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Authors: David Dunigan and Irina Agarkova
Group: VERVE Net
Summary: Recipe to make 10ml of 2x stock
Proper citation: David Dunigan and Irina Agarkova 2016. SDS-PAGE Cracking Buffer. protocols.io https://dx.doi.org/10.17504/protocols.io.erpbd5n Copy
Authors: Nicolas Schmelling
Group: Axmann Lab
Summary: This protocol show you how to create a sequence alignment with multiple sequences using CLUSTAL Omega and to futher modify it with Jalview and visualize it with Weblogo.
Proper citation: Nicolas Schmelling 2016. Multiple Alignments and Weblogo. protocols.io https://dx.doi.org/10.17504/protocols.io.gscbwaw Copy
Authors: Derreck Carter-House, Jason Stajich, Sarah Unruh, Tania Kurbessoian
Group: High molecular weight DNA extraction from all kingdoms, Chytrid Fungi - Molecular and Genomic Techniques, stajichlab
Summary: This protocol is a CTAB DNA extraction method for filamentous fungi. Its purpose is to extract high molecular weight genomic DNA for genome sequencing.
Proper citation: Derreck Carter-House, Jason Stajich, Sarah Unruh, Tania Kurbessoian 2020. Fungal CTAB DNA Extraction . protocols.io https://dx.doi.org/10.17504/protocols.io.bhx8j7rw Copy
Authors: Nicolas Schmelling
Group: Axmann Lab, CyanoWorld, iGEM Duesseldorf 2018
Summary: This protocol should be used for chlorophyll extraction in cyanobacteria. The equation for calculating the exact chlorophyll content can be found at the end of this document.You might want to measure the optical density (OD) of you cyanobacteria culture at 750 nm. Use BG11 medium or water as the reference solution. You need the OD of your culture to normalize the cholorphyll concentration to the number of cyanobacteria.Calculate chlorophyll content (adapted from Lichtenthaler 1978)Chl [µg/ml] = OD665nm x 13.9 [µg/ml] x dilution factor of cultureYou can take less than 1 ml, but note the dilution factor for the calculation later on, e.g. :1 ml sample = dilution factor of 1500 µl sample = dilution factor of 2100 µl sample = dilution factor of 10
Proper citation: Nicolas Schmelling 2016. Chlorophyll Extraction in Cyanobacteria. protocols.io https://dx.doi.org/10.17504/protocols.io.fuvbnw6 Copy
Authors: bill , covidtesting
Group: XPRIZE Rapid Covid Testing
Proper citation: bill , covidtesting 2020. V-CHEK Coronavirus (SARS-CoV-2) Antigen Detection Kit. protocols.io https://dx.doi.org/10.17504/protocols.io.bkwukxew Copy
Authors: Antonio Hartley
Proper citation: Antonio Hartley 2017. Inmunohistoquímica rápida. protocols.io https://dx.doi.org/10.17504/protocols.io.h2bb8an Copy
Authors: Hiroko Asahi
Proper citation: Hiroko Asahi 2017. Determination of total glutathione (GSH) and oxidized glutathione (GSSG) levels of RBCs infected with Plasmodium falciparum (Pf RBCs). protocols.io https://dx.doi.org/10.17504/protocols.io.i35cgq6 Copy
Authors: Asar Khan, Sumaira Shams, Saima Khan, Muhammad Iftikhar Khan, Sardar Khan, Abid Ali
Summary: The Modified Ziehl-Neelsen stain (mZN stain) is a type of differential bacteriological stain used to identify acid-fast organisms, mainly Mycobacteria. Acid fast organisms are those which are capable of retaining the primary stain when treated with an acid (fast=holding capacity). Members of the Actinomycetes, genus Nocardia (N. brasiliensis and N. asteroides are opportunistic pathogens) are partially acid-fast. Oocysts of coccidian parasites, such as Cryptosporidium and Isospora, are also acid-fast. Hence they can also be detected and identified through mZN staining procedure.
Proper citation: Asar Khan, Sumaira Shams, Saima Khan, Muhammad Iftikhar Khan, Sardar Khan, Abid Ali 2018. Modified ZN Staining Protocol . protocols.io https://dx.doi.org/10.17504/protocols.io.tb2eiqe Copy
Authors: Mitchell Finger, Michael Lyon, Judy Northill, Ian Mackay
Group: Public Health Virology, Forensic and Scientific Services
Summary: This previously unpublished protocol aims to amplify genotype A measles virus (MeV) strains but not non-mealses viruses.Mitchell Finger and Michael Lyon developed this in-house test in 2010.The assay targets the intergenic region between the M (matrix) and F (fusion) genes, designed as a qualitative test for investigating measles vaccine virus (MVV) strains.Numbering indicates the oligonucleotide location on the sequence with MeV strain Edmonston (Moraten vaccine), complete genome, GenBank accession number AF266287.
Proper citation: Mitchell Finger, Michael Lyon, Judy Northill, Ian Mackay 2018. Measles Vaccine Virus Taqman-MGB. protocols.io https://dx.doi.org/10.17504/protocols.io.suceesw Copy
Authors: Kizhakke Mattada Sathyan, Thomas G. Scott, Michael J. Guertin
Summary: Please refer to the description section of the protocol collection.
Proper citation: Kizhakke Mattada Sathyan, Thomas G. Scott, Michael J. Guertin 2020. Basic Protocol 3: Testing auxin-mediated degradation of the AID-tagged protein. protocols.io https://dx.doi.org/10.17504/protocols.io.bdyfi7tn Copy
Authors: Ralitsa Madsen
Summary: This protocol describes the non-enzymatic splitting of human pluripotent stem cells with ReLeSR (Stem Cell Technologies) and RevitaCell (Thermo Fisher Scientific). This method allows pluripotent stem cells to preserve their undifferentiated state and enhances their survival. Success will hinge upon: Ensuring the right size of colony clumps following ReLeSR treatment, which requires optimal pipetting (speed and number of mixing steps)Sticking to a consistent maintenance schedule (splitting the cells at regular intervals, preferrably at roughly the same time of day)
Proper citation: Ralitsa Madsen 2019. Regular non-enzymatic splitting of human pluripotent stem cells . protocols.io https://dx.doi.org/10.17504/protocols.io.4rtgv6n Copy
Authors: Pringle Lab, Santiago Perez, Olivia Barry
Group: Aiptasia-Symbiodiniaceae Model System
Summary: This protocol seeks to provide all information needed to allow regular spawning of Aiptasia and safe handling of the spawn.It is based on the protocol described in Grawunder et al., 2015.
Proper citation: Pringle Lab, Santiago Perez, Olivia Barry 2018. Aiptasia spawning and embryo/larvae handling - Pringle Lab. protocols.io https://dx.doi.org/10.17504/protocols.io.ru2d6ye Copy
Authors: David Dunigan and Irina Agarkova
Group: VERVE Net
Proper citation: David Dunigan and Irina Agarkova 2016. CviJI Purification From IL-3A Virus Infected NC64A Chlorella. protocols.io https://dx.doi.org/10.17504/protocols.io.er3bd8n Copy
Authors: Wen Aw
Group: Cage Studies
Proper citation: Wen Aw 2018. MtDNA copy number. protocols.io https://dx.doi.org/10.17504/protocols.io.rtdd6i6 Copy
Authors: Germán Alberto Téllez Ramírez, Lily Johanna Toro, Jesica Palacio, Diana Carolina Henao, Jhon Carlos Castaño Osorio
Group: Grupo de inmunología molecular
Summary: Angionesis in vitro: Es la formación In vitro de tubos capilares por células endoteliales en la matriz de una membrana basal, es un metodo in vitro poderoso para evaluar varios factores que promueven o inhiben angiogenesis. Es para definir las rutas de señalización en angiogenesis, identificando los genes reguladores de angiogenesis y caracterizando las células endoteliales del progenitor.El ensayo puede ser hecho como primera valoración antes de una prueba costosa con animales y puede ser hecho como un proceso de alta tecnología. Este es un método in vitro privilegiado para evaluar reguladores angiogenicos.La realizacion de este protocolo fue posible gracias al apoyo del departamento administrativo de ciencia tecnología e innovacion, Colciencias a traves del proyecto 111356933173 convocatoria569-2012.
Proper citation: Germán Alberto Téllez Ramírez, Lily Johanna Toro, Jesica Palacio, Diana Carolina Henao, Jhon Carlos Castaño Osorio 2017. Ensayo angiogénesis in vitro. protocols.io https://dx.doi.org/10.17504/protocols.io.ju3cnyn Copy
Authors: Yan Chen, Jennifer Gin, Christopher Petzold
Group: LBNL-omics
Summary: This protocol details steps in targeted proteomic data acquisition with a standard-flow UHPLC-QQQ system. It was adapted from Chen, Y. et al. “A rapid methods development workflow for high-throughput quantitative proteomic applications.” PloS ONE 14,2 e0211582. 14 Feb. 2019, doi:10.1371/journal.pone.0211582.
Proper citation: Yan Chen, Jennifer Gin, Christopher Petzold 2020. Targeted proteomic LC-MS/MS analysis. protocols.io https://dx.doi.org/10.17504/protocols.io.bf9xjr7n Copy
Authors: Morrisey Lab
Group: LungMap2 Consortium
Proper citation: Morrisey Lab 2021. PCLS Single Cell Suspension. protocols.io https:// Copy
Authors: DAVID DUNIGAN AND IRINA AGARKOVA
Group: VERVE Net
Summary: For use in CviJI Purification From IL-3A Virus Infected NC64A Chlorella.
Proper citation: DAVID DUNIGAN AND IRINA AGARKOVA 2016. CviJI Buffer B, pH 8.5. protocols.io https://dx.doi.org/10.17504/protocols.io.eskbecw Copy
Authors: Brian Kenn Baltzar
Summary: Silver staining of a acrylamide gel.
Proper citation: Brian Kenn Baltzar 2017. Silver staining of SDS-page. protocols.io https://dx.doi.org/10.17504/protocols.io.g8zbzx6 Copy
Authors: Francesca Papi, Angela Piersanti
Group: Protist Research to Optimize Tools in Genetics (PROT-G)
Proper citation: Francesca Papi, Angela Piersanti 2019. RNAi by feeding in Euplotes focardii (povisional). protocols.io https://dx.doi.org/10.17504/protocols.io.zk8f4zw Copy
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