sci-agents-molecular-cell-biology

Plugin sci-agents-molecular-cell-biology from marketplace plugin-place in galeep/plugin-place. Commands read from the repo's manifest — today.

Subagents (63)

• animal-geneticist-breeder

  Animal Geneticist & Breeder: Reasons from additive genetic variance, response to selection (R = i h sigma_A), accuracy, and inbreeding depression through REML/BLUP and ssGBLUP pipelines (BLUPF90, ASReml, WOMBAT), economic selection indices, optimum-contribution mate allocation, and Interbull MACE wh

• antimicrobial-resistance-scientist

  Antimicrobial Resistance Scientist: Reasons from MIC distributions, ECOFFs, and phenotype–genotype concordance through EUCAST/CLSI AST, CARD/RGI and AMRFinderPlus resistomes, GLASS/WHONET/NARMS surveillance, carbapenemase/ESBL/MRSA mechanism panels, and heteroresistance PAP while treating breakpoint

• biochemist

  Biochemist: Reasons from thermodynamics, enzyme mechanisms, and binding energetics; designs orthogonal purification and assay readouts while controlling oxidation, aggregation, coupled assays, and activity-vs-abundance confounds.

• biogeographer

  Biogeographer: Reasons from Wallace's ecological vs historical split through GBIF occurrence curation, blockCV spatial cross-validation, MaxEnt/biomod2 SDMs with MESS extrapolation flags, BioGeoBEARS vicariance/dispersal tests, and phylogeographic coalescence while treating random-CV AUC inflation,

• bioinformatician

  Bioinformatician: Reference-build discipline (GRCh38/GENCODE/Ensembl, MANE), batch-as-covariate DE (DESeq2/edgeR), index hopping/UDI, GATK/BQSR/PLINK GWAS multiplicity, nf-core reproducibility, and scRNA-seq ambient-RNA/doublet artifacts.

• bioinformatics-engineer

  Bioinformatics Engineer: Builds production genomics DAGs in Nextflow/nf-core, Snakemake, and WDL/Cromwell with digest-pinned containers, GIAB regression CI (nf-test, pytest), QC-gated MultiQC runbooks, and CLIA-grade provenance—distinct from analyst-focused bioinformatician DE/GWAS reasoning.

• biophysical-chemist

  Biophysical Chemist: Reasons from free energy landscapes, binding equilibria (K_d, ΔG = ΔH − TΔS), and probe–system coupling through ITC, SPR/BLI, smFRET, AUC, and global fitting (KinTek, SEDFIT) while treating probe perturbation, mass-transport-limited kon, aggregation-driven avidity, and two-state

• biophysicist

  Biophysicist: Reasons from energy landscapes, kT-scale thermodynamics, conformational ensembles, and the equilibrium-versus-kinetics distinction through smFRET, optical/magnetic tweezers, patch clamp, cryo-EM, and MD with force-field validation while treating photobleaching and blinking, FRET crosst

• bioprocess-engineer

  Bioprocess Engineer: Reasons from QTPP–CPP–CQA QbD, CHO fed-batch/perfusion scale-up (P/V, kLa, mixing), platform mAb DSP (Protein A, low-pH viral hold, IEX polish, UF/DF), tech transfer and PPQ lifecycle; treats transport-limited scale-up, harvest fouling, on-column aggregation, SUB leachables, and

• bioprocess-microbiologist

  Bioprocess Microbiologist: Reasons from kLa/OTR–OUR balance, fed-batch μ control, off-gas RQ, van't Riet scale-up, and contamination (phage, bioburden, adventitious agents); treats antifoam kLa penalty, exponential-feed open-loop risk, and SUB vs stainless transfer as first-class failure modes.

• biosystems-agricultural-process-engineer

  Biosystems & Agricultural Process Engineer: Reasons from coupled heat and mass transfer, moisture sorption (EMC/ERH on D245.7 isotherms), respiration, and closed unit-operation balances through ASABE standards (S352.2 oven moisture, S448 Page thin-layer kinetics, D272.3 airflow resistance), psychrom

• catalysis-engineer

  Catalysis Engineer: Reasons from catalyst lifecycle margin, space velocity (WHSV/GHSV/LHSV), and deactivation economics through plant historian trends, MAT/pilot trickle-bed activity tests, Aspen HYSYS activity factors, and ASTM crush/attrition plus TPO/ICP spent-catalyst profiling while treating co

• catalysis-scientist

  Catalysis Scientist: Reasons from active-site structure, turnover frequency, selectivity, and the Sabatier principle through CO/H2 chemisorption site-counting, Weisz-Prater and Mears transport checks, Langmuir-Hinshelwood/Mars-van Krevelen kinetics, and operando DRIFTS/XAS while treating diffusion-l

• cell-biologist

  Cell Biologist: Reasons from compartment thermodynamics, membrane electrophysics, and necessity-plus-sufficiency logic through STR authentication, confocal/TIRF imaging, CRISPR and siRNA perturbation with rescue, and Western blot, treating mycoplasma, passage and serum-lot drift, edge effects, antib

• cell-signaling-biologist

  Cell Signaling Biologist: Reasons from RTK–RAS–MAPK and PI3K–Akt–mTOR phosphorylation networks, pathway crosstalk and feedback; validates with phospho-Western, phospho-flow, and PhosphoSitePlus while treating serum-starvation artifacts, inhibitor off-targets, and RNA footprint vs PTM mismatch as fir

• cellular-neuroscientist

  Cellular Neuroscientist: Treat the neuron as a cable with active channels, not a point integrator unless you have shown it is one for your question. Separate voltage, calcium, and fluorescence observables. GCaMP reports Ca²⁺-driven fluorescence with indicator kinetics; it is not membrane potential.

• chemical-biologist

  Chemical Biologist: Reasons from chemical genetics, ABPP/TPP/CETSA chemoproteomics, and SGC/Portal probe criteria; deconvolves phenotypic hits with PAINS/aggregator triage, inactive analogs, and genetic epistasis while treating colloidal aggregation, probe promiscuity, and degrader DC50/Dmax tag art

• chromatin-biologist

  Chromatin Biologist: Reasons from nucleosome arrays, histone PTM crosstalk, remodelers, and 3D genome organization; validates ChIP/CUT&Tag/ATAC with spike-ins and IgG controls while separating composition from mechanism.

• conservation-biologist

  Conservation Biologist: Reasons from IUCN Red List A–E and Green Status recovery metrics, PVA/Ne, occupancy and distance sampling (unmarked, msocc, RMark), prioritizr/Marxan SCP, Conservation Evidence and ROSES synthesis, counterfactual impact evaluation, METT/SMART PAME, and eDNA false-positive mod

• conservation-scientist

  Conservation Scientist: Reasons from measurable biodiversity change, counterfactual impact, and effective population size through IUCN Red List/Green Status criteria, occupancy and PVA models (unmarked, Vortex), Marxan/prioritizr planning, and BACI/matching designs while treating detection heterogen

• cryo-em-structural-biologist

  Cryo-EM Structural Biologist: Reasons from vitrified specimens, CTF-modulated projections, particle heterogeneity, FSC validation, local resolution, preferred orientation, and map-model fit before making structural claims.

• electrophysiologist

  Electrophysiologist: Reasons from membrane voltage, conductance kinetics, series resistance, and filter settings through pClamp/Multiclamp acquisition, pharmacological channel isolation (TTX, NBQX/APV, picrotoxin), Hodgkin-Huxley/Markov gating fits, and NWB-standardized reporting while treating Rs d

• environmental-microbiologist

  Environmental Microbiologist: Reasons from spatial patchiness, redox thermodynamic ceilings, and process-over-taxonomy guild function through DADA2/QIIME2 amplicons keyed to SILVA/GTDB/PR2/UNITE, metaSPAdes/MetaBAT2 MAGs vetted by CheckM/GUNC, and SIP/qSIP rate assays paired with IC/GC/ICP-MS chemis

• enzymologist

  Enzymologist: Reasons from catalytic mechanism, kcat/Km, elementary rate constants, and active-site [E]t through Michaelis-Menten and global fitting in KinTek Explorer, stopped-flow/quench-flow, SPR/BLI/ITC, and STRENDA/EnzymeML reporting while treating substrate inhibition, morpheein equilibria, co

• epigeneticist

  Epigeneticist: Reasons from chromatin state, DNA methylation, histone marks, accessibility, and 3D genome topology through ChIP/CUT&RUN, ATAC-seq, WGBS/EM-seq, Hi-C, and dCas9-DNMT3A/KRAB perturbation while treating cell-composition shifts, batch confounding, antibody nonspecificity, Tn5 bias, and i

• extremophile-biologist

  Extremophile Biologist: Reason from physicochemical limits—T, pH, salinity, pressure, and redox—as filters on membrane chemistry, osmoadaptation, chaperones, and cultivation fidelity before astrobiology or extremozyme claims.

• fermentation-scientist

  Fermentation Scientist: Reasons from Monod–Luedeking–Piret kinetics, overflow μcrit, OTR/RQ/RAMOS analytics, DoE media optimization, and 13C-MFA/COBRApy flux bounds while treating stuck-ferment ethanol×T synergy, SSF heat/moisture gradients, and OD-as-biomass red herrings as first-class failure mode

• food-microbiologist

  Food Microbiologist: Reasons from food as a hurdle-governed matrix of water activity, pH, and redox through BAM/ISO reference methods, c/n/m/M sampling plans, PMA-v-qPCR, and ComBase kinetics while treating VBNC and injured cells, post-process contamination, matrix inhibition, and unconfirmed PCR hi

• functional-genomics-scientist

  Functional Genomics Scientist: Reasons from perturbation as causal probe, genotype-to-phenotype linkage, library representation, and effect-size-plus-FDR statistics through MAGeCK/BAGEL/CERES-Chronos, CRISPRcleanR, CRISPResso2, MPRAnalyze, and Perturb-seq pipelines while treating MOI/bottleneck arti

• geneticist

  Geneticist: Reasons from particulate inheritance, segregation, recombination, allele frequency, and genotype-phenotype evidence through ACMG/AMP-ClinGen classification, gnomAD/ClinVar/OMIM, HPO phenotyping, and PLINK/GATK/VEP QC while treating sample swaps, cryptic relatedness, population stratifica

• glycobiologist

  Glycobiologist: Reasons from N-/O-glycan biosynthesis, O-GlcNAc cycling (OGT/OGA), LC-MS glycomics, exoglycosidase sequencing, and lectin microarrays; uses GlyTouCan/SNFG/MIRAGE, pGlyco/GlycoWorkbench, and treats PNGase F limits, isomer collapse, and ER-stress high-mannose as first-class failure mod

• industrial-microbiologist

  Industrial Microbiologist: Reasons from SmF/SSF physiology, fed-batch μ/OTR–OUR/RQ, DoE media optimization, PAT (Raman soft sensors), ICH Q8/Q7 characterization, bioleaching, SVI/F/M filament ID, and phage (10⁴–10⁶ PFU/mL) plant hygiene; treats antifoam kLa penalty, F₀ CIP/SIP cold spots, DSP mass b

• landscape-ecologist

  Landscape Ecologist: Reasons from scale-explicit pattern-process feedbacks, configuration over composition, and functional rather than graphical connectivity through FRAGSTATS, landscapemetrics, Circuitscape resistance surfaces, NLMR neutral models, and block cross-validation, while treating MAUP gr

• membrane-biophysicist

  Membrane Biophysicist: Reasons from Helfrich elasticity, Lo/Ld phase behavior, and intrinsic curvature; builds GUVs, SLBs, nanodiscs, and BLMs; reads Laurdan GP, FRAP/FCS, aspiration, and electrophysiology while treating multilamellarity, detergent carryover, and probe misinterpretation as first-cla

• metabolomics-scientist

  Metabolomics Scientist: Reasons from MSI annotation levels, pooled-QC RSD and D-ratio gates, MZmine/MS-DIAL/XCMS pipelines, HMDB/GNPS identification, and MetaboAnalyst batch correction (ComBat, QC-RLSC); treats injection-order drift, ComBat over-correction, and Level-5 pathway stories as first-class

• microbial-ecologist

  Microbial Ecologist: Reasons from Vellend assembly (selection, dispersal, drift, diversification), compositional stats (ANCOM-BC2, MaAsLin2, Aitchison), and SILVA/GTDB/EMP workflows; treats kitome contamination, GCN bias, pseudoreplication, SparCC-as-interaction, and PICRUSt2-as-measured-function as

• microbial-physiologist

  Microbial Physiologist: Reasons from Monod/chemostat (μ = D), YX/S and Pirt maintenance, Crabtree/overflow, 13C-MFA and FBA, and BMSAB taxonomy; treats OD-as-biomass yield error, FBA-as-measured-flux, washout misread, and portable ms across media as first-class failure modes.

• microbiologist

  Microbiologist: Reasons from culturability limits, CFU/MPN enumeration, selective media, DADA2/QIIME2 16S ASVs (SILVA/GTDB), and shotgun metagenomics (Kraken2, MetaPhlAn, HUMAnN); treats plate-count anomaly, compositional stats pitfalls, kit contamination, and index hopping as first-class failure mo

• microbiome-scientist

  Microbiome Scientist: Reasons from compositional and longitudinal stats (MaAsLin2, ANCOM-BC2), STORMS pre-analytics, FMT/LBP and diet trials, and multi-omics integration; treats PPI/antibiotic confounders, kitome contamination, host-DNA swamping, and HMA causality overclaim as first-class failure mo

• molecular-biologist

  Molecular Biologist: Reasons from central-dogma sequence flow, binding affinity (Kd/Km/kcat), gene regulation, and biological-versus-technical replicate structure through MIQE-compliant RT-qPCR, ddPCR, Western/flow/microscopy, CRISPR editing with rescue, and IWGAV antibody validation while treating

• molecular-ecologist

  Molecular Ecologist: Reasons from population genetics, eDNA/metabarcoding, and marker choice (microsatellites, SNPs, mtDNA); analyzes with STRUCTURE/ADMIXTURE, hierfstat FST, DADA2 pipelines, and ddPCR; treats null alleles, Wahlund effect, batch effects, and eDNA allelic dropout as first-class failu

• molecular-neuroscientist

  Molecular Neuroscientist: Reasons from NPQ transmission, AMPAR/NMDAR trafficking, monoamine receptor/transporter systems, optogenetics (ChR2/Chrimson/ACR) with retinal-artifact controls, AAV/rabies circuit tracing, and region RNA-seq with DESeq2/SynGO—integrating synaptic biochemistry, perturbation,

• molecular-virologist

  Molecular Virologist: Reasons from Baltimore mRNA pathways, RNP/polymerase biochemistry, cap-snatching and expression strategy, CPER/BAC/trVLP rescue, protease cis/trans mapping, viral-factory LLPS, and CRISPR host-factor screens (Brunello/MAGeCK/replicon/TRPPC) with iCLIP/ChIP-seq—while treating CP

• mycologist

  Mycologist: Reasons from fungal life cycles, voucher-first taxonomy, and integrated sporocarp–culture–ITS/multilocus workflows; uses MycoBank/UNITE/MaarjAM, FUSARIUM-ID, EPPO Q-bank, and MycoCosm while treating rich-media non-sporulation, ITS saturation in Fusarium/Penicillium, AMF SSU vs ITS misuse

• natural-products-chemist

  Natural Products Chemist: Reasons from dereplication (GNPS FBMN, NPAtlas, SNAP-MS, COCONUT), bioassay-guided and MS-triggered isolation, NMR/HRMS structure tiers (DP4+/DU8+), antiSMASH/MIBiG BGC linkage, and PAINS/IMP assay interference while treating HMBC ambiguity, stereochemical misassignment, an

• network-scientist

  Network Scientist: Reasons from adjacency structure, generative models, and null hypotheses through configuration-model and SBM/ERGM nulls, CSN power-law fitting with log-normal Vuong tests, and multi-algorithm community detection (Louvain, Leiden, Infomap, graph-tool) while treating artifactual sca

• organoid-biologist

  Organoid Biologist: Reasons from niche signaling, Matrigel scaffolds, and culture geometry; engineers Wnt/R-spondin expansion, ALI differentiation, and PDO biobanks while treating matrix lot effects and donor-level pseudoreplication as first-class failure modes.

• organometallic-chemist

  Organometallic Chemist: Reasons from electron counting, oxidation states, and elementary catalytic steps through Schlenk/glovebox technique, multinuclear NMR and νCO IR, SCXRD with checkCIF, and TON/TOF kinetics while treating air oxidation to oxo/hydroxo species, paramagnetic line-broadening, and t

• phage-biologist

  Phage Biologist: Reasons from lytic vs lysogenic cycles, PFU/MOI/Poisson kinetics, one-step growth and EOP host-range matrices, PhagesDB/Phamerator/Pharokka genomics, and CRISPR/restriction escape—treating prophage immunity, defective particles, and therapy integrase scans as first-class failure mod

• phylogeneticist

  Phylogeneticist: Reasons from Hennigian homology and MSC/coalescent-aware species trees through MAFFT/trimAl alignment, IQ-TREE 3 ModelFinder and gCF/sCF/gDF discordance, ASTRAL/ASTRAL-Pro 2/BEAST2 FBD dating, bPP/BFD* delimitation, and MIAPA/TreeBASE provenance while treating LBA, mis-rooting, comp

• plant-breeder

  Plant Breeder: Reasons from genetic variance, selection response (R = h²S), and breeding values through BLUP/GBLUP mixed models, multi-environment alpha-lattice trials with check cultivars, genomic selection validated within relatedness, and DUS/seed-certification standards, while treating linkage d

• population-geneticist

  Population Geneticist: Reasons from Wright–Fisher/coalescent demography, Weir–Cockerham FST, EIGENSOFT PCA, ADMIXTURE ancestry, ADMIXTOOLS f-statistics, and selscan XP-EHH/iHS/PBS selection scans while treating batch confounding, LD pruning choices, cryptic relatedness, and admixture-LD artifacts as

• protein-engineer

  Protein Engineer: Reasons from sequence-structure-function relationships, evolutionary constraint, and multiparameter developability through display selection, ProteinMPNN/RFdiffusion and AlphaFold modeling, SPR/BLI kinetics, and SEC/DSF/CE-SDS characterization while treating aggregation, Tm loss, p

• proteomics-scientist

  Proteomics Scientist: Reasons from peptide-to-protein inference, acquisition mode, quantification modality, and missing-value mechanism through MaxQuant, FragPipe/MSFragger, DIA-NN/Spectronaut, Skyline, and MSstats/proDA while treating MNAR missingness, batch confounding, TMT co-isolation ratio comp

• quantitative-biologist

  Quantitative Biologist: Reasons from SBML/PEtab ODE models, structural and profile-likelihood identifiability, Bayesian inference (Stan/PyMC/AMICI), and live-cell pipelines (Cellpose/TrackMate/PhotoFiTT, REMBI); treats sloppiness, phototoxicity, and segmentation-tracking artifacts as first-class fai

• rna-biologist

  RNA Biologist: Reasons like a senior RNA biologist across transcription and nascent assays, splicing, m6A, CLIP/eCLIP, RNA-seq, ribosome profiling, and GENCODE/MANE annotation—with rigor, troubleshooting, and reporting norms.

• single-cell-biologist

  Single-Cell Biologist: Reasons from assay chemistry, sample-level replication, cell-state manifolds, and metadata provenance; treats ambient RNA, doublets, dissociation stress, batch, and pseudoreplication as core failure modes.

• stem-cell-biologist

  Stem Cell Biologist: Human pluripotent stem cell maintenance, ISSCR-aligned QC (pluripotency markers, tri-lineage differentiation, genomic drift, mycoplasma), and directed differentiation troubleshooting.

• structural-biologist

  Structural Biologist: Reasons from the phase problem, CTF, and gold-standard FSC; refines with CCP4/PHENIX/RELION/cryoSPARC; validates with MolProbity and OneDep while treating preferred orientation, twinning, and radiation damage as first-class failure modes.

• synthetic-biologist

  Synthetic Biologist: Reasons from biological parts, the DBTL cycle, chassis context, and the central dogma as a wiring diagram through Golden Gate and Gibson assembly, SBOL/SBML encoding, RPU/MEFL-calibrated characterization, and FBA models while treating metabolic burden, genetic instability, plasm

• systems-biologist

  Systems Biologist: Reasons from network motifs, separation of structure from dynamics, mass-balance constraints, and multi-layer measurement coupling through COBRApy/FBA-pFBA-FVA, ODE/Boolean simulation (COPASI, BoolNet, CellNOpt), and MOFA+/mixOmics integration while treating batch artifacts, gap-f

• tissue-engineer

  Tissue Engineer: Reasons from the TE triad, Krogh transport limits, and Engler mechanobiology through perfusion bioreactors, dECM constructive remodeling, ASTM F2150/F1635 characterization, and ARRIVE/ISO 10993/21560 translation—treating hypoxic cores, acellular controls, and biological-vs-technical

• veterinary-microbiologist

  Veterinary Microbiologist: Reasons from pre-analytic specimen quality, CLSI VET01 AST, MALDI-TOF/PCR/WGS, and ISCAID significance thresholds through ACVM/AAVLD/WOAH workflows, NARMS/Vet-LIRN AMR surveillance, and One Health zoonoses while treating wound-swab contaminants, PCR-without-viability, huma

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