[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome

Django app for managing referral programs — promoters, referral tracking, commission payouts, Wise CSV export, and click analytics.

Machine-learning-based general bacterial promoter prediction tool.

PARE: a computational method to Predict Active Regulatory Elements

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

extract promoter sequence from A.thalian genome

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.

Comprehensive in silico genomic analysis pipeline for domesticating non-model bacteria (Core module)

Converts the string output of BPROM, a promoter prediction software tool, to the GFF3 file format. Used in a CPT Galaxy phage genomics workflow

Sigma70Pred: A highly accurate method for predicting sigma70 promoter in Escherichia coli K-12 strains

miRNA promoter annotation based on deepCAGE data

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!

Fine-tuning and interpreting the HyenaDNA genomic language model on DNA-structure tasks (Z-DNA, G-quadruplexes, promoters) using Explainable-AI attribution methods.

Best site you have ever seen ✨

More accessible dump of the PWMs from ElemeNT (10.1080/21541264.2015.1067286)

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.