BioTM, LASIGE, Fac. Ciências, Universidade de Lisboa (@lasigeBioTM)
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lasigeBioTM

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Top repositories

1

MER

Minimal Named-Entity Recognizer (MER)
Shell
53
star
2

BiOnt

BiOnt: Deep Learning using Multiple Biomedical Ontologies for Relation Extraction
Python
26
star
3

DiShIn

Semantic Similarity Measures using Disjunctive Shared Information
Python
23
star
4

BOLSTM

Classifying Relations via Long Short-Term Memory Networks along Biomedical Ontologies
Python
14
star
5

PGR

A Silver Standard Corpus of Human Phenotype-Gene Relations
Python
12
star
6

merpy

MER python interface
Python
11
star
7

REEL

REEL: Relation Extraction for Entity Linking
Python
10
star
8

IHP

Identification of Human Phenotype Entities
Python
9
star
9

K-BiOnt

Biomedical Relation Extraction with Knowledge Graph-based Recommendations
Python
9
star
10

K-RET

K-RET: Knowledgeable Biomedical Relation Extraction System
Python
8
star
11

BENT

Biomedical Term Annotator
Python
8
star
12

ICRel

Identifying Cellular Relations
Python
6
star
13

CANTEMIST-Participation

Code relative to the participation of the lasigeBioTM team in the CANTEMIST-CANcer TExt Mining Shared Task – tumor named entity recognition.
Python
6
star
14

IBRel

Identifying Biomedical Relations
Python
5
star
15

BLiR

Biomarker Literature Retrieval
TeX
4
star
16

BiQA

Generating Scientific Question Answering Corpora from Q&A forums
Python
4
star
17

BOE

BOE: BiOnt Enhanced for Relation Extraction in Gene and Chemical Compounds interactions (DrugProt corpus)
Python
4
star
18

blah7

Annotating a multilingual COVID-19-related corpus
Python
4
star
19

PPRSSM

PPR-SSM: Personalized PageRank and Semantic Similarity Measures for Entity Linking
Java
3
star
20

RecSys.Scifi.tutorial

Jupyter Notebook
3
star
21

MultiNEL-corpus

A multilingual silver standard corpus containing English, Portuguese and Spanish clinical case reports annotated with medical diagnostic codes
Python
3
star
22

ICERL_system-ICR_Corpus

ICERL system: Iberian Cancer-related Entity Recognition and Linking system ICR corpus: Iberian Cancer-related corpus
Python
3
star
23

MESINESP2

Python
2
star
24

BioASQ9B

LASIGE ULisboa Team work at BioASQ9B
Python
2
star
25

PGR-crowd

A hybrid approach toward biomedical relation extraction training corpora: combining distant supervision with crowdsourcing
Python
2
star
26

knowledge-extraction-from-CORD-19

Knowledge extraction from CORD-19 (COVID-19 Open Research Dataset)
Python
2
star
27

NILINKER

Attention-based approach to NIL Entity Linking
Python
2
star
28

scirec2021

HTML
1
star
29

MRRAD

HTML
1
star
30

HPO_Crowd_Annotation_Experiment

Jupyter Notebook
1
star
31

biocreativeVII

lasigeBioTM at BioCreative VII Track 1: Text mining drug and chemical-protein interactions using biomedical ontologies
Python
1
star
32

CheRM

Chemical Compounds Recommender Matrix
Python
1
star
33

IBEnt

Identifying Biomedical Entities
Python
1
star
34

ChemRecSys

Python
1
star
35

biocreativeVIII_Track1

1
star
36

MRA

Proof of concept application, which annotates text of six different languages with RadLex terms
Python
1
star
37

FunVar

A Systematic Pipeline to Unravel the Convergence Patterns of Genetic Variants in Complex Diseases
R
1
star
38

Re-scaling-class-distribution-NEL

Re-scaling class distribution for fine-tuning BERT-based models: Named Entity Linking
Python
1
star
39

MetadataAnalyser

A tool that measures metadata quality.
PHP
1
star
40

SemEval2023_Task-7

Python
1
star