Chenhao Li
Chenhao Li
Massachusetts General Hospital, Broad Institute
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Whole metagenome profiling reveals skin microbiome-dependent susceptibility to atopic dermatitis flare
KR Chng, ASL Tay, C Li, AHQ Ng, J Wang, BK Suri, SA Matta, ...
Nature microbiology 1 (9), 1-10, 2016
Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection
AD Ewing, KE Houlahan, Y Hu, K Ellrott, C Caloian, TN Yamaguchi, ...
Nature methods 12 (7), 623-630, 2015
Hybrid metagenomic assembly enables high-resolution analysis of resistance determinants and mobile elements in human microbiomes
D Bertrand, J Shaw, M Kalathiyappan, AHQ Ng, MS Kumar, C Li, ...
Nature biotechnology 37 (8), 937-944, 2019
A global metagenomic map of urban microbiomes and antimicrobial resistance
D Danko, D Bezdan, EE Afshin, S Ahsanuddin, C Bhattacharya, DJ Butler, ...
Cell 184 (13), 3376-3393. e17, 2021
Genus-Wide Comparative Genomics of Malassezia Delineates Its Phylogeny, Physiology, and Niche Adaptation on Human Skin
G Wu, H Zhao, C Li, MP Rajapakse, WC Wong, J Xu, CW Saunders, ...
PLoS genetics 11 (11), e1005614, 2015
Critical assessment of metagenome interpretation: the second round of challenges
F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ...
Nature methods 19 (4), 429-440, 2022
Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment
KR Chng, C Li, D Bertrand, AHQ Ng, JS Kwah, HM Low, C Tong, ...
Nature medicine 26 (6), 941-951, 2020
INC-Seq: accurate single molecule reads using nanopore sequencing
C Li, KR Chng, EJH Boey, AHQ Ng, A Wilm, N Nagarajan
Gigascience 5 (1), s13742-016-0140-7, 2016
Metagenome-wide association analysis identifies microbial determinants of post-antibiotic ecological recovery in the gut
KR Chng, TS Ghosh, YH Tan, T Nandi, IR Lee, AHQ Ng, C Li, ...
Nature ecology & evolution 4 (9), 1256-1267, 2020
Tissue microbiome profiling identifies an enrichment of specific enteric bacteria in Opisthorchis viverrini associated cholangiocarcinoma
KR Chng, SH Chan, AHQ Ng, C Li, A Jusakul, D Bertrand, A Wilm, ...
EBioMedicine 8, 195-202, 2016
Determination of isoform-specific RNA structure with nanopore long reads
JGA Aw, SW Lim, JX Wang, FRP Lambert, WT Tan, Y Shen, Y Zhang, ...
Nature biotechnology 39 (3), 336-346, 2021
Predicting microbial interactions through computational approaches
C Li, KMK Lim, KR Chng, N Nagarajan
Methods 102, 12-19, 2016
Atopic dermatitis microbiomes stratify into ecologic dermotypes enabling microbial virulence and disease severity
ASL Tay, C Li, T Nandi, KR Chng, AK Andiappan, VS Mettu, C de Cevins, ...
Journal of Allergy and Clinical Immunology 147 (4), 1329-1340, 2021
An expectation-maximization algorithm enables accurate ecological modeling using longitudinal microbiome sequencing data
C Li, KR Chng, JS Kwah, TV Av-Shalom, L Tucker-Kellogg, N Nagarajan
Microbiome 7, 1-14, 2019
@ MInter: automated text-mining of microbial interactions
KMK Lim, C Li, KR Chng, N Nagarajan
Bioinformatics 32 (19), 2981-2987, 2016
ConsensusDriver improves upon individual algorithms for predicting driver alterations in different cancer types and individual patients
D Bertrand, S Drissler, BK Chia, JY Koh, C Li, C Suphavilai, IB Tan, ...
Cancer research 78 (1), 290-301, 2018
Gut microbiome and metabolome profiling in Framingham heart study reveals cholesterol-metabolizing bacteria
C Li, M Stražar, AMT Mohamed, JA Pacheco, RL Walker, T Lebar, S Zhao, ...
Cell 187 (8), 1834-1852. e19, 2024
Single-virion sequencing of lamivudine-treated HBV populations reveal population evolution dynamics and demographic history
YO Zhu, PPK Aw, PF de Sessions, S Hong, LX See, LZ Hong, A Wilm, ...
BMC genomics 18, 1-12, 2017
StrainPanDA: Linked reconstruction of strain composition and gene content profiles via pangenome‐based decomposition of metagenomic data
H Hu, Y Tan, C Li, J Chen, Y Kou, ZZ Xu, YY Liu, Y Tan, L Dai
iMeta 1 (3), e41, 2022
BEEM-Static: Accurate inference of ecological interactions from cross-sectional microbiome data
C Li, TV Av-Shalom, JWG Tan, JS Kwah, KR Chng, N Nagarajan
PLOS Computational Biology 17 (9), e1009343, 2021
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