Jingjing Li, PhD

Associate Professor, Neurology
Neurology
[email protected]
+1 415 502-2572

Dr. Li works on human genomics. The main theme of his research is large-scale analysis of disease genomes by integrating multi-omics data, evolutionary insights, electronic health records, as well as digitized clinical traits from imaging and wearable sensor readouts. The ultimate goal is to build a data-driven framework to detect diseases before symptoms emerge and to achieve precision health management.

Publications: 

A Genome-Wide Analysis of Clinical Chorioamnionitis among Preterm Infants.

American journal of perinatology

Spiegel AM, Li J, Oehlert JW, Mayo JA, Quaintance CC, Girsen AI, Druzin ML, El-Sayed YY, Shaw GM, Stevenson DK, Gibbs RS

The contributions of genetics to premature birth.

Pediatric research

Stevenson DK, Wong RJ, Shaw GM, Li J, Wise PH, Davis JM

Understanding health disparities.

Journal of perinatology : official journal of the California Perinatal Association

Stevenson DK, Wong RJ, Aghaeepour N, Angst MS, Darmstadt GL, DiGiulio DB, Druzin ML, Gaudilliere B, Gibbs RS, B Gould J, Katz M, Li J, Moufarrej MN, Quaintance CC, Quake SR, Relman DA, Shaw GM, Snyder MP, Wang X, Wise PH

Decoding the Genomics of Abdominal Aortic Aneurysm.

Cell

Li J, Pan C, Zhang S, Spin JM, Deng A, Leung LLK, Dalman RL, Tsao PS, Snyder M

Natural Selection Has Differentiated the Progesterone Receptor among Human Populations.

American journal of human genetics

Li J, Hong X, Mesiano S, Muglia LJ, Wang X, Snyder M, Stevenson DK, Shaw GM

Fetal de novo mutations and preterm birth.

PLoS genetics

Li J, Oehlert J, Snyder M, Stevenson DK, Shaw GM

The genetic predisposition to bronchopulmonary dysplasia.

Current opinion in pediatrics

Yu KH, Li J, Snyder M, Shaw GM, O'Brodovich HM

Identification of Human Neuronal Protein Complexes Reveals Biochemical Activities and Convergent Mechanisms of Action in Autism Spectrum Disorders.

Cell systems

Li J, Ma Z, Shi M, Malty RH, Aoki H, Minic Z, Phanse S, Jin K, Wall DP, Zhang Z, Urban AE, Hallmayer J, Babu M, Snyder M

Exome Sequencing of Neonatal Blood Spots and the Identification of Genes Implicated in Bronchopulmonary Dysplasia.

American journal of respiratory and critical care medicine

Li J, Yu KH, Oehlert J, Jeliffe-Pawlowski LL, Gould JB, Stevenson DK, Snyder M, Shaw GM, O'Brodovich HM

Integrated systems analysis reveals a molecular network underlying autism spectrum disorders.

Molecular systems biology

Li J, Shi M, Ma Z, Zhao S, Euskirchen G, Ziskin J, Urban A, Hallmayer J, Snyder M

Principles of regulatory information conservation between mouse and human.

Nature

Cheng Y, Ma Z, Kim BH, Wu W, Cayting P, Boyle AP, Sundaram V, Xing X, Dogan N, Li J, Euskirchen G, Lin S, Lin Y, Visel A, Kawli T, Yang X, Patacsil D, Keller CA, Giardine B, mouse ENCODE Consortium, Kundaje A, Wang T, Pennacchio LA, Weng Z, Hardison RC, Snyder MP

Identifying mRNA sequence elements for target recognition by human Argonaute proteins.

Genome research

Li J, Kim T, Nutiu R, Ray D, Hughes TR, Zhang Z

Extensive variation in chromatin states across humans.

Science (New York, N.Y.)

Kasowski M, Kyriazopoulou-Panagiotopoulou S, Grubert F, Zaugg JB, Kundaje A, Liu Y, Boyle AP, Zhang QC, Zakharia F, Spacek DV, Li J, Xie D, Olarerin-George A, Steinmetz LM, Hogenesch JB, Kellis M, Batzoglou S, Snyder M

SH3 interactome conserves general function over specific form.

Molecular systems biology

Xin X, Gfeller D, Cheng J, Tonikian R, Sun L, Guo A, Lopez L, Pavlenco A, Akintobi A, Zhang Y, Rual JF, Currell B, Seshagiri S, Hao T, Yang X, Shen YA, Salehi-Ashtiani K, Li J, Cheng AT, Bouamalay D, Lugari A, Hill DE, Grimes ML, Drubin DG, Grant BD, Vidal M, Boone C, Sidhu SS, Bader GD

miRNA regulatory variation in human evolution.

Trends in genetics : TIG

Li J, Zhang Z

Evidence for positive selection on a number of MicroRNA regulatory interactions during recent human evolution.

PLoS genetics

Li J, Liu Y, Xin X, Kim TS, Cabeza EA, Ren J, Nielsen R, Wrana JL, Zhang Z

PhenoM: a database of morphological phenotypes caused by mutation of essential genes in Saccharomyces cerevisiae.

Nucleic acids research

Jin K, Li J, Vizeacoumar FS, Li Z, Min R, Zamparo L, Vizeacoumar FJ, Datti A, Andrews B, Boone C, Zhang Z

Systematic exploration of essential yeast gene function with temperature-sensitive mutants.

Nature biotechnology

Li Z, Vizeacoumar FJ, Bahr S, Li J, Warringer J, Vizeacoumar FS, Min R, Vandersluis B, Bellay J, Devit M, Fleming JA, Stephens A, Haase J, Lin ZY, Baryshnikova A, Lu H, Yan Z, Jin K, Barker S, Datti A, Giaever G, Nislow C, Bulawa C, Myers CL, Costanzo M, Gingras AC, Zhang Z, Blomberg A, Bloom K, Andrews B, Boone C

Exploiting the determinants of stochastic gene expression in Saccharomyces cerevisiae for genome-wide prediction of expression noise.

Proceedings of the National Academy of Sciences of the United States of America

Li J, Min R, Vizeacoumar FJ, Jin K, Xin X, Zhang Z

Integrating high-throughput genetic interaction mapping and high-content screening to explore yeast spindle morphogenesis.

The Journal of cell biology

Vizeacoumar FJ, van Dyk N, S Vizeacoumar F, Cheung V, Li J, Sydorskyy Y, Case N, Li Z, Datti A, Nislow C, Raught B, Zhang Z, Frey B, Bloom K, Boone C, Andrews BJ

A probabilistic framework to improve microrna target prediction by incorporating proteomics data.

Journal of bioinformatics and computational biology

Li J, Min R, Bonner A, Zhang Z

Evolution of an X-linked primate-specific micro RNA cluster.

Molecular biology and evolution

Li J, Liu Y, Dong D, Zhang Z

Learned random-walk kernels and empirical-map kernels for protein sequence classification.

Journal of computational biology : a journal of computational molecular cell biology

Min R, Bonner A, Li J, Zhang Z

Identifying protein-protein interfacial residues in heterocomplexes using residue conservation scores.

International journal of biological macromolecules

Li JJ, Huang DS, Wang B, Chen P

Network analysis of the protein chain tertiary structures of heterocomplexes.

Protein and peptide letters

Li JJ, Huang DS, Lok TM, Lyu MR, Li YX, Zhu YP

Characterizing human gene splice sites using evolved regular expressions

Proceedings of IEEE International Joint Conference on Neural Networks

Li, J., Huang, D., MacCallum, R., and Wu, X.-R.

Custom People Group: 
UCSF Microbiome Researchers