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This definitive collection of prompts for biotechnologists represents the cutting edge in artificial intelligence tools applied to the life sciences. Designed by experts in content strategy and instructional design, each prompt has been optimized to streamline workflow in laboratories, research centers and bioproduction plants, ensuring exceptional technical precision in writing critical documentation and analyzing complex data. By integrating this repository into their professional practice, biotechnologists will be able to automate repetitive scientific writing tasks, optimize experimental design, and ensure rigorous compliance with international regulations. It is the indispensable resource for professionals seeking to maximize their productivity, reduce human errors and lead technological innovation in a highly competitive global environment.
He acts as an expert consultant in bioprocesses and highly complex cell cultures. Your task is to generate a technical optimization protocol for [Thaw of adherent cells] specifically for the cell type [Insert cell type or line, ex: Mesenchymal Stem Cells, Vero, HeLa]. The protocol must be designed to maximize the viability recovery rate and minimize the oxidative stress caused by the thermal transition process, ensuring that the cells regain their proliferation capacity in the shortest possible time. It begins by detailing the logistics of preparing the sterile environment and the necessary reagents, specifying the ideal composition of the recovery medium [Insert base medium and % FBS/serum] and the critical importance of pre-equilibration of pH and temperature in the CO2 incubator before starting the procedure. Explains in a technical and justified manner the rapid defrosting procedure in a water bath at 37°C, highlighting why speed is a determining factor to avoid the recrystallization of water and mitigate the inherent toxicity of the [Cryoprotectant used, e.g. DMSO] when reaching temperatures above 4°C. Provides meticulous instructions for the post-thaw gradual dilution phase. It uses a slow transfer approach to reduce osmotic shock at the plasma membrane, detailing the exact volume of medium to add for each milliliter of cell suspension recovered. It includes a technical comparison on the convenience of performing immediate centrifugation (specifying RCF and time) versus the direct seeding method for the removal of the cryoprotectant, evaluating the risks of mechanical damage versus those of chemical toxicity according to the known fragility of the cells [Insert cell type]. Establishes the success criteria for initial seeding on treated surfaces for tissue culture, considering whether the use of extracellular matrices or specific coatings is required [Specify coating if applicable, e.g.: Collagen, Fibronectin, Matrigel]. Defines the optimal seeding density ([X] cells/cm2) to promote the paracrine signaling necessary to overcome the lag phase. Finally, it generates a monitoring table for the critical phases (4h, 12h and 24h post-sowing) that includes adherence indicators, expected morphology and immediate action protocols in case a mortality rate greater than [X]% or a large amount of floating cellular debris is observed. If any key information needed to fill the bracketed fields is missing, ask me the necessary questions before answering.
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He acts as a senior expert in structural bioinformatics and computational drug design. Your objective is to design, execute and analyze a complete molecular docking protocol to investigate the binding affinity and mode of interaction between the biological receptor [NOMBRE_DE_LA_PROTEINA/ID_PDB] and a series of candidate compounds called [NOMBRE_O_FAMILIA_DE_LIGANDOS]. This analysis is critical for the drug discovery (hit-to-lead) phase and requires rigorous technical precision in the preparation of molecular systems. It begins with the receptor preparation phase: it describes the process of removing non-essential water molecules, adding hydrogen atoms considering specific protonation states at a pH of [VALOR_PH], and assigning partial charges using standard force fields such as AMBER or CHARMM. Precisely identifies the active site coordinates (center x, y, z) and grid box dimensions spanning the key residues [LISTADO_DE_RESIDUOS_CLAVE], ensuring that the search space is broad enough to allow conformational flexibility of the ligand but restricted enough to optimize computational time. For the preparation of the ligands, it generates the optimized 3D structures from SMILES or SDF formats. Performs energy minimization using the gradient descent method and defines rotatable links to enable flexible docking. Especifica el uso de algoritmos de búsqueda estocásticos o genéticos (como los implementados en AutoDock Vina o GOLD) y define la función de puntuación (scoring function) más adecuada para este sistema biológico, justificando si se priorizarán las interacciones electrostáticas, las fuerzas de Van der Waals o el efecto hidrofóbico. Finally, ask for a detailed breakdown of the results after the simulation. The report should include the free energy of binding (ΔG) expressed in kcal/mol, the estimated inhibition constant (Ki), and a comprehensive analysis of the ligand-protein interaction maps. Special attention should be paid to the formation of hydrogen bonds, pi-stacking interactions, and hydrophobic contacts with the catalytic pocket residues. It provides a comparison of the best 'poses' obtained against a reference or co-crystallized ligand to validate the reliability of the model by calculating the RMSD (Root Mean Square Deviation). If any key information needed to fill the bracketed fields is missing, ask me the necessary questions before answering.
Acts as a Senior Specialist in Bioprocesses and Protein Purification (Downstream Processing). Your objective is to design a standardized, exhaustive and optimized laboratory protocol for the purification of the recombinant protein [Protein Name] expressed in the system [Expression System, e.g. E. coli BL21(DE3)]. The workflow must cover from cell culture harvest to final formulation, ensuring maximum purity and biological stability of the target molecule. For the Lysis and Clarification stage, it describes in detail the cell disruption method (e.g. sonication, French press or chemical lysis) integrating the use of specific protease inhibitors and reducing agents such as [DTT or BME] depending on the sensitivity of the protein. It includes the centrifugation parameters (RCF, time and temperature) necessary to obtain a crude extract that is completely clarified and free of cellular debris, addressing the management of inclusion bodies in case the protein is insoluble. In the Capture phase, it develops an Affinity Chromatography (AC) procedure based on the tag [Tag Type, e.g. His-tag, GST, MBP, Strep-tag]. It details the exact composition of the equilibrium, washing and elution buffers, specifying salt concentrations, critical pH and eluting agents such as [Imidazole or Glutathione]. It includes a rigorous washing strategy to remove non-specific contaminants and host proteins (HCPs) before final elution. For Intermediate Purification and Polishing, it proposes the coordinated use of Ion Exchange Chromatography (IEX) or Molecular Exclusion Chromatography (SEC) depending on the isoelectric point (pI) and the molecular weight of the protein. The main objective is to eliminate protein aggregates, truncated variants, residual nucleic acids and endotoxins. Define the technical criteria for the selection of fractions based on the monitoring of absorbance at A280 nm and conductivity profiles. Finally, establish a post-purification Quality Control plan that includes precise quantification by [Quantitation method, e.g. Bradford, BCA or Nanodrop], assessment of purity by SDS-PAGE (Coomassie or silver stain), and verification of structural integrity by [Analytical technique, e.g. Western Blot, Mass Spectrometry or DLS]. Provides a Troubleshooting section to mitigate common risks such as protein precipitation in dialysate or proteolytic degradation during storage. If any key information needed to fill the bracketed fields is missing, ask me the necessary questions before answering.
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