'networks' 검색 결과

Simulate transcription factor perturbation effects on cell state in silico with CellOracle and Dynamo, and predict transcriptional responses to genetic perturbations with GEARS, scGen, and CPA. Covers the direction-not-magnitude principle, local-linear validity, the GRN/velocity error it inherits, baseline discipline (mean and additive baselines), and the validation gap. Use when predicting TF knockout or overexpression effects, ranking driver TFs for fate transitions, or planning perturbation experiments. For GRN construction see multiomics-grn; for experimental Perturb-seq see single-cell/perturb-seq.

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Query protein-protein and gene interaction databases (STRING, BioGRID, IntAct, SIGNOR, Reactome, HuRI, HuMAP, OmniPath, ConsensusPathDB, DIP). Use when building PPI networks, choosing between physical vs functional vs genetic interactions, signed/directed vs undirected, high-throughput vs curated, picking confidence thresholds, aggregating across resources, or navigating license constraints. Encodes the database decision matrix, STRING v12 channel semantics, OmniPath as meta-database, SIGNOR for signed signaling, and per-resource rate limits.

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Select colormaps and qualitative palettes for scientific figures using perceptual-uniformity, color-vision-deficiency safety, and luminance-monotonicity criteria. Covers Crameri scientific colormaps, viridis/cividis/magma, Okabe-Ito categorical, ColorBrewer, and the rainbow/jet critique. Use when choosing palettes for heatmaps, scatter, networks, or any encoding where color carries quantitative or categorical meaning.

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Detect syntenic blocks and structural rearrangements between genomes using MCScanX (Wang 2012), JCVI/MCScan (Tang 2008 Python), GENESPACE (Lovell 2022) for orthology-anchored riparian visualization, SyRI for structural variation, AnchorWave for sequence-level synteny, i-ADHoRe 3.0 for highly diverged species, SynNet for synteny networks, and ntSynt for multi-genome macrosynteny. Use when identifying collinear gene blocks across species, distinguishing macrosynteny from microsynteny, detecting inversions/translocations/duplications, anchoring orthology in WGD lineages, producing publication riparian plots, computing synteny block age via Ks (cross-references whole-genome-duplication), or running synteny-aware ortholog inference in polyploids.

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Identifies super-enhancers from H3K27ac, MED1, or BRD4 ChIP-seq using ROSE, ROSE2, LILY, HOMER -style super, and ENCODE dELS cross-referencing. Handles peak stitching parameters, ranking choices, hockey-stick inflection, marker choice (H3K27ac vs MED1/BRD4), and cross-condition comparison with spike-in normalization. Constructs core regulatory circuitry (Saint-Andre 2016) from SE-encoded TFs. Use when identifying cell-identity / cancer-associated regulatory domains, comparing super-enhancers between conditions, identifying master transcription factor networks, or predicting BET-inhibitor responsiveness.

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Sequence-based deep learning for ATAC-seq using chromBPNet, BPNet, scBasset, or EnFormer. Use when correcting Tn5 bias with neural networks beyond k-mer models, predicting per-base accessibility profiles, scoring in silico variant effects at GWAS or rare-variant SNPs, discovering motifs via DeepLIFT/TF-MoDISco from a trained model, or generating cell-type-specific accessibility predictions for unobserved cell states.

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Apply GPGP/TAEMS coordination as local-scheduler constraints under explicit task, view, commitment, and delivery assumptions. NOT for assuming global task visibility, reliable delivery, or modern execution authority.

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OSINT username search across 400+ social networks. Hunt down social media accounts by username.

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Identifies and exploits SMB protocol vulnerabilities using Metasploit Framework during authorized penetration tests to demonstrate risks from unpatched Windows systems, misconfigured shares, and weak authentication in enterprise networks.

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Detect adversary lateral movement across networks using Splunk SPL queries against Windows authentication logs, SMB traffic, and remote service abuse.

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Identifies lateral movement techniques in enterprise networks by analyzing authentication logs, network flows, SMB traffic, and RDP sessions using Zeek, Velociraptor, and SIEM correlation rules to detect attackers moving between systems.

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Deploying Palo Alto Networks Prisma Access for SASE-based zero trust network access using GlobalProtect agents, ZTNA Connectors, security policy enforcement, and integration with Strata Cloud Manager for unified security management.

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Detect cyber attacks targeting OT historian servers (OSIsoft PI, Ignition, Wonderware) that sit at the IT/OT boundary and serve as pivot points for lateral movement between enterprise and control networks, including data manipulation, unauthorized queries, and exploitation of historian-specific vulnerabilities.

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Build an automated system to track adversary infrastructure using passive DNS, certificate transparency, WHOIS data, and IP enrichment to map and monitor threat actor command-and-control networks.

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Zigbee, Thread, and Matter mesh-protocol attack methodology — IEEE 802.15.4 sniffing with TI CC2531 / CC2540 / Sonoff Zigbee Dongle E, KillerBee toolkit, Touchlink commissioning abuse with the well-known transport key, replay/injection attacks, Zigbee Cluster Library command abuse for door locks and bulbs, Thread network credential theft, Matter commissioning chain analysis, and 6LoWPAN/IPv6 routing exploitation. Use when targeting smart-home or commercial mesh deployments, Zigbee-based door locks, lighting, or sensor networks.

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LoRaWAN and sub-GHz (433 / 868 / 915 MHz) attack methodology — LoRaWAN ABP/OTAA join attack, network/session key reuse, frame counter replay, downlink injection on TTN/Helium-style networks, sub-GHz protocol replay (KeeLoq garage doors, fixed-code remotes, TPMS spoofing, smart plug telemetry), HackRF / RTL-SDR / Flipper Zero workflows, signal analysis with Inspectrum / Universal Radio Hacker, and reconstruction of proprietary packet formats. Use for LoRaWAN deployments (smart cities, asset tracking, industrial telemetry), or any wireless device using the unlicensed 433/868/915 MHz bands (garage openers, doorbells, IoT sensors, RC equipment).

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Deauthentication and disassociation attacks against 802.11 networks — targeted single-client deauth for handshake capture, broadcast deauth for DoS (with authorization), action-frame attacks bypassing 802.11w (PMF), beacon flooding, mdk4 / aireplay-ng tooling, and rate-limit / PMF-aware operation. Use to coerce client reconnection (handshake capture, evil-twin roaming), as targeted DoS, or to test PMF posture.

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REST API for optimized token swapping (including executable transaction generation), swap quoting, and pricing using the SushiSwap Aggregator. Use this skill when the user wants to: - Get a swap quote between two tokens on 40+ evm networks - Generate executable swap transaction data - Fetch token prices for a specific network or token - Retrieve token metadata - Discover supported AMM liquidity sources - Integrate SushiSwap swapping or pricing logic via HTTP/REST (and not the SushiSwap Javascript API)

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