DMIS Laboratory - Korea University (@dmis-lab)
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Top repositories

1

biobert

Bioinformatics'2020: BioBERT: a pre-trained biomedical language representation model for biomedical text mining
Python
1,845
star
2

biobert-pytorch

PyTorch Implementation of BioBERT
Java
286
star
3

bern

A neural named entity recognition and multi-type normalization tool for biomedical text mining
Python
167
star
4

BERN2

BERN2: an advanced neural biomedical namedentity recognition and normalization tool
Python
159
star
5

BioSyn

ACL'2020: Biomedical Entity Representations with Synonym Marginalization
Python
153
star
6

hats

HATS: A Hierarchical Graph Attention Network for Stock Movement Prediction
Python
138
star
7

bioasq-biobert

Pre-trained Language Model for Biomedical Question Answering
Python
119
star
8

GeNER

Simple Questions Generate Named Entity Recognition Datasets (EMNLP 2022)
Python
73
star
9

KitcheNette

KitcheNette: Predicting and Recommending Food Ingredient Pairings using Siamese Neural Networks
Python
65
star
10

covidAsk

covidAsk: Answering Questions on COVID-19 in Real-Time
Python
64
star
11

BioLAMA

EMNLP'2021: Can Language Models be Biomedical Knowledge Bases?
Python
54
star
12

ReSimNet

Implementation of ReSimNet for drug response similarity prediction
Jupyter Notebook
34
star
13

PerceiverCPI

Bioinformatics'2022 PerceiverCPI: A nested cross-attention network for compound-protein interaction prediction
Python
33
star
14

excord

Learn to Resolve Conversational Dependency: A Consistency Training Framework for Conversational Question Answering (Kim et al., ACL 2021)
Python
31
star
15

position-bias

EMNLP'2020: Look at the First Sentence: Position Bias in Question Answering
Python
29
star
16

TouR

Findings of ACL'2023: Optimizing Test-Time Query Representations for Dense Retrieval
Python
29
star
17

nesa

NESA: Neural Event Scheduling Assistant
Python
28
star
18

tbinet

TBiNet: A deep neural network for predicting transcription factor binding sites using attention mechanism
Jupyter Notebook
21
star
19

demographic-prediction

Predicting Multiple Demographic Attributes with Task Specific Embedding Transformation and Attention Network
Python
19
star
20

LIQUID

LIQUID: A Framework for List Question Anwering Dataset Generation (AAAI 2023)
Python
15
star
21

VAECox

ISMB 2020: Improved survival analysis by learning shared genomic information from pan-cancer data
Python
15
star
22

moable

Predicting mechanism of action of novelcompounds using compound structure andtranscriptomic signature co-embedding
Python
13
star
23

self-biorag

ISMB/ECCB'24 "Self-BioRAG: Improving Medical Reasoning through Retrieval and Self-Reflection with Retrieval-Augmented Large Language Models"
Python
13
star
24

SeqTagQA

Sequence Tagging for Biomedical Extractive Question Answering (Bioinformatics'2020)
Python
11
star
25

ArkDTA

Python
11
star
26

bioasq8b

Transferability of Natural Language Inference to Biomedical Question Answering
Python
11
star
27

ConNER

Bioinformatics'2023: Consistency Enhancement of Model Prediction on Document-level Named Entity Recognition
Python
10
star
28

AdvSR

Adversarial Subword Regularization forRobust Neural Machine Translation
Python
10
star
29

MulinforCPI

MulinforCPI: enhancing precision of compound-protein interaction prediction through novel perspectives on multi-level information integration
Python
8
star
30

KAZU-NER-module

EMNLP 2022: Biomedical NER for the Enterprise with Distillated BERN2 and the Kazu Framework
Python
8
star
31

RecipeMind

RecipeMind: Guiding Ingredient Choices from Food Pairing to Recipe Completition using Cascaded Set Transformer (Mogan Gim et al., 2022)
Jupyter Notebook
7
star
32

trnet

TRNet: A neural network model for predicting drug induced gene expression profiles
Python
6
star
33

bioner-generalization

How Do Your Biomedical Named Entity Recognition Models Generalize to Novel Entities?
Python
6
star
34

bc7-chem-id

DMIS at BioCreative VII NLMChem Track
Python
5
star
35

KitchenScale

KitchenScale: Learning Food Numeracy from Recipes through Context-Aware Ingredient Quantity Prediction
Python
5
star
36

bioasq9b-dmis

KU-DMIS at BioASQ 9
Jupyter Notebook
4
star
37

GLIT

GLIT: A Graph Neural Network for Drug-inducedLiver Injury Prediction using Transcriptome Data
Python
3
star
38

MolPLA

Python
3
star
39

arpnet

ARPNet: Antidepressant Response Prediction Network for Major Depressive Disorder
Python
2
star
40

bio-entity-extractor

Java
2
star
41

SMURF

SMURF: Machine learning pipeline for discovering cancer type specific driver mutations and diagnostic markers
Jupyter Notebook
2
star