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Authors: Alexandra Ehl, David Frommholz, Nadine Stefanczyk
Summary: Purification Guide for the Isolation of Antibodies with ChroDrip Columns by DALEX Biotech.Easy and quick small scale antibody purification from various sources and species.Each ChroDrip column has a binding capacity of > 15 mg/ml (tested with human polyclonal Ig, binding varies between species and clones).The proprietary resin does not shrink or swell in aqueous buffers.High pressure stability.pH stability short term 2 - 8, long term 3 - 8.Excellent thermal stability up to 15 minutes at 80 °C in aqueous buffers at neutral pH.Can be dried for long term storage (80 °C for > 2 h).

Proper citation: Alexandra Ehl, David Frommholz, Nadine Stefanczyk 2018. ChroDrip - ProteinG. protocols.io https://dx.doi.org/10.17504/protocols.io.uwbexan Copy   

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Authors: Igem Dusseldorf

Proper citation: Igem Dusseldorf 2019. Double Digestion of Insert DNA. protocols.io https://dx.doi.org/10.17504/protocols.io.79ehr3e Copy   

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Authors: Dolors Vaqué, Marta Sebastian
Group: AVW8

Proper citation: Dolors Vaqué, Marta Sebastian 2020. CARD-FISH/VirusFISH PROTOCOL. protocols.io https://dx.doi.org/10.17504/protocols.io.bir6kd9e Copy   

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Authors: Sarker Masud Parvez, Rashidul Azad, Amy J. Pickering, Laura H Kwong, Benjamin F. Arnold, Musarrat Jabeen Rahman, Md. Zahidur Rahman, Mahfuja Alam, Debashis Sen, Sharmin Islam, Mahbubur Rahman, John M. Colford, Jr, Stephen P. Luby, Leanne Unicomb, Ayse Ercumen

Proper citation: Sarker Masud Parvez, Rashidul Azad, Amy J. Pickering, Laura H Kwong, Benjamin F. Arnold, Musarrat Jabeen Rahman, Md. Zahidur Rahman, Mahfuja Alam, Debashis Sen, Sharmin Islam, Mahbubur Rahman, John M. Colford, Jr, Stephen P. Luby, Leanne Unicomb, Ayse Ercumen 2019. Microbiological contamination of young children’s hands in rural Bangladesh: Associations with child age and observed hand cleanliness as proxy. protocols.io https://dx.doi.org/10.17504/protocols.io.2f9gbr6 Copy   

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Authors: lissa coffeey
Group: WordPress Security Protocols

Proper citation: lissa coffeey 2020. Cybersecurity Protocols & Resilience Post COVID - Lessons Learnt. protocols.io https://dx.doi.org/10.17504/protocols.io.bidxka7n Copy   

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Authors: Arnav Moudgil, Robi D. Mitra
Group: Human Cell Atlas Method Development Community, Transposon Calling Cards
Summary: This protocol describes how to create calling card libraries from single cell RNA. We assume you have successfully transformed cells with piggyBac self-reporting transposons and either undirected piggyBac transposase or your favorite transcription factor (YFTF) fused to piggyBac. We also assume you have optimized the dissociation protocol for your specific cells or tissues and can generate single cell suspensions.

Proper citation: Arnav Moudgil, Robi D. Mitra 2019. Single Cell Calling Cards Library Preparation. protocols.io https://dx.doi.org/10.17504/protocols.io.xwifpce Copy   

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Authors: Jacqueline Hogue, Natalie O. Rosen, Amanda Bockaj, Emily A. Impett, Amy Muise
Summary: In this project, we recruited a sample of couples coping with female sexual interest/arousal disorder (FSIAD) to investigate the role of sexual communal strength and unmitigated sexual communion in the sexual well-being and sexual goals of both women with FSIAD and their partners.

Proper citation: Jacqueline Hogue, Natalie O. Rosen, Amanda Bockaj, Emily A. Impett, Amy Muise 2019. Sexual communal motivation in couples coping with low sexual interest/arousal: Associations with sexual well-being and sexual goals. protocols.io https://dx.doi.org/10.17504/protocols.io.zn3f5gn Copy   

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Authors: Amparo Villablanca
Group: Mouse Metabolic Phenotyping Centers
Summary: Increased lipid accumulation in the artery wall and atherosclerotic lesion development are two hallmarks of atherosclerotic cardiovascular disease. Atheroma quantification and characterization assesses neutral lipid accumulation in the vessel wall, percentage of lesions per aortic segment (quantitative) and lesion morphology, complexity, and severity (qualitative).Modified from: Villablanca AC, et.al. J Cardiovasc Transl Res. 2009 Sep;2(3):289-99.

Proper citation: Amparo Villablanca 2019. UC Davis - Atheroma Quantification. protocols.io https://dx.doi.org/10.17504/protocols.io.7bwhipe Copy   

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Authors: Ashley Humphrey
Group: Protist Research to Optimize Tools in Genetics (PROT-G), The Aquatic Microbial Ecology Research Group - AMERG (The Buchan, Zinser and Wilhelm labs)
Summary: Stock vitamin solution for ESAW Media for Marine Phytoplankton

Proper citation: Ashley Humphrey 2016. Vitamin Solution for ESAW Media for Marine Phytoplankton. protocols.io https://dx.doi.org/10.17504/protocols.io.gdcbs2w Copy   

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Authors: J Jobu Babin

Proper citation: J Jobu Babin 2020. When Misreporting the Value of Labor Benefits a Just Cause. protocols.io https://dx.doi.org/10.17504/protocols.io.bfhtjj6n Copy   

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Authors: Gurdon Institute media kitchen
Summary: Prepare 10 litres of M9 solution for collecting and washing C. elegans.

Proper citation: Gurdon Institute media kitchen 2019. Preparing 10 L of M9 buffer for nematode culture. protocols.io https://dx.doi.org/10.17504/protocols.io.3kngkve Copy   

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Authors: Sabrina Rondeau, Pierre Giovenazzo, Valérie Fournier
Summary: In order to investigate the potential of predatory mites to control Varroa infestations in honey bees, it is important to assess the risk of predation of the honey bee brood by the predators under realistic conditions (i.e. within the honey bee colony). Here, we provide a protocol to evaluate this risk of brood predation by the soil-dwelling predatory mite Stratiolaelaps scimitus. .justify:after { content: ""; display:inline-block; width: 100%; } .justify:after { content: ""; display:inline-block; width: 100%; } .justify:after { content: ""; display:inline-block; width: 100%; }

Proper citation: Sabrina Rondeau, Pierre Giovenazzo, Valérie Fournier 2018. In vivo assessment of S. scimitus predation upon bee brood. protocols.io https://dx.doi.org/10.17504/protocols.io.unaevae Copy   

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Authors: Meru J. Sadhu, Joshua S. Bloom, Laura Day, Leonid Kruglyak
Group: Protist Research to Optimize Tools in Genetics (PROT-G)
Summary: Please contact Dr. Steven Wilhelm ([email protected]) for additional information regarding this protocol.

Proper citation: Meru J. Sadhu, Joshua S. Bloom, Laura Day, Leonid Kruglyak 2017. CRISPR-Directed Mitotic Recombination Enables Genetic Mapping Without Crosses. protocols.io https://dx.doi.org/10.17504/protocols.io.hu7b6zn Copy   

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Authors: G Jason Smith, April Woods
Group: Protist Research to Optimize Tools in Genetics (PROT-G), Environmental Biotechnology Lab
Summary: Use for solid phase culture and chemical selection of Pseudo-nitzschia spp and other recalcitrant diatoms

Proper citation: G Jason Smith, April Woods 2016. Low Gel Temperature Agarose (LGTA) Media. protocols.io https://dx.doi.org/10.17504/protocols.io.gmnbu5e Copy   

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Authors: Uri Rosenblum, Lotem Kribus-Shmiel, Gabi Zeilig, Yotam Bahat, Shani Kimel-Naor, Itshak Melzer, Meir Plotnik
Summary: Walking perturbations are a well-established tool to study human performance of balance tasks. We aimed to characterize walking and balance reactions in adults with and without neurological disease. Participants walked on self-paced treadmill while being exposed to unexpected surface displacement Perturbations. these were introduced at different phases of the gait cycle, on both legs and in anterior-posterior or medio-lateral directions, in random order. Two types of perturbations were implemented: (1) medio-lateral platform perturbations were achieved by displacing the moving platform 15 cm, to the left or to the right, over 0.92 seconds. The platform held its new position for 30 seconds and then returned gradually to its original position over 3 seconds; (2) anterior-posterior treadmill belt perturbations were achieved by reducing the speed of one of the treadmill belts by 1.2 m/s with a deceleration of 5 m/s2.Relevant gait phase, gait parameters of step length and width as well as walking speed were detected and calculated from force plate and markers data in the sagittal plane. Force plate data was filtered using a low-pass filter with cutoff frequency of 5Hz and a force threshold of 25N is used; no filters were applied to the marker data.The protocol has two steps: (1) self-pace learning and (2) walking with unexpected surface displacement perturbations.

Proper citation: Uri Rosenblum, Lotem Kribus-Shmiel, Gabi Zeilig, Yotam Bahat, Shani Kimel-Naor, Itshak Melzer, Meir Plotnik 2020. unexpected perturbations while walking in virtual reality environment. protocols.io https://dx.doi.org/10.17504/protocols.io.bdjvi4n6 Copy   

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Authors: Nathan Lee
Group: SPARC

Proper citation: Nathan Lee 2020. Abdominal Emitter Implantation. protocols.io https://dx.doi.org/10.17504/protocols.io.bpzbmp2n Copy   

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Authors: Takahiro Ito, Masayuki Takanuma, Yasumasa Arai
Summary: FKB327 is a biosimilar of the adalimumab reference product (RP). The formulation excipients of the FKB327 differ from those of the citrate-containing formulation of the RP, thus injection-site pain (ISP) at subcutaneous injection were assessed in single-dose studies (FKB327-001 and -004) in healthy subjects and multiple-dose studies (FKB327-002 (NCT02260791) and -003 (NCT02405780) in patients with rheumatoid arthritis. Outline of individual study design can be refered to in appendicies 1 to 4 for FKB327-001, -002, -003, and -004 studies, respectively.In all 4 studies, ISP was assessed using visual analog scale (VAS) with a horizontal scale from 0 to 100 mm (0 to 100 scale in KB327-002 and -003 using ePRO device) with the left end point signifying “no pain” and the right end point signifying “intolerable pain”. In order to evaluate potencial difference in ISP among products, devices of FKB327, or the other subjects’ background factors, this systemic anapysis using pooled data from these studies was planned.

Proper citation: Takahiro Ito, Masayuki Takanuma, Yasumasa Arai 2019. Systemic analysis of injection site pain caused by subcutaneous administration of FKB327 and reference product via different delivery methods. protocols.io https://dx.doi.org/10.17504/protocols.io.3r2gm8e Copy   

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Authors: Hansheng Zhao
Summary: The understanding of genome characteristics for a given new species, i.e., genome size and heterozygosity, facilitates customizing a specific sequencing and assembling strategy. Thus, the genome size was estimated using four independence methods, i.e., a script of KmerSpectrumPlot.pl in ALLPATHS-LG (version r52488), GCE (Genome Characteristics Estimation, released 20150107, ftp://ftp.genomics.org.cn/pub/gce), JELLYFISH (version 2.0) and flow cytometry.

Proper citation: Hansheng Zhao 2018. Genome survey. protocols.io https://dx.doi.org/10.17504/protocols.io.rf3d3qn Copy   

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Authors: Kanae Nishii
Summary: R codes used for phyml tree and profile HMM heatmap visualization, protein domain illustration

Proper citation: Kanae Nishii 2021. R editing of HMMSEARCH output: heatmap with associated with gene tree and protein illustration. protocols.io https://dx.doi.org/10.17504/protocols.io.bkqwkvxe Copy   

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Authors: Renuka Kudva
Summary: This protocol describes the procedure make an S30 derived E.coli cell lysate that lacks membrane components. Modified from a protocol published in https://doi.org/10.1091/mbc.e11-07-0590The procedure takes three days in total, including preparation time.

Proper citation: Renuka Kudva 2019. Preparation of a cell-free expression system from Escherichia coli. protocols.io https://dx.doi.org/10.17504/protocols.io.2xkgfkw Copy   

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