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HBV transcription and translation persist despite viral suppression in HBV-HIV co-infected patients on antiretroviral therapy. Hepatology. 2022;77(2):594-605 - PMID: 35770681 - PMCID: PMC9800637 - DOI: 10.1002/hep.32634

Tak YE, Horng JE, Perry NT, Schultz HT, Iyer S, Yao Q, Zou LS, Aryee MJ, Pinello L, Joung JK

Author Correction: Augmenting and directing long-range CRISPR-mediated activation in human cells. Nat Methods. 2022;19(7):899 - PMID: 35761069 - DOI: 10.1038/s41592-022-01561-9

Plotkin SR, Messiaen L, Legius E, Pancza P, Avery RA, Blakeley JO, Babovic-Vuksanovic D, Ferner R, Fisher MJ, Friedman JM, Giovannini M, Gutmann DH, Hanemann CO, Kalamarides M, Kehrer-Sawatzki H, Korf BR, Mautner VF, MacCollin M, Papi L, Rauen KA, Riccardi V, Schorry E, Smith MJ, Stemmer-Rachamimov A, Stevenson DA, Ullrich NJ, Viskochil D, Wimmer K, Yohay K, International Consensus Group on Neurofibromatosis Diagnostic Criteria (I-NF-DC), Huson SM, Wolkenstein P, Evans DG

Updated diagnostic criteria and nomenclature for neurofibromatosis type 2 and schwannomatosis: An international consensus recommendation. Genet Med. 2022;24(9):1967-1977 - PMID: 35674741 - DOI: 10.1016/j.gim.2022.05.007

Villalba JA, Hilburn CF, Garlin MA, Elliott GA, Li Y, Kunitoki K, Poli S, Alba GA, Madrigal E, Taso M, Price MC, Aviles AJ, Araujo-Medina M, Bonanno L, Boyraz B, Champion SN, Harris CK, Helland TL, Hutchison B, Jobbagy S, Marshall MS, Shepherd DJ, Barth JL, Hung YP, Ly A, Hariri LP, Turbett SE, Pierce VM, Branda JA, Rosenberg ES, Mendez-Pena J, Chebib I, Rosales IA, Smith RN, Miller MA, Rosas IO, Hardin CC, Baden LR, Medoff BD, Colvin RB, Little BP, Stone JR, Mino-Kenudson M, Shih AR

Vasculopathy and Increased Vascular Congestion in Fatal COVID-19 and Acute Respiratory Distress Syndrome. Am J Respir Crit Care Med. 2022;206(7):857-873 - PMID: 35671465 - PMCID: PMC9799276 - DOI: 10.1164/rccm.202109-2150OC

Yasuhara T, Xing YH, Bauer NC, Lee L, Dong R, Yadav T, Soberman RJ, Rivera MN, Zou L

Condensates induced by transcription inhibition localize active chromatin to nucleoli. Mol Cell. 2022;82(15):2738-2753.e6 - PMID: 35662392 - PMCID: PMC9357099 - DOI: 10.1016/j.molcel.2022.05.010

Boieri M, Malishkevich A, Guennoun R, Marchese E, Kroon S, Trerice KE, Awad M, Park JH, Iyer S, Kreuzer J, Haas W, Rivera MN, Demehri S

CD4+ T helper 2 cells suppress breast cancer by inducing terminal differentiation. J Exp Med. 2022;219(7):ePub - PMID: 35657353 - PMCID: PMC9170526 - DOI: 10.1084/jem.20201963

Kaliannan K, Donnell SO, Murphy K, Stanton C, Kang C, Wang B, Li XY, Bhan AK, Kang JX

Decreased Tissue Omega-6/Omega-3 Fatty Acid Ratio Prevents Chemotherapy-Induced Gastrointestinal Toxicity Associated with Alterations of Gut Microbiome. Int J Mol Sci. 2022;23(10):ePub - PMID: 35628140 - PMCID: PMC9140600 - DOI: 10.3390/ijms23105332

Ni P, Farinelli WA, Cheng LL, Farrar CT, Motamarry A, Moradi Tuchayi S, Wang Y, Anderson RR, Garibyan L

Total ice content and lipid saturation determine adipose tissue cryolipolysis by injection of ice-slurry. Lasers Surg Med. 2022;55(1):116-125 - PMID: 35598082 - PMCID: PMC9676409 - DOI: 10.1002/lsm.23557

Oliveira ML, Veloso A, Garcia EG, Iyer S, Pereira C, Barreto VM, Langenau DM, Barata JT

Mutant IL7R collaborates with MYC to induce T-cell acute lymphoblastic leukemia. Leukemia. 2022;36(6):1533-1540 - PMID: 35581375 - PMCID: PMC9162918 - DOI: 10.1038/s41375-022-01590-5

Steiner A, Schmidt SA, Fellmann CS, Nowak J, Wu CL, Feldman AS, Beer M, Cheng LL

Ex Vivo High-Resolution Magic Angle Spinning (HRMAS) 1H NMR Spectroscopy for Early Prostate Cancer Detection. Cancers (Basel). 2022;14(9):ePub - PMID: 35565290 - PMCID: PMC9103328 - DOI: 10.3390/cancers14092162

Laukkanen S, Veloso A, Yan C, Oksa L, Alpert EJ, Do D, Hyvärinen N, McCarthy K, Adhikari A, Yang Q, Iyer S, Garcia SP, Pello A, Ruokoranta T, Moisio S, Adhikari S, Yoder JA, Gallagher K, Whelton L, Allen JR, Jin AH, Loontiens S, Heinäniemi M, Kelliher M, Heckman CA, Lohi O, Langenau DM

Therapeutic targeting of LCK tyrosine kinase and mTOR signaling in T-cell acute lymphoblastic leukemia. Blood. 2022;140(17):1891-1906 - PMID: 35544598 - PMCID: PMC10082361 - DOI: 10.1182/blood.2021015106

Solman M, Blokzijl-Franke S, Piques F, Yan C, Yang Q, Strullu M, Kamel SM, Ak P, Bakkers J, Langenau DM, Cavé H, den Hertog J

Inflammatory response in hematopoietic stem and progenitor cells triggered by activating SHP2 mutations evokes blood defects. Elife. 2022;11:ePub - PMID: 35535491 - PMCID: PMC9119675 - DOI: 10.7554/eLife.73040

Edwards KA, Leete JJ, Smith EG, Quick A, Modica CM, Wassermann EM, Polejaeva E, Dell KC, LoPresti M, Walker P, O'Brien M, Lai C, Qu BX, Devoto C, Carr W, Stone JR, Ahlers ST, Gill JM

Elevations in Tumor Necrosis Factor Alpha and Interleukin 6 From Neuronal-Derived Extracellular Vesicles in Repeated Low-Level Blast Exposed Personnel. Front Neurol. 2022;13:723923 - PMID: 35528741 - PMCID: PMC9070565 - DOI: 10.3389/fneur.2022.723923

Basso C, Stone JR

Autopsy in the era of advanced cardiovascular imaging. Eur Heart J. 2022;43(26):2461-2468 - PMID: 35514073 - PMCID: PMC9336584 - DOI: 10.1093/eurheartj/ehac220

Konstantinidis E, Molisak A, Perrin F, Streubel-Gallasch L, Fayad S, Kim DY, Petri K, Aryee MJ, Aguilar X, György B, Giedraitis V, Joung JK, Pattanayak V, Essand M, Erlandsson A, Berezovska O, Ingelsson M

CRISPR-Cas9 treatment partially restores amyloid-β 42/40 in human fibroblasts with the Alzheimer's disease PSEN 1 M146L mutation. Mol Ther Nucleic Acids. 2022;28:450-461 - PMID: 35505961 - PMCID: PMC9043867 - DOI: 10.1016/j.omtn.2022.03.022

Möller E, Praz V, Rajendran S, Dong R, Cauderay A, Xing YH, Lee L, Fusco C, Broye LC, Cironi L, Iyer S, Rengarajan S, Awad ME, Naigles B, Letovanec I, Ormas N, Finzi G, La Rosa S, Sessa F, Chebib I, Petur Nielsen G, Digklia A, Spentzos D, Cote GM, Choy E, Aryee M, Stamenkovic I, Boulay G, Rivera MN, Riggi N

EWSR1-ATF1 dependent 3D connectivity regulates oncogenic and differentiation programs in Clear Cell Sarcoma. Nat Commun. 2022;13(1):2267 - PMID: 35477713 - PMCID: PMC9046276 - DOI: 10.1038/s41467-022-29910-4

Zhong AB, Muti IH, Eyles SJ, Vachet RW, Sikora KN, Bobst CE, Calligaris D, Stopka SA, Agar JN, Wu CL, Mino-Kenudson MA, Agar NYR, Christiani DC, Kaltashov IA, Cheng LL

Multiplatform Metabolomics Studies of Human Cancers With NMR and Mass Spectrometry Imaging. Front Mol Biosci. 2022;9:785232 - PMID: 35463966 - PMCID: PMC9024335 - DOI: 10.3389/fmolb.2022.785232

Thierauf JC, Farahani AA, Indave BI, Bard AZ, White VA, Smith CR, Marble H, Hyrcza MD, Chan JKC, Bishop J, Shi Q, Ely K, Agaimy A, Martinez-Lage M, Nose V, Rivera M, Nardi V, Dias-Santagata D, Garg S, Sadow P, Le LP, Faquin W, Ritterhouse LL, Cree IA, Iafrate AJ, Lennerz JK

Diagnostic Value of MAML2 Rearrangements in Mucoepidermoid Carcinoma. Int J Mol Sci. 2022;23(8):ePub - PMID: 35457138 - PMCID: PMC9026998 - DOI: 10.3390/ijms23084322

Wu Q, Zhen Y, Shi L, Vu P, Greninger P, Adil R, Merritt J, Egan R, Wu MJ, Yin X, Ferrone CR, Deshpande V, Baiev I, Pinto CJ, McLoughlin DE, Walmsley CS, Stone JR, Gordan JD, Zhu AX, Juric D, Goyal L, Benes CH, Bardeesy N

EGFR Inhibition Potentiates FGFR Inhibitor Therapy and Overcomes Resistance in FGFR2 Fusion-Positive Cholangiocarcinoma. Cancer Discov. 2022;12(5):1378-1395 - PMID: 35420673 - PMCID: PMC9064956 - DOI: 10.1158/2159-8290.CD-21-1168

Barmettler S, DiGiacomo DV, Yang NJ, Lam T, Naranbhai V, Dighe AS, Burke KE, Blumenthal KG, Ling M, Hesterberg PE, Saff RR, MacLean J, Ofoman O, Berrios C, St Denis KJ, Lam EC, Gregory D, Iafrate AJ, Poznansky M, Lee H, Balazs A, Pillai S, Farmer JR

Response to Severe Acute Respiratory Syndrome Coronavirus 2 Initial Series and Additional Dose Vaccine in Patients With Predominant Antibody Deficiency. J Allergy Clin Immunol Pract. 2022;10(6):1622-1634.e4 - PMID: 35381395 - PMCID: PMC8976568 - DOI: 10.1016/j.jaip.2022.03.017

Yang L, Xu M, Bhuiyan SA, Li J, Zhao J, Cohrs RJ, Susterich JT, Signorelli S, Green U, Stone JR, Levy D, Lennerz JK, Renthal W

Human and mouse trigeminal ganglia cell atlas implicates multiple cell types in migraine. Neuron. 2022;110(11):1806-1821.e8 - PMID: 35349784 - PMCID: PMC9338779 - DOI: 10.1016/j.neuron.2022.03.003

Vorn R, Edwards KA, Hentig J, Yun S, Kim HS, Lai C, Devoto C, Yarnell AM, Polejaeva E, Dell KC, LoPresti ML, Walker P, Carr W, Stone JR, Ahlers ST, Gill JM

A Pilot Study of Whole-Blood Transcriptomic Analysis to Identify Genes Associated with Repetitive Low-Level Blast Exposure in Career Breachers. Biomedicines. 2022;10(3):ePub - PMID: 35327492 - PMCID: PMC8945695 - DOI: 10.3390/biomedicines10030690

Füzesi MV, Muti IH, Berker Y, Li W, Sun J, Habbel P, Nowak J, Xie Z, Cheng LL, Zhang Y

High Resolution Magic Angle Spinning Proton NMR Study of Alzheimer's Disease with Mouse Models. Metabolites. 2022;12(3):ePub - PMID: 35323696 - PMCID: PMC8952313 - DOI: 10.3390/metabo12030253

Rajurkar M, Parikh AR, Solovyov A, You E, Kulkarni AS, Chu C, Xu KH, Jaicks C, Taylor MS, Wu C, Alexander KA, Good CR, Szabolcs A, Gerstberger S, Tran AV, Xu N, Ebright RY, Van Seventer EE, Vo KD, Tai EC, Lu C, Joseph-Chazan J, Raabe MJ, Nieman LT, Desai N, Arora KS, Ligorio M, Thapar V, Cohen L, Garden PM, Senussi Y, Zheng H, Allen JN, Blaszkowsky LS, Clark JW, Goyal L, Wo JY, Ryan DP, Corcoran RB, Deshpande V, Rivera MN, Aryee MJ, Hong TS, Berger SL, Walt DR, Burns KH, Park PJ, Greenbaum BD, Ting DT

Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer. Cancer Discov. 2022;12(6):1462-1481 - PMID: 35320348 - PMCID: PMC9167735 - DOI: 10.1158/2159-8290.CD-21-1117

Sanchez-Dahl Gonzalez M, Muti IH, Cheng LL

High resolution magic angle spinning MRS in prostate cancer. MAGMA. 2022;35(4):695-705 - PMID: 35318537 - DOI: 10.1007/s10334-022-01005-7

Sebastian C, Ferrer C, Serra M, Choi JE, Ducano N, Mira A, Shah MS, Stopka SA, Perciaccante AJ, Isella C, Moya-Rull D, Vara-Messler M, Giordano S, Maldi E, Desai N, Capen DE, Medico E, Cetinbas M, Sadreyev RI, Brown D, Rivera MN, Sapino A, Breault DT, Agar NYR, Mostoslavsky R

A non-dividing cell population with high pyruvate dehydrogenase kinase activity regulates metabolic heterogeneity and tumorigenesis in the intestine. Nat Commun. 2022;13(1):1503 - PMID: 35314684 - PMCID: PMC8938512 - DOI: 10.1038/s41467-022-29085-y

Qing K, Nie K, Liu B, Feng X, Stone JR, Cui T, Zhang Y, Zhu J, Chen Q, Wang X, Zhao L, Parikh S, Mugler JP, Kim S, Weiner J, Yue N, Chundury A

The Impact of Optic Nerve Movement on Intracranial Radiation Treatment. Front Oncol. 2022;12:803329 - PMID: 35280734 - PMCID: PMC8907542 - DOI: 10.3389/fonc.2022.803329

Lopez DR, Sgroi D, Krishnamourthy S, Tearney G

Is Real-Time Microscopy on the Horizon? A Brief Review of the Potential Future Directions in Clinical Breast Tumor Microscopy Implementation. Virchows Arch. 2022;480(1):211-227 - PMID: 35218378 - DOI: 10.1007/s00428-022-03300-z

Weng J, Muti IH, Zhong AB, Kivisäkk P, Hyman BT, Arnold SE, Cheng LL

A Nuclear Magnetic Resonance Spectroscopy Method in Characterization of Blood Metabolomics for Alzheimer's Disease. Metabolites. 2022;12(2):ePub - PMID: 35208255 - PMCID: PMC8878886 - DOI: 10.3390/metabo12020181

Rivera CM, Faquin WC, Thierauf J, Afrogheh AH, Jaquinet A, Iafrate AJ, Rivera MN, Troulis MJ

Detection of EWSR1 fusions in CCOC by targeted RNA-seq. Oral Surg Oral Med Oral Pathol Oral Radiol. 2021;134(2):240-244 - PMID: 35165059 - DOI: 10.1016/j.oooo.2021.12.127

Khalili M, Kleiner DE, King WC, Sterling RK, Ghany MG, Chung RT, Bhan AK, Rosenthal P, Lisker-Melman M, Ramachandran R, Lok AS

Reply to Li, Henry, and Nguyen. Am J Gastroenterol. 2022;117(4):688 - PMID: 35158369 - PMCID: PMC8976722 - DOI: 10.14309/ajg.0000000000001662

Bartlett JMS, Sgroi DC, Treuner K, Zhang Y, Piper T, Salunga RC, Ahmed I, Doos L, Thornber S, Taylor KJ, Brachtel EF, Pirrie SJ, Schnabel CA, Rea DW

Breast Cancer Index Is a Predictive Biomarker of Treatment Benefit and Outcome from Extended Tamoxifen Therapy: Final Analysis of the Trans-aTTom Study. Clin Cancer Res. 2022;28(9):1871-1880 - PMID: 35144966 - PMCID: PMC9306281 - DOI: 10.1158/1078-0432.CCR-21-3385

Chou EL, Lino Cardenas CL, Chaffin M, Arduini AD, Juric D, Stone JR, LaMuraglia GM, Eagleton MJ, Conrad MF, Isselbacher EM, Ellinor PT, Lindsay ME

Vascular smooth muscle cell phenotype switching in carotid atherosclerosis. JVS Vasc Sci. 2021;3:41-47 - PMID: 35128489 - PMCID: PMC8802874 - DOI: 10.1016/j.jvssci.2021.11.002

Wilde EA, Wanner IB, Kenney K, Gill J, Stone JR, Disner S, Schnakers C, Meyer R, Prager EM, Haas M, Jeromin A

A Framework to Advance Biomarker Development in the Diagnosis, Outcome Prediction, and Treatment of Traumatic Brain Injury. J Neurotrauma. 2022;39(7-8):436-457 - PMID: 35057637 - PMCID: PMC8978568 - DOI: 10.1089/neu.2021.0099

Naranbhai V, St Denis KJ, Lam EC, Ofoman O, Garcia-Beltran WF, Mairena CB, Bhan AK, Gainor JF, Balazs AB, Iafrate AJ, CANVAX team

Neutralization breadth of SARS-CoV-2 viral variants following primary series and booster SARS-CoV-2 vaccines in patients with cancer. Cancer Cell. 2022;40(1):103-108.e2 - PMID: 34990570 - PMCID: PMC8730528 - DOI: 10.1016/j.ccell.2021.12.002

Chung RT, King WC, Ghany MG, Lisker-Melman M, Hinerman AS, Khalili M, Sulkowski M, Jain MK, Choi EK, Nalesnik MA, Bhan AK, Cloherty G, Wong DK, Sterling RK, HBV-HIV Cohort Study of the Hepatitis B Research Network

A Prospective Cohort Study of Novel Markers of Hepatitis B Virus Replication in Human Immunodeficiency Virus Coinfection. Clin Gastroenterol Hepatol. 2021;21(1):125-135.e8 - PMID: 34973459 - PMCID: PMC9240105 - DOI: 10.1016/j.cgh.2021.12.038

Zhang S, Yan C, Millar DG, Yang Q, Heather JM, Langenbucher A, Morton LT, Sepulveda S, Alpert E, Whelton LR, Zarrella DT, Guo M, Minogue E, Lawrence MS, Rueda BR, Spriggs DR, Lu W, Langenau DM, Cobbold M

Antibody-Peptide Epitope Conjugates for Personalized Cancer Therapy. Cancer Res. 2022;82(5):773-784 - PMID: 34965933 - DOI: 10.1158/0008-5472.CAN-21-2200

Cheng LL

High-resolution magic angle spinning NMR for intact biological specimen analysis: Initial discovery, recent developments, and future directions. NMR Biomed. 2021;36(4):e4684 - PMID: 34962004 - DOI: 10.1002/nbm.4684

Milenko K, Yerolatsitis S, Aksnes A, Hjelme DR, Stone JM

Micro-Lensed Negative-Curvature Fibre Probe for Raman Spectroscopy. Sensors (Basel). 2021;21(24):ePub - PMID: 34960527 - PMCID: PMC8708690 - DOI: 10.3390/s21248434

Schult TA, Lauer MJ, Berker Y, Cardoso MR, Vandergrift LA, Habbel P, Nowak J, Taupitz M, Aryee M, Mino-Kenudson MA, Christiani DC, Cheng LL

Screening human lung cancer with predictive models of serum magnetic resonance spectroscopy metabolomics. Proc Natl Acad Sci U S A. 2021;118(51):ePub - PMID: 34903652 - PMCID: PMC8713787 - DOI: 10.1073/pnas.2110633118

Pirruccello JP, Chaffin MD, Chou EL, Fleming SJ, Lin H, Nekoui M, Khurshid S, Friedman SF, Bick AG, Arduini A, Weng LC, Choi SH, Akkad AD, Batra P, Tucker NR, Hall AW, Roselli C, Benjamin EJ, Vellarikkal SK, Gupta RM, Stegmann CM, Juric D, Stone JR, Vasan RS, Ho JE, Hoffmann U, Lubitz SA, Philippakis AA, Lindsay ME, Ellinor PT

Deep learning enables genetic analysis of the human thoracic aorta. Nat Genet. 2021;54(1):40-51 - PMID: 34837083 - PMCID: PMC8758523 - DOI: 10.1038/s41588-021-00962-4

Stein DF, Chen H, Vinyard ME, Qin Q, Combs RD, Zhang Q, Pinello L

singlecellVR: Interactive Visualization of Single-Cell Data in Virtual Reality. Front Genet. 2021;12:764170 - PMID: 34777482 - PMCID: PMC8582280 - DOI: 10.3389/fgene.2021.764170

Malinin NL, Lee G, Lazzarotto CR, Li Y, Zheng Z, Nguyen NT, Liebers M, Topkar VV, Iafrate AJ, Le LP, Aryee MJ, Joung JK, Tsai SQ

Defining genome-wide CRISPR-Cas genome-editing nuclease activity with GUIDE-seq. Nat Protoc. 2021;16(12):5592-5615 - PMID: 34773119 - PMCID: PMC9331158 - DOI: 10.1038/s41596-021-00626-x

Kiemes A, Gomes FV, Cash D, Uliana DL, Simmons C, Singh N, Vernon AC, Turkheimer F, Davies C, Stone JM, Grace AA, Modinos G

GABAA and NMDA receptor density alterations and their behavioral correlates in the gestational methylazoxymethanol acetate model for schizophrenia. Neuropsychopharmacology. 2021;47(3):687-695 - PMID: 34743200 - PMCID: PMC8782908 - DOI: 10.1038/s41386-021-01213-0

Scheid JF, Rosenbaum MW, Przybyszewski EM, Krishnan K, Forcione DG, Iafrate AJ, Staller KD, Misdraji J, Lennerz JK, Pitman MB, Pratt DS

Next-generation sequencing in the evaluation of biliary strictures in patients with primary sclerosing cholangitis. Cancer Cytopathol. 2021;130(3):215-230 - PMID: 34726838 - DOI: 10.1002/cncy.22528

Khalili M, King WC, Kleiner DE, Chung RT, Bhan AK, Ghany MG, Sulkowski MS, Lisker-Melman M, Jain MK, Janssen HLA, Hinerman AS, Sanyal AJ, Sterling RK

Evolution of Fatty Liver Disease and Relationship With Lipoproteins and Clinical Outcomes in Hepatitis B/Human Immunodeficiency Virus Coinfection. Clin Infect Dis. 2022;74(11):1914-1924 - PMID: 34698347 - PMCID: PMC9630874 - DOI: 10.1093/cid/ciab764

Hu H, Piotrowska Z, Hare PJ, Chen H, Mulvey HE, Mayfield A, Noeen S, Kattermann K, Greenberg M, Williams A, Riley AK, Wilson JJ, Mao YQ, Huang RP, Banwait MK, Ho J, Crowther GS, Hariri LP, Heist RS, Kodack DP, Pinello L, Shaw AT, Mino-Kenudson M, Hata AN, Sequist LV, Benes CH, Niederst MJ, Engelman JA

Three subtypes of lung cancer fibroblasts define distinct therapeutic paradigms. Cancer Cell. 2021;39(11):1531-1547.e10 - PMID: 34624218 - PMCID: PMC8578451 - DOI: 10.1016/j.ccell.2021.09.003

Edwards KA, Greer K, Leete J, Lai C, Devoto C, Qu BX, Yarnell AM, Polejaeva E, Dell KC, LoPresti ML, Walker P, Wassermann EM, Carr W, Stone JR, Ahlers ST, Vorn R, Martin C, Gill JM

Neuronally-derived tau is increased in experienced breachers and is associated with neurobehavioral symptoms. Sci Rep. 2021;11(1):19527 - PMID: 34593828 - PMCID: PMC8484560 - DOI: 10.1038/s41598-021-97913-0

Tognon M, Bonnici V, Garrison E, Giugno R, Pinello L

GRAFIMO: Variant and haplotype aware motif scanning on pangenome graphs. PLoS Comput Biol. 2021;17(9):e1009444 - PMID: 34570769 - PMCID: PMC8519448 - DOI: 10.1371/journal.pcbi.1009444

Nikolova VL, Smith MRB, Hall LJ, Cleare AJ, Stone JM, Young AH

Perturbations in Gut Microbiota Composition in Psychiatric Disorders: A Review and Meta-analysis. JAMA Psychiatry. 2021;78(12):1343-1354 - PMID: 34524405 - PMCID: PMC8444066 - DOI: 10.1001/jamapsychiatry.2021.2573

Jalili-Firoozinezhad S, Bein A, Gazzaniga FS, Fadel CW, Novak R, Ingber DE

Establishment of a Modular Anaerobic Human Intestine Chip. Methods Mol Biol. 2022;2373:69-85 - PMID: 34520007 - DOI: 10.1007/978-1-0716-1693-2_5

Firdous S, Abid R, Nawaz Z, Bukhari F, Anwer A, Cheng LL, Sadaf S

Dysregulated Alanine as a Potential Predictive Marker of Glioma-An Insight from Untargeted HRMAS-NMR and Machine Learning Data. Metabolites. 2021;11(8):ePub - PMID: 34436448 - PMCID: PMC8402070 - DOI: 10.3390/metabo11080507

Yan C, Yang Q, Zhang S, Millar DG, Alpert EJ, Do D, Veloso A, Brunson DC, Drapkin BJ, Stanzione M, Scarfò I, Moore JC, Iyer S, Qin Q, Wei Y, McCarthy KM, Rawls JF, Dyson NJ, Cobbold M, Maus MV, Langenau DM

Single-cell imaging of T cell immunotherapy responses in vivo. J Exp Med. 2021;218(10):ePub - PMID: 34415995 - PMCID: PMC8383813 - DOI: 10.1084/jem.20210314

Coates JT, Sun S, Leshchiner I, Thimmiah N, Martin EE, McLoughlin D, Danysh BP, Slowik K, Jacobs RA, Rhrissorrakrai K, Utro F, Levovitz C, Denault E, Walmsley CS, Kambadakone A, Stone JR, Isakoff SJ, Parida L, Juric D, Getz G, Bardia A, Ellisen LW

Parallel Genomic Alterations of Antigen and Payload Targets Mediate Polyclonal Acquired Clinical Resistance to Sacituzumab Govitecan in Triple-Negative Breast Cancer. Cancer Discov. 2021;11(10):2436-2445 - PMID: 34404686 - PMCID: PMC8495771 - DOI: 10.1158/2159-8290.CD-21-0702

Nunes R, Sella T, Treuner K, Atkinson JM, Wong J, Zhang Y, Exman P, Dabbs D, Richardson AL, Schnabel CA, Sgroi DC, Oesterreich S, Cimino-Mathews A, Metzger O

Prognostic Utility of Breast Cancer Index to Stratify Distant Recurrence Risk in Invasive Lobular Carcinoma. Clin Cancer Res. 2021;27(20):5688-5696 - PMID: 34376532 - PMCID: PMC9401569 - DOI: 10.1158/1078-0432.CCR-21-0733

Yun JH, Lee C, Liu T, Liu S, Kim EY, Xu S, Curtis JL, Pinello L, Bowler RP, Silverman EK, Hersh CP, Zhou X

Hedgehog interacting protein-expressing lung fibroblasts suppress lymphocytic inflammation in mice. JCI Insight. 2021;6(17):ePub - PMID: 34375314 - PMCID: PMC8492352 - DOI: 10.1172/jci.insight.144575

Tak YE, Horng JE, Perry NT, Schultz HT, Iyer S, Yao Q, Zou LS, Aryee MJ, Pinello L, Joung JK

Augmenting and directing long-range CRISPR-mediated activation in human cells. Nat Methods. 2021;18(9):1075-1081 - PMID: 34354266 - PMCID: PMC8446310 - DOI: 10.1038/s41592-021-01224-1

Yamauchi T, Miyawaki K, Semba Y, Takahashi M, Izumi Y, Nogami J, Nakao F, Sugio T, Sasaki K, Pinello L, Bauer DE, Bamba T, Akashi K, Maeda T

Targeting leukemia-specific dependence on the de novo purine synthesis pathway. Leukemia. 2021;36(2):383-393 - PMID: 34344987 - DOI: 10.1038/s41375-021-01369-0

Strait AM, Bridge JA, Iafrate AJ, Li MM, Xu F, Tsongalis GJ, Linos K

Mammary-type Myofibroblastoma with Leiomyomatous Differentiation: A Rare Variant with Potential Pitfalls. Int J Surg Pathol. 2021;30(2):200-206 - PMID: 34338561 - DOI: 10.1177/10668969211031309

Wu L, Vasilijic S, Sun Y, Chen J, Landegger LD, Zhang Y, Zhou W, Ren J, Early S, Yin Z, Ho WW, Zhang N, Gao X, Lee GY, Datta M, Sagers JE, Brown A, Muzikansky A, Stemmer-Rachamimov A, Zhang L, Plotkin SR, Jain RK, Stankovic KM, Xu L

Losartan prevents tumor-induced hearing loss and augments radiation efficacy in NF2 schwannoma rodent models. Sci Transl Med. 2021;13(602):ePub - PMID: 34261799 - PMCID: PMC8409338 - DOI: 10.1126/scitranslmed.abd4816

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Fecal Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-Cov-2) RNA Is Associated With Decreased Coronavirus Disease 2019 (COVID-19) Survival. Clin Infect Dis. 2022;74(6):1081-1084 - PMID: 34245255 - PMCID: PMC8406863 - DOI: 10.1093/cid/ciab623

Wallis D, Stemmer-Rachamimov A, Adsit S, Korf B, Pichard D, Blakeley J, Sarin KY, REiNS International Collaboration

Status and Recommendations for Incorporating Biomarkers for Cutaneous Neurofibromas Into Clinical Research. Neurology. 2021;97(7 Suppl 1):S42-S49 - PMID: 34230199 - PMCID: PMC8594001 - DOI: 10.1212/WNL.0000000000012426

Chesters RA, Pepper F, Morgan C, Cooper JD, Howes OD, Vernon AC, Stone JM

Brain volume in chronic ketamine users - relationship to sub-threshold psychotic symptoms and relevance to schizophrenia. Psychopharmacology (Berl). 2021;239(11):3421-3429 - PMID: 34228135 - PMCID: PMC9584979 - DOI: 10.1007/s00213-021-05873-0

Li K, Li T, Feng Z, Huang M, Wei L, Yan Z, Long M, Hu Q, Wang J, Liu S, Sgroi DC, Demehri S

CD8+ T cell immunity blocks the metastasis of carcinogen-exposed breast cancer. Sci Adv. 2021;7(25):ePub - PMID: 34144976 - PMCID: PMC8213232 - DOI: 10.1126/sciadv.abd8936

Beharry A, Gong Y, Kim JC, Hanlon KS, Nammour J, Hieber K, Eichler F, Cheng M, Stemmer-Rachamimov A, Stankovic KM, Welling DB, Ng C, Maguire CA

The AAV9 Variant Capsid AAV-F Mediates Widespread Transgene Expression in Nonhuman Primate Spinal Cord After Intrathecal Administration. Hum Gene Ther. 2021;33(1-2):61-75 - PMID: 34128391 - PMCID: PMC8819517 - DOI: 10.1089/hum.2021.069

Patton EE, Zon LI, Langenau DM

Zebrafish disease models in drug discovery: from preclinical modelling to clinical trials. Nat Rev Drug Discov. 2021;20(8):611-628 - PMID: 34117457 - PMCID: PMC9210578 - DOI: 10.1038/s41573-021-00210-8

Chebib I, Taylor MS, Nardi V, Rivera MN, Lennerz JK, Cote GM, Choy E, Lozano Calderón SA, Raskin KA, Schwab JH, Mullen JT, Chen YE, Hung YP, Nielsen GP, Deshpande V

Clinical Utility of Anchored Multiplex Solid Fusion Assay for Diagnosis of Bone and Soft Tissue Tumors. Am J Surg Pathol. 2021;45(8):1127-1137 - PMID: 34115673 - DOI: 10.1097/PAS.0000000000001745

Kukutla P, Ahmed SG, DuBreuil DM, Abdelnabi A, Cetinbas M, Fulci G, Aldikacti B, Stemmer-Rachamimov A, Plotkin SR, Wainger B, Sadreyev RI, Brenner GJ

Transcriptomic signature of painful human neurofibromatosis type 2 schwannomas. Ann Clin Transl Neurol. 2021;8(7):1508-1514 - PMID: 34053190 - PMCID: PMC8283170 - DOI: 10.1002/acn3.51386

Garrood WT, Kranjc N, Petri K, Kim DY, Guo JA, Hammond AM, Morianou I, Pattanayak V, Joung JK, Crisanti A, Simoni A

Analysis of off-target effects in CRISPR-based gene drives in the human malaria mosquito. Proc Natl Acad Sci U S A. 2021;118(22):ePub - PMID: 34050017 - PMCID: PMC8179207 - DOI: 10.1073/pnas.2004838117

Pereira B, Chen CT, Goyal L, Walmsley C, Pinto CJ, Baiev I, Allen R, Henderson L, Saha S, Reyes S, Taylor MS, Fitzgerald DM, Broudo MW, Sahu A, Gao X, Winckler W, Brannon AR, Engelman JA, Leary R, Stone JR, Campbell CD, Juric D

Cell-free DNA captures tumor heterogeneity and driver alterations in rapid autopsies with pre-treated metastatic cancer. Nat Commun. 2021;12(1):3199 - PMID: 34045463 - PMCID: PMC8160338 - DOI: 10.1038/s41467-021-23394-4

Shepherd DJ, Miller TE, Forst DA, Jones P, Nardi V, Martinez-Lage M, Stemmer-Rachamimov A, Gonzalez RG, Iafrate AJ, Ritterhouse LL

Mosaicism for Receptor Tyrosine Kinase Activation in a Glioblastoma Involving Both PDGFRA Amplification and NTRK2 Fusion. Oncologist. 2021;26(11):919-924 - PMID: 34041811 - PMCID: PMC8571775 - DOI: 10.1002/onco.13835

Legius E, Messiaen L, Wolkenstein P, Pancza P, Avery RA, Berman Y, Blakeley J, Babovic-Vuksanovic D, Cunha KS, Ferner R, Fisher MJ, Friedman JM, Gutmann DH, Kehrer-Sawatzki H, Korf BR, Mautner VF, Peltonen S, Rauen KA, Riccardi V, Schorry E, Stemmer-Rachamimov A, Stevenson DA, Tadini G, Ullrich NJ, Viskochil D, Wimmer K, Yohay K, International Consensus Group on Neurofibromatosis Diagnostic Criteria (I-NF-DC), Huson SM, Evans DG, Plotkin SR

Revised diagnostic criteria for neurofibromatosis type 1 and Legius syndrome: an international consensus recommendation. Genet Med. 2021;23(8):1506-1513 - PMID: 34012067 - PMCID: PMC8354850 - DOI: 10.1038/s41436-021-01170-5

Wang L, Zhang Q, Qin Q, Trasanidis N, Vinyard M, Chen H, Pinello L

Current progress and potential opportunities to infer single-cell developmental trajectory and cell fate. Curr Opin Syst Biol. 2021;26:1-11 - PMID: 33997529 - PMCID: PMC8117397 - DOI: 10.1016/j.coisb.2021.03.006

Haran FJ, Zampieri C, Wassermann EM, Polejaeva E, Dell KC, LoPresti ML, Stone JR, Ahlers ST, Carr W

Chronic Effects of Breaching Blast Exposure on Sensory Organization and Postural Limits of Stability. J Occup Environ Med. 2021;63(11):944-950 - PMID: 33990528 - PMCID: PMC8570990 - DOI: 10.1097/JOM.0000000000002266

Petri K, Zhang W, Ma J, Schmidts A, Lee H, Horng JE, Kim DY, Kurt IC, Clement K, Hsu JY, Pinello L, Maus MV, Joung JK, Yeh JJ

Author Correction: CRISPR prime editing with ribonucleoprotein complexes in zebrafish and primary human cells. Nat Biotechnol. 2022;40(2):273 - PMID: 33986547 - DOI: 10.1038/s41587-021-00939-y

Giblin W, Bringman-Rodenbarger L, Guo AH, Kumar S, Monovich AC, Mostafa AM, Skinner ME, Azar M, Mady AS, Chung CH, Kadambi N, Melong KA, Lee HJ, Zhang L, Sajjakulnukit P, Trefely S, Varner EL, Iyer S, Wang M, Wilmott JS, Soyer HP, Sturm RA, Pritchard AL, Andea AA, Scolyer RA, Stark MS, Scott DA, Fullen DR, Bosenberg MW, Chandrasekaran S, Nikolovska-Coleska Z, Verhaegen ME, Snyder NW, Rivera MN, Osterman AL, Lyssiotis CA, Lombard DB

The deacylase SIRT5 supports melanoma viability by influencing chromatin dynamics. J Clin Invest. 2021;131(12):ePub - PMID: 33945506 - PMCID: PMC8203465 - DOI: 10.1172/JCI138926

Modinos G, Richter A, Egerton A, Bonoldi I, Azis M, Antoniades M, Bossong M, Crossley N, Perez J, Stone JM, Veronese M, Zelaya F, Grace AA, Howes OD, Allen P, McGuire P

Interactions between hippocampal activity and striatal dopamine in people at clinical high risk for psychosis: relationship to adverse outcomes. Neuropsychopharmacology. 2021;46(8):1468-1474 - PMID: 33941857 - PMCID: PMC8209204 - DOI: 10.1038/s41386-021-01019-0

Petri K, Zhang W, Ma J, Schmidts A, Lee H, Horng JE, Kim DY, Kurt IC, Clement K, Hsu JY, Pinello L, Maus MV, Joung JK, Yeh JJ

CRISPR prime editing with ribonucleoprotein complexes in zebrafish and primary human cells. Nat Biotechnol. 2021;40(2):189-193 - PMID: 33927418 - PMCID: PMC8553808 - DOI: 10.1038/s41587-021-00901-y

Pacenta HL, Allen-Rhoades W, Langenau D, Houghton PJ, Keller C, Heske CM, Deel MD, Linardic CM, Shern JF, Stewart E, Turpin B, Harrison DJ, Khan J, Mascarenhas L, Skapek SX, Meyer WH, Hawkins DS, Chen EY, Amatruda JF, Hingorani P, Laetsch TW

Prioritization of Novel Agents for Patients with Rhabdomyosarcoma: A Report from the Children's Oncology Group (COG) New Agents for Rhabdomyosarcoma Task Force. J Clin Med. 2021;10(7):ePub - PMID: 33915882 - PMCID: PMC8037615 - DOI: 10.3390/jcm10071416

Delorey TM, Ziegler CGK, Heimberg G, Normand R, Yang Y, Segerstolpe Å, Abbondanza D, Fleming SJ, Subramanian A, Montoro DT, Jagadeesh KA, Dey KK, Sen P, Slyper M, Pita-Juárez YH, Phillips D, Biermann J, Bloom-Ackermann Z, Barkas N, Ganna A, Gomez J, Melms JC, Katsyv I, Normandin E, Naderi P, Popov YV, Raju SS, Niezen S, Tsai LT, Siddle KJ, Sud M, Tran VM, Vellarikkal SK, Wang Y, Amir-Zilberstein L, Atri DS, Beechem J, Brook OR, Chen J, Divakar P, Dorceus P, Engreitz JM, Essene A, Fitzgerald DM, Fropf R, Gazal S, Gould J, Grzyb J, Harvey T, Hecht J, Hether T, Jané-Valbuena J, Leney-Greene M, Ma H, McCabe C, McLoughlin DE, Miller EM, Muus C, Niemi M, Padera R, Pan L, Pant D, Pe'er C, Pfiffner-Borges J, Pinto CJ, Plaisted J, Reeves J, Ross M, Rudy M, Rueckert EH, Siciliano M, Sturm A, Todres E, Waghray A, Warren S, Zhang S, Zollinger DR, Cosimi L, Gupta RM, Hacohen N, Hibshoosh H, Hide W, Price AL, Rajagopal J, Tata PR, Riedel S, Szabo G, Tickle TL, Ellinor PT, Hung D, Sabeti PC, Novak R, Rogers R, Ingber DE, Jiang ZG, Juric D, Babadi M, Farhi SL, Izar B, Stone JR, Vlachos IS, Solomon IH, Ashenberg O, Porter CBM, Li B, Shalek AK, Villani AC, Rozenblatt-Rosen O, Regev A

COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets. Nature. 2021;595(7865):107-113 - PMID: 33915569 - PMCID: PMC8919505 - DOI: 10.1038/s41586-021-03570-8

Tustison NJ, Cook PA, Holbrook AJ, Johnson HJ, Muschelli J, Devenyi GA, Duda JT, Das SR, Cullen NC, Gillen DL, Yassa MA, Stone JR, Gee JC, Avants BB

The ANTsX ecosystem for quantitative biological and medical imaging. Sci Rep. 2021;11(1):9068 - PMID: 33907199 - PMCID: PMC8079440 - DOI: 10.1038/s41598-021-87564-6

Buja LM, Stone JR

A novel coronavirus meets the cardiovascular system: Society for Cardiovascular Pathology Symposium 2021. Cardiovasc Pathol. 2021;53:107336 - PMID: 33895311 - PMCID: PMC8062417 - DOI: 10.1016/j.carpath.2021.107336

Merritt K, McGuire PK, Egerton A, 1H-MRS in Schizophrenia Investigators, Aleman A, Block W, Bloemen OJN, Borgan F, Bustillo JR, Capizzano AA, Coughlin JM, De la Fuente-Sandoval C, Demjaha A, Dempster K, Do KQ, Du F, Falkai P, Galinska-Skok B, Gallinat J, Gasparovic C, Ginestet CE, Goto N, Graff-Guerrero A, Ho BC, Howes OD, Jauhar S, Jeon P, Kato T, Kaufmann CA, Kegeles LS, Keshavan M, Kim SY, Kunugi H, Lauriello J, Liemburg EJ, Mcilwain ME, Modinos G, Mouchlianitis ED, Nakamura J, Nenadic I, Öngür D, Ota M, Palaniyappan L, Pantelis C, Plitman E, Posporelis S, Purdon SE, Reichenbach JR, Renshaw PF, Russell BR, Sawa A, Schaefer M, Shungu DC, Smesny S, Stanley JA, Stone JM, Szulc A, Taylor R, Thakkar K, Théberge J, Tibbo PG, van Amelsvoort T, Walecki J, Williamson PC, Wood SJ, Xin L, Yamasue H

Association of Age, Antipsychotic Medication, and Symptom Severity in Schizophrenia With Proton Magnetic Resonance Spectroscopy Brain Glutamate Level: A Mega-analysis of Individual Participant-Level Data. JAMA Psychiatry. 2021;78(6):667-681 - PMID: 33881460 - PMCID: PMC8060889 - DOI: 10.1001/jamapsychiatry.2021.0380

Nduom EK, Gephart MH, Chheda MG, Suva ML, Amankulor N, Battiste JD, Campian JL, Dacey RG, Das S, Fecci PE, Hadjipanayis CG, Hoang KB, Jalali A, Orringer D, Patel AJ, Placantonakis D, Rodriguez A, Yang I, Yu JS, Zipfel GJ, Dunn GP, Leuthardt EC, Kim AH

Re-evaluating Biopsy for Recurrent Glioblastoma: A Position Statement by the Christopher Davidson Forum Investigators. Neurosurgery. 2021;89(1):129-132 - PMID: 33862619 - DOI: 10.1093/neuros/nyab063

Vinjamur DS, Yao Q, Cole MA, McGuckin C, Ren C, Zeng J, Hossain M, Luk K, Wolfe SA, Pinello L, Bauer DE

ZNF410 represses fetal globin by singular control of CHD4. Nat Genet. 2021;53(5):719-728 - PMID: 33859416 - PMCID: PMC8180380 - DOI: 10.1038/s41588-021-00843-w

Yerolatsitis S, Kufcsák A, Ehrlich K, Wood HAC, Fernandes S, Quinn T, Young V, Young I, Hamilton K, Akram AR, Thomson RR, Finlayson K, Dhaliwal K, Stone JM

Sub millimetre flexible fibre probe for background and fluorescence free Raman spectroscopy. J Biophotonics. 2021;14(10):e202000488 - PMID: 33855811 - DOI: 10.1002/jbio.202000488

Khalili M, Kleiner DE, King WC, Sterling RK, Ghany MG, Chung RT, Bhan AK, Rosenthal P, Lisker-Melman M, Ramachandran R, Lok AS, ; and the Hepatitis B Research Network (HBRN)

Hepatic Steatosis and Steatohepatitis in a Large North American Cohort of Adults With Chronic Hepatitis B. Am J Gastroenterol. 2021;116(8):1686-1697 - PMID: 33840726 - PMCID: PMC8484018 - DOI: 10.14309/ajg.0000000000001257

Avants BB, Tustison NJ, Stone JR

Similarity-driven multi-view embeddings from high-dimensional biomedical data. Nat Comput Sci. 2021;1(2):143-152 - PMID: 33796865 - PMCID: PMC8009088 - DOI: 10.1038/s43588-021-00029-8

Gazzaniga FS, Camacho DM, Wu M, Silva Palazzo MF, Dinis ALM, Grafton FN, Cartwright MJ, Super M, Kasper DL, Ingber DE

Harnessing Colon Chip Technology to Identify Commensal Bacteria That Promote Host Tolerance to Infection. Front Cell Infect Microbiol. 2021;11:638014 - PMID: 33777849 - PMCID: PMC7996096 - DOI: 10.3389/fcimb.2021.638014

Kiemes A, Davies C, Kempton MJ, Lukow PB, Bennallick C, Stone JM, Modinos G

GABA, Glutamate and Neural Activity: A Systematic Review With Meta-Analysis of Multimodal 1H-MRS-fMRI Studies. Front Psychiatry. 2021;12:644315 - PMID: 33762983 - PMCID: PMC7982484 - DOI: 10.3389/fpsyt.2021.644315

Sterling RK, King WC, Khalili M, Chung RT, Sulkowski M, Jain MK, Lisker-Melman M, Ghany MG, Wong DK, Hinerman AS, Bhan AK, Wahed AS, Kleiner DE, HBV-HIV Cohort Study of the Hepatitis B Research Network

A Prospective Study Evaluating Changes in Histology, Clinical and Virologic Outcomes in HBV-HIV Co-infected Adults in North America. Hepatology. 2021;74(3):1174-1189 - PMID: 33743541 - PMCID: PMC8597319 - DOI: 10.1002/hep.31823

Liu N, Xu S, Yao Q, Zhu Q, Kai Y, Hsu JY, Sakon P, Pinello L, Yuan GC, Bauer DE, Orkin SH

Author Correction: Transcription factor competition at the γ-globin promoters controls hemoglobin switching. Nat Genet. 2021;53(4):586 - PMID: 33731942 - PMCID: PMC8189157 - DOI: 10.1038/s41588-021-00834-x

Bearse M, Hung YP, Krauson AJ, Bonanno L, Boyraz B, Harris CK, Helland TL, Hilburn CF, Hutchison B, Jobbagy S, Marshall MS, Shepherd DJ, Villalba JA, Delfino I, Mendez-Pena J, Chebib I, Newton-Cheh C, Stone JR

Factors associated with myocardial SARS-CoV-2 infection, myocarditis, and cardiac inflammation in patients with COVID-19. Mod Pathol. 2021;34(7):1345-1357 - PMID: 33727695 - PMCID: PMC9813560 - DOI: 10.1038/s41379-021-00790-1

Amato S, Sgroi D, Di Giovanni C, Poliandri G, Cioffi A, Politi M

[Telemedicine: a Proxemics tool of Primary Care?]. Ig Sanita Pubbl. 2020;76(5):288-294 - PMID: 33724982

Delorey TM, Ziegler CGK, Heimberg G, Normand R, Yang Y, Segerstolpe A, Abbondanza D, Fleming SJ, Subramanian A, Montoro DT, Jagadeesh KA, Dey KK, Sen P, Slyper M, Pita-Juárez YH, Phillips D, Bloom-Ackerman Z, Barkas N, Ganna A, Gomez J, Normandin E, Naderi P, Popov YV, Raju SS, Niezen S, Tsai LT, Siddle KJ, Sud M, Tran VM, Vellarikkal SK, Amir-Zilberstein L, Atri DS, Beechem J, Brook OR, Chen J, Divakar P, Dorceus P, Engreitz JM, Essene A, Fitzgerald DM, Fropf R, Gazal S, Gould J, Grzyb J, Harvey T, Hecht J, Hether T, Jane-Valbuena J, Leney-Greene M, Ma H, McCabe C, McLoughlin DE, Miller EM, Muus C, Niemi M, Padera R, Pan L, Pant D, Pe'er C, Pfiffner-Borges J, Pinto CJ, Plaisted J, Reeves J, Ross M, Rudy M, Rueckert EH, Siciliano M, Sturm A, Todres E, Waghray A, Warren S, Zhang S, Zollinger DR, Cosimi L, Gupta RM, Hacohen N, Hide W, Price AL, Rajagopal J, Tata PR, Riedel S, Szabo G, Tickle TL, Hung D, Sabeti PC, Novak R, Rogers R, Ingber DE, Gordon Jiang Z, Juric D, Babadi M, Farhi SL, Stone JR, Vlachos IS, Solomon IH, Ashenberg O, Porter CBM, Li B, Shalek AK, Villani AC, Rozenblatt-Rosen O, Regev A

A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2. bioRxiv. 2021;:ePub - PMID: 33655247 - PMCID: PMC7924267 - DOI: 10.1101/2021.02.25.430130

Liu N, Xu S, Yao Q, Zhu Q, Kai Y, Hsu JY, Sakon P, Pinello L, Yuan GC, Bauer DE, Orkin SH

Transcription factor competition at the γ-globin promoters controls hemoglobin switching. Nat Genet. 2021;53(4):511-520 - PMID: 33649594 - PMCID: PMC8038971 - DOI: 10.1038/s41588-021-00798-y

Hsu JY, Grünewald J, Szalay R, Shih J, Anzalone AV, Lam KC, Shen MW, Petri K, Liu DR, Joung JK, Pinello L

PrimeDesign software for rapid and simplified design of prime editing guide RNAs. Nat Commun. 2021;12(1):1034 - PMID: 33589617 - PMCID: PMC7884779 - DOI: 10.1038/s41467-021-21337-7

Annas GJ, Beisel CL, Clement K, Crisanti A, Francis S, Galardini M, Galizi R, Grünewald J, Immobile G, Khalil AS, Müller R, Pattanayak V, Petri K, Paul L, Pinello L, Simoni A, Taxiarchi C, Joung JK

A Code of Ethics for Gene Drive Research. CRISPR J. 2021;4(1):19-24 - PMID: 33571044 - PMCID: PMC7898401 - DOI: 10.1089/crispr.2020.0096

Jelen LA, Stone JM

Ketamine for depression. Int Rev Psychiatry. 2021;33(3):207-228 - PMID: 33569971 - DOI: 10.1080/09540261.2020.1854194

Walton RT, Hsu JY, Joung JK, Kleinstiver BP

Scalable characterization of the PAM requirements of CRISPR-Cas enzymes using HT-PAMDA. Nat Protoc. 2021;16(3):1511-1547 - PMID: 33547443 - PMCID: PMC8063866 - DOI: 10.1038/s41596-020-00465-2

Yao Q, Ferragina P, Reshef Y, Lettre G, Bauer DE, Pinello L

Motif-Raptor: A Cell Type-Specific and Transcription Factor Centric Approach for Post-GWAS Prioritization of Causal Regulators. Bioinformatics. 2021;37(15):2103-2111 - PMID: 33532840 - PMCID: PMC11025460 - DOI: 10.1093/bioinformatics/btab072

Cheah PS, Prabhakar S, Yellen D, Beauchamp RL, Zhang X, Kasamatsu S, Bronson RT, Thiele EA, Kwiatkowski DJ, Stemmer-Rachamimov A, György B, Ling KH, Kaneki M, Tannous BA, Ramesh V, Maguire CA, Breakefield XO

Gene therapy for tuberous sclerosis complex type 2 in a mouse model by delivery of AAV9 encoding a condensed form of tuberin. Sci Adv. 2021;7(2):ePub - PMID: 33523984 - PMCID: PMC7793581 - DOI: 10.1126/sciadv.abb1703

Rao S, Yao Y, Soares de Brito J, Yao Q, Shen AH, Watkinson RE, Kennedy AL, Coyne S, Ren C, Zeng J, Serbin AV, Studer S, Ballotti K, Harris CE, Luk K, Stevens CS, Armant M, Pinello L, Wolfe SA, Chiarle R, Shimamura A, Lee B, Newburger PE, Bauer DE

Dissecting ELANE neutropenia pathogenicity by human HSC gene editing. Cell Stem Cell. 2021;28(5):833-845.e5 - PMID: 33513358 - PMCID: PMC8106646 - DOI: 10.1016/j.stem.2020.12.015

Harris CK, Hung YP, Nielsen GP, Stone JR, Ferry JA

Bone Marrow and Peripheral Blood Findings in Patients Infected by SARS-CoV-2. Am J Clin Pathol. 2021;155(5):627-637 - PMID: 33502434 - PMCID: PMC7929437 - DOI: 10.1093/ajcp/aqaa274

Jerby-Arnon L, Neftel C, Shore ME, Weisman HR, Mathewson ND, McBride MJ, Haas B, Izar B, Volorio A, Boulay G, Cironi L, Richman AR, Broye LC, Gurski JM, Luo CC, Mylvaganam R, Nguyen L, Mei S, Melms JC, Georgescu C, Cohen O, Buendia-Buendia JE, Segerstolpe A, Sud M, Cuoco MS, Labes D, Gritsch S, Zollinger DR, Ortogero N, Beechem JM, Petur Nielsen G, Chebib I, Nguyen-Ngoc T, Montemurro M, Cote GM, Choy E, Letovanec I, Cherix S, Wagle N, Sorger PK, Haynes AB, Mullen JT, Stamenkovic I, Rivera MN, Kadoch C, Wucherpfennig KW, Rozenblatt-Rosen O, Suvà ML, Riggi N, Regev A

Opposing immune and genetic mechanisms shape oncogenic programs in synovial sarcoma. Nat Med. 2021;27(2):289-300 - PMID: 33495604 - PMCID: PMC8817899 - DOI: 10.1038/s41591-020-01212-6

Neyaz A, Odze RD, Rickelt S, Nieman LT, Bledsoe JR, Mahadevan KK, Arora K, Jeck WR, Taylor MS, Gala M, Patil DT, Yilmaz OH, Rivera MN, Ting DT, Deshpande V

LGR5 in Barrett's Esophagus and its Utility in Predicting Patients at Increased Risk of Advanced Neoplasia. Clin Transl Gastroenterol. 2020;12(1):e00272 - PMID: 33464729 - PMCID: PMC8345923 - DOI: 10.14309/ctg.0000000000000272

McQueen G, Sendt KV, Gillespie A, Avila A, Lally J, Vallianatou K, Chang N, Ferreira D, Borgan F, Howes OD, Barker GJ, Lythgoe DJ, Stone JM, McGuire P, MacCabe JH, Egerton A

Changes in Brain Glutamate on Switching to Clozapine in Treatment-Resistant Schizophrenia. Schizophr Bull. 2021;47(3):662-671 - PMID: 33398325 - PMCID: PMC8084451 - DOI: 10.1093/schbul/sbaa156

Modica CM, Johnson BR, Zalewski C, King K, Brewer C, King JE, Yarnell AM, LoPresti ML, Walker PB, Dell KC, Polejaeva E, Quick A, Arnold B, Wassermann EM, Stone JR, Ahlers ST, Carr W

Hearing Loss and Irritability Reporting Without Vestibular Differences in Explosive Breaching Professionals. Front Neurol. 2020;11:588377 - PMID: 33391154 - PMCID: PMC7772348 - DOI: 10.3389/fneur.2020.588377

Li CM, Shapiro H, Tsiobikas C, Selfors LM, Chen H, Rosenbluth J, Moore K, Gupta KP, Gray GK, Oren Y, Steinbaugh MJ, Guerriero JL, Pinello L, Regev A, Brugge JS

Aging-Associated Alterations in Mammary Epithelia and Stroma Revealed by Single-Cell RNA Sequencing. Cell Rep. 2020;33(13):108566 - PMID: 33378681 - PMCID: PMC7898263 - DOI: 10.1016/j.celrep.2020.108566

Boulay G, Cironi L, Garcia SP, Rengarajan S, Xing YH, Lee L, Awad ME, Naigles B, Iyer S, Broye LC, Keskin T, Cauderay A, Fusco C, Letovanec I, Chebib I, Nielsen PG, Tercier S, Cherix S, Nguyen-Ngoc T, Cote G, Choy E, Provero P, Suvà ML, Rivera MN, Stamenkovic I, Riggi N

The chromatin landscape of primary synovial sarcoma organoids is linked to specific epigenetic mechanisms and dependencies. Life Sci Alliance. 2020;4(2):ePub - PMID: 33361335 - PMCID: PMC7768195 - DOI: 10.26508/lsa.202000808

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Case 30-2019: A 65-Year-Old Woman with Lung Cancer and Chest Pain. N Engl J Med. 2019;381(13):1268-1277 - PMID: 31553841 - DOI: 10.1056/NEJMcpc1900423

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Long-Term Therapeutic Efficacy of Intravenous AAV-Mediated Hamartin Replacement in Mouse Model of Tuberous Sclerosis Type 1. Mol Ther Methods Clin Dev. 2019;15:18-26 - PMID: 31534984 - PMCID: PMC6745533 - DOI: 10.1016/j.omtm.2019.08.003

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Immune checkpoint inhibitor associated myocarditis occurs in both high-grade and low-grade forms. Mod Pathol. 2019;33(1):99-108 - PMID: 31534205 - DOI: 10.1038/s41379-019-0363-0

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Special issue on ex vivo NMR spectroscopy. NMR Biomed. 2023;36(4):e4893 - PMID: 36624039 - DOI: 10.1002/nbm.4893

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The ETS transcription factor ETV6 constrains the transcriptional activity of EWS-FLI to promote Ewing sarcoma. Nat Cell Biol. 2023;25(2):285-297 - PMID: 36658220 - PMCID: PMC9928584 - DOI: 10.1038/s41556-022-01059-8

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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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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

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

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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

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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

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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

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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

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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

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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

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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

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Duration of SARS-CoV-2 mRNA vaccine persistence and factors associated with cardiac involvement in recently vaccinated patients. NPJ Vaccines. 2023;8(1):141 - PMID: 37758751 - PMCID: PMC10533894 - DOI: 10.1038/s41541-023-00742-7

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Atypical cystic hypersecretory lesions of the breast commonly harbour TP53 alterations. Histopathology. 2023;83(6):989-993 - PMID: 37771083 - DOI: 10.1111/his.15056

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Immune Responses in Checkpoint Myocarditis Across Heart, Blood, and Tumor. bioRxiv. 2023;:ePub - PMID: 37790460 - PMCID: PMC10542127 - DOI: 10.1101/2023.09.15.557794

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Characterization of the metabolomic profile of renal cell carcinoma by high resolution magic angle spinning proton magnetic resonance spectroscopy. Urol Oncol. 2023;41(11):459.e9-459.e16 - PMID: 37863744 - DOI: 10.1016/j.urolonc.2023.09.005

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Neurological effects of repeated blast exposure in Special Operations personnel. J Neurotrauma. 2023;41(7-8):942-956 - PMID: 37950709 - PMCID: PMC11001960 - DOI: 10.1089/neu.2023.0309

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Programs, Origins, and Niches of Immunomodulatory Myeloid Cells in Gliomas. bioRxiv. 2023;:ePub - PMID: 37961527 - PMCID: PMC10634776 - DOI: 10.1101/2023.10.24.563466

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DrugMap: A quantitative pan-cancer analysis of cysteine ligandability. bioRxiv. 2023;:ePub - PMID: 37961514 - PMCID: PMC10634688 - DOI: 10.1101/2023.10.20.563287

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ANTsX neuroimaging-derived structural phenotypes of UK Biobank. Res Sq. 2023;:ePub - PMID: 37961236 - PMCID: PMC10635385 - DOI: 10.21203/rs.3.rs-3459157/v1

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Spontaneous rupture of an arachnoid cyst in an adult: illustrative case. J Neurosurg Case Lessons. 2023;5(7):ePub - PMID: 38015025 - PMCID: PMC10550604 - DOI: 10.3171/CASE22420

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Defining and benchmarking open problems in single-cell analysis. Res Sq. 2024;:ePub - PMID: 38645152 - PMCID: PMC11030530 - DOI: 10.21203/rs.3.rs-4181617/v1

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DrugMap: A quantitative pan-cancer analysis of cysteine ligandability. Cell. 2024;187(10):2536-2556.e30 - PMID: 38653237 - PMCID: PMC11143475 - DOI: 10.1016/j.cell.2024.03.027

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Joint genotypic and phenotypic outcome modeling improves base editing variant effect quantification. Nat Genet. 2024;56(5):925-937 - PMID: 38658794 - PMCID: PMC11669423 - DOI: 10.1038/s41588-024-01726-6

Zhang S, Yan C, Millar DG, Yang Q, Heather JM, Langenbucher A, Morton LT, Sepulveda S, Alpert E, Whelton LR, Zarrella DT, Guo M, Minogue E, Lawrence MS, Rueda BR, Spriggs DR, Lu W, Langenau DM, Cobbold M

Correction: Antibody-Peptide Epitope Conjugates for Personalized Cancer Therapy. Cancer Res. 2024;84(9):1534 - PMID: 38693893 - DOI: 10.1158/0008-5472.CAN-24-0718

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Recombinant ADAMTS13 for Immune Thrombotic Thrombocytopenic Purpura. N Engl J Med. 2024;390(18):1690-1698 - PMID: 38718359 - PMCID: PMC11128310 - DOI: 10.1056/NEJMoa2402567

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Erratum: Gene replacement therapy in a schwannoma mouse model of neurofibromatosis type 2. Mol Ther Methods Clin Dev. 2024;32(2):101262 - PMID: 38745896 - PMCID: PMC11090857 - DOI: 10.1016/j.omtm.2024.101262

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T-Lymphoblastic Lymphoma Cells Express High Levels of BCL2, S1P1, and ICAM1, Leading to a Blockade of Tumor Cell Intravasation. Cancer Cell. 2024;42(6):1130-1131 - PMID: 38861925 - PMCID: PMC11253892 - DOI: 10.1016/j.ccell.2024.05.019

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Large B-cell lymphoma with mystery rearrangement: Applying Hi-C to the detection of clinically relevant structural abnormalities. Br J Haematol. 2024;205(3):1225-1229 - PMID: 38924537 - DOI: 10.1111/bjh.19611

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Single-cell atlas of the human brain vasculature across development, adulthood and disease. Nature. 2024;632(8025):603-613 - PMID: 38987604 - PMCID: PMC11324530 - DOI: 10.1038/s41586-024-07493-y

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Single cell transcriptomic profiling identifies tumor-acquired and therapy-resistant cell states in pediatric rhabdomyosarcoma. Nat Commun. 2024;15(1):6307 - PMID: 39060228 - PMCID: PMC11282092 - DOI: 10.1038/s41467-024-50527-2

Sundaramoorthy S, Colombo DF, Sanalkumar R, Broye L, Balmas Bourloud K, Boulay G, Cironi L, Stamenkovic I, Renella R, Kuttler F, Turcatti G, Rivera MN, Mühlethaler-Mottet A, Bardet AF, Riggi N

Preclinical spheroid models identify BMX as a therapeutic target for metastatic MYCN nonamplified neuroblastoma. JCI Insight. 2024;9(14):ePub - PMID: 39133652 - PMCID: PMC11383371 - DOI: 10.1172/jci.insight.169647

Lin J, Luo R, Pinello L

EPInformer: A Scalable Deep Learning Framework for Gene Expression Prediction by Integrating Promoter-enhancer Sequences with Multimodal Epigenomic Data. bioRxiv. 2024;:ePub - PMID: 39131276 - PMCID: PMC11312614 - DOI: 10.1101/2024.08.01.606099

Qiu J, Ren T, Liu Q, Jiang Q, Wu T, Cheng LC, Yan W, Qu X, Han X, Hua K

Dissecting the Distinct Tumor Microenvironments of HRD and HRP Ovarian Cancer: Implications for Targeted Therapies to Overcome PARPi Resistance in HRD Tumors and Refractoriness in HRP Tumors. Adv Sci (Weinh). 2024;11(38):e2309755 - PMID: 39136172 - PMCID: PMC11481286 - DOI: 10.1002/advs.202309755

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Cancer cell states: Lessons from ten years of single-cell RNA-sequencing of human tumors. Cancer Cell. 2024;42(9):1497-1506 - PMID: 39214095 - DOI: 10.1016/j.ccell.2024.08.005

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Scalable assessment of genome editing off-targets associated with genetic variants. bioRxiv. 2024;:ePub - PMID: 39211178 - PMCID: PMC11360989 - DOI: 10.1101/2024.07.24.605019

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EWS-WT1 fusion isoforms establish oncogenic programs and therapeutic vulnerabilities in desmoplastic small round cell tumors. Nat Commun. 2024;15(1):7460 - PMID: 39198430 - PMCID: PMC11358472 - DOI: 10.1038/s41467-024-51851-3

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Case 27-2024: A 24-Year-Old Man with Pain and Dyspnea. N Engl J Med. 2024;391(9):845-852 - PMID: 39231348 - DOI: 10.1056/NEJMcpc2402491

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Normative Neuroimaging Library: Designing a Comprehensive and Demographically Diverse Dataset of Healthy Controls to Support Traumatic Brain Injury Diagnostic and Therapeutic Development. J Neurotrauma. 2024;41(23-24):2497-2512 - PMID: 39235436 - DOI: 10.1089/neu.2024.0128

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Selective Enhancer Gain of Function Deregulates MYC Expression in Multiple Myeloma. Cancer Res. 2024;84(24):4173-4183 - PMID: 39312195 - PMCID: PMC11649448 - DOI: 10.1158/0008-5472.CAN-24-1440

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CRISPR-CLEAR: Nucleotide-Resolution Mapping of Regulatory Elements via Allelic Readout of Tiled Base Editing. bioRxiv. 2024;:ePub - PMID: 39314441 - PMCID: PMC11419122 - DOI: 10.1101/2024.09.09.612085

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Glioblastoma-cortical organoids recapitulate cell state heterogeneity and intercellular transfer. Cancer Discov. 2024;15(2):299-315 - PMID: 39373549 - PMCID: PMC11803396 - DOI: 10.1158/2159-8290.CD-23-1336

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Association between thrombus histopathology and hemodynamic outcomes among patients with chronic thromboembolic pulmonary hypertension undergoing pulmonary endarterectomy. Chest. 2024;167(4):1182-1190 - PMID: 39454997 - DOI: 10.1016/j.chest.2024.10.018

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Follicular lymphoma research: an open dialogue for a collaborative roadmap. Histopathology. 2024;86(1):79-93 - PMID: 39468961 - PMCID: PMC11648361 - DOI: 10.1111/his.15344

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Building social equity and person-centred innovation into the end TB response. Int J Tuberc Lung Dis. 2024;28(11):517-520 - PMID: 39468025 - DOI: 10.5588/ijtld.24.0338

Lederer AR, Leonardi M, Talamanca L, Bobrovskiy DM, Herrera A, Droin C, Khven I, Carvalho HJF, Valente A, Dominguez Mantes A, Mulet Arabí P, Pinello L, Naef F, La Manno G

Statistical inference with a manifold-constrained RNA velocity model uncovers cell cycle speed modulations. Nat Methods. 2024;21(12):2271-2286 - PMID: 39482463 - PMCID: PMC11621032 - DOI: 10.1038/s41592-024-02471-8

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Consensus recommendations for an integrated diagnostic approach to peripheral nerve sheath tumors arising in the setting of Neurofibromatosis type 1 (NF1). Neuro Oncol. 2024;27(3):616-624 - PMID: 39500722 - PMCID: PMC11889724 - DOI: 10.1093/neuonc/noae235

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Immune responses in checkpoint myocarditis across heart, blood and tumour. Nature. 2024;636(8041):215-223 - PMID: 39506125 - PMCID: PMC12952943 - DOI: 10.1038/s41586-024-08105-5

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Differences in Brain Volume in Military Service Members and Veterans After Blast-Related Mild TBI: A LIMBIC-CENC Study. JAMA Netw Open. 2024;7(11):e2443416 - PMID: 39527059 - PMCID: PMC11555548 - DOI: 10.1001/jamanetworkopen.2024.43416

Meira M, Frey A, Chekkat N, Rybczynska M, Sellam Z, Park JS, Gazzaniga FS, Parmentier A, Le Gall M, Freeman GJ, Kasper DL, Sharpe AH, Rambeaux E, Shamshiev A

Targeting RGMb interactions: Discovery and preclinical characterization of potent anti-RGMb antibodies blocking multiple ligand bindings. MAbs. 2024;16(1):2432403 - PMID: 39588913 - PMCID: PMC11601088 - DOI: 10.1080/19420862.2024.2432403

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Gene editing without ex vivo culture evades genotoxicity in human hematopoietic stem cells. Cell Stem Cell. 2024;32(2):191-208.e11 - PMID: 39672163 - PMCID: PMC11805672 - DOI: 10.1016/j.stem.2024.11.001

Mitsiades IR, Onozato M, Iafrate AJ, Hicks D, Gülhan DC, Sgroi DC, Rheinbay E

ERBB2/HOXB13 co-amplification with interstitial loss of BRCA1 defines a unique subset of breast cancers. Breast Cancer Res. 2024;26(1):185 - PMID: 39695741 - PMCID: PMC11657829 - DOI: 10.1186/s13058-024-01943-1

Alborikan S, Althunayyan A, Pandya B, Von Klemperer K, Walker F, Cullen S, Bhan A, Badiani S, Encarnacion D, Monteiro R, Petersen SE, Bhattacharyya S, Lloyd G

Blood biomarkers to detect functional impairment in adult patients with repaired tetralogy of Fallot. Int J Cardiol Congenit Heart Dis. 2023;14:100483 - PMID: 39712984 - PMCID: PMC11657782 - DOI: 10.1016/j.ijcchd.2023.100483

Lee JJY, Tao R, You Z, Haldipur P, Erickson AW, Farooq H, Hendriske LD, Abeysundara N, Richman CM, Wang EY, Das Gupta N, Hadley J, Batts M, Mount CW, Wu X, Rasnitsyn A, Bailey S, Cavalli FMG, Morrissy S, Garzia L, Michealraj KA, Visvanathan A, Fong V, Palotta J, Suarez R, Livingston BG, Liu M, Luu B, Daniels C, Loukides J, Bendel A, French PJ, Kros JM, Korshunov A, Kool M, Chico Ponce de León F, Perezpeña-Diazconti M, Lach B, Singh SK, Leary SES, Cho BK, Kim SK, Wang KC, Lee JY, Tominaga T, Weiss WA, Phillips JJ, Dai S, Zadeh G, Saad AG, Bognár L, Klekner A, Pollack IF, Hamilton RL, Ra YS, Grajkowska WA, Perek-Polnik M, Thompson RC, Kenney AM, Cooper MK, Mack SC, Jabado N, Lupien M, Gallo M, Ramaswamy V, Suva ML, Suzuki H, Millen KJ, Huang LF, Northcott PA, Taylor MD

ZIC1 is a context-dependent medulloblastoma driver in the rhombic lip. Nat Genet. 2025;57(1):88-102 - PMID: 39753768 - PMCID: PMC11735403 - DOI: 10.1038/s41588-024-02014-z

Yu T, Li Z, Gibbs E, Iwase R, Francoeur MJ, Phan QV, Zhao J, Rosin J, Cole PA, Pinello L, Sherwood RI

Deaminase-mediated chromatin accessibility profiling with single-allele resolution. bioRxiv. 2024;:ePub - PMID: 39763859 - PMCID: PMC11702760 - DOI: 10.1101/2024.12.17.628768

Di Stefano G, Fischer A, Chteinberg E, Bens S, Wagener R, Abramov D, Adam P, Bernhart SH, Borkhardt A, Burkhardt B, Del-Val C, Frühwald MC, Guazzo R, Hoell JI, Hummel M, Horn H, Klapper W, Krugmann J, Kurz KS, Lazzi S, Louissaint AJ, Mottok A, Oschlies I, Santi R, Schafernak K, Staiger AM, Zhang Y, Rosenwald A, Trümper L, Leoncini L, Ott G, Siebert R

MicroRNA Expression in High-Grade B-Cell Lymphoma With 11q Aberration. Genes Chromosomes Cancer. 2025;64(1):e70021 - PMID: 39846133 - PMCID: PMC11755218 - DOI: 10.1002/gcc.70021

Shanmugam V, Tokcan N, Chafamo D, Sullivan S, Borji M, Martin H, Newton G, Nadaf N, Hanbury S, Barrera I, Cable D, Weir J, Ashenberg O, Pinkus G, Rodig S, Uhler C, Macosko E, Shipp M, Louissaint A, Chen F, Golub T

Genome-scale spatial mapping of the Hodgkin lymphoma microenvironment identifies tumor cell survival factors. bioRxiv. 2025;:ePub - PMID: 39896575 - PMCID: PMC11785141 - DOI: 10.1101/2025.01.24.631210

Kardani K, Ghouse SM, Din Abdul Jabbar MA, Rajasubramanian N, Sanchez Gil J, Stemmer-Rachamimov A, Soda Y, Martuza RL, Hara T, Wakimoto H, Rabkin SD

Immunocompetent murine glioblastoma stem-like cell models exhibiting distinct phenotypes. Neurooncol Adv. 2024;7(1):vdae215 - PMID: 39896074 - PMCID: PMC11783566 - DOI: 10.1093/noajnl/vdae215

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The gut microbiome and cancer response to immune checkpoint inhibitors. J Clin Invest. 2025;135(3):ePub - PMID: 39895632 - PMCID: PMC11785914 - DOI: 10.1172/JCI184321

Miller TE, El Farran CA, Couturier CP, Chen Z, D'Antonio JP, Verga J, Villanueva MA, Gonzalez Castro LN, Tong YE, Saadi TA, Chiocca AN, Zhang Y, Fischer DS, Heiland DH, Guerriero JL, Petrecca K, Suva ML, Shalek AK, Bernstein BE

Programs, origins and immunomodulatory functions of myeloid cells in glioma. Nature. 2025;640(8060):1072-1082 - PMID: 40011771 - PMCID: PMC12018266 - DOI: 10.1038/s41586-025-08633-8

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Integrative cytogenetic and molecular studies unmask "chromosomal mimicry" in hematologic malignancies. Blood Adv. 2025;9(5):1003-1012 - PMID: 40014425 - PMCID: PMC11907439 - DOI: 10.1182/bloodadvances.2024013800

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A positron emission tomography tracer for the imaging of oxidative stress in the central nervous system. Nat Biomed Eng. 2025;9(5):716-729 - PMID: 40044816 - PMCID: PMC12092265 - DOI: 10.1038/s41551-025-01362-3

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