Publications

2022 Nature Genetics

Single-cell genome sequencing of human neurons identifies somatic point mutation and indel enrichment in regulatory elements

Luquette LJ, Miller M, Zhou Z, Bohrson C, Zhao Y, Jin H, Gulhan D, Ganz J, Bizzotto S, Kirkham S, Hochepied T, Libert C, Galor A, Kim J, Lodato M, Garaycoechea J, Gawad C, West J, Walsh C, Park P

2022 Science Advances

Simultaneous monitoring of disease and microbe dynamics through plasma DNA sequencing in pediatric patients with acute lymphoblastic leukemia

Barsan V, Xia Y, Klein D, Gonzalez-Pena V, Youssef S, Inaba Y, Mahmud O, Natarajan S, Agarwal V, Pang Y, Autry R, Pui CH, Inaba H, Evans W, Gawad C.

2021 Clinical & Experimental Metastasis

Bringing precision oncology to cellular resolution with single-cell genomics

Xia Y, Gawad C,

2021 Proceedings of the National Academy of Sciences of the United States of America

Accurate genomic variant detection in single cells with primary template-directed amplification

Gonzalez-Pena V, Natarajan S, Xia Y, Klein D, Carter R, Pang Y, Shaner B, Annu K, Putnam D, Chen W, Connelly J, Pruett-Miller S, Chen X, Easton J, Gawad C,

2020 JAMA Oncology

Evaluation of Plasma Microbial Cell-Free DNA Sequencing to Predict Bloodstream Infection in Pediatric Patients With Relapsed or Refractory Cancer

Goggin KP, Gonzalez-Pena V, Inaba Y, Allison KJ, Hong DK, Ahmed AA, Hollemon D, Natarajan S, Mahmud O, Kuenzinger W, Youssef S, Brenner A, Maron G, Choi J, Rubnitz JE, Sun Y, Tang L, Wolf J, Gawad C,

2020 Nature Cancer

Integrative genomic analyses reveal mechanisms of glucocorticoid resistance in acute lymphoblastic leukemia

Autry RJ, Paugh SW, Carter R, Shi L, Liu J, Ferguson DC, Lau CE, Bonten EJ, Yang W, McCorkle JR, Beard JA, Panetta JC, Diedrich JD, Crews KR, Pei D, Coke CJ, Natarajan S, Khatamian A, Karol SE, Lopez-Lopez E, Diouf B, Smith C, Gocho Y, Hagiwara K, Roberts KG, Pounds S, Kornblau SM, Stock W, Paietta EM, Litzow MR, Inaba H, Mullighan CG, Jeha S, Pui CH, Cheng C, Savic D, Yu J, Gawad C, Relling MV, Yang JJ, Evans WE,

2019 Nature

Resolving medulloblastoma cellular architecture by single-cell genomics

Hovestadt V, Smith KS, Bihannic L, Filbin MG, Shaw ML, Baumgartner A, DeWitt JC, Groves A, Mayr L, Weisman HR, Richman AR, Shore ME, Goumnerova L, Rosencrance C, Carter RA, Phoenix TN, Hadley JL, Tong Y, Houston J, Ashmun RA, DeCuypere M, Sharma T, Flasch D, Silkov A, Ligon KL, Pomeroy SL, Rivera MN, Rozenblatt-Rosen O, Rusert JM, Wechsler-Reya RJ, Li XN, Peyrl A, Gojo J, Kirchhofer D, Lötsch D, Czech T, Dorfer C, Haberler C, Geyeregger R, Halfmann A, Gawad C, Easton J, Pfister SM, Regev A, Gajjar A, Orr BA, Slavc I, Robinson GW, Bernstein BE, Suvà ML, Northcott PA,

2019 BMC Medical Genomics

Single-cell RNA sequencing reveals the impact of chromosomal instability on glioblastoma cancer stem cells

Zhao Y, Carter R, Natarajan S, Varn FS, Compton DA, Gawad C, Cheng C, Godek KM,

2019 Methods in Molecular Biology (Clifton, N.J.)

Sequencing the Genomes of Single Cells

Gonzalez-Pena V, Gawad C,

2018 Nature Communications

Murine hematopoietic stem cell activity is derived from pre-circulation embryos but not yolk sacs

Ganuza M, Chabot A, Tang X, Bi W, Natarajan S, Carter R, Gawad C, Kang G, Cheng Y, McKinney-Freeman S,

2018 Cell

LC3-Associated Phagocytosis in Myeloid Cells Promotes Tumor Immune Tolerance

Cunha LD, Yang M, Carter R, Guy C, Harris L, Crawford JC, Quarato G, Boada-Romero E, Kalkavan H, Johnson MDL, Natarajan S, Turnis ME, Finkelstein D, Opferman JT, Gawad C, Green DR,

2018 Current Biology

A Single-Cell Transcriptional Atlas of the Developing Murine Cerebellum

Carter RA, Bihannic L, Rosencrance C, Hadley JL, Tong Y, Phoenix TN, Natarajan S, Easton J, Northcott PA, Gawad C,

2018 PLoS Genetics

High-resolution transcriptional dissection of in vivo Atoh1-mediated hair cell conversion in mature cochleae identifies Isl1 as a co-reprogramming factor

Yamashita T, Zheng F, Finkelstein D, Kellard Z, Carter R, Rosencrance CD, Sugino K, Easton J, Gawad C, Zuo J,

2018 Blood

Measurable residual disease detection by high-throughput sequencing improves risk stratification for pediatric B-ALL

Wood B, Wu D, Crossley B, Dai Y, Williamson D, Gawad C, Borowitz MJ, Devidas M, Maloney KW, Larsen E, Winick N, Raetz E, Carroll WL, Hunger SP, Loh ML, Robins H, Kirsch I,

2018 Nature

Pan-cancer genome and transcriptome analyses of 1,699 paediatric leukaemias and solid tumours

Ma X, Liu Y, Liu Y, Alexandrov LB, Edmonson MN, Gawad C, Zhou X, Li Y, Rusch MC, Easton J, Huether R, Gonzalez-Pena V, Wilkinson MR, Hermida LC, Davis S, Sioson E, Pounds S, Cao X, Ries RE, Wang Z, Chen X, Dong L, Diskin SJ, Smith MA, Guidry Auvil JM, Meltzer PS, Lau CC, Perlman EJ, Maris JM, Meshinchi S, Hunger SP, Gerhard DS, Zhang J,

2017 BMC Genomics

Genome-wide segregation of single nucleotide and structural variants into single cancer cells

Easton J, Gonzalez-Pena V, Yergeau D, Ma X, Gawad C,

2016 PloS One

Dynamic ASXL1 Exon Skipping and Alternative Circular Splicing in Single Human Cells

Koh W, Gonzalez V, Natarajan S, Carter R, Brown PO, Gawad C,

2016 Proceedings of the National Academy of Sciences of the United States of America

Early somatic mosaicism is a rare cause of long-QT syndrome

Priest JR, Gawad C, Kahlig KM, Yu JK, O'Hara T, Boyle PM, Rajamani S, Clark MJ, Garcia ST, Ceresnak S, Harris J, Boyle S, Dewey FE, Malloy-Walton L, Dunn K, Grove M, Perez MV, Neff NF, Chen R, Maeda K, Dubin A, Belardinelli L, West J, Antolik C, Macaya D, Quertermous T, Trayanova NA, Quake SR, Ashley EA,

2016 Nature Reviews Genetics

Single-cell genome sequencing: current state of the science

Gawad C, Koh W, Quake SR,

2014 Proceedings of the National Academy of Sciences of the United States of America

Dissecting the clonal origins of childhood acute lymphoblastic leukemia by single-cell genomics

Gawad C, Koh W, Quake SR,

2014 PloS One

A quantitative comparison of single-cell whole genome amplification methods

de Bourcy CF, De Vlaminck I, Kanbar JN, Wang J, Gawad C, Quake SR,

2014 Proceedings of the National Academy of Sciences of the United States of America

Noninvasive in vivo monitoring of tissue-specific global gene expression in humans

Koh W, Pan W, Gawad C, Fan HC, Kerchner GA, Wyss-Coray T, Blumenfeld YJ, El-Sayed YY, Quake SR,

2012 Blood

Massive evolution of the immunoglobulin heavy chain locus in children with B precursor acute lymphoblastic leukemia

Gawad C, Pepin F, Carlton VE, Klinger M, Logan AC, Miklos DB, Faham M, Dahl G, Lacayo N,

2012 PloS One

Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types

Salzman J, Gawad C, Wang PL, Lacayo N, Brown PO,

2005 American Journal of Pharmacogenomics

Towards molecular medicine: a case for a biological periodic table

Gawad C,

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