomics Fixed RNA profiling for Human Ovary
AUTHORS: Nicolas Martin
[DESCRIPTION]
This is the 10X Genomics protocol to fix, dissociate, and profile RNA from human ovary tissue.
[GUIDELINES]
This protocol needs prior approval by the users' institutional review board... | ["[Cell/Nuclei Isolation Protocol for Human Ovary] The protocol CG000553 REV B was used to fix, dissociate, and isolate cells/nuclei from frozen human skeletal muscle with the following modifications: \n\n1) 0.25 mg / mL of Liberase TH was used for dissociation at Step 2b, Page 6.\n2) Two extra \"spin only\" (i.e., ste... |
45,575 | Plasmid Sequence Assembly from Long Reads | 1 | dx.doi.org/10.17504/protocols.io.bqrfmv3n | https://www.protocols.io/view/plasmid-sequence-assembly-from-long-reads-bqrfmv3n | David Eccles | TITLE: Plasmid Sequence Assembly from Long Reads
AUTHORS: David Eccles
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol demonstrates how to assemble reads from plasmid DNA, and generate a circularised and non-repetitive consensus sequence</div><div class = "text-block">At the moment, th... | ["[Read file preparation]\nDemultiplex reads as per protocol Demultiplexing Nanopore reads with LAST.If this has been done, then the following command should produce output without errors:for bc in $(awk '{print $2}' barcode_counts.txt); do ls demultiplexed/reads_${bc}.fq.gz;doneExample output:demultiplexed/reads_BC02... |
null | null | null | dx.doi.org/10.17504/protocols.io.jirckd6 | null | null | TITLE: No Title
AUTHORS:
[STEPS]
?.
?.
?.
?.
?.
?.
?. | [] |
20,560 | UC Davis - Leptin Signaling pathway | null | dx.doi.org/10.17504/protocols.io.ybqfsmw | null | Fawaz G. Haj | TITLE: UC Davis - Leptin Signaling pathway
AUTHORS: Fawaz G. Haj
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block"><span style = "font-weight:bold;">Summary:</span></div><div class = "text-block">
This test is designated to determine if rodents exhibit activation of leptin signaling pathway through ev... | ["Unless otherwise requested by the PI or stated in the protocol, mice will be euthanized using cervical dislocation.", "Collect maximum blood from portal vein and isolate plasma according to standard protocols or as desired by the P.I.", "Quickly collect tissues designated by the P.I. Each tissue should be divided int... |
42,654 | NaOH裂解基因组 | 4 | null | https://www.protocols.io/view/naoh-bmv6k69e | 张 雪 | TITLE: NaOH裂解基因组
AUTHORS: 张 雪
[STEPS]
?. 拔鱼鳞＋50µl 50mM NaOH，95°C，15min
95 °C
?. 吹散混匀后，+5µl pH8.0 1M Tris-HCl，此为stock（-30°C储存）
?. 取10µl stock+20µl ddH2O，此为work | ["拔鱼鳞＋50µl 50mM NaOH，95°C，15min\n95 °C", "吹散混匀后，+5µl pH8.0 1M Tris-HCl，此为stock（-30°C储存）", "取10µl stock+20µl ddH2O，此为work"] |
43,627 | Beetle Cleaning | 3 | dx.doi.org/10.17504/protocols.io.bnujmeun | https://www.protocols.io/view/beetle-cleaning-bnujmeun | Jiri Hulcr, Demian F Gomez | TITLE: Beetle Cleaning
AUTHORS: Jiri Hulcr, Demian F Gomez
[DESCRIPTION]
<div class = "text-blocks"><div class = "text-block">This protocol describes surface-sterilization or surface-cleaing techniques for the beetles before the microbe isolation.</div><div class = "text-block"><span>This protocol is part of the Bark ... | [] |
null | null | null | dx.doi.org/10.17504/protocols.io.hipb4dn | null | null | TITLE: No Title
AUTHORS:
[DESCRIPTION]
<p>This protocol is a modified version of the Qiagen RNeasy assay for isolating total RNA from Heterosigma akashiwo. We used this protocol to obtain high quality RNA for downstream analysis such as quantitative PCR. </p>
<p> </p>
[STEPS]
?.
?.
?.
?.
?.
?.
?.
?.
?.
?.
... | [] |
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