Joe Qi, PhD
Professor
Laboratory Medicine
School of Medicine

Education & Training

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• Postdoctoral Studies Graduate Division University of California, San Francisco

Publications (39)

Top publication keywords:
Maternal Serum Screening TestsChorionic VilliChromosomesMyeloproliferative DisordersLeukemia, Myeloid, AcuteTranslocation, GeneticIn Situ Hybridization, FluorescenceMonosomyGenetics, MedicalChromosomes, Human, Pair 1HaploinsufficiencyDNA Copy Number VariationsChromosomes, Human, Pair 6Methylenetetrahydrofolate Reductase (NADPH2)Chromosome Deletion

• Cell-Type Specificity of Mosaic Chromosome 1q Gain Resolved by snRNA-seq in a Case of Epilepsy With Hyaline Protoplasmic Astrocytopathy.
  Neurology. Genetics 2024 Leng K, Cadwell CR, Devine WP, Tihan T, Qi Z, Singhal NS, Glenn OA, Kamiya S, Wiita AP, Berger AC, Shieh JT, Titus EW, Paredes MF, Upadhyay V
• Cell type specificity of mosaic chromosome 1q gain resolved by snRNA-seq in a case of epilepsy with hyaline protoplasmic astrocytopathy.
  bioRxiv : the preprint server for biology 2024 Leng K, Cadwell CR, Patrick Devine W, Tihan T, Qi Z, Singhal N, Glenn O, Kamiya S, Wiita A, Berger A, Shieh JT, Titus EW, Paredes MF, Upadhyay V
• Complex Genomic Rearrangements Involving ETV6::ABL1 Gene Fusion in an Individual with Myeloid Neoplasm.
  Genes 2023 Qi Z, Smith C, Shah NP, Yu J
• Editorial: Unravelling the basis of non-invasive prenatal screening results.
  Frontiers in genetics 2023 De Falco L, Pelo E, Qi Z, Novelli A
• Synthesis of positive plasmas with known chromosomal abnormalities for validation of non-invasive prenatal screening.
  Frontiers in genetics 2023 Qi Z, Yu J

Show all (34 more) Hide

• Genomic Features of Interstitial Deletions of Chromosome 9q in Acute Myeloid Leukemia.
  Cytogenetic and genome research 2022 Qi Z, Wen KW, Ki A, Prakash S, Kogan S, Yu J
• A genetically distinct pediatric subtype of primary CNS large B-cell lymphoma is associated with favorable clinical outcome.
  Blood advances 2022 Güney E, Lucas CG, Qi Z, Yu J, Zhang R, Ohgami RS, Rubenstein JL, Boué DR, Schafernak K, Wertheim GB, Dahiya S, Giulino-Roth L, Attarbaschi A, Barth MJ, Kothari S, Abla O, Cohen AL, Mendez JS, Bollen …
• Distinct pathologic feature of myeloid neoplasm with t(v;11p15); NUP98 rearrangement.
  Human pathology 2022 Lauw MIS, Qi Z, Eversmeyer L, Prakash S, Wen KW, Yu J, Monaghan SA, Aggarwal N, Wang L
• Publisher Correction: Application of full-genome analysis to diagnose rare monogenic disorders.
  NPJ genomic medicine 2021 Shieh JT, Penon-Portmann M, Wong KHY, Levy-Sakin M, Verghese M, Slavotinek A, Gallagher RC, Mendelsohn BA, Tenney J, Beleford D, Perry H, Chow SK, Sharo AG, Brenner SE, Qi Z, Yu J, Klein OD, Martin D,…
• Application of full-genome analysis to diagnose rare monogenic disorders.
  NPJ genomic medicine 2021 Shieh JT, Penon-Portmann M, Wong KHY, Levy-Sakin M, Verghese M, Slavotinek A, Gallagher RC, Mendelsohn BA, Tenney J, Beleford D, Perry H, Chow SK, Sharo AG, Brenner SE, Qi Z, Yu J, Klein OD, Martin D,…
• Detection of cryptogenic malignancies from metagenomic whole genome sequencing of body fluids.
  Genome medicine 2021 Gu W, Talevich E, Hsu E, Qi Z, Urisman A, Federman S, Gopez A, Arevalo S, Gottschall M, Liao L, Tung J, Chen L, Lim H, Ho C, Kasowski M, Oak J, Holmes BJ, Yeh I, Yu J, Wang L, Miller S, DeRisi JL, …
• [Experience and lessons on guiding and governing clinical applications of chromosome microarray analysis in the United States].
  Zhonghua yi xue yi chuan xue za zhi = Zhonghua yixue yichuanxue zazhi = Chinese journal of medical genetics 2021 Xie X, Yu J, Qi Z, Bao L, Shen Y, Chen T, Li P
• Genomic analysis in myeloid sarcoma and comparison with paired acute myeloid leukemia.
  Human pathology 2020 Greenland NY, Van Ziffle JA, Liu YC, Qi Z, Prakash S, Wang L
• Gross morphologic appearance of chorionic villi and the risk of chromosomal abnormalities.
  Reproductive sciences (Thousand Oaks, Calif.) 2020 Sobhani NC, Cassidy AG, Qi Z, Yu J, Chetty S, Norton ME
• Acute myeloid leukemia with inv(16)(p13.1q22) and deletion of the 5'MYH11/3'CBFB gene fusion: a report of two cases and literature review.
  Molecular cytogenetics 2020 Lv L, Yu J, Qi Z
• [Introduction of the American Board of Medical Genetics and Genomics (ABMGG) Certification Exams and maintenance of certification].
  Zhonghua yi xue yi chuan xue za zhi = Zhonghua yixue yichuanxue zazhi = Chinese journal of medical genetics 2019 Qi Z, Xiang B, Tsai AC, Yu J
• Investigating human placentation and pregnancy using first trimester chorionic villi.
  Placenta 2018 Hannibal RL, Cardoso-Moreira M, Chetty SP, Lau J, Qi Z, Gonzalez-Maldonado E, Cherry AM, Yu J, Norton ME, Baker JC
• Acute myeloid leukemia with t(14;21) involving RUNX1 and SYNE2: A novel favorable-risk translocation?
  Cancer genetics 2017 Foley N, Van Ziffle J, Yu J, Qi Z, Grenert JP, Yeh I, Bastian B, Kogan S, Mannis GN
• False negative fetal cell free DNA screening for microdeletion syndromes in the presence of an unbalanced translocation involving monosomy 4p.
  Prenatal diagnosis 2017 Qi Z, Madaan S, Chetty S, Yu J, Wiita AP
• The human chorion contains definitive hematopoietic stem cells from the fifteenth week of gestation.
  Development (Cambridge, England) 2017 Muench MO, Kapidzic M, Gormley M, Gutierrez AG, Ponder KL, Fomin ME, Beyer AI, Stolp H, Qi Z, Fisher SJ, Bárcena A
• False positive cell free DNA screening for microdeletions due to non-pathogenic copy number variants.
  Prenatal diagnosis 2016 Mather CA, Qi Z, Wiita AP
• YAP Induces Human Naive Pluripotency.
  Cell reports 2016 Qin H, Hejna M, Liu Y, Percharde M, Wossidlo M, Blouin L, Durruthy-Durruthy J, Wong P, Qi Z, Yu J, Qi LS, Sebastiano V, Song JS, Ramalho-Santos M
• TALENs Facilitate Single-step Seamless SDF Correction of F508del CFTR in Airway Epithelial Submucosal Gland Cell-derived CF-iPSCs.
  Molecular therapy. Nucleic acids 2016 Suzuki S, Sargent RG, Illek B, Fischer H, Esmaeili-Shandiz A, Yezzi MJ, Lee A, Yang Y, Kim S, Renz P, Qi Z, Yu J, Muench MO, Beyer AI, Guimarães AO, Ye L, Chang J, Fine EJ, Cradick TJ, Bao G, Rahdar M…
• Trisomy Xp and partial tetrasomy Xq resulting from gain of a rearranged X chromosome in a female fetus: pathogenic or not?
  Molecular cytogenetics 2015 Yiu M, Qi Z, Ki A, Yu J
• Haploinsufficiency and triploinsensitivity of the same 6p25.1p24.3 region in a family.
  BMC medical genomics 2015 Qi Z, Jeng LJ, Slavotinek A, Yu J
• BCL6 expression correlates with the t(1;19) translocation in B-lymphoblastic leukemia.
  American journal of clinical pathology 2015 Deucher AM, Qi Z, Yu J, George TI, Etzell JE
• Self-enforcing feedback activation between BCL6 and pre-B cell receptor signaling defines a distinct subtype of acute lymphoblastic leukemia.
  Cancer cell 2015 Geng H, Hurtz C, Lenz KB, Chen Z, Baumjohann D, Thompson S, Goloviznina NA, Chen WY, Huan J, LaTocha D, Ballabio E, Xiao G, Lee JW, Deucher A, Qi Z, Park E, Huang C, Nahar R, Kweon SM, Shojaee S, Chan…
• Seamless modification of wild-type induced pluripotent stem cells to the natural CCR5Δ32 mutation confers resistance to HIV infection.
  Proceedings of the National Academy of Sciences of the United States of America 2014 Ye L, Wang J, Beyer AI, Teque F, Cradick TJ, Qi Z, Chang JC, Bao G, Muench MO, Yu J, Levy JA, Kan YW
• Ago1 Interacts with RNA polymerase II and binds to the promoters of actively transcribed genes in human cancer cells.
  PLoS genetics 2013 Huang V, Zheng J, Qi Z, Wang J, Place RF, Yu J, Li H, Li LC
• Blood cell-derived induced pluripotent stem cells free of reprogramming factors generated by Sendai viral vectors.
  Stem cells translational medicine 2013 Ye L, Muench MO, Fusaki N, Beyer AI, Wang J, Qi Z, Yu J, Kan YW
• Transcriptional analysis of pluripotency reveals the Hippo pathway as a barrier to reprogramming.
  Human molecular genetics 2012 Qin H, Blaschke K, Wei G, Ohi Y, Blouin L, Qi Z, Yu J, Yeh RF, Hebrok M, Ramalho-Santos M
• Endothelial lipase mediates HDL levels in normal and hyperlipidemic rabbits.
  Journal of atherosclerosis and thrombosis 2012 Zhang J, Yu Y, Nakamura K, Koike T, Waqar AB, Zhang X, Liu E, Nishijima K, Kitajima S, Shiomi M, Qi Z, Yu J, Graham MJ, Crooke RM, Ishida T, Hirata K, Hurt-Camejo E, Chen YE, Fan J
• Upregulation of Cyclin B1 by miRNA and its implications in cancer.
  Nucleic acids research 2011 Huang V, Place RF, Portnoy V, Wang J, Qi Z, Jia Z, Yu A, Shuman M, Yu J, Li LC
• Transgenic expression of entire hepatitis B virus in mice induces hepatocarcinogenesis independent of chronic liver injury.
  PloS one 2011 Na B, Huang Z, Wang Q, Qi Z, Tian Y, Lu CC, Yu J, Hanes MA, Kakar S, Huang EJ, Ou JH, Liu L, Yen TS
• Presence of complex t(6;9;22;15) four-way chromosome rearrangement plus rare t(1;6) translocation with favorable response to imatinib therapy in chronic myelogenous leukemia.
  Leukemia & lymphoma 2011 Lu CM, Zhou L, Feng S, Kohn PH, Qi Z, Yu J
• Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells.
  Nature cell biology 2011 Ohi Y, Qin H, Hong C, Blouin L, Polo JM, Guo T, Qi Z, Downey SL, Manos PD, Rossi DJ, Yu J, Hebrok M, Hochedlinger K, Costello JF, Song JS, Ramalho-Santos M
• Generation of induced pluripotent stem cells using site-specific integration with phage integrase.
  Proceedings of the National Academy of Sciences of the United States of America 2010 Ye L, Chang JC, Lin C, Qi Z, Yu J, Kan YW
• Methylation-mediated downregulation of the B-cell translocation gene 3 (BTG3) in breast cancer cells.
  Gene expression 2008 Yu J, Zhang Y, Qi Z, Kurtycz D, Vacano G, Patterson D
• Prevalence of the C677T substitution of the methylenetetrahydrofolate reductase (MTHFR) gene in Wisconsin.
  Genetics in medicine : official journal of the American College of Medical Genetics 2003 Qi Z, Hoffman G, Kurtycz D, Yu J