Scientist, Bioinformatics

Scientist, Bioinformatics

Bridging the gap between Genomics and Data Science

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brain

Neurotransmitters (Amino Acid)

Glutamatergic neurons are a type of neuron that primarily release glutamate, the main excitatory neurotransmitter in the brain. GABAergic neurons are a type of inhibitory neuron in the central nervous system (CNS) that primarily use gamma-aminobutyric acid (GABA) as their neurotransmitter.

Basal Ganglia Circuits

The basal ganglia is a network of subcortical brain structures distributed across the telencephalon, diencephalon, and mesencephalon (midbrain).

Brain

The embryonic brain develops through the enlargement of neural tube vesicles, first forming three primary vesicles and later five secondary vesicles.

Neurotransmitters (Catecholamine)

The term “catecholamine” typically describes organic compounds that contain a catechol nucleus, characterized by a benzene ring with two adjacent hydroxyl groups, along with an amine group.

Cerebral cortex

The cerebral cortex is the outermost layer of the brain, responsible for higher-order brain functions such as perception, cognition, and voluntary movement. It consists of several regions that are divided based on their location and function:

Dementia

Dementia is defined as the loss of intellectual functions (such as thinking, remembering, and reasoning) severe enough to interfere with a person’s daily functioning. It is not a disease in itself but a group of symptoms that may accompany certain diseases or physical conditions.

Dystonia - Biomarkers

There is currently no biomarker of dystonia and no gold-standard test for its diagnosis.

Parkinson’s disease - Biomarkers

Parkinson’s Disease (PD) is the second most common neurodegenerative disorder, characterized by the loss of dopaminergic neurons and the accumulation of aggregated α-synuclein, mainly in the substantia nigra pars compacta (SNpc) of the midbrain.

Spiny Projection Neurons (SPN)

Spiny Projection Neurons (SPNs), specifically Medium Spiny Neurons (MSNs), are a predominant type of neuron found in the striatum, which is part of the basal ganglia in the brain.

Subcortical region

The subcortical region of the brain consists of structures that lie beneath the cerebral cortex and play essential roles in regulating various functions, including movement, emotions, memory, and autonomic processes.

Substantia nigra

The substantia nigra is considered part of both the basal ganglia and the midbrain due to its anatomical location and its functional role within these brain systems.

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publications

Signatures of somatic mutations and gene expression from p16INK4A positive head and neck squamous cell carcinomas (HNSCC).

Published in PLOS ONE, 2020

Cancer Genomics

Recommended citation: Nabil F. Saba NF*, Dinasarapu AR*, Magliocca KR, Dwivedi B, Seby S, Qin ZS, Patel M, Griffith CC, Wang X, El-Deiry M, Steuer CE, Kowalski J, Shin DM, Zwick ME, Chen ZG (2020). "Signatures of somatic mutations and gene expression from p16INK4A positive head and neck squamous cell carcinomas (HNSCC)." PLOS ONE 15(9): e0238497. https://doi.org/10.1371/journal.pone.0238497

Differential expression of striatal proteins in a mouse model of DOPA-responsive dystonia reveals shared mechanisms among dystonic disorders.

Published in Molecular Genetics and Metabolism, 2021

Neuroscience

Recommended citation: Briscione MA, Dinasarapu AR, Bagchi P, Donsante Y, Downs AM, Fan X, Hoehner J, Jinnah HA, Hess EJ (2021). "Differential expression of striatal proteins in a mouse model of DOPA-responsive dystonia reveals shared mechanisms among dystonic disorders." Molecular Genetics and Metabolism. 133(4):352-361. https://doi.org/10.1016/j.ymgme.2021.05.010

Combinatorial clinically driven blood biomarker functional genomics significantly enhances genotype-phenotype resolution and diagnostics in neuromuscular disease.

Published in medRxiv, 2021

Functional Genomics

Recommended citation: Chakravorty S, Berger L, Rufibach L, Gloster L, Emmons A, Shenoy S, Hegde M, Dinasarapu AR, Gibson G (2021) Combinatorial clinically driven blood biomarker functional genomics significantly enhances genotype-phenotype resolution and diagnostics in neuromuscular disease." medRxiv https://doi.org/10.1101/2021.01.14.21249850

Circulating integrin α4β7+ CD4 T cells are enriched for proliferative transcriptional programs in HIV infection.

Published in FEBS Letters, 2021

Infectious diseases

Recommended citation: Lakshmanappa YS, Roh JW, Rane NN, Dinasarapu AR , Tran DD, Velu VV, Sheth AN, Ofotokun I, Amara RR, Kelley CF, Waetjen EW, Iyer SS (2021) Circulating integrin α4β7+ CD4 T cells are enriched for proliferative transcriptional programs in HIV infection" FEBS Letters. 595(17):2257-2270. https://febs.onlinelibrary.wiley.com/doi/10.1002/1873-3468.14163

Neuroinflammatory transcriptional programs induced in rhesus pre-frontal cortex white matter during acute SHIV infection.

Published in Journal of Neuroinflammation, 2022

Infectious diseases & Inflammation

Recommended citation: Hawes CE, Elizaldi SR, Beckman D, Diniz GB, Lakshmanappa YS, Ott S, Durbin-Johnson BP, Dinasarapu AR , Gompers AL, Morrison JH, Iyer SS (2022). Neuroinflammatory transcriptional programs induced in rhesus pre-frontal cortex white matter during acute SHIV infection. Journal of Neuroinflammation, 19, 250. https://jneuroinflammation.biomedcentral.com/articles/10.1186/s12974-022-02610-y

Anti-inflammatory effects of recreational marijuana in virally suppressed youth with HIV-1 are reversed by use of tobacco products in combination with marijuana.

Published in Retrovirology, 2022

Infectious diseases & Inflammation

Recommended citation: Yin L, Dinasarapu AR , Borkar SA, Chang KF, De Paris K, Kim-Chang JJ, Sleasman JW, Goodenow MM (2022) Anti-inflammatory effects of recreational marijuana in virally suppressed youth with HIV-1 are reversed by use of tobacco products in combination with marijuana" Retrovirology 19, 10 (2022) https://retrovirology.biomedcentral.com/articles/10.1186/s12977-022-00594-4

Chronic SIV-induced neuroinflammation disrupts CCR7+CD4+ T cell immunosurveillance in the rhesus macaque brain.

Published in Journal of Clinical Investigation, 2024

Infectious diseases & Inflammation

Recommended citation: Elizaldi SR, Hawes CE, Verma A, Shaan Lakshmanappa Y, Dinasarapu AR, Schlegel BT, Rajasundaram D, Li J, Durbin-Johnson BP, Ma ZM, Pal PB, Beckman D, Ott S, Raeman R, Lifson J, Morrison JH, Iyer SS (2024). Chronic SIV-induced neuroinflammation disrupts CCR7+CD4+ T cell immunosurveillance in the rhesus macaque brain. J Clin Invest. https://pubmed.ncbi.nlm.nih.gov/38470479/

Live-cell invasive phenotyping uncovers the ALK2/BMP6 iron homeostasis pathway as a therapeutic vulnerability in LKB1-mutant lung cancer.

Published in Cancer Research, 2024

Recommended citation: Koo J, Seong CS, Parker RE, Dwivedi B, Arthur RA, Dinasarapu AR, Johnston HR, Claussen H, Tucker-Burden C, Ramalingam SS, Fu H,Zhou W, Marcus AI, Gilbert-Ross M. (2023) Live-cell invasive phenotyping uncovers the ALK2/BMP6 iron homeostasis pathway as a therapeutic vulnerability in LKB1-mutant lung cancer" https://doi.org/10.1158/0008-5472.can-23-2631

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