BMI studies in Kim’s Bioinformatics laboratory.

Lab News

Visit FusionBase and contact us for collaborative fusion gene studies. 

2025

November

Our collaborative work, "AllergenAI: a deep learning model predicting allergenicity based on protein sequence" has been published in BMC Bioinformatics!

August

Welcome, Victoria!

June

"KinaseFusionDB: an integrative knowledge of kinase fusion proteins in multi-scales", has been published in Briefings in Bioinformatics!

Welcome, Kyra!
Welcome, Truc!
Welcome, Lara!
Welcome, Siddiqui!
Welcome, Kyle!
Welcome, Jojo!
Welcome, Michelle!

April

"FusionPub, a therapeutic landscape of human fusion genes", has been published in Briefings in Bioinformatics!

January
Welcome, Yu!
Welcome, Qingwen!
Welcome, Nora!

2024

November
Dr. Kim talks at Cancer R&D 2024 (Boston).
Collaborative work, ASpdb: an integrative knowledgebase of human protein isoforms from experimental and AI-predicted structures, has been published in NAR.

August

Welcome, Heather!
We share our efforts to move forward with precision medicine development targeting fusion proteins through FusionBase. Please visit https://compbio.uth.edu/FusionGDB2/FusionBase.html
"Artificial intelligence in fusion protein three-dimensional structure prediction: Review and perspective" has been published in Clinical and Translational Medicine.
Collaborative work, SexAnnoDB, a knowledgebase of sex-specific regulations from multi-omics data of human cancers, has been published in Biology of Sex Differences

June

Welcome, Ken!

February

"FusionNW, a potential clinical impact assessment of kinases in pan-cancer fusion gene network", has been accepted in Briefings in Bioinformatics!

January

Welcome Loren!
Welcome Leonardo!
Welcome  Khank!
Welcome  Abayomi!

2023

November

Collaborative works,
COV2Var, a function annotation database of SARS-CoV-2 genetic variation, has been accepted in Nucleic Acids Research!
StemDriver: a knowledgebase of gene functions for hematopoietic stem cell fate determination, has been accepted in Nucleic Acids Research!
DRMref: comprehensive reference map of drug resistance mechanisms in human cancer, has been accepted in Nucleic Acids Research!

October

FusionPDB: a knowledgebase of human fusion proteins ,  has accepted in Nucleic Acids Research!
FusionNeoAntigen: a resource of fusion gene-specific neoantigens, has been accepted in Nucleic Acids Research!

August

Systematic investigation of the homology sequences around the human fusion gene breakpoints in pan-cancer – bioinformatics study for a potential link to MMEJ has been published in Briefings in Bioinformatics!
Welcome, Winston!
Welcome, Hien!
Welcome, Yanqing!
Welcome, Zakariya!

May

Dr. Kim talks at 4th Annual Gulf Coast Consortia, Innovative Drug Discovery and Development Conference, Leveraging Big Data for Transformative Patient Care, this May 9-10 in Houston.

March

Dr. Kim talks in Gulf Coast Consortia (GCC) - Innovative Drug Discovery and Development (IDDD) Roundtable Workshop: AI & Computational/System Biology in Drug Discovery: Opportunity and Challenges (March 9th).
Welcome, Marielle!
Welcome,  Lori!

2022

October
A preprint of our recent study, FusionPDB: a unique knowledgebase of human fusion proteins of consistent annotation across genome/ transcript/ protein/ interaction levels, is available.
Dr. Kim talks about FusionGPDB in Fall SBMI Seminar.
Collaborative work, SPASCER: spatial transcriptomics annotation at single-cell resolution, has been accepted in the Nucleic Acids Research!
Collaborative work, AgeAnno: a knowledgebase of single-cell annotation of aging in human, has been accepted in the Nucleic Acids Research!

February
Our work, "FusionAI, a DNA sequence-based deep learning protocol reduces the false positives of human fusion gene prediction," has been accepted in the STAR protocol!

2021

December
Dr. Kim talks about fusion gene study with bioinformatics and AI approach in K-BioX and UKC 2021.
Welcome, Lin-Ya!
Dr. Kim is editing a Special Issue on “Transcriptomics and Bioinformatics in Precision Medicine” in the journal Genes (ISSN 2073-4425; IF 4.096).  Details are here. Please ask any questions on this issue, Dr. Kim.

October
Himansu presents the poster on virtual Ribo-seq in ASHG 2021.
Dr. Kim presents the poster on FusionGDB2 at ASHG 2021.
"FusionGDB 2.0: fusion gene annotation updates aided by deep learning" has been accepted in Nucleic Acids Research!
Collaborative work, 'lncRNAfunc: a knowledgebase of lncRNA function in human cancer" has been accepted in Nucleic Acids Research!
Dr. Kim talks about FusionGDB2 in Fall SBMI Seminar.
Dr. Kim presents the poster on FusionAI in Cell-NCI Symposium: Beyond Cancer Genomics Toward Precision Oncology.

August
Welcome, Helen!
Dr. Kim was awarded a supplemental grant from NIH/NIGMS MIRA!
"FusionAI: Predicting fusion breakpoint from DNA sequence with deep learning" has been accepted in iScience!

July
The impact factor of Nucleic Acids Research has increased to 16.971!

June
See the preprint version "Deep Learning Approach to Genomic Breakage Study from Primary Sequence" from bioRxiv.

May
Welcome, Danlei!

April
Welcome, Himanshu!

March
Welcome, Thomas!

2020

December
ExonSkipAD provides the functional genomic landscape of exon skipping events in Alzheimer’s disease has been accepted in Briefings in Bioinformatics!

November
ADeditome provides the genomic landscape of A-to-I RNA editing in Alzheimer’s disease has been accepted in Briefings in Bioinformatics!

August
Dr. Kim awarded NIH/NIGMS MIRA Outstanding Investigator Award!

May
Landscape of drug-resistance mutations in kinase regulatory hotspots has been accepted in the Briefings in Bioinformatics!

April
FGviewer: an online visualization tool for functional features of human fusion genes has been accepted in Nucleic Acids Research!
miRactDB characterizes miRNA–gene relation switch between normal and cancer tissues across pan-cancer has been accepted in Briefings in Bioinformatics!

Before

2019
ExonSkipDB: functional annotation of exon skipping event in human has been accepted in Nucleic Acids Research!
FusionGDB: fusion gene annotation DataBase has been accepted in Nucleic Acids Research!

This web site has been modified at 08/30/2021 at Houston.