Tianci Song

6-225D Keller Hall, 200 Union Street SE, Minneapolis, MN, 55455

I received my Ph.D. in the Department of Computer Science and Engineering, University of Minnesota, advised by Dr. Rui Kuang. Please refer to my CV (concise version) or CV (academic version) for more information.

Education

University of Minnesota

Ph.D., Computer Science & Engineering

Sep. 2018 - Aug. 2025

Jilin University

M.E., Computer Science & Technology

Sep. 2014 - Jun. 2017

Jilin University

B.S., Computer Science & Technology

Sep. 2010 - Jun. 2014

Experience

Machine Learning Scientist

BRAID, Genentech

Sep. 2025 - present

Research Assistant

Kuang Lab, University of Minnesota

Sep. 2018 - Aug. 2025

Research Intern

Machine Learning Group, NEC Labs America

Jul. 2024 - Oct. 2024

Research Intern

Machine Learning Group, NEC Labs America

Jun. 2023 - Sep. 2023

Research Assistant

NeuroTrauma Research Lab, VA Medical Center

Jun. 2020 - Dec. 2021

Research Intern

Infervision

Mar. 2018 - Aug. 2018

Research Assistant

Computational System Biology Lab, University of Georgia

Oct. 2015 - Jan. 2017

Research Assistant

Machine Learning Lab, Jilin University

Jun. 2014 - Sep. 2015

Publications

DrugAgent: Multi-Agent Large Language Model-Based Reasoning for Drug-Target Interaction Prediction

ICLR 2025 MLGenX Workshop

Yoshitaka Inoue, Tianci Song, Xinling Wang, Augustin Luna, Tianfan Fu

PDF Code
Predicting spatially resolved gene expression via tissue morphology using adaptive spatial GNNs

Bioinformatics (ECCB 2024)

Tianci Song, Eric Cosatto, Gaoyuan Wang, Rui Kuang, Mark Gerstein, Martin Renqiang Min, and Jonathan Warrell

PDF Code
Deciphering high-order structures in spatial transcriptomes with graph-guided Tucker decomposition

Bioinformatics (ISMB 2024)

Charles Broadbent, Tianci Song, and Rui Kuang

PDF Code
GNTD: reconstructing spatial transcriptomes with graph-guided neural tensor decomposition informed by spatial and functional relations

Nature Communications (2023)

Tianci Song, Charles Broadbent, and Rui Kuang

PDF Code
Detecting spatially co-expressed gene clusters with functional coherence by graph-regularized convolutional neural network

Bioinformatics (2022)

Tianci Song, Kathleen K Markham, Zhuliu Li, Kristen E Muller, Kathleen Greenham, and Rui Kuang

PDF Code
Imputation of spatially-resolved transcriptomes by graph-regularized tensor completion

PLoS Computational Biology (2021)

Zhuliu Li, Tianci Song, Jeongsik Yong, and Rui Kuang

PDF Code
Hierarchical canonical correlation analysis reveals phenotype, genotype, and geoclimate associations in plants

PLoS Computational Biology (2020)

Raphael Petegrosso, Tianci Song, and Rui Kuang

PDF Code
Classifying breast cancer subtypes using multiple kernel learning based on omics data

Genes (2019)

Mingxin Tao, Tianci Song, Wei Du, Siyu Han, Chunman Zuo, Ying Li, Yan Wang, and Zekun Yang

PDF
A novel unsupervised algorithm for biological process-based analysis on cancer

Scientific Reports (2017)

Tianci Song, Sha Cao, Tao Sheng, Sen Liang, Wei Du, and Yanchun Liang

PDF
Computational analysis of specific MicroRNA biomarkers for noninvasive early cancer detection

BioMed Research International (2017)

Tianci Song, Yanchun Liang, Zhongbo Cao, Wei Du, and Ying Li

PDF
The method for breast cancer grade prediction and pathway analysis based on improved multiple kernel learning

Journal of Bioinformatics and Computational Biology (2017)

Tianci Song, Yan Wang, Wei Du, Sha Cao, Yuan Tian, and Yanchun Liang

PDF

Teaching

Machine Learning Fundamentals

Teaching assistant · University of Minnesota
Spring 2023/Fall 2024

Introduction to Machine Learning

Teaching assistant · University of Minnesota
Fall 2019/Spring 2020

Functional Genomics, Systems Biology, and Bioinformatics

Teaching assistant · University of Minnesota
Spring 2021