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Sudeshna Das, Ph.D.

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Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Viejo L, Noori A, Merrill E, Das S, Hyman BT, Serrano-Pozo A. Systematic review of human post-mortem immunohistochemical studies and bioinformatics analyses unveil the complexity of astrocyte reaction in Alzheimer's disease. Neuropathol Appl Neurobiol. 2021 Jul 23. PMID: 34297416.
    Citations:    Fields:    
  2. Ma Y, Blacker D, Viswanathan A, van Veluw SJ, Bos D, Vernooij MW, Hyman BT, Tzourio C, Das S, Hofman A. Visit-to-Visit Blood Pressure Variability, Neuropathology, and Cognitive Decline. Neurology. 2021 06 08; 96(23):e2812-e2823. PMID: 33903194.
    Citations:    Fields:    Translation:HumansCells
  3. Carlyle BC, Kandigian SE, Kreuzer J, Das S, Trombetta BA, Kuo Y, Bennett DA, Schneider JA, Petyuk VA, Kitchen RR, Morris R, Nairn AC, Hyman BT, Haas W, Arnold SE. Synaptic proteins associated with cognitive performance and neuropathology in older humans revealed by multiplexed fractionated proteomics. Neurobiol Aging. 2021 09; 105:99-114. PMID: 34052751.
    Citations:    Fields:    
  4. Mezlini AM, Das S, Goldenberg A. Finding associations in a heterogeneous setting: statistical test for aberration enrichment. Genome Med. 2021 Apr 23; 13(1):68. PMID: 33892787.
    Citations:    Fields:    
  5. Mukerji SS, Das S, Alabsi H, Brenner LN, Jain A, Magdamo C, Collens SI, Ye E, Keller K, Boutros CL, Leone MJ, Newhouse A, Foy B, Li MD, Lang M, Anahtar MN, Shao YP, Ge W, Sun H, Triant VA, Kalpathy-Cramer J, Higgins J, Rosand J, Robbins GK, Westover MB. Prolonged Intubation in Patients With Prior Cerebrovascular Disease and COVID-19. Front Neurol. 2021; 12:642912. PMID: 33897598.
    Citations:    
  6. Lin L, Al-Faraj A, Ayub N, Bravo P, Das S, Ferlini L, Karakis I, Lee JW, Mukerji SS, Newey CR, Pathmanathan J, Abdennadher M, Casassa C, Gaspard N, Goldenholz DM, Gilmore EJ, Jing J, Kim JA, Kimchi EY, Ladha HS, Tobochnik S, Zafar S, Hirsch LJ, Westover MB, Shafi MM. Electroencephalographic Abnormalities are Common in COVID-19 and are Associated with Outcomes. Ann Neurol. 2021 05; 89(5):872-883. PMID: 33704826.
    Citations: 1     Fields:    Translation:Humans
  7. Noori A, Mezlini AM, Hyman BT, Serrano-Pozo A, Das S. Differential gene expression data from the human central nervous system across Alzheimer's disease, Lewy body diseases, and the amyotrophic lateral sclerosis and frontotemporal dementia spectrum. Data Brief. 2021 Apr; 35:106863. PMID: 33665258.
    Citations: 2     
  8. Fernandes M, Sun H, Jain A, Alabsi HS, Brenner LN, Ye E, Ge W, Collens SI, Leone MJ, Das S, Robbins GK, Mukerji SS, Westover MB. Classification of the Disposition of Patients Hospitalized with COVID-19: Reading Discharge Summaries Using Natural Language Processing. JMIR Med Inform. 2021 Feb 10; 9(2):e25457. PMID: 33449908.
    Citations:    
  9. Conklin J, Frosch MP, Mukerji SS, Rapalino O, Maher MD, Schaefer PW, Lev MH, Gonzalez RG, Das S, Champion SN, Magdamo C, Sen P, Harrold GK, Alabsi H, Normandin E, Shaw B, Lemieux JE, Sabeti PC, Branda JA, Brown EN, Westover MB, Huang SY, Edlow BL. Susceptibility-weighted imaging reveals cerebral microvascular injury in severe COVID-19. J Neurol Sci. 2021 02 15; 421:117308. PMID: 33497950.
    Citations: 9     Fields:    Translation:HumansCTClinical Trials
  10. Sun H, Jain A, Leone MJ, Alabsi HS, Brenner LN, Ye E, Ge W, Shao YP, Boutros CL, Wang R, Tesh RA, Magdamo C, Collens SI, Ganglberger W, Bassett IV, Meigs JB, Kalpathy-Cramer J, Li MD, Chu JT, Dougan ML, Stratton LW, Rosand J, Fischl B, Das S, Mukerji SS, Robbins GK, Westover MB. CoVA: An Acuity Score for Outpatient Screening that Predicts Coronavirus Disease 2019 Prognosis. J Infect Dis. 2021 01 04; 223(1):38-46. PMID: 33098643.
    Citations: 10     Fields:    Translation:Humans
  11. Serrano-Pozo A, Das S, Hyman BT. APOE and Alzheimer's disease: advances in genetics, pathophysiology, and therapeutic approaches. Lancet Neurol. 2021 01; 20(1):68-80. PMID: 33340485.
    Citations: 12     Fields:    Translation:HumansAnimals
  12. Noori A, Mezlini AM, Hyman BT, Serrano-Pozo A, Das S. Systematic review and meta-analysis of human transcriptomics reveals neuroinflammation, deficient energy metabolism, and proteostasis failure across neurodegeneration. Neurobiol Dis. 2021 02; 149:105225. PMID: 33347974.
    Citations: 7     Fields:    
  13. Zhuoqiao Hong, Colin G. Magdamo, Yi-han Sheu, Prathamesh Mohite, Ayush Noori, Elissa M. Ye, Wendong Ge, Haoqi Sun, Laura Brenner, Gregory Robbins, Shibani Mukerji, Sahar Zafar, Nicole Benson, Lidia Moura, John Hsu, Bradley T. Hyman, Michael B. Westover, Deborah Blacker, Sudeshna Das. Machine Learning for Health (ML4H) at NeurIPS 2020. Natural Language Processing to Detect Cognitive Concerns in Electronic Health Records Using Deep Learning. 2020. View Publication.
  14. Bryant AG, Hu M, Carlyle BC, Arnold SE, Frosch MP, Das S, Hyman BT, Bennett RE. Cerebrovascular Senescence Is Associated With Tau Pathology in Alzheimer's Disease. Front Neurol. 2020; 11:575953. PMID: 33041998.
    Citations: 3     
  15. Yusuf RZ, Saez B, Sharda A, van Gastel N, Yu VWC, Baryawno N, Scadden EW, Acharya S, Chattophadhyay S, Huang C, Viswanathan V, S'aulis D, Cobert J, Sykes DB, Keibler MA, Das S, Hutchinson JN, Churchill M, Mukherjee S, Lee D, Mercier F, Doench J, Bullinger L, Logan DJ, Schreiber S, Stephanopoulos G, Rizzo WB, Scadden DT. Aldehyde dehydrogenase 3a2 protects AML cells from oxidative death and the synthetic lethality of ferroptosis inducers. Blood. 2020 09 10; 136(11):1303-1316. PMID: 32458004.
    Citations: 7     Fields:    Translation:HumansAnimalsCells
  16. Das S, Li Z, Noori A, Hyman BT, Serrano-Pozo A. Meta-analysis of mouse transcriptomic studies supports a context-dependent astrocyte reaction in acute CNS injury versus neurodegeneration. J Neuroinflammation. 2020 Jul 31; 17(1):227. PMID: 32736565.
    Citations: 11     Fields:    Translation:AnimalsCells
  17. Conklin J, Frosch MP, Mukerji S, Rapalino O, Maher M, Schaefer PW, Lev MH, Gonzalez RG, Das S, Champion SN, Magdamo C, Sen P, Harrold GK, Alabsi H, Normandin E, Shaw B, Lemieux J, Sabeti P, Branda JA, Brown EN, Westover MB, Huang SY, Edlow BL. Cerebral Microvascular Injury in Severe COVID-19. medRxiv. 2020 Jul 24. PMID: 32743599.
    Citations:    
  18. Sun H, Jain A, Leone MJ, Alabsi HS, Brenner LN, Ye E, Ge W, Shao YP, Boutros CL, Wang R, Tesh RA, Magdamo C, Collens SI, Ganglberger W, Bassett IV, Meigs JB, Kalpathy-Cramer J, Li MD, Chu JT, Dougan M, Stratton L, Rosand J, Fischl B, Das S, Mukerji SS, Robbins GK, Westover MB. COVID-19 Outpatient Screening: a Prediction Score for Adverse Events. medRxiv. 2020 Jun 22. PMID: 32607523.
    Citations: 1     
  19. Calvo-Rodriguez M, Hou SS, Snyder AC, Kharitonova EK, Russ AN, Das S, Fan Z, Muzikansky A, Garcia-Alloza M, Serrano-Pozo A, Hudry E, Bacskai BJ. Increased mitochondrial calcium levels associated with neuronal death in a mouse model of Alzheimer's disease. Nat Commun. 2020 05 01; 11(1):2146. PMID: 32358564.
    Citations: 35     Fields:    Translation:AnimalsCells
  20. Mezlini AM, Magdamo C, Merrill E, Chibnik LB, Blacker DL, Hyman BT, Das S. Characterizing Clinical and Neuropathological Traits of APOE Haplotypes in African Americans and Europeans. J Alzheimers Dis. 2020; 78(1):467-477. PMID: 33016904.
    Citations: 1     Fields:    
  21. Das S, Mishra KP, Chanda S, Ganju L, Singh SB. CXCR7: A key neuroprotective molecule against alarmin HMGB1 mediated CNS pathophysiology and subsequent memory impairment. Brain Behav Immun. 2019 Nov; 82:319-337. PMID: 31505255.
    Citations: 3     Fields:    Translation:AnimalsCells
  22. Gui Y, Marks JD, Das S, Hyman BT, Serrano-Pozo A. Characterization of the 18 kDa translocator protein (TSPO) expression in post-mortem normal and Alzheimer's disease brains. Brain Pathol. 2020 01; 30(1):151-164. PMID: 31276244.
    Citations: 22     Fields:    Translation:HumansCells
  23. Sala Frigerio C, Wolfs L, Fattorelli N, Thrupp N, Voytyuk I, Schmidt I, Mancuso R, Chen WT, Woodbury ME, Srivastava G, Möller T, Hudry E, Das S, Saido T, Karran E, Hyman B, Perry VH, Fiers M, De Strooper B. The Major Risk Factors for Alzheimer's Disease: Age, Sex, and Genes Modulate the Microglia Response to Aß Plaques. Cell Rep. 2019 04 23; 27(4):1293-1306.e6. PMID: 31018141.
    Citations: 92     Fields:    Translation:HumansAnimalsCells
  24. Bihlmeyer NA, Merrill E, Lambert Y, Srivastava GP, Clark TW, Hyman BT, Das S. Novel methods for integration and visualization of genomics and genetics data in Alzheimer's disease. Alzheimers Dement. 2019 06; 15(6):788-798. PMID: 30935898.
    Citations: 6     Fields:    Translation:HumansCells
  25. Zhou B, Kreuzer J, Kumsta C, Wu L, Kamer KJ, Cedillo L, Zhang Y, Li S, Kacergis MC, Webster CM, Fejes-Toth G, Naray-Fejes-Toth A, Das S, Hansen M, Haas W, Soukas AA. Mitochondrial Permeability Uncouples Elevated Autophagy and Lifespan Extension. Cell. 2019 04 04; 177(2):299-314.e16. PMID: 30929899.
    Citations: 37     Fields:    Translation:HumansAnimalsCells
  26. Marie Charpignon, Sudeshna Das, Bella Vakulenko-Lagun, Colin Magdamo, Deborah Blacker, Yi-Han Sheu, Stan Finkelstein, Roy Welsch, Mark Albers. ML4H: Machine Learning for Health Workshop at NeurIPS 2019. A Causal Inference Framework for Antidiabetic Drug Repurposing Using Observational Data from United States Electronic Health Records. 2019. View Publication.
  27. Das S, Rogan M, Kawadler H, Brin S, Corlosquet S, Clark T. Workshop on The Future of the Web for Collaborative Science (FWCS 2010), WWW2010. PD Online: A case study in scientific collaboration on the web. 2018. View Publication.
  28. Antoury L, Hu N, Balaj L, Das S, Georghiou S, Darras B, Clark T, Breakefield XO, Wheeler TM. Analysis of extracellular mRNA in human urine reveals splice variant biomarkers of muscular dystrophies. Nat Commun. 2018 09 25; 9(1):3906. PMID: 30254196.
    Citations: 12     Fields:    Translation:HumansAnimalsCells
  29. Hopp SC, Bihlmeyer NA, Corradi JP, Vanderburg C, Cacace AM, Das S, Clark TW, Betensky RA, Hyman BT, Hudry E. Neuronal calcineurin transcriptional targets parallel changes observed in Alzheimer disease brain. J Neurochem. 2018 10; 147(1):24-39. PMID: 29806693.
    Citations: 7     Fields:    Translation:AnimalsCells
  30. Das S, Mishra KP, Ganju L, Singh SB. Intranasally delivered small interfering RNA-mediated suppression of scavenger receptor Mac-1 attenuates microglial phenotype switching and working memory impairment following hypoxia. Neuropharmacology. 2018 07 15; 137:240-255. PMID: 29738851.
    Citations: 1     Fields:    Translation:AnimalsCells
  31. Bennett RE, Robbins AB, Hu M, Cao X, Betensky RA, Clark T, Das S, Hyman BT. Tau induces blood vessel abnormalities and angiogenesis-related gene expression in P301L transgenic mice and human Alzheimer's disease. Proc Natl Acad Sci U S A. 2018 02 06; 115(6):E1289-E1298. PMID: 29358399.
    Citations: 67     Fields:    Translation:HumansAnimalsCells
  32. Ofengeim D, Mazzitelli S, Ito Y, DeWitt JP, Mifflin L, Zou C, Das S, Adiconis X, Chen H, Zhu H, Kelliher MA, Levin JZ, Yuan J. RIPK1 mediates a disease-associated microglial response in Alzheimer's disease. Proc Natl Acad Sci U S A. 2017 10 10; 114(41):E8788-E8797. PMID: 28904096.
    Citations: 71     Fields:    Translation:HumansAnimalsCells
  33. Ito Y, Ofengeim D, Najafov A, Das S, Saberi S, Li Y, Hitomi J, Zhu H, Chen H, Mayo L, Geng J, Amin P, DeWitt JP, Mookhtiar AK, Florez M, Ouchida AT, Fan JB, Pasparakis M, Kelliher MA, Ravits J, Yuan J. RIPK1 mediates axonal degeneration by promoting inflammation and necroptosis in ALS. Science. 2016 Aug 05; 353(6299):603-8. PMID: 27493188.
    Citations: 156     Fields:    Translation:HumansAnimalsCells
  34. Allen GI, Amoroso N, Anghel C, Balagurusamy V, Bare CJ, Beaton D, Bellotti R, Bennett DA, Boehme KL, Boutros PC, Caberlotto L, Caloian C, Campbell F, Chaibub Neto E, Chang YC, Chen B, Chen CY, Chien TY, Clark T, Das S, Davatzikos C, Deng J, Dillenberger D, Dobson RJ, Dong Q, Doshi J, Duma D, Errico R, Erus G, Everett E, Fardo DW, Friend SH, Fröhlich H, Gan J, St George-Hyslop P, Ghosh SS, Glaab E, Green RC, Guan Y, Hong MY, Huang C, Hwang J, Ibrahim J, Inglese P, Iyappan A, Jiang Q, Katsumata Y, Kauwe JS, Klein A, Kong D, Krause R, Lalonde E, Lauria M, Lee E, Lin X, Liu Z, Livingstone J, Logsdon BA, Lovestone S, Ma TW, Malhotra A, Mangravite LM, Maxwell TJ, Merrill E, Nagorski J, Namasivayam A, Narayan M, Naz M, Newhouse SJ, Norman TC, Nurtdinov RN, Oyang YJ, Pawitan Y, Peng S, Peters MA, Piccolo SR, Praveen P, Priami C, Sabelnykova VY, Senger P, Shen X, Simmons A, Sotiras A, Stolovitzky G, Tangaro S, Tateo A, Tung YA, Tustison NJ, Varol E, Vradenburg G, Weiner MW, Xiao G, Xie L, Xie Y, Xu J, Yang H, Zhan X, Zhou Y, Zhu F, Zhu H, Zhu S. Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease. Alzheimers Dement. 2016 06; 12(6):645-53. PMID: 27079753.
    Citations: 24     Fields:    Translation:Humans
  35. Merrill E, Corlosquet S, Ciccarese P, Clark T, Das S. Semantic Web repositories for genomics data using the eXframe platform. J Biomed Semantics. 2014; 5(Suppl 1 Proceedings of the Bio-Ontologies Spec Interest G):S3. PMID: 25093072.
    Citations: 1     Fields:    
  36. Das S, McCaffrey PG, Talkington MW, Andrews NA, Corlosquet S, Ivinson AJ, Clark T. Pain Research Forum: application of scientific social media frameworks in neuroscience. Front Neuroinform. 2014; 8:21. PMID: 24653693.
    Citations: 2     
  37. Merrill E, Corlosquet S, Ciccarese P, Clark T and Das S. Bio-Ontologies 2013. eXframe: A Semantic Web Platform for Genomics Experiments. 2013. View Publication.
  38. Ho Sui S, Merrill E, Gehlenborg N, Haseley P, Sytchev I, Park R, Rocca-Serra P, Corlosquet S, Gonzalez-Beltran A, Maguire E, Hofmann O, Park P, Das S, Sansone SA, Hide W. The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework. AMIA Jt Summits Transl Sci Proc. 2013; 2013:70. PMID: 24303302.
    Citations: 2     
  39. McFarland KN, Das S, Sun TT, Leyfer D, Kim MO, Xia E, Sangrey GR, Kuhn A, Luthi-Carter R, Clark TW, Sadri-Vakili G, Cha JH. Genome-wide increase in histone H2A ubiquitylation in a mouse model of Huntington's disease. J Huntingtons Dis. 2013; 2(3):263-77. PMID: 25062675.
    Citations: 3     Fields:    Translation:AnimalsCells
  40. McFarland KN, Das S, Sun TT, Leyfer D, Xia E, Sangrey GR, Kuhn A, Luthi-Carter R, Clark TW, Sadri-Vakili G, Cha JH. Genome-wide histone acetylation is altered in a transgenic mouse model of Huntington's disease. PLoS One. 2012; 7(7):e41423. PMID: 22848491.
    Citations: 27     Fields:    Translation:AnimalsCells
  41. Deus HF, Prud'hommeaux E, Miller M, Zhao J, Malone J, Adamusiak T, McCusker J, Das S, Rocca Serra P, Fox R, Marshall MS. Translating standards into practice - one Semantic Web API for Gene Expression. J Biomed Inform. 2012 Aug; 45(4):782-94. PMID: 22449719.
    Citations: 3     Fields:    Translation:Humans
  42. Sansone SA, Rocca-Serra P, Field D, Maguire E, Taylor C, Hofmann O, Fang H, Neumann S, Tong W, Amaral-Zettler L, Begley K, Booth T, Bougueleret L, Burns G, Chapman B, Clark T, Coleman LA, Copeland J, Das S, de Daruvar A, de Matos P, Dix I, Edmunds S, Evelo CT, Forster MJ, Gaudet P, Gilbert J, Goble C, Griffin JL, Jacob D, Kleinjans J, Harland L, Haug K, Hermjakob H, Ho Sui SJ, Laederach A, Liang S, Marshall S, McGrath A, Merrill E, Reilly D, Roux M, Shamu CE, Shang CA, Steinbeck C, Trefethen A, Williams-Jones B, Wolstencroft K, Xenarios I, Hide W. Toward interoperable bioscience data. Nat Genet. 2012 Jan 27; 44(2):121-6. PMID: 22281772.
    Citations: 142     Fields:    
  43. Sinha AU, Merrill E, Armstrong SA, Clark TW, Das S. eXframe: reusable framework for storage, analysis and visualization of genomics experiments. BMC Bioinformatics. 2011 Nov 21; 12:452. PMID: 22103807.
    Citations: 3     Fields:    Translation:HumansCells
  44. Ciccarese P, Ocana M, Garcia Castro LJ, Das S, Clark T. An open annotation ontology for science on web 3.0. J Biomed Semantics. 2011 May 17; 2 Suppl 2:S4. PMID: 21624159.
    Citations: 24     Fields:    
  45. Ciccarese P, Ocana M, Das S, Clark T. Bio-Ontologies 2010: Semantic Applications in Life Sciences. AO: An Open Annotation Ontology for Science on the Web. 2010.
  46. Das S, Goetz M, Girard L, Clark T. ELPUB 2009. 13th International Conference on Electronic Publishing: Rethinking Electronic Publishing: Innovation in Communication Paradigms and Technologies. Scientific Publications on Web 3.0. 2009. View Publication.
  47. Das S, Girard L, Green T, Weitzman L, Lewis-Bowen A, Clark T. Building biomedical web communities using a semantically aware content management system. Brief Bioinform. 2009 Mar; 10(2):129-38. PMID: 19060302.
    Citations: 4     Fields:    Translation:Humans
  48. Das S, Green T, Weitzman L, Lewis-Bowen A, Clark T. Workshop on Health Care and Life Sciences Data Integration for the Semantic Web, WWW2008. Linked data in a scientific collaboration framework. 2008. View Publication.
  49. Chakravarty A, Bowman D, Ecsedy JA, Rabino C, Donovan J, D’Amore N, Veiby P, Rolfe M, and Das S. High Content Screening: Science, Techniques and Applications. Steven A. Haney (Editor). Developing Robust High Content Assays. 2008.
  50. Nagl SB, Das S, Smith TF. Prediction of interaction partners for orphan nuclear receptors by prior-based protein sequence profiles. J Mol Recognit. 2000 May-Jun; 13(3):117-26. PMID: 10867707.
    Citations:    Fields:    Translation:AnimalsCells
  51. Das S, Smith TF. Identifying nature's protein Lego set. Adv Protein Chem. 2000; 54:159-83. PMID: 10829228.
    Citations: 8     Fields:    Translation:Cells
  52. Das S, Yu L, Gaitatzes C, Rogers R, Freeman J, Bienkowska J, Adams RM, Smith TF, Lindelien J. Biology's new Rosetta stone. Nature. 1997 Jan 02; 385(6611):29-30. PMID: 8985242.
    Citations: 22     Fields:    Translation:AnimalsCells
  53. Adams RM, Das S, Smith TF. Multiple domain protein diagnostic patterns. Protein Sci. 1996 Jul; 5(7):1240-9. PMID: 8819157.
    Citations: 5     Fields:    Translation:HumansAnimalsCells
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