Reset

Ryu J, Barkal S, Yu T, Jankowiak M, Zhou Y, Francoeur M, Phan QV, Li Z, Tognon M, Brown L, Love MI, Lettre G, Ascher DB, Cassa CA, Sherwood RI, Pinello L

Joint genotypic and phenotypic outcome modeling improves base editing variant effect quantification.
medRxiv. 2023;:ePub - PMID: 37732177 - PMCID: PMC10508837 - DOI: 10.1101/2023.09.08.23295253

Da Silveira Cavalcante L, Lopera Higuita M, González-Rosa JM, Marques B, To S, Pendexter CA, Cronin SEJ, Gopinathan K, de Vries RJ, Ellett F, Uygun K, Langenau DM, Toner M, Tessier SN

Zebrafish as a high throughput model for organ preservation and transplantation research.
FASEB J. 2023;37(10):e23187 - PMID: 37718489 - PMCID: PMC10754348 - DOI: 10.1096/fj.202300076R

Park JS, Gazzaniga FS, Kasper DL, Sharpe AH

Microbiota-dependent regulation of costimulatory and coinhibitory pathways via innate immune sensors and implications for immunotherapy.
Exp Mol Med. 2023;55(9):1913-1921 - PMID: 37696895 - PMCID: PMC10545783 - DOI: 10.1038/s12276-023-01075-0

Nair V, Fishbein GA, Padera R, Seidman MA, Castonguay M, Leduc C, Tan CD, Rodriguez ER, Maleszewski JJ, Miller D, Romero M, Lomasney J, d'Amati G, De Gaspari M, Rizzo S, Angelini A, Basso C, Litovsky S, Buja LM, Stone JR, Veinot JP

Consensus Statement on the Processing, Interpretation and Reporting of Temporal Artery Biopsy for Arteritis.
Cardiovasc Pathol. 2023;67:107574 - PMID: 37683739 - DOI: 10.1016/j.carpath.2023.107574

Stone JR

The Winding Path Toward Understanding Clinically Isolated Aortitis.
J Am Coll Cardiol. 2023;82(11):1065-1067 - PMID: 37673507 - DOI: 10.1016/j.jacc.2023.07.005

Garcia-Sayan E, Lee M, Stone JR, Stone DM, Smulevitz B, McPherson DD, Fisher-Hoch SP, McCormick JB, Laing ST

Endothelial Dysfunction and Cardiometabolic Risk Factors in Mexican American Adults: The Cameron County Hispanic Cohort.
Am J Cardiol. 2023;205:75-83 - PMID: 37595411 - DOI: 10.1016/j.amjcard.2023.07.165

Wang L, Trasanidis N, Wu T, Dong G, Hu M, Bauer DE, Pinello L

Dictys: dynamic gene regulatory network dissects developmental continuum with single-cell multiomics.
Nat Methods. 2023;20(9):1368-1378 - PMID: 37537351 - DOI: 10.1038/s41592-023-01971-3

Dagogo-Jack I, Manoogian A, Jessop N, Georgantas NZ, Fintelmann FJ, Farahani A, Digumarthy SR, Price MC, Folch EE, Keyes CM, Do A, Peterson JL, Mino-Kenudson M, Pitman M, Rivera M, Nardi V, Dias-Santagata D, Le LP, Iafrate AJ, Heist RS, Ritterhouse LR, Lennerz JK

Integrated Radiology, Pathology, and Pharmacy Program to Accelerate Access to Osimertinib.
JCO Oncol Pract. 2023;19(9):786-792 - PMID: 37437226 - PMCID: PMC10538938 - DOI: 10.1200/OP.23.00031

Chen Z, Javed N, Moore M, Wu J, Sun G, Vinyard M, Collins A, Pinello L, Najm FJ, Bernstein BE

Integrative dissection of gene regulatory elements at base resolution.
Cell Genom. 2023;3(6):100318 - PMID: 37388913 - PMCID: PMC10300548 - DOI: 10.1016/j.xgen.2023.100318

Song X, Zhang H, Zhang Y, Goh B, Bao B, Mello SS, Sun X, Zheng W, Gazzaniga FS, Wu M, Qu F, Yin Q, Gilmore MS, Oh SF, Kasper DL

Gut microbial fatty acid isomerization modulates intraepithelial T cells.
Nature. 2023;619(7971):837-843 - PMID: 37380774 - DOI: 10.1038/s41586-023-06265-4

Staedtke V, Topilko P, Le LQ, Grimes K, Largaespada DA, Cagan RL, Steensma MR, Stemmer-Rachamimov A, Blakeley JO, Rhodes SD, Ly I, Romo CG, Lee SY, Serra E

Existing and Developing Preclinical Models for Neurofibromatosis Type 1-Related Cutaneous Neurofibromas.
J Invest Dermatol. 2023;143(8):1378-1387 - PMID: 37330719 - PMCID: PMC11246562 - DOI: 10.1016/j.jid.2023.01.042

Zeng J, Nguyen MA, Liu P, Ferreira da Silva L, Lin LY, Justus DG, Petri K, Clement K, Porter SN, Verma A, Neri NR, Rosanwo T, Ciuculescu MF, Abriss D, Mintzer E, Maitland SA, Demirci S, Tisdale JF, Williams DA, Zhu LJ, Pruett-Miller SM, Pinello L, Joung JK, Pattanayak V, Manis JP, Armant M, Pellin D, Brendel C, Wolfe SA, Bauer DE

Gene editing without ex vivo culture evades genotoxicity in human hematopoietic stem cells.
bioRxiv. 2023;:ePub - PMID: 37292647 - PMCID: PMC10245949 - DOI: 10.1101/2023.05.27.542323

Park JS, Gazzaniga FS, Wu M, Luthens AK, Gillis J, Zheng W, LaFleur MW, Johnson SB, Morad G, Park EM, Zhou Y, Watowich SS, Wargo JA, Freeman GJ, Kasper DL, Sharpe AH

Publisher Correction: Targeting PD-L2-RGMb overcomes microbiome-related immunotherapy resistance.
Nature. 2023;618(7966):E27 - PMID: 37264079 - PMCID: PMC12025598 - DOI: 10.1038/s41586-023-06237-8

Chen H, Ryu J, Vinyard ME, Lerer A, Pinello L

SIMBA: single-cell embedding along with features.
Nat Methods. 2023;21(6):1003-1013 - PMID: 37248389 - PMCID: PMC11166568 - DOI: 10.1038/s41592-023-01899-8

Rubio K, Romero-Olmedo AJ, Sarvari P, Swaminathan G, Ranvir VP, Rogel-Ayala DG, Cordero J, Gunther S, Mehta A, Bassaly B, Braubach P, Wygrecka M, Gattenlahner S, Tresch A, Braun T, Dobreva G, Rivera MN, Singh I, Graumann J, Barreto G

Non-canonical integrin signaling activates EGFR and RAS-MAPK-ERK signaling in small cell lung cancer.
Theranostics. 2023;13(8):2384-2407 - PMID: 37215577 - PMCID: PMC10196829 - DOI: 10.7150/thno.79493

Jordan JT, Orr CC, Thalheimer RD, Cambillo JV, Beauchamp RL, Shaikh G, Muzikansky A, Stemmer-Rachamimov A, Giovannini M, Kalamarides M, Barker FG, Ramesh V, Plotkin SR

Prospective phase II trial of the dual mTORC1/2 inhibitor vistusertib for progressive or symptomatic meningiomas in persons with neurofibromatosis 2.
Neurooncol Adv. 2023;5(1):vdad041 - PMID: 37215956 - PMCID: PMC10195194 - DOI: 10.1093/noajnl/vdad041

Weichert-Leahey N, Shi H, Tao T, Oldridge DA, Durbin AD, Abraham BJ, Zimmerman MW, Zhu S, Wood AC, Reyon D, Joung JK, Young RA, Diskin SJ, Maris JM, Look AT

Genetic predisposition to neuroblastoma results from a regulatory polymorphism that promotes the adrenergic cell state.
J Clin Invest. 2023;133(10):ePub - PMID: 37183825 - PMCID: PMC10178836 - DOI: 10.1172/JCI166919

Brett JO, Dubash TD, Johnson GN, Niemierko A, Mariotti V, Kim LSL, Xi J, Pandey A, Dunne S, Nasrazadani A, Lloyd MR, Kambadakone A, Spring LM, Micalizzi DS, Onozato ML, Che D, Nayar U, Brufsky A, Kalinsky K, Ma CX, O'Shaughnessy J, Han HS, Iafrate AJ, Ryan LY, Juric D, Moy B, Ellisen LW, Maheswaran S, Wagle N, Haber DA, Bardia A, Wander SA

A Gene Panel Associated With Abemaciclib Utility in ESR1-Mutated Breast Cancer After Prior Cyclin-Dependent Kinase 4/6-Inhibitor Progression.
JCO Precis Oncol. 2023;7:e2200532 - PMID: 37141550 - PMCID: PMC10530719 - DOI: 10.1200/PO.22.00532

Park JS, Gazzaniga FS, Wu M, Luthens AK, Gillis J, Zheng W, LaFleur MW, Johnson SB, Morad G, Park EM, Zhou Y, Watowich SS, Wargo JA, Freeman GJ, Kasper DL, Sharpe AH

Targeting PD-L2-RGMb overcomes microbiome-related immunotherapy resistance.
Nature. 2023;617(7960):377-385 - PMID: 37138075 - PMCID: PMC10219577 - DOI: 10.1038/s41586-023-06026-3

Tognon M, Giugno R, Pinello L

A survey on algorithms to characterize transcription factor binding sites.
Brief Bioinform. 2023;24(3):ePub - PMID: 37099664 - PMCID: PMC10422928 - DOI: 10.1093/bib/bbad156

Jung DJ, Gebremedhin L, Goh B, Yoo JS, Gazzaniga F, Kasper DL, Oh SF

Kinetic and mechanistic diversity of intestinal immune homeostasis characterized by rapid removal of gut bacteria.
Gut Microbes. 2023;15(1):2201154 - PMID: 37069732 - PMCID: PMC10116915 - DOI: 10.1080/19490976.2023.2201154

Bommakanti K, Seist R, Kukutla P, Cetinbas M, Batts S, Sadreyev RI, Stemmer-Rachamimov A, Brenner GJ, Stankovic KM

Comparative Transcriptomic Analysis of Archival Human Vestibular Schwannoma Tissue from Patients with and without Tinnitus.
J Clin Med. 2023;12(7):ePub - PMID: 37048724 - PMCID: PMC10095534 - DOI: 10.3390/jcm12072642

Neumann KD, Seshadri V, Thompson XD, Broshek DK, Druzgal J, Massey JC, Newman B, Reyes J, Simpson SR, McCauley KS, Patrie J, Stone JR, Kundu BK, Resch JE

Microglial activation persists beyond clinical recovery following sport concussion in collegiate athletes.
Front Neurol. 2023;14:1127708 - PMID: 37034078 - PMCID: PMC10080132 - DOI: 10.3389/fneur.2023.1127708

Xing YH, Dong R, Lee L, Rengarajan S, Riggi N, Boulay G, Rivera MN

DisP-seq reveals the genome-wide functional organization of DNA-associated disordered proteins.
Nat Biotechnol. 2023;42(1):52-64 - PMID: 37037903 - PMCID: PMC10791585 - DOI: 10.1038/s41587-023-01737-4

Pirruccello JP, Rämö JT, Choi SH, Chaffin MD, Kany S, Nekoui M, Chou EL, Jurgens SJ, Friedman SF, Juric D, Stone JR, Batra P, Ng K, Philippakis AA, Lindsay ME, Ellinor PT

The Genetic Determinants of Aortic Distention.
J Am Coll Cardiol. 2023;81(14):1320-1335 - PMID: 37019578 - PMCID: PMC11246604 - DOI: 10.1016/j.jacc.2023.01.044

Tieger M, Das Adhikari U, Mukai S, Farcasnu M, Stone JR, Eliott D, Kim LA, Kwon DS, Rossin EJ

SARS-CoV-2 RNA Detected in Vitreous Samples Obtained at Autopsy.
J Vitreoretin Dis. 2022;6(3):183-187 - PMID: 37008551 - PMCID: PMC9976118 - DOI: 10.1177/24741264221083408

Sanalkumar R, Dong R, Lee L, Xing YH, Iyer S, Letovanec I, La Rosa S, Finzi G, Musolino E, Papait R, Chebib I, Nielsen GP, Renella R, Cote GM, Choy E, Aryee M, Stegmaier K, Stamenkovic I, Rivera MN, Riggi N

Highly connected 3D chromatin networks established by an oncogenic fusion protein shape tumor cell identity.
Sci Adv. 2023;9(13):eabo3789 - PMID: 37000878 - PMCID: PMC10718307 - DOI: 10.1126/sciadv.abo3789

Sreekanth V, Jan M, Zhao KT, Lim D, Davis JR, McConkey M, Kovalcik V, Barkal S, Law BK, Fife J, Tian R, Vinyard ME, Becerra B, Kampmann ME, Sherwood RI, Pinello L, Liu DR, Ebert BL, Choudhary A

A molecular glue approach to control the half-life of CRISPR-based technologies.
bioRxiv. 2023;:ePub - PMID: 36945568 - PMCID: PMC10028966 - DOI: 10.1101/2023.03.12.531757

Vandergrift LA, Wang N, Zhu M, Li B, Chen S, Habbel P, Nowak J, Mason R, Grant A, Wang Y, Malloy C, Cheng LL

13 C NMR Quantification of Polyamine Syntheses in Rat Prostate.
NMR Biomed. 2023;36(8):e4931 - PMID: 36939957 - DOI: 10.1002/nbm.4931

Weichert-Leahey N, Shi H, Tao T, Oldridge DA, Durbin AD, Abraham BJ, Zimmerman MW, Zhu S, Wood AC, Reyon D, Joung JK, Young RA, Diskin SJ, Maris JM, Look AT

Genetic Predisposition to Neuroblastoma Results from a Regulatory Polymorphism that Promotes the Adrenergic Cell State.
bioRxiv. 2023;:ePub - PMID: 36909587 - PMCID: PMC10002714 - DOI: 10.1101/2023.02.28.530457

Clement K, Hsu JY, Canver MC, Joung JK, Pinello L

Technologies and Computational Analysis Strategies for CRISPR Applications.
Mol Cell. 2020;79(1):11-29 - PMID: 32619467 - PMCID: PMC7497852 - DOI: 10.1016/j.molcel.2020.06.012

Yan C, Do D, Yang Q, Brunson DC, Rawls JF, Langenau DM

Single-cell imaging of human cancer xenografts using adult immunodeficient zebrafish.
Nat Protoc. 2020;15(9):3105-3128 - PMID: 32826993 - PMCID: PMC8097243 - DOI: 10.1038/s41596-020-0372-y

Massoth LR, Desai N, Szabolcs A, Harris CK, Neyaz A, Crotty R, Chebib I, Rivera MN, Sholl LM, Stone JR, Ting DT, Deshpande V

Comparison of RNA In Situ Hybridization and Immunohistochemistry Techniques for the Detection and Localization of SARS-CoV-2 in Human Tissues.
Am J Surg Pathol. 2021;45(1):14-24 - PMID: 32826529 - DOI: 10.1097/PAS.0000000000001563

Lin JJ, Langenbucher A, Gupta P, Yoda S, Fetter IJ, Rooney M, Do A, Kem M, Chang KP, Oh AY, Chin E, Juric D, Corcoran RB, Dagogo-Jack I, Gainor JF, Stone JR, Lennerz JK, Lawrence MS, Hata AN, Mino-Kenudson M, Shaw AT

Small cell transformation of ROS1 fusion-positive lung cancer resistant to ROS1 inhibition.
NPJ Precis Oncol. 2020;4:21 - PMID: 32802958 - PMCID: PMC7400592 - DOI: 10.1038/s41698-020-0127-9

Desai N, Neyaz A, Szabolcs A, Shih AR, Chen JH, Thapar V, Nieman LT, Solovyov A, Mehta A, Lieb DJ, Kulkarni AS, Jaicks C, Pinto CJ, Juric D, Chebib I, Colvin RB, Kim AY, Monroe R, Warren SE, Danaher P, Reeves JW, Gong J, Rueckert EH, Greenbaum BD, Hacohen N, Lagana SM, Rivera MN, Sholl LM, Stone JR, Ting DT, Deshpande V

Temporal and Spatial Heterogeneity of Host Response to SARS-CoV-2 Pulmonary Infection.
medRxiv. 2020;:ePub - PMID: 32766600 - PMCID: PMC7402055 - DOI: 10.1101/2020.07.30.20165241

Blanc-Durand F, Alameddine R, Iafrate AJ, Tran-Thanh D, Lo YC, Blais N, Routy B, Tehfé M, Leduc C, Romeo P, Stephenson P, Florescu M

Tepotinib Efficacy in a Patient with Non-Small Cell Lung Cancer with Brain Metastasis Harboring an HLA-DRB1-MET Gene Fusion.
Oncologist. 2020;25(11):916-920 - PMID: 32716573 - PMCID: PMC7648335 - DOI: 10.1634/theoncologist.2020-0502

Kurt IC, Zhou R, Iyer S, Garcia SP, Miller BR, Langner LM, Grünewald J, Joung JK

CRISPR C-to-G base editors for inducing targeted DNA transversions in human cells.
Nat Biotechnol. 2020;39(1):41-46 - PMID: 32690971 - PMCID: PMC7854778 - DOI: 10.1038/s41587-020-0609-x

DeWeirdt PC, Sanson KR, Sangree AK, Hegde M, Hanna RE, Feeley MN, Griffith AL, Teng T, Borys SM, Strand C, Joung JK, Kleinstiver BP, Pan X, Huang A, Doench JG

Optimization of AsCas12a for combinatorial genetic screens in human cells.
Nat Biotechnol. 2020;39(1):94-104 - PMID: 32661438 - PMCID: PMC7854777 - DOI: 10.1038/s41587-020-0600-6

Ortonne N, Carroll SL, Rodriguez FJ, Miller DC, Nazarian RM, Blakeley JO, Madaj ZB, Verma SK, Stemmer-Rachamimov A

Assessing interobserver variability and accuracy in the histological diagnosis and classification of cutaneous neurofibromass.
Neurooncol Adv. 2019;2(Suppl 1):i117-i123 - PMID: 32642737 - PMCID: PMC7317056 - DOI: 10.1093/noajnl/vdz050

Stone JR, Tran KM, Conklin J, Mino-Kenudson M

Case 23-2020: A 76-Year-Old Woman Who Died from Covid-19.
N Engl J Med. 2020;383(4):380-387 - PMID: 32640127 - PMCID: PMC7367503 - DOI: 10.1056/NEJMcpc2004974

Cruz L, György B, Cheah PS, Kleinstiver BP, Eimer WA, Garcia SP, Sharma N, Ozelius LJ, Bragg DC, Joung JK, Norberto de Souza O, Macedo Timmers LFS, Breakefield XO

Mutant Allele-Specific CRISPR Disruption in DYT1 Dystonia Fibroblasts Restores Cell Function.
Mol Ther Nucleic Acids. 2020;21:1-12 - PMID: 32502938 - PMCID: PMC7270506 - DOI: 10.1016/j.omtn.2020.05.009

Zeng J, Wu Y, Ren C, Bonanno J, Shen AH, Shea D, Gehrke JM, Clement K, Luk K, Yao Q, Kim R, Wolfe SA, Manis JP, Pinello L, Joung JK, Bauer DE

Therapeutic base editing of human hematopoietic stem cells.
Nat Med. 2020;26(4):535-541 - PMID: 32284612 - PMCID: PMC7869435 - DOI: 10.1038/s41591-020-0790-y

Keskin T, Bakaric A, Waszyk P, Boulay G, Torsello M, Cornaz-Buros S, Chevalier N, Geiser T, Martin P, Volorio A, Iyer S, Kulkarni A, Letovanec I, Cherix S, Cote GM, Choy E, Digklia A, Montemurro M, Chebib I, Nielsen PG, Carcaboso AM, Mora J, Renella R, Suvà ML, Fusco C, Provero P, Rivera MN, Riggi N, Stamenkovic I

LIN28B Underlies the Pathogenesis of a Subclass of Ewing Sarcoma.
Cell Rep. 2020;31(2):107539 - PMID: 32294441 - DOI: 10.1016/j.celrep.2020.107539

Al-Samkari H, Leiva O, Dagogo-Jack I, Shaw A, Lennerz J, Iafrate AJ, Bendapudi PK, Connors JM

Impact of ALK Rearrangement on Venous and Arterial Thrombotic Risk in NSCLC.
J Thorac Oncol. 2020;15(9):1497-1506 - PMID: 32437899 - DOI: 10.1016/j.jtho.2020.04.033

Grünewald J, Zhou R, Lareau CA, Garcia SP, Iyer S, Miller BR, Langner LM, Hsu JY, Aryee MJ, Joung JK

A dual-deaminase CRISPR base editor enables concurrent adenine and cytosine editing.
Nat Biotechnol. 2020;38(7):861-864 - PMID: 32483364 - PMCID: PMC7723518 - DOI: 10.1038/s41587-020-0535-y

Hermanns S, Bhan A, Viney K

Ethics and benefits of systematic screening for active tuberculosis.
Int J Tuberc Lung Dis. 2020;24(5):44-47 - PMID: 32553043 - DOI: 10.5588/ijtld.17.0888

Loontiens S, Vanhauwaert S, Depestel L, Dewyn G, Van Loocke W, Moore FE, Garcia EG, Batchelor L, Borga C, Squiban B, Malone-Perez M, Volders PJ, Olexiouk V, Van Vlierberghe P, Langenau DM, Frazer JK, Durinck K, Speleman F

A novel TLX1-driven T-ALL zebrafish model: comparative genomic analysis with other leukemia models.
Leukemia. 2020;34(12):3398-3403 - PMID: 32591643 - PMCID: PMC7906429 - DOI: 10.1038/s41375-020-0938-2

Dang Y, Liu Y, Hashem R, Bhattacharya D, Allen J, Stommel M, Cheng LK, Xu W

SoGut: A Soft Robotic Gastric Simulator.
Soft Robot. 2020;8(3):273-283 - PMID: 32559391 - DOI: 10.1089/soro.2019.0136

Schmidts A, Marsh LC, Srivastava AA, Bouffard AA, Boroughs AC, Scarfò I, Larson RC, Bedoya F, Choi BD, Frigault MJ, Bailey SR, Leick MB, Vatsa S, Kann MC, Prew MS, Kleinstiver BP, Joung JK, Maus MV

Cell-based artificial APC resistant to lentiviral transduction for efficient generation of CAR-T cells from various cell sources.
J Immunother Cancer. 2020;8(2):ePub - PMID: 32900862 - PMCID: PMC7477986 - DOI: 10.1136/jitc-2020-000990

Kleinstiver BP, Sousa AA, Walton RT, Tak YE, Hsu JY, Clement K, Welch MM, Horng JE, Malagon-Lopez J, Scarfò I, Maus MV, Pinello L, Aryee MJ, Joung JK

Publisher Correction: Engineered CRISPR-Cas12a variants with increased activities and improved targeting ranges for gene, epigenetic and base editing.
Nat Biotechnol. 2020;38(7):901 - PMID: 32541959 - DOI: 10.1038/s41587-020-0587-z
636 CSV HTML