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is Dany's idea to integrate Bi as Biodiscovery-Integrated with BYOK, Bring Your Own Key. The aim is a wider set of practical apps for professional productivity, research, learning, entrepreneurship, and everyday workflows.

d'BiYOK Lab

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Through the new role of its founder, Dany Domínguez Pérez, in Life Sciences &amp; Clinical Business Development for <a href="https://biomol.es/" data-mce-href="https://biomol.es/">BIOMOL SL</a>&nbsp;in Portugal, PagBiOmicS is taking an important step towards connecting scientific consulting with commercial experience to support academic, clinical and Life Sciences organisations. Since August 2026, this role has created a practical bridge between scientific requirements and <a href="https://www.pagbiomics.com/products" data-mce-href="https://www.pagbiomics.com/products">BIOMOL’s multi-brand portfolio</a>, specialised advice, technical service and after-sales support.<h3>From scientific requirements to complete workflows</h3>Research and clinical results rarely depend on a single product. They emerge from connected decisions: sample collection, preparation and extraction; quality control; molecular analysis; sequencing or proteomics; data interpretation; and reliable technical support.The objective is practical: listen to each laboratory, understand the complete workflow and help identify suitable equipment, reagents, consumables and services.<h3>A broad and interconnected portfolio</h3><a href="https://biomol.es/" data-mce-href="https://biomol.es/">BIOMOL</a>&nbsp;is a multi-brand distributor and manufacturer with more than 30 years of experience. Its activity spans molecular and cell biology, diagnostics, NGS, proteins, immunoassays, laboratory instrumentation and other areas of research and clinical practice.The matrix below presents 40 featured brands across eight overlapping solution areas. A brand may appear in several categories because modern technologies frequently support more than one stage of a workflow.<figure id="figure-myp9usaa5smssz4uyu" data-full-width=""><img id="myp9usaa5smssz4uyu" src="https://cdn.durable.co/blocks/17L6FO7ogeEwvHNK1RKFt0ohOJrnZkbVYZ5P7pteEwZUbi32S89sTag30frEV6gt.png" alt="PagBiOmicS and BIOMOL portfolio matrix showing 40 featured brands across diagnostics, OMICs, reagents, equipment, cell biology, antibodies, proteins and screening." title="PagBiOmicS and BIOMOL portfolio matrix showing 40 featured brands across diagnostics, OMICs, reagents, equipment, cell biology, antibodies, proteins and screening." class="object-cover bg-gray-100 rounded-sm md:rounded-md lg:rounded-lg" style="aspect-ratio: 3/2; object-position: center center;" data-corners="default" data-aspect="3:2" data-caption="Forty featured brands across eight overlapping Life Sciences solution areas." data-positionx="undefined" data-positiony="undefined" data-fullwidth="true" data-mce-src="https://cdn.durable.co/blocks/17L6FO7ogeEwvHNK1RKFt0ohOJrnZkbVYZ5P7pteEwZUbi32S89sTag30frEV6gt.png" data-mce-style="aspect-ratio: 3/2; object-position: center center;"><figcaption class="body-normal text-gray-500 mt-2">Forty featured brands across eight overlapping Life Sciences solution areas.</figcaption></figure>The portfolio brings together established multinational and widely recognised laboratory brands, including <a href="https://www.eppendorf.com/" data-mce-href="https://www.eppendorf.com/">Eppendorf</a>, <a href="https://www.thermofisher.com/" data-mce-href="https://www.thermofisher.com/">Thermo Fisher Scientific</a>, <a href="https://www.fishersci.com/" data-mce-href="https://www.fishersci.com/">Fisher Scientific</a>, <a href="https://diagnostics.roche.com/global/en/home.html" data-mce-href="https://diagnostics.roche.com/global/en/home.html">Roche</a>, <a href="https://www.merckgroup.com/" data-mce-href="https://www.merckgroup.com/">Merck</a>&nbsp;and <a href="https://www.beckman.com/" data-mce-href="https://www.beckman.com/">Beckman Coulter</a>.Alongside these established manufacturers, selected emerging technologies, exclusive distribution agreements and proprietary or co-produced solutions add distinctive value across sample preparation, diagnostics and translational workflows.<a href="https://www.covaris.com/" data-mce-href="https://www.covaris.com/">Covaris</a>, for instance, provides a remarkable set of solutions based on Adaptive Focused Acoustics (AFA), enabling controlled and reproducible sample preparation, including DNA and RNA fragmentation, protein extraction and the preparation of challenging FFPE samples for genomic, NGS and proteomic workflows.Another point of differentiation is BIOMOL’s in-house and co-produced activity. The company highlights milestones in its own production and a co-production collaboration with <a href="https://healthincode.com/" data-mce-href="https://healthincode.com/">Health in Code</a>, supporting innovative and customised solutions.Other distinctive solutions come through <a href="https://cellbxhealth.com/" data-mce-href="https://cellbxhealth.com/">CellBxHealth</a>, formerly <a href="https://angleplc.com/" target="_blank" data-mce-href="https://angleplc.com/" rel="noopener">ANGLE. </a>CellBxHealth develops liquid-biopsy solutions based on the Parsortix® platform. Its systems and research-use kits support the enrichment and downstream analysis of circulating tumour cells.<figure id="figure-gc43qh1zvfmssz2b4c" class=""> <iframe id="gc43qh1zvfmssz2b4c" src="https://www.youtube.com/embed/dshph5uBsHs" class="w-full bg-gray-100 rounded-sm md:rounded-md lg:rounded-lg" style="aspect-ratio: 16/9;" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share" referrerpolicy="strict-origin-when-cross-origin" allowfullscreen="" data-url="https://youtu.be/dshph5uBsHs" data-corners="default" data-fullwidth="false" data-mce-src="https://www.youtube.com/embed/dshph5uBsHs" data-mce-style="aspect-ratio: 16/9;"></iframe></figure>

PagBiOmicS × BIOMOL: Life Sciences in Portugal

Artificial intelligence is rapidly becoming part of how we write, research, organize information, apply for jobs, clean data, learn new skills, and build professional workflows. But as these tools become more powerful, another question becomes increasingly important: how can we use AI in a way that is practical, transparent, and more respectful of user control?This is where d’BiYOK Lab begins.d’BiYOK Lab is a parallel project space within PagBiOmicS, created to explore practical AI-assisted tools beyond the strictly bioinformatics and omics context. While PagBiOmicS remains connected to biodiscovery, scientific training, omics, and applied research, d’BiYOK Lab expands that mindset toward broader productivity applications.<figure id="figure-adal0p637ymrcbptl6" data-full-width=""><img id="adal0p637ymrcbptl6" src="https://cdn.durable.co/blocks/19Z1vNWHsWDLr5kdTz3yM2J5K8Eybc12oxSfLLCdBCzgaXbVilBSKzrOyoJM7GSu.png" alt="" title="" class="object-cover bg-gray-100 " style="aspect-ratio: 16/9; object-position: 10% 60%;" data-corners="no-rounded" data-aspect="16:9" data-caption="" data-positionx="10%" data-positiony="60%" data-fullwidth="true" data-mce-src="https://cdn.durable.co/blocks/19Z1vNWHsWDLr5kdTz3yM2J5K8Eybc12oxSfLLCdBCzgaXbVilBSKzrOyoJM7GSu.png" data-mce-style="aspect-ratio: 16/9; object-position: 10% 60%;"></figure>The idea is simple: build focused tools that help people work better with AI, while making the process easier to understand.What d’BiYOK MeansThe name d’BiYOK combines two ideas.Bi reflects a Biodiscovery-Integrated perspective: the PagBiOmicS habit of connecting science, data, workflows, and applied problem-solving.BYOK means Bring Your Own Key. In this context, it refers to applications where users can connect their own AI provider API key, such as Gemini, OpenAI, Claude, DeepSeek, GLM, Ollama, or other compatible systems.Together, d’BiYOK Lab represents a space for AI-assisted applications that are practical, transparent, educational, and user-oriented.<h3>Why Create a Parallel Space?</h3>PagBiOmicS started from a scientific and bioinformatics-oriented foundation. But many of the same principles that make scientific workflows useful also apply to broader productivity:<ul><li>structure messy information,</li><li>make outputs editable,</li><li>keep workflows reproducible,</li><li>help users understand what the tool is doing,</li><li>reduce unnecessary dependence on opaque platforms,</li><li>and treat AI as an assistant, not as a black box.</li></ul>d’BiYOK Lab allows PagBiOmicS to explore these ideas in a wider setting.The goal is not only to build tools for researchers. The goal is to support professionals, students, entrepreneurs, educators, job seekers, and everyday users who want practical AI workflows without losing control of their documents, keys, or process.<h3>A Practical Educational Layer</h3>d’BiYOK Lab is not only about releasing tools. It is also about helping users understand AI infrastructure in simple terms.Many people use AI daily without knowing what an API key is, where their data goes, what a model provider can see, or why local execution may be better for some workflows.Each d’BiYOK app should therefore help answer practical questions:<ul><li>What is being sent to the AI model?</li><li>Which provider is being used?</li><li>Where are files stored?</li><li>Can I use my own API key?</li><li>Can I run part of the workflow locally?</li><li>How can I export and keep control of my outputs?</li><li>How should I handle browser-entered API keys safely?</li></ul>This educational layer is part of the project.<h3>Beyond Research: Wider Productivity Applications</h3>Although the project grows naturally from PagBiOmicS, d’BiYOK Lab is not limited to bioinformatics or academic research.The same approach can support many types of practical tools:<ul><li>literature and document assistants,</li><li>data cleaning utilities,</li><li>job application workflows,</li><li>business planning helpers,</li><li>learning and training apps,</li><li>writing and editing tools,</li><li>local knowledge-base assistants,</li><li>small automation tools for professionals and citizens</li></ul><h3>Closing Perspective</h3>d’BiYOK Lab is a parallel PagBiOmicS space for exploring practical AI-assisted productivity tools.It is experimental, but intentional !!!

d’BiYOK Lab: A Parallel PagBiOmicS Space for Practical AI-Assisted Productivity Tools

<h3>✨ Conus Snails and Conotoxins</h3>Marine gastropods, commonly known as cone snails (Conus genus), produce a sophisticated mixture of venomous peptides called conopeptides. These peptides are remarkable for their potent and highly specific action on ion channels, receptors, and transporters within the nervous system. This specificity positions conopeptides as valuable resources for physiological studies of neuroreceptors and promising leads for drug development. The structural diversity of conotoxins, coupled with the rapid evolution of their gene superfamilies, enhances their significance in evolutionary biology.<figure id="figure-1zjq973gambs3beg7"><img id="1zjq973gambs3beg7" src="https://cdn.durable.co/blocks/38LafBxNFgkWtE5vXLIXiQgElKmq0AnF29LeBIlLyOHJMrKD0XIlS6uxjg6Upsls.png" alt="Shell Collection" title="Shell Collection" class="object-cover bg-gray-100 rounded-sm md:rounded-md lg:rounded-lg" style="aspect-ratio: 3/2; object-position: 45% 35%;" data-corners="default" data-aspect="3:2" data-caption="" data-positionx="45%" data-positiony="35%" data-fullwidth="false" data-mce-src="https://cdn.durable.co/blocks/38LafBxNFgkWtE5vXLIXiQgElKmq0AnF29LeBIlLyOHJMrKD0XIlS6uxjg6Upsls.png" data-mce-style="aspect-ratio: 3/2; object-position: 45% 35%;"></figure>With over 700 Conus species worldwide, each potentially producing up to 200 distinct peptides, the number of conopeptides discovered to date is in the thousands. Many more remain to be characterized. This diversity supports research into the co-evolution of venom repertoires and their molecular targets. Additionally, conopeptides are commonly used in neurophysiology to probe receptor isoforms, leveraging the evolutionary conservation of ion channels and receptors.Conopeptides are classified into two broad categories:<ul><li>Disulfide-rich conotoxins (two or more disulfide bonds)</li><li>Disulfide-poor peptides (one or no disulfide bond)</li></ul>These peptides are typically 10–40 amino acids long. Within ConoServer, classification relies on three schemes:<ul><li>Pharmacological families (based on target specificity)</li><li>Gene superfamilies (signal peptide sequence similarity)</li><li>Cysteine frameworks (bonding pattern in the mature region)</li></ul>🎯 Pharmacological Targets: Diversity and SignificanceConotoxins are notable for their high specificity and potency in modulating both voltage-gated and ligand-gated ion channels in neurological and muscular systems.Examples of pharmacological families:<ul><li>μ-, μO-, and δ-conotoxins: Target voltage-gated Na⁺ channels by various mechanisms.</li><li>ω-conotoxins: Block voltage-gated Ca²⁺ channels. ω-Conotoxin MVIIA is the active component in Prialt (ziconotide), a non-opioid drug for chronic pain.</li><li>κ- and κM-conotoxins: Target K⁺ channels.</li><li>α-conotoxins: Antagonists of nicotinic acetylcholine receptors (nAChRs).</li><li>χ-conotoxins: Block the neuronal noradrenaline transporter.</li><li>ρ-conotoxins: Act on α1-adrenoceptors.</li><li>σ-conotoxins: Target serotonin-gated 5-HT3 ion channels.</li><li>ι-conotoxins: Modulate Na⁺ channels without delayed inactivation.</li><li>γ-conotoxins: Affect neuronal pacemaker cation currents.</li><li>τ-conotoxins: Interact with somatostatin receptors.</li></ul><figure id="figure-s7jam3o8jlmbtdbw5m"><img id="s7jam3o8jlmbtdbw5m" src="https://cdn.durable.co/blocks/21o3wGH5E1Xqq500a3rwbl4NFcCYTccQx2XdEgUcQ36O1tHOc27DOa8QfonKyIyP.png" alt="" title="" class="object-cover bg-gray-100 rounded-2xl md:rounded-3xl lg:rounded-4xl" style="aspect-ratio: 3/2; object-position: undefined undefined;" data-corners="large" data-aspect="3:2" data-caption="" data-positionX="undefined" data-positionY="undefined" data-fullWidth="false"/></figure><a data-mce-href="https://www.conoserver.org/index.php" href="https://www.conoserver.org/index.php">ConoServer</a> is a curated database of conopeptide sequences and structures, maintained by the Institute for Molecular Bioscience (IMB), Australia. Created in 2007, it is maintained by researchers including David Craik, Jan-Christoph Westermann and Quentin Kaas (Kaas et al., 2008; 2012).Data sources include peer-reviewed publications and databases like UniProtKB, NCBI Nucleotide, and PDB. Manual curation ensures:<ul><li>Sequence analysis and annotation</li><li>Identification of gene superfamilies and cysteine frameworks</li><li>Mapping of mature peptides</li><li>Recording of post-translational modifications</li></ul><figure id="figure-pjva81yhigmbtdkvsj"><img id="pjva81yhigmbtdkvsj" src="https://cdn.durable.co/blocks/5w18kSjGd4QSMtIphLVf0mKa0PsysyWGTCqhT2IggGAgNxTxvpW55p4D24gIf2RI.png" alt="" title="" class="object-cover bg-gray-100 rounded-sm md:rounded-md lg:rounded-lg" style="aspect-ratio: 3/2; object-position: center center;" data-corners="small" data-aspect="3:2" data-caption="" data-positionx="undefined" data-positiony="undefined" data-fullwidth="false" data-mce-src="https://cdn.durable.co/blocks/5w18kSjGd4QSMtIphLVf0mKa0PsysyWGTCqhT2IggGAgNxTxvpW55p4D24gIf2RI.png" data-mce-style="aspect-ratio: 3/2; object-position: center center;"></figure>Key Features:<ul><li>Multi-criteria search: Based on taxonomy, classification, geography, and sequence.</li><li>Detailed entry cards: Cover protein, nucleotide, and structural data.</li><li>Statistical reports: Automatically updated data on species, structures, classifications, and citations.</li><li>Precursor sequence tools: ORF prediction, region detection, homolog search.</li><li>Mass spectrometry tools: PTM prediction and mass list analysis.</li></ul>🔍 Identified Inconsistencies and Data Issues in ConoServerDespite the comprehensive resources provided by ConoServer, practical limitations in data handling and interoperability can emerge during routine research workflows. These challenges often hinder the seamless transition from raw database information to advanced analysis.Specific Challenges Encountered:1. &nbsp; &nbsp; Inconsistent FASTA Data Handling: Retrieving sequences from ConoServer often presents difficulties with FASTA formatting. Direct copying and pasting of sequences and headers into text files or other tools can introduce "unknown characters" or misinterpret the critical &gt; symbol, essential for FASTA header recognition. This issue complicates the process of obtaining clean, bulk FASTA files ready for downstream computational analysis.2. &nbsp; &nbsp; Workflow Bottleneck with Downstream Prediction Tools: A significant challenge involved using ConoServer-derived sequence data with external bioinformatics tools, such as ConoPrec, for predicting mature peptides. Even with meticulously cleaned FASTA files, these prediction tools frequently failed to process multi-sequence inputs, often only recognizing and analyzing the first sequence in a given file. Besides, there is no option to save the resulting mature peptides in a FASTA file, so this limitation necessitates time-consuming, manual, one-by-one processing for large datasets, or additional scripting skills to populate the sequences from the tabular format.<h3>💡 ConoServerParser: Complementary Conotoxin FASTA Analysis Suite for ConoServer DATA</h3>Although ConoServer is comprehensive, limitations remain when preparing data for downstream workflows. <a data-mce-href="https://danysaurio.shinyapps.io/ConoServerParser/" href="https://danysaurio.shinyapps.io/ConoServerParser/">ConoServerParser</a>, a Shiny application, was developed to enhance the analyses of the data exported from ConoServer. Despite the comprehensive resources provided by ConoServer, practical limitations in data handling and interoperability can emerge during routine research workflows. These challenges often hinder the seamless transition from raw database information to advanced analysis.<figure id="figure-3mmuzcip85mbtckzr8"><img id="3mmuzcip85mbtckzr8" src="https://cdn.durable.co/blocks/12QXVy2aKUZoTYHDhPDjmZKnWQPoILHr8X5sCrTLjOL0WEVtJLzoRqGsMEBxjBcT.png" alt="" title="" class="object-cover bg-gray-100 rounded-2xl md:rounded-3xl lg:rounded-4xl" style="aspect-ratio: 1/1; object-position: undefined undefined;" data-corners="large" data-aspect="1:1" data-caption="" data-positionx="undefined" data-positiony="undefined" data-fullwidth="false" data-mce-src="https://cdn.durable.co/blocks/12QXVy2aKUZoTYHDhPDjmZKnWQPoILHr8X5sCrTLjOL0WEVtJLzoRqGsMEBxjBcT.png" data-mce-style="aspect-ratio: 1/1; object-position: undefined undefined;"></figure>Common Challenges Resolved:FASTA formatting issues: Pasting sequences may introduce encoding errors (e.g., broken headers). Complex filtering: Lack of intuitive filtering tools and insufficient metadata in exported headers. Batch tool compatibility: Tools like ConoPrec often fail to process multiple sequences at once.<h3>ConoServerParser Features:</h3><figure id="figure-herdlpsbmbtf7t18"><iframe id="herdlpsbmbtf7t18" src="https://www.youtube.com/embed/ZgRrB305xRg" class="w-full bg-gray-100 rounded-sm md:rounded-md lg:rounded-lg" style="aspect-ratio: 16/9;" allowfullscreen="" data-url="https://youtu.be/ZgRrB305xRg" data-corners="default" data-fullwidth="false" data-mce-src="https://www.youtube.com/embed/ZgRrB305xRg" data-mce-style="aspect-ratio: 16/9;"></iframe></figure>• FASTA parsing and intelligent metadata extraction: Reliably interprets ConoServer’s pipe-delimited headers, automatically parsing fields like ConoID, species, gene superfamily, pharmacological family, cysteine framework, and evidence level into a clean tabular format. • FASTA export customization: Offers configurable FASTA header generation with user-selected fields and custom delimiters, supporting fine-tuned downstream integration. • Multi-format data export: Export sequence metadata tables as CSV, TSV, or XLSX; or generate downloadable ZIP archives grouped by metadata (e.g., superfamily or pharmacological family). • Mature peptide FASTA generation: Automatically extract and format mature sequences from ConoPrec CSV output, eliminating ConoPrec’s multi-sequence limitations. • Advanced filtering and interactive interface: Select, filter, and exclude entries across multiple fields using an intuitive sidebar with dropdowns and search tools. • Dynamic visual summaries: Create interactive bar plots to compare sequence distributions across superfamilies, pharmacological families, or evidence types. • Header preview and export configuration: Preview how final FASTA headers will look, control included metadata, and avoid oversized headers or unnecessary fields. • Custom FASTA export: Filtered or grouped downloads with customizable headers. • ZIP archive generation: Organize exports by superfamily or pharmacological category. • Mature peptide FASTA generation: Upload CSV output from ConoPrec to obtain well-formatted mature sequences. • Interactive filtering: Flexible filter UI for any column. • Data visualization: Generate plotly bar charts of sequence distributions. • Multi-format exports: Download tables in TSV, CSV, XLSX. 🧾 SummaryConoServer offers an invaluable foundation for conopeptide research. ConoServerParser extends this utility, addressing real-world bottlenecks in data handling and exploration. Together, these tools enhance the efficiency and reproducibility of workflows in pharmacology, evolutionary biology, and peptide synthesis.📚 ReferencesKaas Q, Yu R, Jin AH, Dutertre S, Craik DJ. (2012). ConoServer: updated content, knowledge, and discovery tools in the conopeptide database. Nucleic Acids Research, 40(Database issue): D325–D330. Kaas Q, Westermann JC, Halai R, Wang CK, Craik DJ. (2008). ConoServer, a database for conopeptide sequences and structures. Bioinformatics, 24(3): 445–446. ConoServer. Accessed May 20, 2025. https://www.conoserver.org/ Intrathecal Pain Management. (2023). In Pain Management: Anesthesia, Analgesia, and Opioid Alternatives. &nbsp;

🧪 ConoServerParser: A Flexible Shiny Application for Filtering, Exploring, and Exporting Conotoxin Sequences from ConoServer

PagBiOmicS

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d'BiYOK Lab

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PagBiOmicS × BIOMOL: Life Sciences in Portugal

d’BiYOK Lab: A Parallel PagBiOmicS Space for Practical AI...

🧪 ConoServerParser: A Flexible Shiny Application for Fil...