Zero-shot virtual assay harness for multi-omics foundation models: a dependency-free Python reference implementation of the VirDLA assay framework and prediction-based readout (PB).
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Sep 16, 2026 - Python
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promoter
Here are 20 public repositories matching this topic...
More accessible dump of the PWMs from ElemeNT (10.1080/21541264.2015.1067286)
promoter promoter-sequence-architectures sequence-motifs core-promoter-elements core-promoter-motifs transcriptional-regulation
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Sep 14, 2026 - Python
Touché: scalable enhancer–promoter contact analysis for Micro-C and Hi-C data
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Sep 13, 2026 - Python
Interactive web viewer for TF ChIP-seq binding programs at canonical protein-coding TSSs (Ensembl GRCh38.114). Streamlit + Plotly + DuckDB; ~1,300 TFs × ~19,700 TSSs; NMF programs/archetypes, GTEx + DepMap overlays, atlas-wide TF×TF network.
bioinformatics transcription-factors genomics plotly gene-regulation gtex chip-seq promoter nmf depmap human-genome streamlit regulatory-genomics duckdb chip-atlas
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Aug 29, 2026 - Python
Best site you have ever seen ✨
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Aug 3, 2026 - JavaScript
about my professional portfolio with my experiences and certificates
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Jul 29, 2026
As a cell-free DNA (cfDNA) processing pipeline, Triton conducts fragmentomic and phased-nucleosome coverage analyses on individual or composite genomic regions and outputs both region-level biomarkers and nt-resolution signal profiles.
promoter wgs signal-analysis ctdna whole-genome-sequencing fourier-transform cfdna nucleosomes nucleosome-positioning cell-free-dna tfbs fragmentomics bioninformatics nucleosome-profiling
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Jun 12, 2026 - Python
R package for promoter region extraction and annotation from GTF files.
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May 31, 2026 - R
Fine-tuning and interpreting the HyenaDNA genomic language model on DNA-structure tasks (Z-DNA, G-quadruplexes, promoters) using Explainable-AI attribution methods.
bioinformatics deep-learning genomics transformers pytorch promoter language-models interpretability explainable-ai z-dna hyenadna g-quadruplex
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May 29, 2026 - Jupyter Notebook
Sigma70Pred: A highly accurate method for predicting sigma70 promoter in Escherichia coli K-12 strains
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May 13, 2026 - Python
Django app for managing referral programs — promoters, referral tracking, commission payouts, Wise CSV export, and click analytics.
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Apr 21, 2026 - Python
[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
transcription-factors genome splice dna dataset promoters promoter transcription-factor-binding language-model genome-analysis promoter-analysis transcription-factor-binding-site covid dna-processing splice-site dna-training
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Jan 1, 2026 - Shell
Machine-learning-based general bacterial promoter prediction tool.
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Jun 19, 2023 - C
This tool allows you to send predefined messages to target Instagram users. It sends your message to the targets every 3 minutes. You can use this tool to advertise your products to your potential customers. Just start the bot and lay down!
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Apr 30, 2023
Converts the string output of BPROM, a promoter prediction software tool, to the GFF3 file format. Used in a CPT Galaxy phage genomics workflow
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Jan 23, 2022 - Python
miRNA promoter annotation based on deepCAGE data
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Oct 9, 2020 - C++
Find two-boxes transcription factor binding sites (made for sigma factor binding sites) by comparing intergenic DNA regions upstream pairs of orthologous genes using statistical analyses
statistics prediction orthologues promoter transcription-factor-binding-site sigma-factor-binding-site dna-motifs rmes sigffrid bmc-bioinformatics two-box-motifs
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Oct 6, 2020 - Perl
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