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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

Feng H, Stachura DL, White RM, Gutierrez A, Zhang L, Sanda T, Jette CA, Testa JR, Neuberg DS, Langenau DM, Kutok JL, Zon LI, Traver D, Fleming MD, Kanki JP, Look AT

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

Prior D, Schmitt AD, Louissaint A, Mata DA, Massaro S, Nardi V, Xu ML

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

Wälchli T, Ghobrial M, Schwab M, Takada S, Zhong H, Suntharalingham S, Vetiska S, Gonzalez DR, Wu R, Rehrauer H, Dinesh A, Yu K, Chen ELY, Bisschop J, Farnhammer F, Mansur A, Kalucka J, Tirosh I, Regli L, Schaller K, Frei K, Ketela T, Bernstein M, Kongkham P, Carmeliet P, Valiante T, Dirks PB, Suva ML, Zadeh G, Tabar V, Schlapbach R, Jackson HW, De Bock K, Fish JE, Monnier PP, Bader GD, Radovanovic I

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

Danielli SG, Wei Y, Dyer MA, Stewart E, Sheppard H, Wachtel M, Schäfer BW, Patel AG, Langenau DM

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

Tirosh I, Suva ML

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

Lin J, Nguyen MA, Lin LY, Zeng J, Verma A, Neri NR, da Silva LF, Mucci A, Wolfe S, Shaw KL, Clement K, Brendel C, Pinello L, Pellin D, Bauer DE

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

Boulay G, Broye LC, Dong R, Iyer S, Sanalkumar R, Xing YH, Buisson R, Rengarajan S, Naigles B, Duc B, Volorio A, Awad ME, Renella R, Chebib I, Nielsen GP, Choy E, Cote GM, Zou L, Letovanec I, Stamenkovic I, Rivera MN, Riggi N

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

Walensky RP, Baggett MV, Tran KM, Shepard JO, Dudzinski DM, Sgroi DC

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

Gage AT, Stone JR, Wilde EA, McCauley SR, Welsh RC, Mugler JP, Tustison N, Avants B, Whitlow CT, Lancashire L, Bhatt SD, Haas M

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

Rahmat M, Clement K, Alberge JB, Sklavenitis-Pistofidis R, Kodgule R, Fulco CP, Heilpern-Mallory D, Nilsson K, Dorfman D, Engreitz JM, Getz G, Pinello L, Ryan R, Ghobrial IM

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

Prabhakar S, Beauchamp RL, Cheah PS, Yoshinaga A, Abou Haidar E, Lule S, Mani G, Maalouf K, Stemmer-Rachamimov A, Jung DH, Welling DB, Giovannini M, Plotkin SR, Maguire CA, Ramesh V, Breakefield XO

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

Mangena V, Chanoch-Myers R, Sartore R, Paulsen B, Gritsch S, Weisman H, Hara T, Breakefield XO, Breyne K, Regev A, Chung K, Arlotta P, Tirosh I, Suva ML

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

Mounsey LA, Alape Moya D, Wright C, Langer N, Stone JR, Channick R, Wong AK, Rodriguez-Lopez J, Witkin AS

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

Collin M, Gagey G, Shanmugam V, Louissaint A, Okosun J, Sarkozy C, Nadel B

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

Engel N, Apolosi I, Bhargava A, Bhan A, Celan C, Mak A, Chikovore J, Chorna Y, Claassens MM, Dagron S, Denholm JT, Frick M, Furin J, Hoddinott G, Kashnitsky D, Kielmann K, Kunor T, Lin D, McDowell A, Mitchell EM, Oga-Omenka C, Samina P, Shikoli SA, Silva DS, Stein R, Stillo J, van der Westhuizen HM, Wingfield T, Zwerling A, Daftary A

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

Lucas CG, Gross AM, Romo CG, Dehner CA, Lazar AJ, Miettinen M, Pekmezci M, Quezado M, Rodriguez FJ, Stemmer-Rachamimov A, Viskochil D, Perry A, Symposium on Atypical Neurofibroma: State of the Science Members

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

Blum SM, Zlotoff DA, Smith NP, Kernin IJ, Ramesh S, Zubiri L, Caplin J, Samanta N, Martin S, Wang M, Tirard A, Song Y, Xu KH, Barth J, Sen P, Slowikowski K, Tantivit J, Manakongtreecheep K, Arnold BY, Nasrallah M, Pinto CJ, McLoughlin D, Jackson M, Chan P, Lawless A, Michaud WA, Sharova T, Nieman LT, Gainor JF, Wu CJ, Juric D, Mino-Kenudson M, Oliveira G, Sullivan RJ, Boland GM, Stone JR, Thomas MF, Neilan TG, Reynolds KL, Villani AC

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

Dennis EL, Rowland JA, Esopenko C, Tustison NJ, Newsome MR, Hovenden ES, Avants BB, Gill J, Hinds SR, Kenney K, Lindsey HM, Martindale SL, Pugh MJ, Scheibel RS, Shahim PP, Shih R, Stone JR, Troyanskaya M, Walker WC, Werner K, York GE, Cifu DX, Tate DF, Wilde EA

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

Zeng J, Nguyen MA, Liu P, da Silva LF, Levesque S, 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, Cha HJ, Orkin SH, 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. 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

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

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

Zhang AM, Elmoursi A, DiGiacomo DV, Zhou B, Tandon M, Hong JS, Yang NJ, Ong MS, Dighe AS, Berrios C, Poznansky MC, Iafrate AJ, Naranbhai V, Balazs A, Pillai S, Farmer JR, Barmettler S

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccine response in adults with predominantly antibody deficiency. J Allergy Clin Immunol Glob. 2024;3(2):100234 - PMID: 38544577 - PMCID: PMC10965812 - DOI: 10.1016/j.jacig.2024.100234

Troxel AB, Bind MC, Flotte TJ, Cordon-Cardo C, Decker LA, Finn AV, Padera RF, Reichard RR, Stone JR, Adolphi NL, Casimero FVC, Crary JF, Elifritz J, Faustin A, Ghosh SKB, Krausert A, Martinez-Lage M, Melamed J, Mitchell RA, Sampson BA, Seifert AC, Simsir A, Adams C, Haasnoot S, Hafner S, Siciliano MA, Vallejos BB, Del Boccio P, Lamendola-Essel MF, Young CE, Kewlani D, Akinbo PA, Parent B, Chung A, Cato TC, Mudumbi PC, Esquenazi-Karonika S, Wood MJ, Chan J, Monteiro J, Shinnick DJ, Thaweethai T, Nguyen AN, Fitzgerald ML, Perlowski AA, Stiles LE, Paskett ML, Katz SD, Foulkes AS, RECOVER Initiative Autopsy Group

Researching COVID to enhance recovery (RECOVER) tissue pathology study protocol: Rationale, objectives, and design. PLoS One. 2024;19(1):e0285645 - PMID: 38198481 - PMCID: PMC10781091 - DOI: 10.1371/journal.pone.0285645

Sarkar A, McInroy CJA, Harty S, Raulo A, Ibata NGO, Valles-Colomer M, Johnson KV, Brito IL, Henrich J, Archie EA, Barreiro LB, Gazzaniga FS, Finlay BB, Koonin EV, Carmody RN, Moeller AH

Microbial transmission in the social microbiome and host health and disease. Cell. 2024;187(1):17-43 - PMID: 38181740 - PMCID: PMC10958648 - DOI: 10.1016/j.cell.2023.12.014

Elder GA, Gama Sosa MA, De Gasperi R, Perez Garcia G, Perez GM, Abutarboush R, Kawoos U, Zhu CW, Janssen WGM, Stone JR, Hof PR, Cook DG, Ahlers ST

The Neurovascular Unit as a Locus of Injury in Low-Level Blast-Induced Neurotrauma. Int J Mol Sci. 2024;25(2):ePub - PMID: 38256223 - PMCID: PMC10816929 - DOI: 10.3390/ijms25021150

Wu M, Zheng W, Song X, Bao B, Wang Y, Ramanan D, Yang D, Liu R, Macbeth JC, Do EA, Andrade WA, Yang T, Cho HS, Gazzaniga FS, Ilves M, Coronado D, Thompson C, Hang S, Chiu IM, Moffitt JR, Hsiao A, Mekalanos JJ, Benoist C, Kasper DL

Gut complement induced by the microbiota combats pathogens and spares commensals. Cell. 2024;187(4):897-913.e18 - PMID: 38280374 - PMCID: PMC10922926 - DOI: 10.1016/j.cell.2023.12.036

Bakaric A, Cironi L, Praz V, Sanalkumar R, Broye LC, Favre-Bulle K, Letovanec I, Digklia A, Renella R, Stamenkovic I, Ott CJ, Nakamura T, Antonescu CR, Rivera MN, Riggi N

CIC-DUX4 Chromatin Profiling Reveals New Epigenetic Dependencies and Actionable Therapeutic Targets in CIC-Rearranged Sarcomas. Cancers (Basel). 2024;16(2):ePub - PMID: 38275898 - PMCID: PMC10814785 - DOI: 10.3390/cancers16020457

Casimero FVC, Patalas ED, Stone JR

Sudden unexpected death in a middle-aged woman. J Clin Pathol. 2024;77(5):297-300 - PMID: 38316542 - DOI: 10.1136/jcp-2022-208691

Lederer AR, Leonardi M, Talamanca L, Herrera A, Droin C, Khven I, Carvalho HJF, Valente A, Mantes AD, Arabí PM, Pinello L, Naef F, Manno G

Statistical inference with a manifold-constrained RNA velocity model uncovers cell cycle speed modulations. bioRxiv. 2024;:ePub - PMID: 38328127 - PMCID: PMC10849531 - DOI: 10.1101/2024.01.18.576093

Lin LY, Azad AD, Chiou CA, Kozanno L, Stemmer-Rachamimov A, Stone J, Lee NG

Antisynthetase Syndrome Causing Necrotizing Myositis Involving Extraocular Muscles. Ophthalmic Plast Reconstr Surg. 2024;40(4):e111-e114 - PMID: 38346432 - DOI: 10.1097/IOP.0000000000002628

DaSilva LF, Senan S, Patel ZM, Reddy AJ, Gabbita S, Nussbaum Z, Córdova CMV, Wenteler A, Weber N, Tunjic TM, Khan TA, Li Z, Smith C, Bejan M, Louis LK, Cornejo P, Connell W, Wong ES, Meuleman W, Pinello L

DNA-Diffusion: Leveraging Generative Models for Controlling Chromatin Accessibility and Gene Expression via Synthetic Regulatory Elements. bioRxiv. 2024;:ePub - PMID: 38352499 - PMCID: PMC10862870 - DOI: 10.1101/2024.02.01.578352

Stone JR, Nair V, Fishbein GA, Society for Cardiovascular Pathology Temporal Artery Biopsy Consensus Committee

The Minimal Criteria for Active Arteritis in a Temporal Artery Biopsy. Cardiovasc Pathol. 2024;70:107622 - PMID: 38365063 - DOI: 10.1016/j.carpath.2024.107622

Prajapati K, Yan C, Yang Q, Arbitman S, Fitzgerald DP, Sharee S, Shaik J, Bosiacki J, Myers K, Paucarmayta A, Johnson DM, O'Neill T, Kundu S, Cusumano Z, Langermann S, Langenau DM, Patel S, Flies DB

The FLRT3-UNC5B checkpoint pathway inhibits T cell-based cancer immunotherapies. Sci Adv. 2024;10(9):eadj4698 - PMID: 38427724 - PMCID: PMC10906930 - DOI: 10.1126/sciadv.adj4698

Grune J, Bajpai G, Ocak PT, Kaufmann E, Mentkowksi K, Pabel S, Kumowski N, Pulous FE, Tran KA, Rohde D, Zhang S, Iwamoto Y, Wojtkiewicz GR, Vinegoni C, Green U, Swirski FK, Stone JR, Lennerz JK, Divangahi M, Hulsmans M, Nahrendorf M

Virus-Induced Acute Respiratory Distress Syndrome Causes Cardiomyopathy Through Eliciting Inflammatory Responses in the Heart. Circulation. 2024;150(1):49-61 - PMID: 38506045 - PMCID: PMC11216864 - DOI: 10.1161/CIRCULATIONAHA.123.066433

Xhori O, Deol N, Rivera CM, Zavras J, Weil SG, Zafari H, Thierauf JC, Faquin WC, Choy E, Rivera MN, John Iafrate A, Jaquinet A, Troulis MJ

A Comparison of Clear Cell Sarcoma to Jaw and Salivary Tumors Bearing EWS Fusions. Head Neck Pathol. 2024;18(1):25 - PMID: 38526767 - PMCID: PMC10963349 - DOI: 10.1007/s12105-024-01625-6

Abutarboush R, Reed E, Chen Y, Gu M, Watson C, Kawoos U, Statz JK, Tschiffely A, Ciarlone S, Perez Garcia G, Gama Sosa MA, De Gasperi R, Stone JR, Elder GA, Ahlers S

Exposure to low-intensity blast increases clearance of brain Aβ. J Neurotrauma. 2024;41(5-6):685-704 - PMID: 38183627 - DOI: 10.1089/neu.2023.0284

van der Geest KSM, Sandovici M, Bley TA, Stone JR, Slart RHJA, Brouwer E

Large vessel giant cell arteritis. Lancet Rheumatol. 2024;6(6):e397-e408 - PMID: 38574745 - DOI: 10.1016/S2665-9913(23)00300-4

Hoteit A, Casimero FVC, Stone JR, Cameron D, Isselbacher EM, Seyedsadjadi R, Gaggin HK

Wild-type Transthyretin Amyloid Deposition in an Ascending Aortic Aneurysm. JACC Case Rep. 2024;29(9):102311 - PMID: 38576771 - PMCID: PMC10990737 - DOI: 10.1016/j.jaccas.2024.102311

Mittal K, Cooper GW, Lee BP, Su Y, Skinner KT, Shim J, Jonus HC, Kim WJ, Doshi M, Almanza D, Kynnap BD, Christie AL, Yang X, Cowley GS, Leeper BA, Morton CL, Dwivedi B, Lawrence T, Rupji M, Keskula P, Meyer S, Clinton CM, Bhasin M, Crompton BD, Tseng YY, Boehm JS, Ligon KL, Root DE, Murphy AJ, Weinstock DM, Gokhale PC, Spangle JM, Rivera MN, Mullen EA, Stegmaier K, Goldsmith KC, Hahn WC, Hong AL

Targeting TRIP13 in favorable histology Wilms tumor with nuclear export inhibitors synergizes with doxorubicin. Commun Biol. 2024;7(1):426 - PMID: 38589567 - PMCID: PMC11001930 - DOI: 10.1038/s42003-024-06140-6

Tustison NJ, Yassa MA, Rizvi B, Cook PA, Holbrook AJ, Sathishkumar MT, Tustison MG, Gee JC, Stone JR, Avants BB

ANTsX neuroimaging-derived structural phenotypes of UK Biobank. Sci Rep. 2024;14(1):8848 - PMID: 38632390 - PMCID: PMC11024129 - DOI: 10.1038/s41598-024-59440-6

Langenau DM, Keefe MD, Storer NY, Guyon JR, Kutok JL, Le X, Goessling W, Neuberg DS, Kunkel LM, Zon LI

Corrigendium: Effects of RAS on the genesis of embryonal rhabdomyosarcoma. Genes Dev. 2024;38(5-6):289 - PMID: 38631822 - PMCID: PMC11065167 - DOI: 10.1101/gad.351747.124

Luecken M, Gigante S, Burkhardt D, Cannoodt R, Strobl D, Markov N, Zappia L, Palla G, Lewis W, Dimitrov D, Vinyard M, Magruder D, Andersson A, Dann E, Qin Q, Otto D, Klein M, Botvinnik O, Deconinck L, Waldrant K, Rieck B, Ahlmann-Eltze C, Beltrame EDV, Benz A, González-Blas CB, Chen A, DeMeo B, Ergen C, Floc'hlay S, Gayoso A, Hicks S, Ji Y, Kleshchevnikov V, Manno G, Lombardo M, Lopez R, Righelli D, Sarkar H, Svensson V, Tong A, Xing G, Xu C, Bloom J, Pisco A, Saez-Rodriguez J, Wulsin D, Pinello L, Saeys Y, Theis F, Krishnaswamy S

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

Takahashi M, Chong HB, Zhang S, Yang TY, Lazarov MJ, Harry S, Maynard M, Hilbert B, White RD, Murrey HE, Tsou CC, Vordermark K, Assaad J, Gohar M, Dürr BR, Richter M, Patel H, Kryukov G, Brooijmans N, Alghali ASO, Rubio K, Villanueva A, Zhang J, Ge M, Makram F, Griesshaber H, Harrison D, Koglin AS, Ojeda S, Karakyriakou B, Healy A, Popoola G, Rachmin I, Khandelwal N, Neil JR, Tien PC, Chen N, Hosp T, van den Ouweland S, Hara T, Bussema L, Dong R, Shi L, Rasmussen MQ, Domingues AC, Lawless A, Fang J, Yoda S, Nguyen LP, Reeves SM, Wakefield FN, Acker A, Clark SE, Dubash T, Kastanos J, Oh E, Fisher DE, Maheswaran S, Haber DA, Boland GM, Sade-Feldman M, Jenkins RW, Hata AN, Bardeesy NM, Suvà ML, Martin BR, Liau BB, Ott CJ, Rivera MN, Lawrence MS, Bar-Peled L

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

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

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

Tak YE, Hsu JY, Shih J, Schultz HT, Nguyen IT, Lam KC, Pinello L, Keith Joung J

CRISPR PERSIST-On enables heritable and fine-tunable human gene activation. bioRxiv. 2024;:ePub - PMID: 38712303 - PMCID: PMC11071488 - DOI: 10.1101/2024.04.26.590475

Hsu JY, Lam KC, Shih J, Pinello L, Joung JK

MOSAIC enables in situ saturation mutagenesis of genes and CRISPR prime editing guide RNA optimization in human cells. bioRxiv. 2024;:ePub - PMID: 38712243 - PMCID: PMC11071466 - DOI: 10.1101/2024.04.25.591078

Bendapudi PK, Foy BH, Mueller SB, Liu J, Feingold LM, Burke KE, Cruz W, Chen MY, Lau ES, Goldberg RL, Tatake I, Wilkinson SC, Carney BJ, Stone JR, Park D, Avelino AR, Hassan S, Andrzejewski C, Ruby KN, Friedman KD, Brunker PAR, Leaf RK, Higgins J, Dzik WH, Stefely JA, Makar RS

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