Boyang Ji

Showing 37 publications

2021

Performance of Regression Models as a Function of Experiment Noise

Gang Li, Jan Zrimec, Boyang Ji et al
Bioinformatics and Biology Insights. Vol. 15
Journal article
2021

Metabolic Alterations in Older Women With Low Bone Mineral Density Supplemented With Lactobacillus reuteri

Peishun Li, Daniel Sundh, Boyang Ji et al
JBMR Plus. Vol. 5 (4)
Journal article
2021

Exploring Gut Microbiota in Patients with Colorectal Disease Based on 16S rRNA Gene Amplicon and Shallow Metagenomic Sequencing

Yuanfeng Liu, Xiang Li, Yudie Yang et al
Frontiers in Molecular Biosciences. Vol. 8
Journal article
2021

Engineering yeast metabolism for the discovery and production of polyamines and polyamine analogues

Jiufu Qin, Anastasia Krivoruchko, Boyang Ji et al
Nature Catalysis. Vol. 4 (6), p. 498-509
Journal article
2021

Draft genome sequences of five fungal strains isolated from Kefir

Simonas Marcisauskas, Yongkyu Kim, Sonja Blasche et al
Microbiology Resource Announcements. Vol. 10 (21)
Journal article
2021

Genome-scale insights into the metabolic versatility of Limosilactobacillus reuteri

Hao Luo, Peishun Li, Hao Wang et al
BMC Biotechnology. Vol. 21 (1)
Journal article
2021

Bayesian genome scale modelling identifies thermal determinants of yeast metabolism

Gang Li, Yating Hu, Jan Zrimec et al
Nature Communications. Vol. 12 (1)
Journal article
2021

Advances in the Relationships Between Cow’s Milk Protein Allergy and Gut Microbiota in Infants

Yudie Yang, Xiaoqi Li, Ying Yang et al
Frontiers in Microbiology. Vol. 12
Review article
2021

CODY enables quantitatively spatiotemporal predictions on in vivo gut microbial variability induced by diet intervention

Jun Geng, Boyang Ji, Gang Li et al
Proceedings of the National Academy of Sciences of the United States of America. Vol. 118 (13)
Journal article
2021

Microbial profiling identifies potential key drivers in gastric cancer patients

Yonghong Li, Jia Wang, Mengge Wang et al
Biotechnology and Biotechnological Equipment. Vol. 35 (1), p. 496-503
Journal article
2020

Meta-analysis of the gut microbiota in predicting response to cancer immunotherapy in metastatic melanoma

Angelo Limeta, Boyang Ji, Max Levin et al
JCI Insight. Vol. 5 (23)
Journal article
2020

Systems Biology of Gastric Cancer: Perspectives on the Omics-Based Diagnosis and Treatment

Xiao Jing Shi, Yongjun Wei, Boyang Ji
Frontiers in Molecular Biosciences. Vol. 7
Review article
2020

Advances in Metabolic Engineering of Saccharomyces cerevisiae for Cocoa Butter Equivalent Production

Mengge Wang, Yongjun Wei, Boyang Ji et al
Frontiers in Bioengineering and Biotechnology. Vol. 8
Review article
2020

Metabolic engineering for increased lipid accumulation in Yarrowia lipolytica – A Review

Jinpeng Wang, R. Ledesma-Amaro, Yongjun Wei et al
Bioresource Technology. Vol. 313
Review article
2019

Modelling approaches for studying the microbiome

Manish Kumar, Boyang Ji, Karsten Zengler et al
Nature Microbiology. Vol. 4 (8), p. 1253-1267
Review article
2019

Profiling of Small Molecular Metabolites in Nostoc flagelliforme during Periodic Desiccation

Xiang Gao, Bin Liu, Boyang Ji
Marine Drugs. Vol. 17 (5)
Journal article
2019

Metagenomic analysis of bile salt biotransformation in the human gut microbiome

Promi Das, Simonas Marcisauskas, Boyang Ji et al
BMC Genomics. Vol. 20 (1)
Journal article
2019

Comparative Transcriptome Analysis Shows Conserved Metabolic Regulation during Production of Secondary Metabolites in Filamentous Fungi

Jens Christian Froslev Nielsen, Sylvain Prigent, Sietske Grijseels et al
MSYSTEMS. Vol. 4 (2)
Journal article
2019

Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model

Simonas Marcisauskas, Boyang Ji, Jens B Nielsen
BMC Bioinformatics. Vol. 20 (1)
Journal article
2019

Carbohydrate active enzymes are affected by diet transition from milk to solid food in infant gut microbiota

Ling Qun Ye, Promi Das, Peishun Li et al
FEMS microbiology ecology. Vol. 95 (11)
Journal article
2018

Gut microbiota dysbiosis is associated with malnutrition and reduced plasma amino acid levels: Lessons from genome-scale metabolic modeling

Manish Kumar, Boyang Ji, Parizad Babaei et al
Metabolic Engineering. Vol. 49, p. 128-142
Journal article
2018

Serine/Threonine Protein Kinases from Bacteria, Archaea and Eukarya Share a Common Evolutionary Origin Deeply Rooted in the Tree of Life

Ivan Andreas Stancik, Martin Sebastijan Šestak, Boyang Ji et al
Journal of Molecular Biology. Vol. 430 (1), p. 27-32
Journal article
2018

In vitro co-cultures of human gut bacterial species as predicted from co-occurrence network analysis

Promi Das, Boyang Ji, P. Kovatcheva-Datchary et al
PLoS ONE. Vol. 13 (3)
Journal article
2018

Challenges in modeling the human gut microbiome

Parizad Babaei, Saeed Shoaie, Boyang Ji et al
Nature Biotechnology. Vol. 36 (8), p. 682-686
Other text in scientific journal
2017

Conversion of Glycerol to 3-Hydroxypropanoic Acid by Genetically Engineered Bacillus subtilis

Aida Kalantari, Tao Chen, Boyang Ji et al
Frontiers in Microbiology. Vol. 8 (APR)
Journal article
2017

In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria

Olaa Motwalli, Magbubah Essack, Boris R. Jankovic et al
BMC Genomics. Vol. 18 (1)
Journal article
2017

The chimeric nature of the genomes of marine magnetotactic coccoid-ovoid bacteria defines a novel group of Proteobacteria

Boyang Ji, S. D. Zhang, W. J. Zhang et al
Environmental Microbiology. Vol. 19 (3), p. 1103-1119
Journal article
2017

Interplay of Energetics and ER Stress Exacerbates Alzheimer's Amyloid-beta (A beta) Toxicity in Yeast

Xin Chen, Mark Bisschops, Nisha Rani Agarwal et al
Frontiers in Molecular Neuroscience. Vol. 10
Journal article
2017

Global analysis of biosynthetic gene clusters reveals vast potential of secondary metabolite production in Penicillium species

Jens Christian Froslev Nielsen, S. Grijseels, Sylvain Prigent et al
Nature Microbiology. Vol. 2 (6)
Journal article
2016

Human gut microbiota and healthy aging: Recent developments and future prospective

Manish Kumar, Parizad Babaei, Boyang Ji et al
Nutrition and healthy aging. Vol. 4 (1), p. 3-16
Journal article
2015

New insight into the gut microbiome through metagenomics

Boyang Ji, Jens B Nielsen
Advances in Genomics and Genetics. Vol. 5, p. 77-91
Journal article
2015

Logical transformation of genome-scale metabolic models for gene level applications and analysis

C. Zhang, Boyang Ji, Adil Mardinoglu et al
Bioinformatics. Vol. 31 (14), p. 2324-2331
Journal article
2015

From next-generation sequencing to systematic modeling of the gut microbiome

Boyang Ji, Jens B Nielsen
Frontiers in Genetics. Vol. 6 (JUN)
Review article
2014

Insights into the pathways of iron- and sulfur-oxidation, and biofilm formation from the chemolithotrophic acidophile Acidithiobacillus ferrivorans CF27

E. Talla, S. Hedrich, S. Mangenot et al
Research in Microbiology. Vol. 165 (9), p. 753-760
Journal article
2014

Evolution of Bacterial Protein-Tyrosine Kinases and Their Relaxed Specificity Toward Substrates

Lei Shi, Boyang Ji, L. Kolar-Znika et al
Genome Biology and Evolution. Vol. 6 (4), p. 800-817
Journal article

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