Obtaining genetics insights from deep learning via explainable artificial intelligence

G Novakovsky, N Dexter, MW Libbrecht… - Nature Reviews …, 2023 - nature.com
Artificial intelligence (AI) models based on deep learning now represent the state of the art
for making functional predictions in genomics research. However, the underlying basis on …

Deep learning: new computational modelling techniques for genomics

G Eraslan, Ž Avsec, J Gagneur, FJ Theis - Nature Reviews Genetics, 2019 - nature.com
As a data-driven science, genomics largely utilizes machine learning to capture
dependencies in data and derive novel biological hypotheses. However, the ability to extract …

A primer on deep learning in genomics

J Zou, M Huss, A Abid, P Mohammadi, A Torkamani… - Nature …, 2019 - nature.com
Deep learning methods are a class of machine learning techniques capable of identifying
highly complex patterns in large datasets. Here, we provide a perspective and primer on …

Base-resolution models of transcription-factor binding reveal soft motif syntax

Ž Avsec, M Weilert, A Shrikumar, S Krueger… - Nature …, 2021 - nature.com
The arrangement (syntax) of transcription factor (TF) binding motifs is an important part of the
cis-regulatory code, yet remains elusive. We introduce a deep learning model, BPNet, that …

Opportunities and obstacles for deep learning in biology and medicine

T Ching, DS Himmelstein… - Journal of the …, 2018 - royalsocietypublishing.org
Deep learning describes a class of machine learning algorithms that are capable of
combining raw inputs into layers of intermediate features. These algorithms have recently …

Generative Recurrent Networks for De Novo Drug Design

A Gupta, AT Müller, BJH Huisman, JA Fuchs… - Molecular …, 2018 - Wiley Online Library
Generative artificial intelligence models present a fresh approach to chemogenomics and de
novo drug design, as they provide researchers with the ability to narrow down their search of …

Hdltex: Hierarchical deep learning for text classification

K Kowsari, DE Brown, M Heidarysafa… - 2017 16th IEEE …, 2017 - ieeexplore.ieee.org
Increasingly large document collections require improved information processing methods
for searching, retrieving, and organizing text. Central to these information processing …

A review of deep learning applications in human genomics using next-generation sequencing data

WS Alharbi, M Rashid - Human Genomics, 2022 - Springer
Genomics is advancing towards data-driven science. Through the advent of high-throughput
data generating technologies in human genomics, we are overwhelmed with the heap of …

Convolutional neural network based on SMILES representation of compounds for detecting chemical motif

M Hirohara, Y Saito, Y Koda, K Sato, Y Sakakibara - BMC bioinformatics, 2018 - Springer
Background Previous studies have suggested deep learning to be a highly effective
approach for screening lead compounds for new drugs. Several deep learning models have …

Derin öğrenme ve görüntü analizinde kullanılan derin öğrenme modelleri

Ö İnik, E Ülker - Gaziosmanpaşa Bilimsel Araştırma Dergisi, 2017 - dergipark.org.tr
Klasik Makine öğrenme teknikleri ile bir model tanımlama veya makine öğrenimi sistemi
kurmak için öncelikle özellik vektörünün çıkarılması gerekmektedir. Özellik vektörünün …