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mpra

Here are 15 public repositories matching this topic...

ayaanhossain / oligopool

Oligopool Calculator - Automated design and analysis of oligo pool libraries

primer search yaml count design library synthetic-biology assembly pool ngs barcode motif pcr spacer oligo mpra gibson-assembly oligo-design

Updated Feb 22, 2026
Python

cshukla / oligoGames

A R package to analyze data from different massively parallel reporter assays

package bioinformatics r genomics software mpra

Updated Jul 26, 2018
Jupyter Notebook

sanjanabhatnagar / in-vivoPRA-and-C.elegans-PAM-paper

An in vivo PRA reveals intronic motifs that combinatorially regulate splicing in a tissue-biased manner.

evolution celegans motifs phylogenetic-analysis nematode mpra intron splicing intron-sequences

Updated Nov 5, 2025
Python

kircherlab / MPRAlib

Library to analyse, filter and plot MPRA count data.

mpra

Updated May 7, 2026
Python

abhisheknrl / MPRAscore

MPRAscore: Robust and non-parametric analysis of massively parallel reporter assays (MPRA)

mpra mprascore

Updated Jul 31, 2019
C++

WeirauchLab / mpraprofiler

Allelic differential expression analysis for massively parallel reporter assay data

bioinformatics r analysis mpra

Updated Jun 5, 2023
R

khavarilab / arvid-skin

ARVID-Skin

functional-genomics epigenomics mpra skin-disease

Updated Nov 24, 2024
R

kmertide / MPRAbase-Builder

A repository for building standardized objects for MPRAbase.

bioinformatics database encode mpra

Updated Mar 25, 2023
Jupyter Notebook

khavarilab / aemvars-home

AEMVARS

disease functional-genomics epigenomics mpra

Updated Dec 17, 2024
R

caenrigen / enhanced_brain_magnet

eBM: Enhanced BRAIN-MAGNET convolutional neural network modeling non-coding regulatory elements enhancer activity in human neural stem cells

genomics pytorch convolutional-neural-network genetic-variants motif-discovery neurogenomics starr-seq enhancer-prediction explainable-ai mpra neurodevelopmental-disorders modisco deeplift ncre pytorch-lightning shapley-additive-explanations apple-silicon variant-prioritization noncoding-genetic-variation

Updated Nov 23, 2025
Jupyter Notebook

khavarilab / arvid-cancers

ARVID-Cancers

cancer functional-genomics epigenomics mpra

Updated Sep 3, 2025
R

khavarilab / arvid-neuro

ARVID-Neuropsychiatry

functional-genomics epigenomics mpra neuropsychiatry

Updated Sep 3, 2025
R

kmattioli / mind

a program to predict transcription factor binding sites from single-nucleotide deletion MPRAs

motif transcription deletion mpra

Updated Aug 16, 2018
Python

khavarilab / arvid-home

Atlas of Regulatory Variants in Disease (ARVID) home page.

diseases functional-genomics epigenomics mpra

Updated Feb 21, 2025
R

kavya1a / regulatory-score-saturation

Methodological investigation of calibration-statistic mismatch in deep learning regulatory variant prediction. Quantifies the saturation effect when published single-track quantile calibration is composed with max-over-tracks aggregation, and demonstrates the matched-calibration fix on AlphaGenome with Tewhey 2016 MPRA data.

bioinformatics gwas computational-biology quantile-normalization mpra fine-mapping regulatory-genomics alphagenome variant-scoring

Updated May 12, 2026
Python

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