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CATS Publications

An acknowledgement of support from the Icahn School of Medicine at Mount Sinai should appear in a publication of any material, whether copyrighted or not, based on or developed with Mount Sinai-supported computing resources. A stipulation of the National Institutes of Health (NIH) S10 award includes an accurate acknowledgement statement in publications that utilized NIH-funded resources. Click here for accurate acknowledgement statements for CATS nodes.

 

2022 Publications: 49

  1. Zheutlin AB, Vieira L, Shewcraft RA, Li S, Wang Z, et al. 2022. Improving postpartum hemorrhage risk prediction using longitudinal electronic medical records. Journal of the American Medical Informatics Association : JAMIA 29:296-305
  2. Zhang L, Chun Y, Ho H-e, Arditi Z, Lo T, et al. 2022. Multiscale study of the oral and gut environments in children with high- and low-threshold peanut allergy. Journal of Allergy and Clinical Immunology
  3. Xu P, Wang M, Song W-M, Wang Q, Yuan G-C, et al. 2022. The landscape of human tissue and cell type specific expression and co-regulation of senescence genes. Molecular neurodegeneration 17:5-
  4. Wang M, Song W-m, Ming C, Wang Q, Zhou X, et al. 2022. Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer’s disease: review, recommendation, implementation and application. Molecular Neurodegeneration 17:17
  5. Wang C, Lashua LP, Carter CE, Johnson SK, Wang M, et al. 2022. Sex disparities in influenza: A multiscale network analysis. iScience 25:104192
  6. van der Heide V, Jangra S, Cohen P, Rathnasinghe R, Aslam S, et al. 2022. Limited extent and consequences of pancreatic SARS-CoV-2 infection. Cell Rep 38:110508-
  7. Tantillo GB, Jetté N, Gururangan K, Agarwal P, Marcuse L, et al. 2022. Electroencephalography at the height of a pandemic: EEG findings in patients with COVID-19. Clin Neurophysiol 137:102-12
  8. Tan J, O’Dell G, Hernandez MM, Sordillo EM, Kahn Z, et al. 2022. Human Anti-neuraminidase Antibodies Reduce Airborne Transmission of Clinical Influenza Virus Isolates in the Guinea Pig Model. J Virol 96:e01421-21
  9. Song X, Ru M, Steinsnyder Z, Tkachuk K, Kopp RP, et al. 2022. SNPs at SMG7 Associated with Time from Biochemical Recurrence to Prostate Cancer Death. Cancer Epidemiology, Biomarkers & Prevention:OF1-OF7
  10. Song X, Ji J, Rothstein JH, Alexeeff SE, Sakoda LC, et al. 2022. MiXcan: a Framework for Cell-Type-Specific Transcriptome-Wide Association Studies with an Application to Breast Cancer. bioRxiv:2022.03.15.484509
  11. Schoenfeld DA, Zhou R, Zairis S, Su W, Steinbach N, et al. 2022. Loss of PBRM1 Alters Promoter Histone Modifications and Activates ALDH1A1 to Drive Renal Cell Carcinoma. Molecular Cancer Research:OF1-OF15
  12. Richter F, Strasser AS, Suarez-Farinas M, Zhao S, Nadkarni GN, et al. 2022. Neonatal outcomes during the COVID-19 pandemic in New York City. Pediatr Res 91:477-9
  13. Ricardo AC, Chen J, Toth-Manikowski SM, Meza N, Joo M, et al. 2022. Hispanic ethnicity and mortality among critically ill patients with COVID-19. PLoS One 17:e0268022-e
  14. Reategui Schwarz E, van de Guchte A, Dupper AC, Caban AB, Nadkarni D, et al. 2022. Everybody nose: molecular and clinical characteristics of nasal colonization during active methicillin-resistant Staphylococcus aureus bloodstream infection. BMC Infect Dis 22:400-
  15. Ramírez JD, Castañeda S, Ballesteros N, Muñoz M, Hernández M, et al. 2022. Hotspots for SARS-CoV-2 Omicron variant spread: Lessons from New York City. J Med Virol 94:2911-4
  16. Petrazzini BO, Chaudhary K, Márquez-Luna C, Forrest IS, Rocheleau G, et al. 2022. Coronary Risk Estimation Based on Clinical Data in Electronic Health Records. J Am Coll Cardiol 79:1155-66
  17. Patel R, Li Z, Zimmerman BS, Fink MY, Wells JD, et al. 2022. Impact of body mass index on the efficacy of aromatase inhibitors in patients with metastatic breast cancer. Breast Cancer Research and Treatment 192:313-9
  18. Olsen SN, Godfrey L, Healy JP, Choi YA, Kai Y, et al. 2022. MLL::AF9 degradation induces rapid changes in transcriptional elongation and subsequent loss of an active chromatin landscape. Molecular Cell 82:1140-55.e11
  19. Mukherjee S, Bandlamudi C, Hellmann MD, Kemel Y, Drill E, et al. 2022. Germline Pathogenic Variants Impact Clinicopathology of Advanced Lung Cancer. Cancer Epidemiology, Biomarkers & Prevention:OF1-OF10
  20. Menez S, Moledina DG, Thiessen-Philbrook H, Wilson FP, Obeid W, et al. 2022. Prognostic Significance of Urinary Biomarkers in Patients Hospitalized With COVID-19. Am J Kidney Dis 79:257-67.e1
  21. McKenzie AT, Marx G, Koenigsberg D, Sawyer M, Iida MA, et al. 2022. Interpretable deep learning of myelin histopathology in age-related cognitive impairment. bioRxiv:2022.06.06.495016
  22. Mack PC, Gomez JE, Rodilla AM, Carreño JM, Hsu C-Y, et al. 2022. Longitudinal COVID-19-vaccination-induced antibody responses and Omicron neutralization in patients with lung cancer. Cancer Cell:S1535-6108(22)00174-X
  23. Machlovi SI, Neuner SM, Hemmer BM, Khan R, Liu Y, et al. 2022. APOE4 confers transcriptomic and functional alterations to primary mouse microglia. Neurobiology of Disease 164:105615
  24. Loftus TJ, Shickel B, Ozrazgat-Baslanti T, Ren Y, Glicksberg BS, et al. 2022. Artificial intelligence-enabled decision support in nephrology. Nature Reviews Nephrology
  25. Li S, Jun T, Tyler J, Schadt E, Kao Y-H, et al. 2022. Inpatient Administration of Alpha-1-Adrenergic Receptor Blocking Agents Reduces Mortality in Male COVID-19 Patients. Frontiers in medicine 9:849222-
  26. Kulkarni KR, Schafer M, Berner LA, Fiore VG, Heflin M, et al. 2022. An interpretable and predictive connectivity-based neural signature for chronic cannabis use. Biological Psychiatry: Cognitive Neuroscience and Neuroimaging
  27. Kong Y, Cao L, Deikus G, Fan Y, Mead EA, et al. 2022. Critical assessment of DNA adenine methylation in eukaryotes using quantitative deconvolution. Science 375:515-22
  28. Klein RJ, Vertosick E, Sjoberg D, Ulmert D, Rönn A-C, et al. 2022. Prostate cancer polygenic risk score and prediction of lethal prostate cancer. NPJ Precis Oncol 6:25-
  29. Kirkpatrick Roubidoux E, Sano K, McMahon M, Carreño JM, Capuano C, et al. 2022. Novel Epitopes of the Influenza Virus N1 Neuraminidase Targeted by Human Monoclonal Antibodies. J Virol 96:e0033222-e
  30. Hernandez MM, Banu R, Gonzalez-Reiche AS, van de Guchte A, Khan Z, et al. 2022. Robust clinical detection of SARS-CoV-2 variants by RT-PCR/MALDI-TOF multitarget approach. J Med Virol 94:1606-16
  31. Halfmann PJ, Iida S, Iwatsuki-Horimoto K, Maemura T, Kiso M, et al. 2022. SARS-CoV-2 Omicron virus causes attenuated disease in mice and hamsters. Nature 603:687-92
  32. Garg P, Jadhav B, Lee W, Rodriguez OL, Martin-Trujillo A, Sharp AJ. 2022. A phenome-wide association study identifies effects of copy-number variation of VNTRs and multicopy genes on multiple human traits. The American Journal of Human Genetics 109:1065-76
  33. Gao X, Wang Y, Ribeiro CF, Manokaran C, Chang H, et al. 2022. Blocking PI3K p110β Attenuates Development of PTEN-Deficient Castration-Resistant Prostate Cancer. Molecular Cancer Research 20:673-85
  34. Forrest IS, Nadkarni GN, Do R. 2022. Penetrance of Deleterious Clinical Variants—Reply. JAMA 327:1927-
  35. Forrest IS, Chaudhary K, Vy HMT, Petrazzini BO, Bafna S, et al. 2022. Population-Based Penetrance of Deleterious Clinical Variants. JAMA 327:350-9
  36. Fiore VG, Gu X. 2022. Similar network compositions, but distinct neural dynamics underlying belief updating in environments with and without explicit outcomes. NeuroImage 247:118821
  37. Farrell K, Kim S, Han N, Iida MA, Gonzalez EM, et al. 2022. Genome-wide association study and functional validation implicates JADE1 in tauopathy. Acta Neuropathologica 143:33-53
  38. Farkouh ME, Stone GW, Lala A, Bagiella E, Moreno PR, et al. 2022. Anticoagulation in Patients With COVID-19: JACC Review Topic of the Week. J Am Coll Cardiol 79:917-28
  39. Esposito D, Pant I, Shen Y, Qiao RF, Yang X, et al. 2022. ROCK1 mechano-signaling dependency of human malignancies driven by TEAD/YAP activation. Nature Communications 13:703
  40. Escalera A, Gonzalez-Reiche AS, Aslam S, Mena I, Laporte M, et al. 2022. Mutations in SARS-CoV-2 variants of concern link to increased spike cleavage and virus transmission. Cell Host Microbe 30:373-87.e7
  41. Di’Narzo AF, Houten SM, Kosoy R, Huang R, Vaz FM, et al. 2022. Integrative Analysis of the Inflammatory Bowel Disease Serum Metabolome Improves Our Understanding of Genetic Etiology and Points to Novel Putative Therapeutic Targets. Gastroenterology 162:828-43.e11
  42. Del Rossi N, Chen JG, Yuan G-C, Dries R. 2022. Analyzing Spatial Transcriptomics Data Using Giotto. Current Protocols 2:e405
  43. DeGrace MM, Ghedin E, Frieman MB, Krammer F, Grifoni A, et al. 2022. Defining the risk of SARS-CoV-2 variants on immune protection. Nature 605:640-52
  44. Danziger O, Patel RS, DeGrace EJ, Rosen MR, Rosenberg BR. 2022. Inducible CRISPR activation screen for interferon-stimulated genes identifies OAS1 as a SARS-CoV-2 restriction factor. PLoS Pathog 18:e1010464-e
  45. Chen T-Y, Gonzalez-Kozlova E, Soleymani T, La Salvia S, Kyprianou N, et al. 2022. Extracellular vesicles carry distinct proteo-transcriptomic signatures that are different from their cancer cell of origin. iScience 25:104414
  46. Carreño JM, Alshammary H, Tcheou J, Singh G, Raskin AJ, et al. 2022. Activity of convalescent and vaccine serum against SARS-CoV-2 Omicron. Nature 602:682-8
  47. Carcamo S, Nguyen CB, Grossi E, Filipescu D, Alpsoy A, et al. 2022. Altered BAF occupancy and transcription factor dynamics in PBAF-deficient melanoma. Cell Rep 39
  48. Birnbaum R, Mahjani B, Loos RJF, Sharp AJ. 2022. Clinical Characterization of Copy Number Variants Associated With Neurodevelopmental Disorders in a Large-scale Multiancestry Biobank. JAMA Psychiatry 79:250-9
  49. Badrinath S, Dellacherie MO, Li A, Zheng S, Zhang X, et al. 2022. A vaccine targeting resistant tumours by dual T cell plus NK cell attack. Nature