Examples of protocols on protocols.io from different disciplines
protocols.io team
Abstract
We warmly welcome all research methods. While the origin of the platform was more biology/wetlab, we expanded to support all fields when we partnered with PLOS ONE in 2017.
There is now a diverse spectrum of research methods that are shared on protocols.io, including molecular biology, computational, human, medical, psychology, geosciences, political science, and other. We also have many guidelines, best practices, and teaching documents on protocols.io - all of these are appropriate.
Below you will find some examples from different disciplines. Please note that this is just a subset from over 12,000 public protocols on the platform.
Steps
Molecular Biology
www.protocols.io/view/micropatterning-em-grids-for-cryo-electron-tomogra-bz22p8ge* www.protocols.io/view/engineering-brain-assembloids-to-interrogate-human-bznap5ae
- www.protocols.io/view/high-quality-dna-from-fungi-for-long-read-sequenci-j8nlkky6l5r7/v11
- www.protocols.io/view/mcscrb-seq-protocol-p9kdr4w
- www.protocols.io/view/monkeypox-virus-multiplexed-pcr-amplicon-sequencin-5qpvob1nbl4o/v2
- www.protocols.io/view/human-liver-caudate-lobe-dissociation-for-scrna-se-q26g77j1gwz1/v2
Medical/trials
Archeology
https://www.protocols.io/view/stone-tools-illustrations-with-vector-art-the-39-s-4r3l248j3g1y/v2* https://www.protocols.io/view/styrostone-a-protocol-for-scanning-and-extracting-4r3l24d9qg1y/v2
- https://www.protocols.io/view/small-object-and-artefact-photography-39-soap-39-p-5jyl85kxdl2w/v3
- https://www.protocols.io/view/high-resolution-34-diy-34-photogrammetry-39-hrp-39-q26g787n1lwz/v2?step=38
- https://www.protocols.io/view/an-archaeological-experiment-focused-on-the-intuit-be7fjhjn
- https://www.protocols.io/view/tracing-long-term-demographic-changes-the-issue-of-vpve5n6/abstract
- https://www.protocols.io/view/dental-calculus-field-sampling-protocol-sabin-vers-7vrhn56
Computational/software/data-related workflows
https://www.protocols.io/view/assembly-procedure-applied-to-tara-oceans-data-ex-hfqb3mw* https://www.protocols.io/view/processing-single-cell-calling-card-sequencing-dat-4phgvj6
- https://www.protocols.io/view/protocol-for-a-reproducible-circrna-analysis-using-9vmh646
- https://www.protocols.io/view/mathematical-models-for-understanding-the-genetic-bmbvk2n6
- https://www.protocols.io/view/creating-tensor-maps-8jyhupw
- https://www.protocols.io/view/phenotyping-3d-coral-models-in-meshlab-bgbpjsmn
- https://www.protocols.io/view/assessing-sequence-quality-in-galaxytrakr-bdvfi63n (part of FDA’s GenomeTrakr group)
- https://www.protocols.io/view/gas-chromatochraphic-detection-of-sesquiterpenoids-kj2cuqe
- https://www.protocols.io/view/molecular-docking-an-easy-protocol-m2dc8a6
- https://www.protocols.io/view/applying-vcontact-to-viral-sequences-and-visualizi-x5xfq7n
Ecology
Psychology
Animal behavior
https://www.protocols.io/view/active-avoidance-protocol-01282020-bbu6inze* https://www.protocols.io/view/insulin-tolerance-test-in-mouse-wxjffkn
- https://www.protocols.io/view/pelvic-nerve-implantation-testing-and-processing-i-bgrmjv46 (collection)
- https://www.protocols.io/view/elevated-plus-maze-bh3ej8je
- https://www.protocols.io/view/open-field-test-bigfkbtn
- https://www.protocols.io/view/hot-water-tail-immersion-test-bhxbj7in
- https://www.protocols.io/view/octopus-social-tolerance-experiment-w9nfh5e
- https://www.protocols.io/view/Preparing-flies-for-Buridan-s-Paradigm-c7vzn5
Genomic/sequencing
https://www.protocols.io/view/mcscrb-seq-protocol-p9kdr4w* https://www.protocols.io/view/viral-to-metazoan-marine-plankton-nucleotide-seque-qv6dw9e (TARA Oceans collection)
- https://www.protocols.io/view/select-load-annotate-normalize-and-process-toxicog-s24eggw
- https://www.protocols.io/view/the-pipeline-of-assembly-and-annotation-hrpb55n (part of a collection)
- https://www.protocols.io/view/sars-cov-2-genomic-variation-african-perspective-bmpfk5jn
- https://www.protocols.io/view/de-novo-transcriptome-assembly-workflow-ghebt3e
Device/instrumentation/experiment setup
www.protocols.io/view/assembly-instructions-for-colosseum-261ge422dv47/v2* www.protocols.io/view/functional-calibration-for-trunk-and-lower-limb-fi-itrcem6
- www.protocols.io/view/method-for-bench-testing-speculum-and-or-speculum-hrhb536
- https://www.protocols.io/view/optoplate-calibration-protocol-bivmke46 (optogenetics)
- https://www.protocols.io/view/light-dark-preference-test-for-adult-zebrafish-dan-srfed3n (with diagrams and video; also behavior)
- https://www.protocols.io/view/headbar-implantation-bcrsiv6e
- https://www.protocols.io/view/assembling-led-controller-electronics-bdiai4ae (very detailed diagrams; part of this collection)
- https://www.protocols.io/view/radius-of-curvature-measurements-to-determine-best-9nmh5c6
- https://www.protocols.io/view/eit-data-aquisition-in-rat-sciatic-nerve-using-sti-ww7ffhn (rat nerve imaging)
- https://www.protocols.io/view/building-up-chemostats-for-experimental-eco-evolut-tkxekxn
- https://www.protocols.io/view/high-throughput-pipette-tip-hydroponics-for-collec-bazeif3e
- https://www.protocols.io/view/intravenous-jugular-catheterization-for-rats-bhzij74e
- https://www.protocols.io/view/marchantia-high-throughput-imaging-in-multiwell-pl-bcmsiu6e
- https://www.protocols.io/view/3-pre-imaging-setup-for-high-resolution-afm-in-flu-bncnmave
- https://www.protocols.io/view/spatial-metabolomics-of-in-situ-host-microbe-inter-6jchciw
- https://www.protocols.io/view/flavonoid-profiling-by-liquid-chromatography-coupl-zggf3tw
- https://www.protocols.io/view/arms-partb-assembly-p69drh6
- https://www.protocols.io/view/laboratory-calibration-of-soil-moisture-sensors-in-swnefde
- https://www.protocols.io/view/simultaneous-sentek-and-ml3-calibration-jm5ck86
- https://www.protocols.io/view/optogenetically-stimulating-enteric-neurons-in-the-bgr9jv96 (optogenetics)
Reviews and meta-analysis
Chemistry
https://www.protocols.io/view/consistency-in-identity-related-sequential-decisio-3byl4kp9jvo5/v2* https://www.protocols.io/view/bubble-strip-aqueous-gas-sampling-dm6gp8mdjlzp/v4
- https://www.protocols.io/view/ligand-docking-using-patchdock-for-biochemistry-i-eq2ly393qgx9/v1
- https://www.protocols.io/view/standard-operating-procedure-sop-for-the-analysis-6qpvre78olmk/v1
- https://www.protocols.io/view/synthesis-of-fluorinated-neonicotinoids-81wgbp61yvpk/v1
- https://www.protocols.io/view/bisabolol-gc-sample-preparation-5qpvonpk7l4o/v1
