Zongli Zheng

Publications
CV
Public outreach and news

Articles

Article: ISCIENCE. 2023;26(4):106302

Single-cell RNA sequencing reveals maturation trajectory in human pluripotent stem cell-derived cardiomyocytes in engineered tissues.

Cheng S; Brenière-Letuffe D; Ahola V; Wong AOT; Keung HY; Gurung B; Zheng Z; Costa KD; Lieu DK; Keung W; Li RA
Article: NATURE COMMUNICATIONS. 2022;13(1):2219

Machine learning-coupled combinatorial mutagenesis enables resource-efficient engineering of CRISPR-Cas9 genome editor activities.

Thean DGL; Chu HY; Fong JHC; Chan BKC; Zhou P; Kwok CCS; Chan YM; Mak SYL; Choi GCG; Ho JWK; Zheng Z; Wong ASL
Article: NUCLEIC ACIDS RESEARCH. 2022;50(3):1650-1660

High-fidelity KKH variant of Staphylococcus aureus Cas9 nucleases with improved base mismatch discrimination.

Yuen CTL; Thean DGL; Chan BKC; Zhou P; Kwok CCS; Chu HY; Cheung MSH; Wang B; Chan YM; Mak SYL; Leung AY; Choi GCG; Zheng Z; Wong ASL
Article: JOURNAL OF THORACIC ONCOLOGY. 2022;17(2):264-276

Deep RNA Sequencing Revealed Fusion Junctional Heterogeneity May Predict Crizotinib Treatment Efficacy in ALK-Rearranged NSCLC.

Song Z; Lian S; Mak S; Chow MZ-Y; Xu C; Wang W; Keung HY; Lu C; Kebede FT; Gao Y; Cheuk W; Cho WCS; Yang M; Zheng Z
Article: DIAGNOSTICS. 2021;11(9):1538

Efficacy of Loop-Mediated Isothermal Amplification for H. pylori Detection as Point-of-Care Testing by Noninvasive Sampling.

Sohrabi A; Franzen J; Tertipis N; Zagai U; Li W; Zheng Z; Ye W
Article: CELL REPORTS. 2020;32(6):108020

A Three-Way Combinatorial CRISPR Screen for Analyzing Interactions among Druggable Targets.

Zhou P; Chan BKC; Wan YK; Yuen CTL; Choi GCG; Li X; Tong CSW; Zhong SSW; Sun J; Bao Y; Mak SYL; Chow MZY; Khaw JV; Leung SY; Zheng Z; Cheung LWT; Tan K; Wong KH; Chan HYE; Wong ASL
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2019;116(42):20969-20976

Rationally engineered Staphylococcus aureus Cas9 nucleases with high genome-wide specificity.

Tan Y; Chu AHY; Bao S; Hoang DA; Kebede FT; Xiong W; Ji M; Shi J; Zheng Z
Article: NATURE METHODS. 2019;16(8):722-730

Combinatorial mutagenesis en masse optimizes the genome editing activities of SpCas9.

Choi GCG; Zhou P; Yuen CTL; Chan BKC; Xu F; Bao S; Chu HY; Thean D; Tan K; Wong KH; Zheng Z; Wong ASL
Article: CANCER DISCOVERY. 2018;8(3):336-353

Expressed Gene Fusions as Frequent Drivers of Poor Outcomes in Hormone Receptor-Positive Breast Cancer.

Matissek KJ; Onozato ML; Sun S; Zheng Z; Schultz A; Lee J; Patel K; Jerevall P-L; Saladi SV; Macleay A; Tavallai M; Badovinac-Crnjevic T; Barrios C; Beşe N; Chan A; Chavarri-Guerra Y; Debiasi M; Demirdögen E; Egeli Ü; Gökgöz S; Gomez H; Liedke P; Tasdelen I; Tolunay S; Werutsky G; St Louis J; Horick N; Finkelstein DM; Le LP; Bardia A; Goss PE; Sgroi DC; Iafrate AJ; Ellisen LW
Article: NATURE. 2017;547(7661):55-60

Recurrent and functional regulatory mutations in breast cancer.

Rheinbay E; Parasuraman P; Grimsby J; Tiao G; Engreitz JM; Kim J; Lawrence MS; Taylor-Weiner A; Rodriguez-Cuevas S; Rosenberg M; Hess J; Stewart C; Maruvka YE; Stojanov P; Cortes ML; Seepo S; Cibulskis C; Tracy A; Pugh TJ; Lee J; Zheng Z; Ellisen LW; Iafrate AJ; Boehm JS; Gabriel SB; Meyerson M; Golub TR; Baselga J; Hidalgo-Miranda A; Shioda T; Bernards A; Lander ES; Getz G
Article: WORLD JOURNAL OF SURGERY. 2016;40(5):1060-1067

Severity of Acute Cholecystitis and Risk of Iatrogenic Bile Duct Injury During Cholecystectomy, a Population-Based Case-Control Study.

Törnqvist B; Waage A; Zheng Z; Ye W; Nilsson M
Article: ONCOLOGIST. 2016;21(4):481-486

MET Exon 14 Skipping in Non-Small Cell Lung Cancer.

Heist RS; Shim HS; Gingipally S; Mino-Kenudson M; Le L; Gainor JF; Zheng Z; Aryee M; Xia J; Jia P; Jin H; Zhao Z; Pao W; Engelman JA; Iafrate AJ
Article: NATURE. 2016;529(7587):490-495

High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects.

Kleinstiver BP; Pattanayak V; Prew MS; Tsai SQ; Nguyen NT; Zheng Z; Joung JK
Article: GASTROINTESTINAL ENDOSCOPY. 2016;83(1):140-148

Impact of next-generation sequencing on the clinical diagnosis of pancreatic cysts.

Jones M; Zheng Z; Wang J; Dudley J; Albanese E; Kadayifci A; Dias-Santagata D; Le L; Brugge WR; Fernandez-del Castillo C; Mino-Kenudson M; Iafrate AJ; Pitman MB
Article: JOURNAL OF MOLECULAR DIAGNOSTICS. 2016;18(1):124-130

Next-Generation Sequencing and Fluorescence in Situ Hybridization Have Comparable Performance Characteristics in the Analysis of Pancreaticobiliary Brushings for Malignancy.

Dudley JC; Zheng Z; McDonald T; Le LP; Dias-Santagata D; Borger D; Batten J; Vernovsky K; Sweeney B; Arpin RN; Brugge WR; Forcione DG; Pitman MB; Iafrate AJ
Article: NATURE BIOTECHNOLOGY. 2015;33(12):1293-1298

Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition.

Kleinstiver BP; Prew MS; Tsai SQ; Nguyen NT; Topkar VV; Zheng Z; Joung JK
Article: JOURNAL OF THORACIC ONCOLOGY. 2015;10(12):1670-1674

Durable Clinical Response to Entrectinib in NTRK1-Rearranged Non-Small Cell Lung Cancer.

Farago AF; Le LP; Zheng Z; Muzikansky A; Drilon A; Patel M; Bauer TM; Liu SV; Ou S-HI; Jackman D; Costa DB; Multani PS; Li GG; Hornby Z; Chow-Maneval E; Luo D; Lim JE; Iafrate AJ; Shaw AT
Article: JOURNAL OF MOLECULAR DIAGNOSTICS. 2015;17(6):661-668

Detection of Dual IDH1 and IDH2 Mutations by Targeted Next-Generation Sequencing in Acute Myeloid Leukemia and Myelodysplastic Syndromes.

Platt MY; Fathi AT; Borger DR; Brunner AM; Hasserjian RP; Balaj L; Lum A; Yip S; Dias-Santagata D; Zheng Z; Le LP; Graubert TA; Iafrate AJ; Nardi V
Article: CLINICAL CHEMISTRY. 2015;61(11):1408-1416

Variant Profiling of Candidate Genes in Pancreatic Ductal Adenocarcinoma.

Huang J; Löhr J-M; Nilsson M; Segersvärd R; Matsson H; Verbeke C; Heuchel R; Kere J; Iafrate AJ; Zheng Z; Ye W
Article: JOURNAL OF THORACIC ONCOLOGY. 2015;10(8):1156-1162

Unique Genetic and Survival Characteristics of Invasive Mucinous Adenocarcinoma of the Lung.

Shim HS; Kenudson M; Zheng Z; Liebers M; Cha YJ; Hoang Ho Q; Onozato M; Phi Le L; Heist RS; Iafrate AJ
Article: BMJ-BRITISH MEDICAL JOURNAL. 2015;351:h3867

Incidence of gastric cancer among patients with gastric precancerous lesions: observational cohort study in a low risk Western population.

Song H; Ekheden IG; Zheng Z; Ericsson J; Nyrén O; Ye W
Article: NATURE. 2015;523(7561):481-485

Engineered CRISPR-Cas9 nucleases with altered PAM specificities.

Kleinstiver BP; Prew MS; Tsai SQ; Topkar VV; Nguyen NT; Zheng Z; Gonzales APW; Li Z; Peterson RT; Yeh J-RJ; Aryee MJ; Joung JK
Article: MODERN PATHOLOGY. 2015;28(4):552-563

High p53 protein expression in therapy-related myeloid neoplasms is associated with adverse karyotype and poor outcome.

Cleven AHG; Nardi V; Ok CY; Goswami M; Dal Cin P; Zheng Z; Iafrate AJ; Abdul Hamid MA; Wang SA; Hasserjian RP
Article: NATURE BIOTECHNOLOGY. 2015;33(2):187-197

GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases.

Tsai SQ; Zheng Z; Nguyen NT; Liebers M; Topkar VV; Thapar V; Wyvekens N; Khayter C; Iafrate AJ; Le LP; Aryee MJ; Joung JK
Article: NATURE MEDICINE. 2014;20(12):1479-1484

Anchored multiplex PCR for targeted next-generation sequencing.

Zheng Z; Liebers M; Zhelyazkova B; Cao Y; Panditi D; Lynch KD; Chen J; Robinson HE; Shim HS; Chmielecki J; Pao W; Engelman JA; Iafrate AJ; Le LP
Article: NEW ENGLAND JOURNAL OF MEDICINE. 2014;371(21):1963-1971

Crizotinib in ROS1-rearranged non-small-cell lung cancer.

Shaw AT; Ou S-HI; Bang Y-J; Camidge DR; Solomon BJ; Salgia R; Riely GJ; Varella-Garcia M; Shapiro GI; Costa DB; Doebele RC; Le LP; Zheng Z; Tan W; Stephenson P; Shreeve SM; Tye LM; Christensen JG; Wilner KD; Clark JW; Iafrate AJ
Article: JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM. 2014;99(11):E2457-E2462

Identification of oncogenic mutations and gene fusions in the follicular variant of papillary thyroid carcinoma.

McFadden DG; Dias-Santagata D; Sadow PM; Lynch KD; Lubitz C; Donovan SE; Zheng Z; Le L; Iafrate AJ; Daniels GH
Article: SCIENCE. 2014;345(6193):216-220

Cancer therapy. Ex vivo culture of circulating breast tumor cells for individualized testing of drug susceptibility.

Yu M; Bardia A; Aceto N; Bersani F; Madden MW; Donaldson MC; Desai R; Zhu H; Comaills V; Zheng Z; Wittner BS; Stojanov P; Brachtel E; Sgroi D; Kapur R; Shioda T; Ting DT; Ramaswamy S; Getz G; Iafrate AJ; Benes C; Toner M; Maheswaran S; Haber DA
Article: JOURNAL OF THORACIC ONCOLOGY. 2014;9(4):563-566

A novel fusion of TPR and ALK in lung adenocarcinoma.

Choi Y-L; Lira ME; Hong M; Kim RN; Choi S-J; Song J-Y; Pandy K; Mann DL; Stahl JA; Peckham HE; Zheng Z; Han J; Mao M; Kim J
Article: PLOS ONE. 2014;9(1):e86446

LIN28 is involved in glioma carcinogenesis and predicts outcomes of glioblastoma multiforme patients.

Qin R; Zhou J; Chen C; Xu T; Yan Y; Ma Y; Zheng Z; Shen Y; Lu Y; Fu D; Chen J
Article: MBIO. 2013;4(3):e00569-e00512

Metagenomic de novo assembly of an aquatic representative of the verrucomicrobial class Spartobacteria.

Herlemann DPR; Lundin D; Labrenz M; Jürgens K; Zheng Z; Aspeborg H; Andersson AF
Article: NATURE PROTOCOLS. 2011;6(9):1367-1376

Titration-free 454 sequencing using Y adapters.

Zheng Z; Advani A; Melefors Ö; Glavas S; Nordström H; Ye W; Engstrand L; Andersson AF
Article: ALIMENTARY PHARMACOLOGY & THERAPEUTICS. 2011;33(5):578-584

Hospitalisation of and mortality from bleeding peptic ulcer in Sweden: a nationwide time-trend analysis.

Ahsberg K; Ye W; Lu Y; Zheng Z; Staël von Holstein C
Article: PLOS ONE. 2011;6(10):e26442

A method for metagenomics of Helicobacter pylori from archived formalin-fixed gastric biopsies permitting longitudinal studies of carcinogenic risk.

Zheng Z; Andersson AF; Ye W; Nyrén O; Normark S; Engstrand L
Article: PLOS ONE. 2011;6(5):e19723

Rapid screening of complex DNA samples by single-molecule amplification and sequencing.

Huang J; Zheng Z; Andersson AF; Engstrand L; Ye W
Article: GASTROENTEROLOGY. 2010;139(6):1844-1854.e1

A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes.

Willing BP; Dicksved J; Halfvarson J; Andersson AF; Lucio M; Zheng Z; Järnerot G; Tysk C; Jansson JK; Engstrand L
Article: NUCLEIC ACIDS RESEARCH. 2010;38(13):e137

Titration-free massively parallel pyrosequencing using trace amounts of starting material.

Zheng Z; Advani A; Melefors O; Glavas S; Nordström H; Ye W; Engstrand L; Andersson AF
Article: CANCER CAUSES & CONTROL. 2010;21(2):313-321

A comprehensive analysis of common genetic variation in MUC1, MUC5AC, MUC6 genes and risk of stomach cancer.

Jia Y; Persson C; Hou L; Zheng Z; Yeager M; Lissowska J; Chanock SJ; Chow W-H; Ye W
Article: PLOS ONE. 2009;4(10):e7297

Is there a link between the lipopolysaccharide of Helicobacter pylori gastric MALT lymphoma associated strains and lymphoma pathogenesis?

Lehours P; Zheng Z; Skoglund A; Mégraud F; Engstrand L
Article: HELICOBACTER. 2009;14(5):120-125

Genetic variation in a4GnT in relation to Helicobacter pylori serology and gastric cancer risk.

Zheng Z; Jia Y; Hou L; Persson C; Yeager M; Lissowska J; Chanock SJ; Blaser M; Chow W-H; Ye W
Article: CLINICAL GASTROENTEROLOGY AND HEPATOLOGY. 2009;7(9):1013-1018

Long-term effects of iatrogenic bile duct injury during cholecystectomy.

Törnqvist B; Zheng Z; Ye W; Waage A; Nilsson M
Article: GASTROENTEROLOGY. 2008;135(1):72-81

Effects of estrogen with and without progestin and obesity on symptomatic gastroesophageal reflux.

Zheng Z; Margolis KL; Liu S; Tinker LF; Ye W; Women's Health Initiative Investigators
Article: GASTROENTEROLOGY. 2008;134(4):921-928

Postmenopausal hormone therapy as a risk factor for gastroesophageal reflux symptoms among female twins.

Nordenstedt H; Zheng Z; Cameron AJ; Ye W; Pedersen NL; Lagergren J
Article: GASTROENTEROLOGY. 2007;132(1):87-95

Lifestyle factors and risk for symptomatic gastroesophageal reflux in monozygotic twins.

Zheng Z; Nordenstedt H; Pedersen NL; Lagergren J; Ye W
Article: WORLD JOURNAL OF GASTROENTEROLOGY. 2005;11(12):1867-1871

Cytochrome p450 2E1 polymorphisms and the risk of gastric cardia cancer.

Cai L; Zheng Z-L; Zhang Z-F
Article: WORLD JOURNAL OF GASTROENTEROLOGY. 2003;9(2):214-218

Risk factors for the gastric cardia cancer: a case-control study in Fujian Province.

Cai L; Zheng Z-L; Zhang Z-F
Show more

All other publications

Letter: SIGNAL TRANSDUCTION AND TARGETED THERAPY. 2023;8(1):100

Mutation-independent gene knock-in therapy targeting 5'UTR for autosomal dominant retinitis pigmentosa.

Hoang DA; Liao B; Zheng Z; Xiong W
Editorial comment: JOURNAL OF THORACIC ONCOLOGY. 2021;16(3):344-348

Noncanonical Gene Fusions Detected at the DNA Level Necessitate Orthogonal Diagnosis Methods Before Targeted Therapy.

Song Z; Lu C; Xu C-W; Zheng Z
Letter: SIGNAL TRANSDUCTION AND TARGETED THERAPY. 2020;5(1):27

Cancer-associated histone mutation H2BG53D disrupts DNA-histone octamer interaction and promotes oncogenic phenotypes.

Wan YCE; Leung TCS; Ding D; Sun X; Liu J; Zhu L; Kang TZE; Yang D; Zhang Y; Zhang J; Qian C; Huen MSY; Li Q; Chow MZY; Zheng Z; Han J; Goel A; Wang X; Ishibashi T; Chan KM
Letter: ENDOCRINE-RELATED CANCER. 2015;22(6):L23-L28

Identification of insertions in PTEN and TP53 in anaplastic thyroid carcinoma with angiogenic brain metastasis.

Sadow PM; Dias-Santagata D; Zheng Z; Lin DT; Le LP; Nucera C
KI thesis / dissertation: 2011

Molecular epidemiologic studies on helicobacter pylori infection and stomach cancer risk

Zheng, Zongli

Employments

Affiliated to Research, Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, 2024-2027
Affiliated to Research, Department of Neuroscience, Karolinska Institutet, 2024-2026

Degrees and Education

Degree Of Doctor Of Philosophy, Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, 2011

Articles

All other publications

Employments

Degrees and Education

News from KI

Events from KI