DMIS Laboratory - Korea University

DMIS Laboratory - Korea University's repositories

biobert

Bioinformatics'2020: BioBERT: a pre-trained biomedical language representation model for biomedical text mining

Language:PythonNOASSERTION1872 63 174

biobert-pytorch

PyTorch Implementation of BioBERT

Language:JavaNOASSERTION289 10 36

BERN2

BERN2: an advanced neural biomedical namedentity recognition and normalization tool

Language:PythonBSD-2-Clause164 9 54

BioSyn

ACL'2020: Biomedical Entity Representations with Synonym Marginalization

Language:PythonMIT158 11 16

bioasq-biobert

Pre-trained Language Model for Biomedical Question Answering

Language:PythonNOASSERTION119 10 11

GeNER

Simple Questions Generate Named Entity Recognition Datasets (EMNLP 2022)

Language:PythonMIT73 7 4

covidAsk

covidAsk: Answering Questions on COVID-19 in Real-Time

Language:Python64 11 10

BioLAMA

EMNLP'2021: Can Language Models be Biomedical Knowledge Bases?

Language:PythonApache-2.054 6 6

ReSimNet

Implementation of ReSimNet for drug response similarity prediction

Language:Jupyter NotebookApache-2.036 8 2

PerceiverCPI

Bioinformatics'2022 PerceiverCPI: A nested cross-attention network for compound-protein interaction prediction

Language:PythonMIT33 3 9

excord

Learn to Resolve Conversational Dependency: A Consistency Training Framework for Conversational Question Answering (Kim et al., ACL 2021)

Language:PythonMIT31 4 8

nesa

NESA: Neural Event Scheduling Assistant

Language:PythonApache-2.028 7 5

OLAPH

OLAPH: Improving Factuality in Biomedical Long-form Question Answering

Language:Python2800

TouR

Findings of ACL'2023: Optimizing Test-Time Query Representations for Dense Retrieval

Language:PythonApache-2.028 5 1

self-biorag

ISMB/ECCB'24 "Self-BioRAG: Improving Medical Reasoning through Retrieval and Self-Reflection with Retrieval-Augmented Large Language Models"

Language:Python18 6 1

LIQUID

LIQUID: A Framework for List Question Anwering Dataset Generation (AAAI 2023)

Language:Python17 70

moable

Predicting mechanism of action of novelcompounds using compound structure andtranscriptomic signature co-embedding

Language:Python13 3 3

ArkDTA

Language:Python11 30

ConNER

Bioinformatics'2023: Consistency Enhancement of Model Prediction on Document-level Named Entity Recognition

Language:PythonApache-2.011 3 1

SeqTagQA

Sequence Tagging for Biomedical Extractive Question Answering (Bioinformatics'2020)

Language:Python11 3 2

AdvSR

Adversarial Subword Regularization forRobust Neural Machine Translation

Language:PythonMIT10 3 2

KAZU-NER-module

EMNLP 2022: Biomedical NER for the Enterprise with Distillated BERN2 and the Kazu Framework

Language:Python8 30

MulinforCPI

MulinforCPI: enhancing precision of compound-protein interaction prediction through novel perspectives on multi-level information integration

Language:Python8 3 3

bioner-generalization

How Do Your Biomedical Named Entity Recognition Models Generalize to Novel Entities?

Language:PythonMIT6 4 2

KitchenScale

KitchenScale: Learning Food Numeracy from Recipes through Context-Aware Ingredient Quantity Prediction

Language:Python6 30

bc7-chem-id

DMIS at BioCreative VII NLMChem Track

Language:Python5 20

MolPLA

Language:Python3 20

ParaCLIP

Fine-tuning CLIP Text Encoders with Two-step Paraphrasing (EACL 2024, Findings)

Language:PythonNOASSERTION2 50

BADGER

Language:Python000

LAPIS

Language:Python000