Publications

2025

Beyond the Marrow–Moving Toward a Systemic Perspective of Radiation-Induced CytopeniasBrowning S, Lourdes M, Neparidze N, Robinson T. Beyond the Marrow–Moving Toward a Systemic Perspective of Radiation-Induced Cytopenias. International Journal Of Radiation Oncology • Biology • Physics 2025, 121: 1039-1041. PMID: 39988417, DOI: 10.1016/j.ijrobp.2024.11.100.
Drosophila Modulo is Essential for Transposon Silencing and Developmental RobustnessParikh R, Nayak D, Lin H, Gangaraju V. Drosophila Modulo is Essential for Transposon Silencing and Developmental Robustness. Journal Of Biological Chemistry 2025, 108210. PMID: 39848495, DOI: 10.1016/j.jbc.2025.108210.
Novel Quinazoline Derivatives Inhibit Splicing of Fungal Group II IntronsFedorova O, Luo M, Jagdmann G, Van Zandt M, Sisto L, Pyle A. Novel Quinazoline Derivatives Inhibit Splicing of Fungal Group II Introns. ACS Chemical Biology 2025 PMID: 39824511, DOI: 10.1021/acschembio.4c00631.
Hidden human costs of AIGreenbaum D, Gerstein M. Hidden human costs of AI. Science 2025, 387: 32-32. DOI: 10.1126/science.adu1541.
Chapter 14 Impact of androgens on cardiovascular risk in women with polycystic ovary syndrome and transgender menStachenfeld N, Alexander L, Bender J, Weinzimer S, Pal L, Reckelhoff J. Chapter 14 Impact of androgens on cardiovascular risk in women with polycystic ovary syndrome and transgender men. 2025, 279-293. DOI: 10.1016/b978-0-443-22266-5.00014-8.
Dysregulation of mTOR signalling is a converging mechanism in lissencephalyZhang C, Liang D, Ercan-Sencicek A, Bulut A, Cortes J, Cheng I, Henegariu O, Nishimura S, Wang X, Peksen A, Takeo Y, Caglar C, Lam T, Koroglu M, Narayanan A, Lopez-Giraldez F, Miyagishima D, Mishra-Gorur K, Barak T, Yasuno K, Erson-Omay E, Yalcinkaya C, Wang G, Mane S, Kaymakcalan H, Guzel A, Caglayan A, Tuysuz B, Sestan N, Gunel M, Louvi A, Bilguvar K. Dysregulation of mTOR signalling is a converging mechanism in lissencephaly. Nature 2025, 1-10. PMID: 39743596, DOI: 10.1038/s41586-024-08341-9.

2024

Digital phenotyping from wearables using AI characterizes psychiatric disorders and identifies genetic associationsLiu J, Borsari B, Li Y, Liu S, Gao Y, Xin X, Lou S, Jensen M, Garrido-Martín D, Verplaetse T, Ash G, Zhang J, Girgenti M, Roberts W, Gerstein M. Digital phenotyping from wearables using AI characterizes psychiatric disorders and identifies genetic associations. Cell 2024 PMID: 39706190, DOI: 10.1016/j.cell.2024.11.012.
Biodistribution of Polymeric Nanoparticles following In-Utero Delivery to a Non-Human PrimateEaton D, Lynn A, Surprenant J, Deschenes E, Guerra M, Rivero R, Yung N, O'Connor M, Glazer P, Bahtiyar M, Saltzman W, Stitelman D. Biodistribution of Polymeric Nanoparticles following In-Utero Delivery to a Non-Human Primate. Biomedicine Hub 2024, 1-16. DOI: 10.1159/000543138.
Intracellular endothelial cell metabolism in vascular function and dysfunctionCitrin K, Chaube B, Fernández-Hernando C, Suárez Y. Intracellular endothelial cell metabolism in vascular function and dysfunction. Trends In Endocrinology And Metabolism 2024 PMID: 39672762, DOI: 10.1016/j.tem.2024.11.004.
Confronting risks of mirror lifeAdamala K, Agashe D, Belkaid Y, Bittencourt D, Cai Y, Chang M, Chen I, Church G, Cooper V, Davis M, Devaraj N, Endy D, Esvelt K, Glass J, Hand T, Inglesby T, Isaacs F, James W, Jones J, Kay M, Lenski R, Liu C, Medzhitov R, Nicotra M, Oehm S, Pannu J, Relman D, Schwille P, Smith J, Suga H, Szostak J, Talbot N, Tiedje J, Venter J, Winter G, Zhang W, Zhu X, Zuber M. Confronting risks of mirror life. Science 2024, 386: 1351-1353. PMID: 39666824, DOI: 10.1126/science.ads9158.
Piwi regulates the usage of alternative transcription start sites in the Drosophila ovaryChen J, Liu N, Qi H, Neuenkirchen N, Huang Y, Lin H. Piwi regulates the usage of alternative transcription start sites in the Drosophila ovary. Nucleic Acids Research 2024, gkae1160. PMID: 39657757, DOI: 10.1093/nar/gkae1160.
Evidence-based guideline: Premature Ovarian Insufficiency † ‡ESHRE A, Yeganeh L, Giri R, Flanagan M, Panay N, Anderson R, Bennie A, Cedars M, Davies M, Ee C, Gravholt C, Kalantaridou S, Kallen A, Kim K, Misrahi M, Mousa A, Nappi R, Rocca W, Ruan X, Teede H, Vermeulen N, Vogt E, Vincent A. Evidence-based guideline: Premature Ovarian Insufficiency † ‡. Fertility And Sterility 2024 PMID: 39652037, DOI: 10.1016/j.fertnstert.2024.11.007.
Integrative spatial protein profiling with multi-omicsFan R. Integrative spatial protein profiling with multi-omics. Nature Methods 2024, 21: 2223-2225. PMID: 39643677, DOI: 10.1038/s41592-024-02533-x.
X-linked deletion of Crossfirre, Firre, and Dxz4 in vivo uncovers diverse phenotypes and combinatorial effects on autosomesHasenbein T, Hoelzl S, Smith Z, Gerhardinger C, Gonner M, Aguilar-Pimentel A, Amarie O, Becker L, Calzada-Wack J, Dragano N, da Silva-Buttkus P, Garrett L, Hölter S, Kraiger M, Östereicher M, Rathkolb B, Sanz-Moreno A, Spielmann N, Wurst W, Gailus-Durner V, Fuchs H, Hrabě de Angelis M, Meissner A, Engelhardt S, Rinn J, Andergassen D. X-linked deletion of Crossfirre, Firre, and Dxz4 in vivo uncovers diverse phenotypes and combinatorial effects on autosomes. Nature Communications 2024, 15: 10631. PMID: 39638999, PMCID: PMC11621363, DOI: 10.1038/s41467-024-54673-5.
An integrative TAD catalog in lymphoblastoid cell lines discloses the functional impact of deletions and insertions in human genomes.Li C, Bonder M, Syed S, Jensen M, Gerstein M, Zody M, Chaisson M, Talkowski M, Marschall T, Korbel J, Eichler E, Lee C, Shi X. An integrative TAD catalog in lymphoblastoid cell lines discloses the functional impact of deletions and insertions in human genomes. Genome Research 2024, 34: 2304-2318. PMID: 39638559, PMCID: PMC11694747, DOI: 10.1101/gr.279419.124.
Renal Angptl4 is a key fibrogenic molecule in progressive diabetic kidney diseaseSrivastava S, Zhou H, Shenoi R, Morris M, Lainez-Mas B, Goedeke L, Rajendran B, Setia O, Aryal B, Kanasaki K, Koya D, Inoki K, Dardik A, Bell T, Fernández-Hernando C, Shulman G, Goodwin J. Renal Angptl4 is a key fibrogenic molecule in progressive diabetic kidney disease. Science Advances 2024, 10: eadn6068. PMID: 39630889, PMCID: PMC11616692, DOI: 10.1126/sciadv.adn6068.
Author Correction: Modeling gene × environment interactions in PTSD using human neurons reveals diagnosis-specific glucocorticoid-induced gene expressionSeah C, Breen M, Rusielewicz T, Bader H, Xu C, Hunter C, McCarthy B, Deans P, Chattopadhyay M, Goldberg J, Dobariya S, Desarnaud F, Makotkine I, Flory J, Bierer L, Staniskyte M, Noggle S, Huckins L, Paull D, Brennand K, Yehuda R. Author Correction: Modeling gene × environment interactions in PTSD using human neurons reveals diagnosis-specific glucocorticoid-induced gene expression. Nature Neuroscience 2024, 1-1. PMID: 39633181, DOI: 10.1038/s41593-024-01854-6.
Deep learning analysis of fMRI data for predicting Alzheimer’s Disease: A focus on convolutional neural networks and model interpretabilityZhou X, Kedia S, Meng R, Gerstein M. Deep learning analysis of fMRI data for predicting Alzheimer’s Disease: A focus on convolutional neural networks and model interpretability. PLOS ONE 2024, 19: e0312848. PMID: 39630834, PMCID: PMC11616848, DOI: 10.1371/journal.pone.0312848.
Dysregulation in keratinocytes drives systemic lupus erythematosus onsetTian J, Shi L, Zhang D, Yao X, Zhao M, Kumari S, Lu J, Yu D, Lu Q. Dysregulation in keratinocytes drives systemic lupus erythematosus onset. Cellular & Molecular Immunology 2024, 1-14. PMID: 39627610, DOI: 10.1038/s41423-024-01240-z.
Rhabdomyolysis in Severe Fever With Thrombocytopenia Syndrome: Associations With Acute Kidney Injury and MortalityZhang Z, Hu X, Du Q, Liu J, Chen X, Mo P, Luo M, Jiang Q, Deng L, Xiong Y. Rhabdomyolysis in Severe Fever With Thrombocytopenia Syndrome: Associations With Acute Kidney Injury and Mortality. Journal Of Medical Virology 2024, 96: e70095. PMID: 39624019, DOI: 10.1002/jmv.70095.
Cellular translational enhancer elements that recruit eukaryotic initiation factor 3.Koubek J, Kaur J, Bhandarkar S, Lewis C, Niederer R, Stanciu A, Aitken C, Gilbert W. Cellular translational enhancer elements that recruit eukaryotic initiation factor 3. RNA 2024, rna.080310.124. PMID: 39626887, DOI: 10.1261/rna.080310.124.
Ezrin drives adaptation of monocytes to the inflamed lung microenvironmentGudneppanavar R, Di Pietro C, H Öz H, Zhang P, Cheng E, Huang P, Tebaldi T, Biancon G, Halene S, Hoppe A, Kim C, Gonzalez A, Krause D, Egan M, Gupta N, Murray T, Bruscia E. Ezrin drives adaptation of monocytes to the inflamed lung microenvironment. Cell Death & Disease 2024, 15: 864. PMID: 39613751, PMCID: PMC11607083, DOI: 10.1038/s41419-024-07255-8.
Identification of coilin interactors reveals coordinated control of Cajal body number and structureEscayola D, Zhang C, Nischwitz E, Schärfen L, Dörner K, Straube K, Kutay U, Butter F, Neugebauer K. Identification of coilin interactors reveals coordinated control of Cajal body number and structure. Journal Of Cell Biology 2024, 224: e202305081. PMID: 39602297, PMCID: PMC11602656, DOI: 10.1083/jcb.202305081.
Clonal hematopoiesis of indeterminate potential is associated with increased risk of immune checkpoint inhibitor myocarditis in a prospective study of a cardio-oncology cohortJaber Chehayeb R, Singh J, Matute-Martinez C, Chen N, Guajardo A, Lin D, Jayakrishnan R, Christofides A, Leveille E, Im Y, Biancon G, VanOudenhove J, Ibrahim E, Ardasheva A, Jha A, Hwa J, Halene S, Kwan J. Clonal hematopoiesis of indeterminate potential is associated with increased risk of immune checkpoint inhibitor myocarditis in a prospective study of a cardio-oncology cohort. Cardio-Oncology 2024, 10: 84. PMID: 39587635, PMCID: PMC11590368, DOI: 10.1186/s40959-024-00289-z.
Setdb1-loss induces type-I interferons and immune clearance of melanoma.McGeary M, Damsky W, Daniels A, Lang S, Xu Q, Song E, Huet-Calderwood C, Lou H, Paradkar S, Micevic G, Kaech S, Calderwood D, Turk B, Yan Q, Iwasaki A, Bosenberg M. Setdb1-loss induces type-I interferons and immune clearance of melanoma. Cancer Immunology Research 2024 PMID: 39589394, DOI: 10.1158/2326-6066.cir-23-0514.
Trellis tree-based analysis reveals stromal regulation of patient-derived organoid drug responsesZapatero M, Tong A, Opzoomer J, O'Sullivan R, Rodriguez F, Sufi J, Vlckova P, Nattress C, Qin X, Claus J, Hochhauser D, Krishnaswamy S, Tape C. Trellis tree-based analysis reveals stromal regulation of patient-derived organoid drug responses. Cell 2024, 187: 7335-7349. PMID: 39603238, DOI: 10.1016/j.cell.2024.11.023.
The maternal-to-zygotic transition: reprogramming of the cytoplasm and nucleusKojima M, Hoppe C, Giraldez A. The maternal-to-zygotic transition: reprogramming of the cytoplasm and nucleus. Nature Reviews Genetics 2024, 1-23. PMID: 39587307, DOI: 10.1038/s41576-024-00792-0.
Improved Prediction of Ligand–Protein Binding Affinities by Meta-modelingLee H, Emani P, Gerstein M. Improved Prediction of Ligand–Protein Binding Affinities by Meta-modeling. Journal Of Chemical Information And Modeling 2024, 64: 8684-8704. PMID: 39576762, PMCID: PMC11632770, DOI: 10.1021/acs.jcim.4c01116.
SARS-CoV-2 reprograms murine alveolar macrophages to dampen fluTabachnikova A, Iwasaki A. SARS-CoV-2 reprograms murine alveolar macrophages to dampen flu. Trends In Immunology 2024, 45: 925-927. PMID: 39580310, DOI: 10.1016/j.it.2024.11.002.
The cell-type underpinnings of the human functional cortical connectomeAnderson K, Chopra S, Dhamala E, Emani P, Gerstein M, Margulies D, Holmes A, Margulies D, Holmes A. The cell-type underpinnings of the human functional cortical connectome. Nature Neuroscience 2024, 28: 150-160. PMID: 39572742, DOI: 10.1038/s41593-024-01812-2.
GENCODE 2025: reference gene annotation for human and mouseMudge J, Carbonell-Sala S, Diekhans M, Martinez J, Hunt T, Jungreis I, Loveland J, Arnan C, Barnes I, Bennett R, Berry A, Bignell A, Cerdán-Vélez D, Cochran K, Cortés L, Davidson C, Donaldson S, Dursun C, Fatima R, Hardy M, Hebbar P, Hollis Z, James B, Jiang Y, Johnson R, Kaur G, Kay M, Mangan R, Maquedano M, Gómez L, Mathlouthi N, Merritt R, Ni P, Palumbo E, Perteghella T, Pozo F, Raj S, Sisu C, Steed E, Sumathipala D, Suner M, Uszczynska-Ratajczak B, Wass E, Yang Y, Zhang D, Finn R, Gerstein M, Guigó R, Hubbard T, Kellis M, Kundaje A, Paten B, Tress M, Birney E, Martin F, Frankish A. GENCODE 2025: reference gene annotation for human and mouse. Nucleic Acids Research 2024, 53: d966-d975. PMID: 39565199, PMCID: PMC11701607, DOI: 10.1093/nar/gkae1078.
Identifying the minimal sets of distance restraints for FRET‐assisted protein structural modelingLiu Z, Grigas A, Sumner J, Knab E, Davis C, O'Hern C. Identifying the minimal sets of distance restraints for FRET‐assisted protein structural modeling. Protein Science 2024, 33: e5219. PMID: 39548730, PMCID: PMC11568256, DOI: 10.1002/pro.5219.
Cotranslational molecular condensation of cochaperones and assembly factors facilitates axonemal dynein biogenesisLi Y, Xu W, Cheng Y, Djenoune L, Zhuang C, Cox A, Britto C, Yuan S, Wang S, Sun Z. Cotranslational molecular condensation of cochaperones and assembly factors facilitates axonemal dynein biogenesis. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2402818121. PMID: 39541357, PMCID: PMC11588059, DOI: 10.1073/pnas.2402818121.
Abstract I001: Long noncoding RNAs at the intersection of cancer pathwaysDimitrova N. Abstract I001: Long noncoding RNAs at the intersection of cancer pathways. Molecular Cancer Therapeutics 2024, 23: i001-i001. DOI: 10.1158/1538-8514.rnadrivers24-i001.
Sex differences in postacute infection syndromesSilva J, Iwasaki A. Sex differences in postacute infection syndromes. Science Translational Medicine 2024, 16: eado2102. PMID: 39536120, DOI: 10.1126/scitranslmed.ado2102.
Author Correction: All the sites we cannot see: Sources and mitigation of false negatives in RNA modification studiesOberdoerffer S, Gilbert W. Author Correction: All the sites we cannot see: Sources and mitigation of false negatives in RNA modification studies. Nature Reviews Molecular Cell Biology 2024, 1-1. PMID: 39533117, DOI: 10.1038/s41580-024-00810-3.
Abstract 4141772: “SETDB2 regulates the Innate Immune Memory response and influences Inflammatory Immune landscape in Atherosclerosis”JAISWAL A, Halasz L, Suarez Y, Fernandez-Hernando C, Osborne T. Abstract 4141772: “SETDB2 regulates the Innate Immune Memory response and influences Inflammatory Immune landscape in Atherosclerosis”. Circulation 2024, 150: a4141772-a4141772. DOI: 10.1161/circ.150.suppl_1.4141772.
Abstract 4144255: Treatment of Human Engineered Heart Tissue with Serum from Cancer Patients with Clonal Hematopoiesis of Indeterminate Potential Cytokine Leads to Impaired FunctionKaur H, Halder S, Espinoza J, Chen N, VanOudenhove J, Biancon G, Gu S, Chakraborty R, Jain K, Park J, Qyang Y, Ibrahim E, Halene S, Hwa J, Campbell S, Jha A, Kwan J. Abstract 4144255: Treatment of Human Engineered Heart Tissue with Serum from Cancer Patients with Clonal Hematopoiesis of Indeterminate Potential Cytokine Leads to Impaired Function. Circulation 2024, 150: a4144255-a4144255. DOI: 10.1161/circ.150.suppl_1.4144255.
GPR68 supports AML cells through the calcium/calcineurin pro-survival pathway and confers chemoresistance by mediating glucose metabolic symbiosisHe X, Hawkins C, Lawley L, Phan T, Park I, Joven N, Zhang J, Wunderlich M, Mizukawa B, Pei S, Patel A, VanOudenhove J, Halene S, Fang J. GPR68 supports AML cells through the calcium/calcineurin pro-survival pathway and confers chemoresistance by mediating glucose metabolic symbiosis. Biochimica Et Biophysica Acta (BBA) - Molecular Basis Of Disease 2024, 1871: 167565. PMID: 39522891, DOI: 10.1016/j.bbadis.2024.167565.
A B cell screen against endogenous retroviruses identifies glycan-reactive IgM that recognizes a broad array of enveloped virusesYang Y, Treger R, Hernandez-Bird J, Lu P, Mao T, Iwasaki A. A B cell screen against endogenous retroviruses identifies glycan-reactive IgM that recognizes a broad array of enveloped viruses. Science Immunology 2024, 9: eadd6608. PMID: 39514636, DOI: 10.1126/sciimmunol.add6608.
Integrative multiomic analysis identifies distinct molecular subtypes of NAFLD in a Chinese populationDing J, Liu H, Zhang X, Zhao N, Peng Y, Shi J, Chen J, Chi X, Li L, Zhang M, Liu W, Zhang L, Ouyang J, Yuan Q, Liao M, Tan Y, Li M, Xu Z, Tang W, Xie C, Li Y, Pan Q, Xu Y, Cai S, Byrne C, Targher G, Ouyang X, Zhang L, Jiang Z, Zheng M, Sun F, Chai J. Integrative multiomic analysis identifies distinct molecular subtypes of NAFLD in a Chinese population. Science Translational Medicine 2024, 16: eadh9940. PMID: 39504356, DOI: 10.1126/scitranslmed.adh9940.
65 High-fidelity enhanced AsCas12a knock-in mice for efficient multiplexed gene editing, disease modeling and orthogonal immunogeneticsTang K, Zhou X, Fang S, Vandenbulcke E, Du A, Shen J, Cao H, Zhou J, Chen K, Xin S, Zhou L, Lin S, Majety M, Lin X, Lam S, Chow R, Bai S, Nottoli T, Booth C, Liu C, Dong M, Chen S. 65 High-fidelity enhanced AsCas12a knock-in mice for efficient multiplexed gene editing, disease modeling and orthogonal immunogenetics. 2024, a72-a72. DOI: 10.1136/jitc-2024-sitc2024.0065.
MISTRG6kitW41: Enhanced Engraftment in a Cytokine Humanized Patient-Derived Xenotransplantation Mouse ModelBaassiri A, Maziarz J, Blackburn H, Maul-Newby H, VanOudenhove J, Zhang X, Matthews M, Paul S, Liu W, Sefik E, Salomonis N, Grimes H, Flavell R, Halene S. MISTRG6kitW41: Enhanced Engraftment in a Cytokine Humanized Patient-Derived Xenotransplantation Mouse Model. Blood 2024, 144: 1815-1815. DOI: 10.1182/blood-2024-211908.
Immune Landscape and Outcomes of Patients with RNA Splicing Factor-Mutant Acute Myeloid Leukemia and Myelodysplastic Syndromes Treated with Azacitidine +/- the Anti-PD-L1 Antibody DurvalumabBewersdorf J, Hasle V, Shallis R, Thompson E, De Menezes D, Rose S, Boss I, Mendez L, Podoltsev N, Stahl M, Kewan T, Halene S, Haferlach T, Fox B, Zeidan A. Immune Landscape and Outcomes of Patients with RNA Splicing Factor-Mutant Acute Myeloid Leukemia and Myelodysplastic Syndromes Treated with Azacitidine +/- the Anti-PD-L1 Antibody Durvalumab. Blood 2024, 144: 4585. DOI: 10.1182/blood-2024-194929.
Clinically Driven Algorithms Identify Patients with Large Granular Lymphocytic Leukemia at Risk of Significant Cytopenia Requiring TreatmentKiwan A, Kewan T, Bravo-Perez C, Visconte V, Gurnari C, Durmaz A, Siddon A, Halene S, Sethi T, Maciejewski J, Foss F. Clinically Driven Algorithms Identify Patients with Large Granular Lymphocytic Leukemia at Risk of Significant Cytopenia Requiring Treatment. Blood 2024, 144: 4436. DOI: 10.1182/blood-2024-209344.
Impact of Sepsis and Stress Hematopoiesis on the Acquisition and Persistence of Clonal HematopoiesisOgbue O, Kewan T, Unlu S, Lakhotiya K, Mehkri O, Ellison R, Fadell F, Reynolds M, Cheema A, Durmaz A, Brady Z, VanOudenhove J, Singh A, Visconte V, Mendez L, Bosler D, Duggal A, Halene S, Al-Jaghbeer M, Maciejewski J, Gurnari C. Impact of Sepsis and Stress Hematopoiesis on the Acquisition and Persistence of Clonal Hematopoiesis. Blood 2024, 144: 5634-5634. DOI: 10.1182/blood-2024-209240.
O6-Guanine Targeting Novel DNA Cross-Linker and ATR Inhibitor Combination for MGMT-Silenced IDH1/2 Mutant Acute Myeloid LeukemiaBhardwaj P, Sundaram R, Friedman S, Baassiri A, Matthews M, VanOudenhove J, Gueble S, Halene S, Bindra R. O6-Guanine Targeting Novel DNA Cross-Linker and ATR Inhibitor Combination for MGMT-Silenced IDH1/2 Mutant Acute Myeloid Leukemia. Blood 2024, 144: 6130. DOI: 10.1182/blood-2024-210621.
Clonal Dissection of MDS and Secondary AML Resolves Shared Splicing Neoantigens and Mechanistic Underpinnings of Hypomethylating Agent Therapeutic ResponseZhang X, Li G, Oliverio A, VanOudenhove J, DeZern A, Ghiaur G, Halene S, Grimes H, Salomonis N. Clonal Dissection of MDS and Secondary AML Resolves Shared Splicing Neoantigens and Mechanistic Underpinnings of Hypomethylating Agent Therapeutic Response. Blood 2024, 144: 1810-1810. DOI: 10.1182/blood-2024-211099.
Unraveling the Drivers of the Stress Granule Signature in Splicing Factor-Mutant Myeloid MalignanciesBiancon G, Busarello E, Cheng M, Sidoli S, VanOudenhove J, Bucciarelli G, Tebaldi T, Halene S. Unraveling the Drivers of the Stress Granule Signature in Splicing Factor-Mutant Myeloid Malignancies. Blood 2024, 144: 4117. DOI: 10.1182/blood-2024-211265.
A variational graph-partitioning approach to modeling protein liquid-liquid phase separationWang G, Warrell J, Zheng S, Gerstein M. A variational graph-partitioning approach to modeling protein liquid-liquid phase separation. Cell Reports Physical Science 2024, 5: 102292. DOI: 10.1016/j.xcrp.2024.102292.
Evidence-based guideline: premature ovarian insufficiency†‡ASRM C, Panay N, Anderson R, Bennie A, Cedars M, Davies M, Ee C, Gravholt C, Kalantaridou S, Kallen A, Kim K, Misrahi M, Mousa A, Nappi R, Rocca W, Ruan X, Teede H, Vermeulen N, Vogt E, Vincent A. Evidence-based guideline: premature ovarian insufficiency†‡. Climacteric 2024, 27: 510-520. PMID: 39647506, DOI: 10.1080/13697137.2024.2423213.
REliable PIcking by Consensus (REPIC): a consensus methodology for harnessing multiple cryo-EM particle pickersCameron C, Seager S, Sigworth F, Tagare H, Gerstein M. REliable PIcking by Consensus (REPIC): a consensus methodology for harnessing multiple cryo-EM particle pickers. Communications Biology 2024, 7: 1421. PMID: 39482410, PMCID: PMC11528043, DOI: 10.1038/s42003-024-07045-0.
Single-cell transcriptomic and proteomic analysis of Parkinson’s disease brainsZhu B, Park J, Coffey S, Russo A, Hsu I, Wang J, Su C, Chang R, Lam T, Gopal P, Ginsberg S, Zhao H, Hafler D, Chandra S, Zhang L. Single-cell transcriptomic and proteomic analysis of Parkinson’s disease brains. Science Translational Medicine 2024, 16: eabo1997. PMID: 39475571, DOI: 10.1126/scitranslmed.abo1997.
CDK9 phosphorylates RUNX1 to promote megakaryocytic fate in megakaryocytic-erythroid progenitorsKwon N, Lu Y, Thompson E, Mancuso R, Wang L, Zhang P, Krause D. CDK9 phosphorylates RUNX1 to promote megakaryocytic fate in megakaryocytic-erythroid progenitors. Blood 2024, 144: 1800-1812. PMID: 39102635, PMCID: PMC11530366, DOI: 10.1182/blood.2024023963.
Image-based 3D genomics through chromatin tracingYang T, Wang S. Image-based 3D genomics through chromatin tracing. Nature Reviews Methods Primers 2024, 4: 76. DOI: 10.1038/s43586-024-00354-y.
Analysis of Powassan Virus Genome Sequences from Human Cases Reveals Substantial Genetic Diversity with Implications for Molecular Assay DevelopmentKlontz E, Chowdhury N, Holbrook N, Solomon I, Telford S, Aliota M, Vogels C, Grubaugh N, Helgager J, Hughes H, Velez J, Piantadosi A, Chiu C, Lemieux J, Branda J. Analysis of Powassan Virus Genome Sequences from Human Cases Reveals Substantial Genetic Diversity with Implications for Molecular Assay Development. Viruses 2024, 16: 1653. PMID: 39599768, PMCID: PMC11599074, DOI: 10.3390/v16111653.
Machine-guided design of cell-type-targeting cis-regulatory elementsGosai S, Castro R, Fuentes N, Butts J, Mouri K, Alasoadura M, Kales S, Nguyen T, Noche R, Rao A, Joy M, Sabeti P, Reilly S, Tewhey R. Machine-guided design of cell-type-targeting cis-regulatory elements. Nature 2024, 634: 1211-1220. PMID: 39443793, PMCID: PMC11525185, DOI: 10.1038/s41586-024-08070-z.
Epitope-anchored contrastive transfer learning for paired CD8+ T cell receptor–antigen recognitionZhang Y, Wang Z, Jiang Y, Littler D, Gerstein M, Purcell A, Rossjohn J, Ou H, Song J. Epitope-anchored contrastive transfer learning for paired CD8+ T cell receptor–antigen recognition. Nature Machine Intelligence 2024, 6: 1344-1358. DOI: 10.1038/s42256-024-00913-8.
Binding profiles for 961 Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships.Kudron M, Gevirtzman L, Victorsen A, Lear B, Gao J, Xu J, Samanta S, Frink E, Tran-Pearson A, Huynh C, Vafeados D, Hammonds A, Fisher W, Wall M, Wesseling G, Hernandez V, Lin Z, Kasparian M, White K, Allada R, Gerstein M, Hillier L, Celniker S, Reinke V, Waterston R. Binding profiles for 961 Drosophila and C. elegans transcription factors reveal tissue-specific regulatory relationships. Genome Research 2024, 34: 2319-2334. PMID: 39438113, PMCID: PMC11694743, DOI: 10.1101/gr.279037.124.
All the sites we cannot see: Sources and mitigation of false negatives in RNA modification studiesOberdoerffer S, Gilbert W. All the sites we cannot see: Sources and mitigation of false negatives in RNA modification studies. Nature Reviews Molecular Cell Biology 2024, 1-12. PMID: 39433914, DOI: 10.1038/s41580-024-00784-2.
Rab6a enables BICD2/dynein-mediated trafficking of human papillomavirus from the trans-Golgi network during virus entryChoi J, Speckhart K, Tsai B, DiMaio D. Rab6a enables BICD2/dynein-mediated trafficking of human papillomavirus from the trans-Golgi network during virus entry. MBio 2024, 15: e02811-24. PMID: 39431827, PMCID: PMC11559006, DOI: 10.1128/mbio.02811-24.
A TRilogy of ATR’s Non-Canonical Roles Throughout the Cell Cycle and Its Relation to CancerJoo Y, Ramirez C, Kabeche L. A TRilogy of ATR’s Non-Canonical Roles Throughout the Cell Cycle and Its Relation to Cancer. Cancers 2024, 16: 3536. PMID: 39456630, PMCID: PMC11506335, DOI: 10.3390/cancers16203536.
SDePER: a hybrid machine learning and regression method for cell-type deconvolution of spatial barcoding-based transcriptomic dataLiu Y, Li N, Qi J, Xu G, Zhao J, Wang N, Huang X, Jiang W, Wei H, Justet A, Adams T, Homer R, Amei A, Rosas I, Kaminski N, Wang Z, Yan X. SDePER: a hybrid machine learning and regression method for cell-type deconvolution of spatial barcoding-based transcriptomic data. Genome Biology 2024, 25: 271. PMID: 39402626, PMCID: PMC11475911, DOI: 10.1186/s13059-024-03416-2.
Ataxin-2 polyglutamine expansions aberrantly sequester TDP-43 ribonucleoprotein condensates disrupting mRNA transport and local translation in neuronsWijegunawardana D, Nayak A, Vishal S, Venkatesh N, Gopal P. Ataxin-2 polyglutamine expansions aberrantly sequester TDP-43 ribonucleoprotein condensates disrupting mRNA transport and local translation in neurons. Developmental Cell 2024 PMID: 39419034, DOI: 10.1016/j.devcel.2024.09.023.
Splicing the Difference: Harnessing the Complexity of the Transcriptome in HematopoiesisMaul-Newby H, Halene S. Splicing the Difference: Harnessing the Complexity of the Transcriptome in Hematopoiesis. Experimental Hematology 2024, 140: 104655. PMID: 39393608, DOI: 10.1016/j.exphem.2024.104655.
Somatic mosaicism in schizophrenia brains reveals prenatal mutational processesMaury E, Jones A, Seplyarskiy V, Nguyen T, Rosenbluh C, Bae T, Wang Y, Abyzov A, Khoshkhoo S, Chahine Y, Zhao S, Venkatesh S, Root E, Voloudakis G, Roussos P, Network B, Park P, Akbarian S, Brennand K, Reilly S, Lee E, Sunyaev S, Walsh C, Chess A. Somatic mosaicism in schizophrenia brains reveals prenatal mutational processes. Science 2024, 386: 217-224. PMID: 39388546, PMCID: PMC11490355, DOI: 10.1126/science.adq1456.
Steering research on mRNA splicing in cancer towards clinical translationAnczukow O, Allain F, Angarola B, Black D, Brooks A, Cheng C, Conesa A, Crosse E, Eyras E, Guccione E, Lu S, Neugebauer K, Sehgal P, Song X, Tothova Z, Valcárcel J, Weeks K, Yeo G, Thomas-Tikhonenko A. Steering research on mRNA splicing in cancer towards clinical translation. Nature Reviews Cancer 2024, 24: 887-905. PMID: 39384951, DOI: 10.1038/s41568-024-00750-2.
Tumor-specific antigen delivery for T-cell therapy via a pH-sensitive peptide conjugate.Yurkevicz A, Liu Y, Katz S, Glazer P. Tumor-specific antigen delivery for T-cell therapy via a pH-sensitive peptide conjugate. Molecular Cancer Therapeutics 2024, of1-of13. PMID: 39382073, DOI: 10.1158/1535-7163.mct-23-0809.
Evidence-based guideline: premature ovarian insufficiency,Panay N, Anderson R, Bennie A, Cedars M, Davies M, Ee C, Gravholt C, Kalantaridou S, Kallen A, Kim K, Misrahi M, Mousa A, Nappi R, Rocca W, Ruan X, Teede H, Vermeulen N, Vogt E, Vincent A, Yeganeh L, Giri R, Flanagan M. Evidence-based guideline: premature ovarian insufficiency,. Human Reproduction Open 2024, 2024: hoae065. PMID: 39660328, PMCID: PMC11631070, DOI: 10.1093/hropen/hoae065.
Early Release - Dengue Outbreak Caused by Multiple Virus Serotypes and Lineages, Colombia, 2023–2024 - Volume 30, Number 11—November 2024 - Emerging Infectious Diseases journal - CDCGrubaugh N, Torres-Hernández D, Murillo-Ortiz M, Dávalos D, Lopez P, Hurtado I, Breban M, Bourgikos E, Hill V, López-Medina E. Early Release - Dengue Outbreak Caused by Multiple Virus Serotypes and Lineages, Colombia, 2023–2024 - Volume 30, Number 11—November 2024 - Emerging Infectious Diseases journal - CDC. Emerging Infectious Diseases 2024, 30: 2391-2395. PMID: 39378873, PMCID: PMC11521178, DOI: 10.3201/eid3011.241031.
CUTS: A Deep Learning and Topological Framework for Multigranular Unsupervised Medical Image SegmentationLiu C, Amodio M, Shen L, Gao F, Avesta A, Aneja S, Wang J, Del Priore L, Krishnaswamy S. CUTS: A Deep Learning and Topological Framework for Multigranular Unsupervised Medical Image Segmentation. Lecture Notes In Computer Science 2024, 15008: 155-165. DOI: 10.1007/978-3-031-72111-3_15.
CCR2+ monocytes are dispensable to resolve acute pulmonary Pseudomonas aeruginosa infections in WT and cystic fibrosis miceÖz H, Braga C, Gudneppanavar R, Di Pietro C, Huang P, Zhang P, Krause D, Egan M, Murray T, Bruscia E. CCR2+ monocytes are dispensable to resolve acute pulmonary Pseudomonas aeruginosa infections in WT and cystic fibrosis mice. Journal Of Leukocyte Biology 2024, qiae218. PMID: 39365279, DOI: 10.1093/jleuko/qiae218.
Targeting Pseudomonas aeruginosa biofilm with an evolutionary trained bacteriophage cocktail exploiting phage resistance trade-offsKunisch F, Campobasso C, Wagemans J, Yildirim S, Chan B, Schaudinn C, Lavigne R, Turner P, Raschke M, Trampuz A, Gonzalez Moreno M. Targeting Pseudomonas aeruginosa biofilm with an evolutionary trained bacteriophage cocktail exploiting phage resistance trade-offs. Nature Communications 2024, 15: 8572. PMID: 39362854, PMCID: PMC11450229, DOI: 10.1038/s41467-024-52595-w.
Keratin 17 and A2ML1 are negative prognostic biomarkers in non-small cell lung cancerBabu S, Horowitz M, Delgado-Coka L, Roa-Peña L, Akalin A, Escobar-Hoyos L, Shroyer K. Keratin 17 and A2ML1 are negative prognostic biomarkers in non-small cell lung cancer. Pathology - Research And Practice 2024, 263: 155643. PMID: 39413460, DOI: 10.1016/j.prp.2024.155643.
INTERACTIONS BETWEEN MITOCHONDRIAL DNA AND TOLL-LIKE RECEPTOR 9 MEDIATES PULMONARY FIBROSISLEE C, TRUJILLO G, REGUEIRO-REN A, LIU C, HU B, SUN Y, KHOURY J, KHOURY J, AHANGARI F, ISHIKAWA G, WALIA A, PIVARNIK T, YU S, WOO S, FIORINI V, MCGOVERN J, AL JUMAILY K, SUN H, PENG X, ANTIN-OZERKIS D, SAULER M, KAMINSKI N, HERZOG E. INTERACTIONS BETWEEN MITOCHONDRIAL DNA AND TOLL-LIKE RECEPTOR 9 MEDIATES PULMONARY FIBROSIS. CHEST Journal 2024, 166: a3384-a3386. DOI: 10.1016/j.chest.2024.06.2020.
Next-generation cell-penetrating antibodies for tumor targeting and RAD51 inhibitionRackear M, Quijano E, Ianniello Z, Colón-Ríos D, Krysztofiak A, Abdullah R, Liu Y, Rogers F, Ludwig D, Dwivedi R, Bleichert F, Glazer P. Next-generation cell-penetrating antibodies for tumor targeting and RAD51 inhibition. Oncotarget 2024, 15: 699-713. PMID: 39352803, PMCID: PMC11444335, DOI: 10.18632/oncotarget.28651.
Emerging and re-emerging themes in co-transcriptional pre-mRNA splicingCarrocci T, Neugebauer K. Emerging and re-emerging themes in co-transcriptional pre-mRNA splicing. Molecular Cell 2024, 84: 3656-3666. PMID: 39366353, PMCID: PMC11463726, DOI: 10.1016/j.molcel.2024.08.036.
Modern Photon-Based Craniospinal Irradiation in Leptomeningeal DiseaseKeit E, Peterson J, Johnstone P, Robinson T, Figura N. Modern Photon-Based Craniospinal Irradiation in Leptomeningeal Disease. International Journal Of Radiation Oncology • Biology • Physics 2024, 120: e242. DOI: 10.1016/j.ijrobp.2024.07.542.
Patterns of CNS Failures in Relapse/Refractory Large B-Cell Lymphoma (LBCL) Patients with Secondary CNS Disease Following Chimeric Antigen Receptor T-Cell (CAR T) TherapyNakashima J, Khatri V, Cruz-Chamorro R, Zhou J, Patra P, Gaballa S, Khimani F, Mirza S, Shah B, Saeed H, Chavez J, Locke F, Nishihori T, Liu H, Dong N, Lazaryan A, Robinson T, Freeman C, Jain M, Figura N. Patterns of CNS Failures in Relapse/Refractory Large B-Cell Lymphoma (LBCL) Patients with Secondary CNS Disease Following Chimeric Antigen Receptor T-Cell (CAR T) Therapy. International Journal Of Radiation Oncology • Biology • Physics 2024, 120: e646-e647. DOI: 10.1016/j.ijrobp.2024.07.1421.
SENESCENT CELL CLEARANCE PROTECTS THE OVARIAN RESERVE IN AGING MICEZhang J, Lopez J, Liang J, Sela M, Kallen A. SENESCENT CELL CLEARANCE PROTECTS THE OVARIAN RESERVE IN AGING MICE. Fertility And Sterility 2024, 122: e21. DOI: 10.1016/j.fertnstert.2024.07.121.
F91. MAPPING THE EFFECTS OF OPIOID USE DISORDER GENETIC ASSOCIATED VARIANTS IN BRAIN PATHWAYS AT A SINGLE CELL LEVELRivera-Hernández M, Martínez-Magaña J, Brennand K, Montalvo-Ortiz J. F91. MAPPING THE EFFECTS OF OPIOID USE DISORDER GENETIC ASSOCIATED VARIANTS IN BRAIN PATHWAYS AT A SINGLE CELL LEVEL. European Neuropsychopharmacology 2024, 87: 254. DOI: 10.1016/j.euroneuro.2024.08.502.
42. STRESS EXPOSURE DYNAMICALLY REGULATES EQTL ACTIVITY IN THE POST-MORTEM BRAIN AND IN HIPSC-DERIVED NEURONSSeah C, Signer R, Young H, Hicks E, Rusielewicz T, Bader H, Xu C, Breen M, Paull D, Yehuda R, Girgenti M, Brennand K, Huckins L. 42. STRESS EXPOSURE DYNAMICALLY REGULATES EQTL ACTIVITY IN THE POST-MORTEM BRAIN AND IN HIPSC-DERIVED NEURONS. European Neuropsychopharmacology 2024, 87: 71-72. DOI: 10.1016/j.euroneuro.2024.08.156.
Spatially exploring RNA biology in archival formalin-fixed paraffin-embedded tissuesBai Z, Zhang D, Gao Y, Tao B, Zhang D, Bao S, Enninful A, Wang Y, Li H, Su G, Tian X, Zhang N, Xiao Y, Liu Y, Gerstein M, Li M, Xing Y, Lu J, Xu M, Fan R. Spatially exploring RNA biology in archival formalin-fixed paraffin-embedded tissues. Cell 2024, 187: 6760-6779.e24. PMID: 39353436, PMCID: PMC11568911, DOI: 10.1016/j.cell.2024.09.001.
Deletion of miR‐33, a regulator of the ABCA1–APOE pathway, ameliorates neuropathological phenotypes in APP/PS1 miceTate M, Wijeratne H, Kim B, Philtjens S, You Y, Lee D, Gutierrez D, Sharify D, Wells M, Perez‐Cardelo M, Doud E, Fernandez‐Hernando C, Lasagna‐Reeves C, Mosley A, Kim J. Deletion of miR‐33, a regulator of the ABCA1–APOE pathway, ameliorates neuropathological phenotypes in APP/PS1 mice. Alzheimer's & Dementia 2024, 20: 7805-7818. PMID: 39345217, PMCID: PMC11567857, DOI: 10.1002/alz.14243.
An efficient multiplex approach to CRISPR/Cas9 gene editing in citrusSagawa C, Thomson G, Mermaz B, Vernon C, Liu S, Jacob Y, Irish V. An efficient multiplex approach to CRISPR/Cas9 gene editing in citrus. Plant Methods 2024, 20: 148. PMID: 39342225, PMCID: PMC11438372, DOI: 10.1186/s13007-024-01274-4.
PIWI-interacting RNAs: who, what, when, where, why, and howHaase A, Ketting R, Lai E, van Rij R, Siomi M, Svoboda P, van Wolfswinkel J, Wu P. PIWI-interacting RNAs: who, what, when, where, why, and how. The EMBO Journal 2024, 43: 5335-5339. PMID: 39327528, PMCID: PMC11574264, DOI: 10.1038/s44318-024-00253-8.
Postacute Sequelae of COVID-19 in Pediatric Patients Within the United States: A Scoping ReviewMiller C, Borre C, Green A, Funaro M, Oliveira C, Iwasaki A. Postacute Sequelae of COVID-19 in Pediatric Patients Within the United States: A Scoping Review. American Journal Of Medicine Open 2024, 12: 100078. PMID: 39639960, PMCID: PMC11617896, DOI: 10.1016/j.ajmo.2024.100078.
Single-cell CAR T atlas reveals type 2 function in 8-year leukaemia remissionBai Z, Feng B, McClory S, de Oliveira B, Diorio C, Gregoire C, Tao B, Yang L, Zhao Z, Peng L, Sferruzza G, Zhou L, Zhou X, Kerr J, Baysoy A, Su G, Yang M, Camara P, Chen S, Tang L, June C, Melenhorst J, Grupp S, Fan R. Single-cell CAR T atlas reveals type 2 function in 8-year leukaemia remission. Nature 2024, 634: 702-711. PMID: 39322664, PMCID: PMC11485231, DOI: 10.1038/s41586-024-07762-w.
The type 2 cytokine Fc–IL-4 revitalizes exhausted CD8+ T cells against cancerFeng B, Bai Z, Zhou X, Zhao Y, Xie Y, Huang X, Liu Y, Enbar T, Li R, Wang Y, Gao M, Bonati L, Peng M, Li W, Tao B, Charmoy M, Held W, Melenhorst J, Fan R, Guo Y, Tang L. The type 2 cytokine Fc–IL-4 revitalizes exhausted CD8+ T cells against cancer. Nature 2024, 634: 712-720. PMID: 39322665, PMCID: PMC11485240, DOI: 10.1038/s41586-024-07962-4.
Alternative translation initiation produces synaptic organizer proteoforms with distinct localization and functionsLee P, Sun Y, Soares A, Fai C, Picciotto M, Guo J. Alternative translation initiation produces synaptic organizer proteoforms with distinct localization and functions. Molecular Cell 2024, 84: 3967-3978.e8. PMID: 39317199, PMCID: PMC11490368, DOI: 10.1016/j.molcel.2024.08.032.
Contemporary Approach to the Diagnosis and Classification of Myelodysplastic Neoplasms/Syndromes—Recommendations From the International Consortium for Myelodysplastic Neoplasms/Syndromes (MDS [icMDS])Aakash F, Gisriel S, Zeidan A, Bennett J, Bejar R, Bewersdorf J, Borate U, Boultwood J, Brunner A, Buckstein R, Carraway H, Churpek J, Daver N, DeZern A, Efficace F, Fenaux P, Figueroa M, Garcia-Manero G, Gore S, Greenberg P, Griffiths E, Halene S, Hourigan C, Kim T, Kim N, Komrokji R, Kutchroo V, List A, Little R, Majeti R, Nazha A, Nimer S, Odenike O, Padron E, Patnaik M, Platzbecker U, Della Porta M, Roboz G, Sallman D, Santini V, Sanz G, Savona M, Sekeres M, Stahl M, Starczynowski D, Steensma D, Taylor J, Abdel-Wahab O, Wei A, Xie Z, Xu M, Hasserjian R, Loghavi S. Contemporary Approach to the Diagnosis and Classification of Myelodysplastic Neoplasms/Syndromes—Recommendations From the International Consortium for Myelodysplastic Neoplasms/Syndromes (MDS [icMDS]). Modern Pathology 2024, 37: 100615. PMID: 39322118, DOI: 10.1016/j.modpat.2024.100615.
IL-1β Induces Human Endothelial Surface Expression of IL-15 by Relieving let-7c-3p Suppression of Protein Translation.Mullan C, Summer L, Lopez-Giraldez F, Tobiasova Z, Manes T, Yasothan S, Song G, Jane-Wit D, Saltzman W, Pober J. IL-1β Induces Human Endothelial Surface Expression of IL-15 by Relieving let-7c-3p Suppression of Protein Translation. The Journal Of Immunology 2024, 213: 1338-1348. PMID: 39302113, PMCID: PMC11493510, DOI: 10.4049/jimmunol.2400331.
Diagnostic values of BALF metagenomic next-generation sequencing, BALF real-time PCR and serum BDG for Pneumocystis jirovecii pneumonia in HIV-infected patientsChen Q, Chen X, Mo P, Chen L, Du Q, Hu W, Jiang Q, Zhang Z, Zhang Y, Guo Q, Xiong Y, Deng L. Diagnostic values of BALF metagenomic next-generation sequencing, BALF real-time PCR and serum BDG for Pneumocystis jirovecii pneumonia in HIV-infected patients. Frontiers In Microbiology 2024, 15: 1421660. PMID: 39372273, PMCID: PMC11449763, DOI: 10.3389/fmicb.2024.1421660.
Protocol for detecting glycoRNAs using metabolic labeling and northwestern blotLi L, Zhang N, Pantoja C, Wang Y, Lu J. Protocol for detecting glycoRNAs using metabolic labeling and northwestern blot. STAR Protocols 2024, 5: 103321. PMID: 39298321, PMCID: PMC11426122, DOI: 10.1016/j.xpro.2024.103321.
A comparative roadmap of PIWI-interacting RNAs across seven species reveals insights into de novo piRNA-precursor formation in mammalsKonstantinidou P, Loubalova Z, Ahrend F, Friman A, Almeida M, Poulet A, Horvat F, Wang Y, Losert W, Lorenzi H, Svoboda P, Miska E, van Wolfswinkel J, Haase A. A comparative roadmap of PIWI-interacting RNAs across seven species reveals insights into de novo piRNA-precursor formation in mammals. Cell Reports 2024, 43: 114777. PMID: 39302833, PMCID: PMC11615739, DOI: 10.1016/j.celrep.2024.114777.
Improved methods for genetic manipulation of the alkaliphile Halalkalibacterium haloduransWencker F, Lyon S, Breaker R. Improved methods for genetic manipulation of the alkaliphile Halalkalibacterium halodurans. Frontiers In Microbiology 2024, 15: 1465811. PMID: 39360312, PMCID: PMC11445130, DOI: 10.3389/fmicb.2024.1465811.
Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms and virus copies during infectionsLi K, Chaguza C, Stamp J, Chew Y, Chen N, Ferguson D, Pandya S, Kerantzas N, Schulz W, Initiative Y, Hahn A, Ogbunugafor C, Pitzer V, Crawford L, Weinberger D, Grubaugh N. Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms and virus copies during infections. PLOS Computational Biology 2024, 20: e1012469. PMID: 39288189, PMCID: PMC11432881, DOI: 10.1371/journal.pcbi.1012469.
A new lineage nomenclature to aid genomic surveillance of dengue virusHill V, Cleemput S, Pereira J, Gifford R, Fonseca V, Tegally H, Brito A, Ribeiro G, de Souza V, Brcko I, Ribeiro I, De Lima I, Slavov S, Sampaio S, Elias M, Tran V, Kien D, Huynh T, Yacoub S, Dieng I, Salvato R, Wallau G, Gregianini T, Godinho F, Vogels C, Breban M, Leguia M, Jagtap S, Roy R, Hapuarachchi C, Mwanyika G, Giovanetti M, Alcantara L, Faria N, Carrington C, Hanley K, Holmes E, Dumon W, Lima A, de Oliveira T, Grubaugh N. A new lineage nomenclature to aid genomic surveillance of dengue virus. PLOS Biology 2024, 22: e3002834. PMID: 39283942, PMCID: PMC11426435, DOI: 10.1371/journal.pbio.3002834.
Abstract PR-05: Endocrine beta-cell stress promotes pancreatic ductal adenocarcinoma through endocrine-exocrine cell crosstalkGarcia C, Venkat A, McQuaid D, Agabiti S, Tong A, Cardone R, Kibbey R, Krishnaswamy S, Muzumdar M. Abstract PR-05: Endocrine beta-cell stress promotes pancreatic ductal adenocarcinoma through endocrine-exocrine cell crosstalk. Cancer Research 2024, 84: pr-05-pr-05. DOI: 10.1158/1538-7445.pancreatic24-pr-05.
Abstract PR-01: Systemic targeting of therapeutic RNA to pancreatic ductal adenocarcinoma via a novel, cell-penetrating, and nucleic acid-binding monoclonal antibodyMartinez-Saucedo D, Quijano E, Ianniello Z, Rackear M, Liu Y, Hegan D, Chen H, Shan X, Tseng R, Yugawa D, Pinto-Medici N, Chowdhury S, Bindra R, Robert M, Saltzman W, Escobar-Hoyos L, Glazer P. Abstract PR-01: Systemic targeting of therapeutic RNA to pancreatic ductal adenocarcinoma via a novel, cell-penetrating, and nucleic acid-binding monoclonal antibody. Cancer Research 2024, 84: pr-01-pr-01. DOI: 10.1158/1538-7445.pancreatic24-pr-01.

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