79 results on '"Vivek Prabhakar"'
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2. Application of VIKOR for the Selection of Material for the Green and Sustainable Construction
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Rajak, Sonu, Vivek, Prabhakar, Jha, Sanjay Kumar, Deepak, BBVL., editor, Parhi, DRK, editor, and Jena, Pankaj C., editor
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- 2020
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3. Dynamic machine learning model to forecast patient availability for clinical trials.
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Kulkarni, Rajeev, primary, Vaidya, Vivek Prabhakar, additional, Parmar, Dhaval, additional, Tibrewal, Abhishek, additional, and Parikh, Ravi Bharat, additional
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- 2024
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4. A prospective study comparing AI-based clinical trial eligibility screening with traditional EMR-based screening.
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Joseph-Thomas, Jiby, primary, Green, Cristina, additional, Tibrewal, Abhishek, additional, Dupont, Frank, additional, Flach, Jen, additional, Goldstein, Amelia, additional, Vaidya, Vivek Prabhakar, additional, Kulkarni, Rajeev, additional, and Parikh, Ravi Bharat, additional
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- 2024
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5. Analysis of Green Supply Chain Management Enablers in FMCG Sector Using Integrated ISM and MICMAC Approach
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Vivek, Prabhakar, Sanjay Kumar, Jha, Shanker, Kripa, editor, Shankar, Ravi, editor, and Sindhwani, Rahul, editor
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- 2019
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6. Translingual neural stimulation induced changes in intra- and inter-network functional connectivity in mild-moderate traumatic brain injury patients
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Daniel Y. Chu, Jiancheng Hou, Thomas Hosseini, Veena A. Nair, Nagesh Adluru, Yuri Danilov, Kurt A. Kaczmarek, Mary E. Meyerand, Mitchell Tyler, and Vivek Prabhakaran
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traumatic brain injuries ,translingual neural stimulation ,network functional connectivity ,Sensory Organization Test ,Dynamic Gait Index ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
IntroductionMild-to-moderate traumatic brain injury (mmTBI) that lead to deficits in balance and gait are difficult to resolve through standard therapy protocols, and these deficits can severely impact a patient's quality of life. Recently, translingual neural stimulation (TLNS) has emerged as a potential therapy for mmTBI-related balance and gait deficits by inducing neuroplastic changes in the brain gray matter structure. However, it is still unclear how interactions within and between functional networks in brain are affected by TLNS. The current study aimed to extend our previous resting-state functional connectivity (RSFC) study investigating the effects of TLNS intervention on outcome measures related to gait and balance.MethodsAn experimental PoNS device was utilized to deliver the TLNS. The 2-week TLNS intervention program, specifically stimulation during focused physical therapy focused on recovery of gait and balance, included twice-daily treatment in the laboratory and the same program at home during the intervening weekend. The resting-state fMRI datasets at pre- and post-interventions were collected by 3T MRI scanner with nine mmTBI patients. All participants also received both Sensory Organization Test (SOT) and Dynamic Gait Index (DGI) testing pre- and post-intervention as part of the behavioral assessment.ResultsCompared to baseline, TLNS intervention led to statistically significant improvements in both the SOT [t(8) = 2.742, p = 0.028] and the DGI [t(8) = 2.855, p = 0.024] scores. Moreover, significant increases in intra- and inter-network RSFC were observed, particularly within the visual, default mode, dorsal attention, frontoparietal (FPN), and somatosensory (SMN) networks. Additionally, there were significant correlations between the SOT and inter-network FC [between FPN and SMN, r(9) = –0.784, p = 0.012] and between the DGI and intra-network FC [within SMN, r(9) = 0.728, p = 0.026].DiscussionThese findings suggest that TLNS intervention is an effective in increasing somatosensory processing, vestibular-visual interaction, executive control and flexible shifting, and TLNS may be an effective approach to inducing brain network plasticity and may serve as a potential therapy for mmTBI-related gait and balance deficits.
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- 2025
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7. Spectral/hp penalty least-squares finite element formulation for the steady incompressible Navier-Stokes equations.
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Vivek Prabhakar and J. N. Reddy 0001
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- 2006
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8. Natural language processing-optimized case selection for real-world evidence studies.
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Koskimaki, Jacob, primary, Hu, Jenny, additional, Zhang, Yiduo, additional, Mena, Jose, additional, Jones, Nehanda, additional, Lipschultz, Elizabeth, additional, Vaidya, Vivek Prabhakar, additional, Altay, Gabriel, additional, Erese, Vance Andrei, additional, Swaminathan, Krishna Kumar, additional, Mendonca, Emma, additional, Dutt, Tarun, additional, Singh, Kuldeep, additional, King, Tian, additional, Lakkimsetty, Vinay Phani Santosh, additional, Al-Olimat, Hussein, additional, Manning, Brittany, additional, Komatsoulis, George Anthony, additional, Chu, Simon, additional, and Ottens, Jeff, additional
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- 2022
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9. Factors influencing suicidal attempt among the agrarian community of central Maharashtra
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Kshirod Kumar Mishra and Joge Vivek Prabhakar
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agrarian population ,education.field_of_study ,business.industry ,lcsh:RC435-571 ,Population ,Adjustment disorders ,attempted suicide ,rural india ,General Medicine ,medicine.disease ,Interpersonal relationship ,Agrarian society ,Agriculture ,lcsh:Psychiatry ,Psychiatric diagnosis ,medicine ,Original Article ,lcsh:Industrial psychology ,business ,Psychology ,Socioeconomics ,education ,Rural population ,Depression (differential diagnoses) ,lcsh:HF5548.7-5548.85 - Abstract
Introduction: Attempted suicides occur 8–20 times more frequently than completed suicides. Attempted suicides are just the tip of the iceberg of the completed suicides, now a universal phenomenon. Several factors such as financial constraints, altercation among family members, and easy availability of pesticides have been attributed as the common factors for attempted suicide among the rural population. Materials and Methods: On this background, we evaluated all the cases of attempted suicide admitted to our rural medical college during a period of 1 year. Details of sociodemographic profile, mode of attempt, and reason for the attempt were evaluated. All the cases were administered Beck's Depression Inventory. Factors influencing suicidal attempts among farmers and nonfarmers were analyzed using suitable statistical methods. Results: Out of a total of 117 cases of attempted suicide, only 21% of the cases were farmers. Majority of them were males and were married. The main mode of attempt was poisoning. The common psychiatric diagnosis was adjustment disorder followed by depressive disorder. Conclusion: Although the study was conducted in a rural setup from an agrarian background, the majority of the cases were of nonfarmer. The most common mode of suicidal attempt among farmers as well as nonfarmers was pesticide ingestion owing to its easy availability among the agrarian population. Although the most common reason for attempt among the nonfarmer population was interpersonal problems, indebtedness still remains the most common reason for farmers. Attention of policymakers is drawn toward two important aspects: policy on the sale of usual pesticides and policy for the farmers to overcome loss in farming.
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- 2020
10. Prevalence, clinical profile, and severity of nail involvement in psoriasis – A hospital-based cross-sectional study from a tertiary care center in North Kerala
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Anoop Thyvalappil, Pretty Mathew, Rajiv Sridharan, Ajayakumar Sreenivasan, Bifi Joy, and Vivek Prabhakar
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medicine.medical_specialty ,integumentary system ,medicine.diagnostic_test ,business.industry ,Cross-sectional study ,Physical examination ,Disease ,medicine.disease ,Tertiary care ,Dermatology ,030207 dermatology & venereal diseases ,03 medical and health sciences ,0302 clinical medicine ,medicine.anatomical_structure ,Nail disease ,030220 oncology & carcinogenesis ,Psoriasis ,Nail (anatomy) ,medicine ,Nail Changes ,skin and connective tissue diseases ,business - Abstract
Objectives: Nail changes are present in 25–50% of psoriatic cases. Nail Psoriasis Severity Index (NAPSI) assess the extent of the involvement of the psoriatic nail unit. This study was conducted with the aim of finding the prevalence, clinical characteristics and severity of nail psoriasis. Methods and Materials: In this cross-sectional study, a thorough clinical examination was done to determine the type and extent of skin disease including PASI (psoriasis area severity index) score, and all the fingernails and toenails were examined in a well-lit environment, under a magnifying lens to visualize the nail findings, and NAPSI score was calculated for each patient. Statistical Package for the Social Sciences (SPSS v. 11.0) software was used to analyze the data collected. Results: Of the100 patients studied, 73% of patients with psoriasis had nail involvement. Mean total NAPSI was 30.97 ± 30.79. Mean age of onset of psoriasis was 43.62 ± 15.31 and 33.04 ± 12.80 in those with and without nail involvement respectively (P-value 0.002). The majority without nail involvement (77.8%) belonged to the early- onset group, while 22.2% of those without nail involvement had late-onset psoriasis (P-value 0.001). The most common nail pattern in our study was Pitting (93.2%). Limitation: Nail changes in severe forms of disease could not be studied since patients receiving systemic drugs for the disease were excluded from the study. Conclusion: The mean duration of psoriasis in those with nail involvement in our study was 5 years more than in those without nail disease. Our study demonstrated a significant association between higher PASI scores and nail involvement. All patients with severe psoriasis (PASI >20) in our study had nail involvement.
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- 2019
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11. Using Hybrid AHP-ISM Technique for Modelling of Lean Management Enablers in MSMEs
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Ankit Sagar and Vivek Prabhakar
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Structure (mathematical logic) ,Identification (information) ,Process management ,Ranking ,Computer science ,Process (engineering) ,Analytic hierarchy process ,Small and medium-sized enterprises ,Literature survey ,Lean manufacturing - Abstract
The following article explores the use of a hybrid model of Analytic Hierarchy Process (AHP) & Interpretive Structure Modelling (ISM) technique for identification, ranking and modelling of various enablers in Micro Small and Medium Enterprises (MSMEs). The first step involves the identification of various enablers which was accomplished by rigorous literature survey of the available literature and consultation from a panel consisting of experts from academia as well as industry working specifically in MSME industry. The process was further accentuated by the ranking of the various enablers identified earlier, using results of survey sheets circulated amongst the panel members depicting a subjective opinion of rankings by them. The cumulative results of the survey sheets were quantified in the final form using AHP technique depicting final ranking of the enablers. Furthermore, the complex interrelationship amongst the various enablers is represented in a comprehensive manner using ISM technique. The hybrid AHP-ISM model can be used by the industry to identify the key techniques to be focused while adapting the lean manufacturing methods in their operations.
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- 2021
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12. Natural language processing-optimized case selection for real-world evidence studies
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Jacob Koskimaki, Jenny Hu, Yiduo Zhang, Jose Mena, Nehanda Jones, Elizabeth Lipschultz, Vivek Prabhakar Vaidya, Gabriel Altay, Vance Andrei Erese, Krishna Kumar Swaminathan, Emma Mendonca, Tarun Dutt, Kuldeep Singh, Tian King, Vinay Phani Santosh Lakkimsetty, Hussein Al-Olimat, Brittany Manning, George Anthony Komatsoulis, Simon Chu, and Jeff Ottens
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Cancer Research ,Oncology - Abstract
1556 Background: Much information describing a patient’s cancer treatment remains in unstructured text in electronic health records and is not recorded in discrete data fields. Accurate data completeness is essential for quality care improvement and research studies on de-identified patient records. Accessing this high-value content often requires manual and extensive curation review. Methods: AstraZeneca, CancerLinQ, ConcertAI, and Tempus have developed a natural language processing (NLP)-assisted process to improve clinical cohort selection for targeted curation efforts. Hybrid, machine-learning model development included text classification, named entity recognition, relation extraction and false positive removal. A subset of nearly 60,000 lung cancer cases were included from the CancerLinQ database, comprised of multiple source EHR systems. NLP models extracted EGFR status, stage, histology, radiation therapy, surgical resection and oral medications. Based on the results, cases were selected for additional manual curation, where curators confirmed findings of the NLP-processed data. Results: NLP methods improved cohort identification. Successfully returned cases using the NLP method ranged from 75.2% to 96.5% over more general case selection criteria based on limited structured data. For all cohorts combined, 84.2% of the cases sent out for NLP curation were returned with curated content (Table). Each cohort contained a range of NLP-derived elements for curators to further review. In comparison, more general case selection criteria yielded a total of 3,878 cases returned out of 41,186 lung cancer cases sent for curation, for a success rate of only 9.6%. Conclusions: NLP-driven case selection of six distinct, complex lung cohorts resulted in an order of magnitude improvement in eligibility over candidate selection using structured EHR data alone. This study demonstrates NLP-assisted approaches can significantly improve efficiency in curating unstructured health data. [Table: see text]
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- 2022
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13. Machine learning imputation of metastatic status from open claims in melanoma patients.
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Vaidya, Vivek Prabhakar, primary, Prajapati, Rambaksh, additional, Manirevu, Sai Vinod, additional, George, Rohini, additional, Agrawal, Smita, additional, and Narayanan, Babu, additional
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- 2021
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14. Algorithm to derive progression-based lines of therapy from a real-world non-small cell lung cancer (NSCLC) dataset.
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Agrawal, Smita, primary, Priya, Vandana, additional, George, Rohini, additional, Manirevu, Sai Vinod, additional, Bhardwaj, Tapasya, additional, Prajapati, Rambaksh, additional, Chakkrapani, Sangavai, additional, Walker, Mark S., additional, Vaidya, Vivek Prabhakar, additional, and Narayanan, Babu, additional
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- 2021
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15. Characterizing white matter connectome abnormalities in patients with temporal lobe epilepsy using threshold‐free network‐based statistics
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Daniel Y Chu, Theodore P Imhoff‐Smith, Veena A Nair, Timothy Choi, Anusha Adluru, Camille Garcia‐Ramos, Kevin Dabbs, Jedidiah Mathis, Andrew S Nencka, Lisa Conant, Jeffrey R Binder, Mary E Meyerand, Andrew L Alexander, Aaron F Struck, Bruce Hermann, Vivek Prabhakaran, and Nagesh Adluru
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cognitive impairment ,connectome ,diffusion‐weighted imaging ,generalized tonic–clonic seizures ,temporal lobe epilepsy ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Abstract Introduction Emerging evidence illustrates that temporal lobe epilepsy (TLE) involves network disruptions represented by hyperexcitability and other seizure‐related neural plasticity. However, these associations are not well‐characterized. Our study characterizes the whole brain white matter connectome abnormalities in TLE patients compared to healthy controls (HCs) from the prospective Epilepsy Connectome Project study. Furthermore, we assessed whether aberrant white matter connections are differentially related to cognitive impairment and a history of focal‐to‐bilateral tonic–clonic (FBTC) seizures. Methods Multi‐shell connectome MRI data were preprocessed using the DESIGNER guidelines. The IIT Destrieux gray matter atlas was used to derive the 162 × 162 structural connectivity matrices (SCMs) using MRTrix3. ComBat data harmonization was applied to harmonize the SCMs from pre‐ and post‐scanner upgrade acquisitions. Threshold‐free network‐based statistics were used for statistical analysis of the harmonized SCMs. Cognitive impairment status and FBTC seizure status were then correlated with these findings. Results We employed connectome measurements from 142 subjects, including 92 patients with TLE (36 males, mean age = 40.1 ± 11.7 years) and 50 HCs (25 males, mean age = 32.6 ± 10.2 years). Our analysis revealed overall significant decreases in cross‐sectional area (CSA) of the white matter tract in TLE group compared to controls, indicating decreased white matter tract integrity and connectivity abnormalities in addition to apparent differences in graph theoretic measures of connectivity and network‐based statistics. Focal and generalized cognitive impaired TLE patients showcased higher trend‐level abnormalities in the white matter connectome via decreased CSA than those with no cognitive impairment. Patients with a positive FBTC seizure history also showed trend‐level findings of association via decreased CSA. Conclusions Widespread global aberrant white matter connectome changes were observed in TLE patients and characterized by seizure history and cognitive impairment, laying a foundation for future studies to expand on and validate the novel biomarkers and further elucidate TLE's impact on brain plasticity.
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- 2024
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16. Development of an artificial intelligence model to dynamically predict metastatic recurrence of early-stage breast cancer patients.
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Vaidya, Vivek Prabhakar, primary, Agrawal, Smita, additional, M, Sai Vinod, additional, Nagdewani, Sandeep, additional, Chandrashekaraiah, Prajwal, additional, Bhardwaj, Tapasya, additional, and Narayanan, Babu, additional
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- 2020
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17. Machine learning imputation of metastatic status from open claims in melanoma patients
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Rohini George, Rambaksh Prajapati, Babu Narayanan, Vivek Prabhakar Vaidya, Smita Agrawal, and Sai Vinod Manirevu
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Cancer Research ,business.industry ,Melanoma ,medicine.disease ,Machine learning ,computer.software_genre ,Variable (computer science) ,Oncology ,Claims data ,medicine ,Artificial intelligence ,Imputation (statistics) ,business ,computer - Abstract
e21540 Background: Metastatic status is a crucial variable in most oncology studies but is not available in claims data. The objective of this study is to develop a machine learning model for Imputation of metastatic status from claims data with ground. Truth is derived from highly curated electronic medical record data. Methods: We used a set of 11389 melanoma patients from the ConcertAI real world database of intersecting claims and EMR data that includes data from CancerLinQ Discovery. Using features from claims and our gold standard labels from EMR we built an ML model using (XGBoost) extreme gradient boosting, an algorithm that iteratively combines a set of decision trees into a single model. We used 60% of the data for training, 20% for hyper-parameter tuning, and 20% for holdout testing. The model was built using 55 features. Results: The table below summarizes results. Metrics are on the final hold out set which was unseen by the model and entirely composed of highly curated EMR data. Conclusions: We are able to build a high precision model for the imputation of metastatic melanoma status using claims data. This could enable significantly better use of claims data stemming from the ability to find a metastatic cohort with very few false positives. Providing more precise cohort identification for comparative effectiveness studies. We found features such as secondary neoplasm diagnosis, anti-neoplastic meds, and radiation ranking highly in our analysis of model feature importances. Using techniques to analyze non-linear feature interactions in our AI model we found an interaction relationship between long term anti-neoplastic therapy, reported pain and metastatic status which we plan to further study. This work is preliminary and we are working to further improve model performance.[Table: see text]
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- 2021
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18. Algorithm to derive progression-based lines of therapy from a real-world non-small cell lung cancer (NSCLC) dataset
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Sai Vinod Manirevu, Smita Agrawal, Mark S. Walker, Babu Narayanan, Rambaksh Prajapati, Rohini George, Vivek Prabhakar Vaidya, Tapasya Bhardwaj, Vandana Priya, and Sangavai Chakkrapani
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Cancer Research ,medicine.medical_specialty ,Health economics ,Oncology ,business.industry ,medicine ,non-small cell lung cancer (NSCLC) ,Medical physics ,Outcomes research ,Health records ,medicine.disease ,business ,Real world data - Abstract
e21172 Background: Analysis of Real World Data (RWD) from Electronic Health Records (EHR) for applications such as Health Economics and Outcomes Research (HEOR) or regulatory submissions requires identification of the lines of therapy (LoT) patients have received. LoTs are typically not captured in EHR and must be manually abstracted. As the use of RWD increases, there is a growing need to create algorithms that can work on RWD to extract LoT information in an automated manner with high accuracy. We present here the results of such an algorithm created on NSCLC RWD. Methods: 10950 advanced NSCLC patients from the ConcertAI Oncology RWD database who had received anti-neoplastic treatment after advanced diagnosis were used to build and validate this algorithm. These data were further enriched by expert nurse curators to fill in missing oral drug information and identify progression events. We developed a progression-based LoT (pLoT) model that identified LoT changes in sync with tumor progressions. If patients received multiple regimens before progression they were captured as nested regimens within the LoT. The algorithm uses complex rules to define combination of drugs as regimens (combination rule), identify resumption of regimens (gap rule) or dropping of drugs from regimens as new lines and to handle noisiness in RWD etc. Results: The LoT model accurately captures line changes triggered by progression events as well as any nested regimen changes due to adverse events etc. Patient level validation of LoT was carried out by clinical experts using an in-house tool and found to be consistent with literature & individual drug data. Cohort level analysis of top 3 combinations of therapies used in 1st & 2nd line treatment between 2015-2020 (8200 patients) are shown in Table. Sensitivity analysis on the combination rule showed that this parameter can be changed between 28-33 days without significantly impacting the LoT output (
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- 2021
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19. T1−/T2‐weighted ratio reveals no alterations to gray matter myelination in temporal lobe epilepsy
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Colin Denis, Kevin Dabbs, Veena A. Nair, Jedidiah Mathis, Dace N. Almane, Akshayaa Lakshmanan, Andrew Nencka, Rasmus M. Birn, Lisa Conant, Colin Humphries, Elizabeth Felton, Manoj Raghavan, Edgar A. DeYoe, Jeffrey R. Binder, Bruce Hermann, Vivek Prabhakaran, Barbara B. Bendlin, Mary E. Meyerand, Mélanie Boly, and Aaron F. Struck
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Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Abstract Short‐range functional connectivity in the limbic network is increased in patients with temporal lobe epilepsy (TLE), and recent studies have shown that cortical myelin content correlates with fMRI connectivity. We thus hypothesized that myelin may increase progressively in the epileptic network. We compared T1w/T2w gray matter myelin maps between TLE patients and age‐matched controls and assessed relationships between myelin and aging. While both TLE patients and healthy controls exhibited increased T1w/T2w intensity with age, we found no evidence for significant group‐level aberrations in overall myelin content or myelin changes through time in TLE.
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- 2023
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20. A comprehensive method for modelling leanness enablers and measuring leanness index in MSMEs using an integrated AHP-ISM-MICMAC and multi-grade fuzzy approach
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Vivek Prabhakar, Ankit Sagar, and Ritesh Singh
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Strategy and Management ,Industrial and Manufacturing Engineering - Published
- 2021
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21. A comprehensive method for modelling leanness enablers and measuring leanness index in MSMEs using integrated AHP-ISM-MICMAC and multi-grade fuzzy approach
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Ankit Sagar, Vivek Prabhakar, and Ritesh Singh
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Engineering ,Index (economics) ,business.industry ,Strategy and Management ,Six Sigma ,Analytic hierarchy process ,business ,Industrial and Manufacturing Engineering ,Manufacturing engineering - Published
- 2021
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22. Development of an artificial intelligence model to dynamically predict metastatic recurrence of early-stage breast cancer patients
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Tapasya Bhardwaj, Babu Narayanan, Sai Vinod M, Smita Agrawal, Sandeep Nagdewani, Vivek Prabhakar Vaidya, and Prajwal Chandrashekaraiah
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Oncology ,Cancer Research ,medicine.medical_specialty ,Breast cancer ,business.industry ,Internal medicine ,medicine ,Stage (cooking) ,medicine.disease ,business ,Metastatic breast cancer ,Patient care - Abstract
e13078 Background: Models that can dynamically predict risk of metastatic breast cancer (MBC) recurrence based on cumulative historical clinical data could help guide patient care & surveillance decisions. The objectives of this study were to predict risk of MBC recurrence dynamically from any point after 1 year of initial diagnosis in a BC patient’s journey. We show representative results for predicting 4 year risk post 1 year of date of diagnosis. There are established models to predict risk of distant recurrence at the time of diagnosis but we have not found much work on dynamic risk scores. Methods: We used a set of 3807 patients from the Concerto HealthAI database of oncology EMR data that includes clinical data from CancerLinQ Discovery to build this model that were further enriched by expert nurse curators. The average age at diagnosis was 58 & the average follow up period for this cohort of patients was 6.6 years. The cohort included patients of all breast cancer subtypes. 628 patients had metastatic recurrence within 4 years post 1 year of date of diagnosis. We used 60% of the data for training, 20% for hyper-parameter tuning & 20% for testing & tried out various machine learning (ML) algorithms including Linear Regression, Lasso, Random Forest, Extremely Random Forests, & XGBoost. Extremely Random Forest built using 330 features had the best performance. Results: The performance of various ML algorithms for predicting metastatic BC recurrence within 4 years post 1 year from date of diagnosis is provided in the table below with sensitivity held constant at 0.7. Key variables influencing the results in each model are also indicated. The Extremely Random Forest model for predicting risk of metastatic recurrence within 1 year from 1 year post diagnosis yielded an AUC of 0.814 & a balanced accuracy of 0.719. Conclusions: An AI model to predict risk of metastatic recurrence in breast cancer patients built using a real world dataset yielded promising results. Furthermore, analysis of input variables provided insights not only into the key features driving metastatic recurrence risk such as previous surgery, tumor subtype, stage & age at diagnosis etc. Such a model could be a useful for assessing patient risk & treatment options at various points in a breast cancer patients journey as well as stratify patients for different levels of surveillance. [Table: see text]
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- 2020
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23. Machine learning imputation of Eastern Cooperative Oncology Group performance status (ECOG PS) scores from data in CancerLinQ discovery
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Sourav Nandi, Babu Narayanan, David Svensson, Claudia Cabrera, Edward J. Stepanski, Sai Vinod M, Prajwal Chandrashekaraiah, Ping Sun, George Anthony Komatsoulis, Vivek Prabhakar Vaidya, Sajan Khosla, and Smita Agrawal
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Cancer Research ,medicine.medical_specialty ,business.industry ,Clinical trial ,03 medical and health sciences ,0302 clinical medicine ,Oncology ,030220 oncology & carcinogenesis ,Physical therapy ,medicine ,Imputation (statistics) ,business ,neoplasms ,Group performance ,030215 immunology - Abstract
e19318 Background: ECOG PS is a prognostic indicator of outcomes, and scores of 0-1 (good ECOG PS) are often required for clinical trial enrollment. Patients treated in non-trial settings often lack ECOG PS scores limiting the ability of Real World Data from these patients to be used in external control arms (ECAs) or to provide optimal specificity for clinical effectiveness research. Machine Learning can be used to impute ECOG PS scores from other clinical data at various points during treatment. Methods: We developed a series of models using logistic regression (LR) or XGBoost (XGB) that impute ECOG PS at initial diagnosis, metastatic diagnosis and final evaluation using a curated Non-Small Cell Lung Cancer cohort of 31,425 patients with at least one ECOG PS score. Results: AUC-ROC values of up to 0.81 could be obtained for imputing a patient’s final ECOG PS, with lower AUC values when imputing ECOG PS at initial and metastatic diagnosis using large numbers (i.e. thousands) of features. We developed more interpretable models with 110 or 40 features with reduced but still satisfactory AUC, with accuracy of predicting good ECOG PS scores of around 80%. Key features were obtained from lab tests, physical exams, comorbidities, medications, age and metastatic status. The table below shows the results of several of these models. Where the models misclassify ECOG PS, the error was rarely greater than 1 grade. Conclusions: ECOG PS is subjective, suggesting that ML based cohort assignment will be sufficiently accurate to support their use in research. Further work will be required to assess if the ML predicted cohorts have different outcomes. [Table: see text]
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- 2020
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24. PCN294 IDENTIFYING NON-SMALL CELL LUNG CANCER PATIENTS FROM A COHORT OF HETEROGENEOUS LUNG CANCER PATIENTS USING BOOSTED TREES ON ELECTRONIC HEALTH RECORDS DATA
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Smita Agrawal, Vivek Prabhakar Vaidya, K. Rudeen, Babu Narayanan, Prajwal Chandrashekaraiah, and S. Thiruvenkadam
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Oncology ,medicine.medical_specialty ,business.industry ,Health Policy ,Internal medicine ,Cohort ,Public Health, Environmental and Occupational Health ,medicine ,Non small cell ,Health records ,business ,Lung cancer ,medicine.disease - Published
- 2020
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25. PPM11 USING ARTIFICIAL INTELLIGENCE TO IMPROVE CAPTURE OF METASTATIC BREAST CANCER (BC) STATUS IN ELECTRONIC HEALTH RECORDS (EHR)
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Babu Narayanan, Vivek Prabhakar Vaidya, Prajwal Chandrashekaraiah, Edward J. Stepanski, A. Peevyhouse, Orr Inbar, M.P. Jun, V. Colano, M.S. Walker, Smita Agrawal, and Brigham Hyde
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Oncology ,medicine.medical_specialty ,business.industry ,Health Policy ,Internal medicine ,Public Health, Environmental and Occupational Health ,Medicine ,Health records ,business ,medicine.disease ,Metastatic breast cancer - Published
- 2019
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26. Structural brain morphometry differences and similarities between young patients with Crohn’s disease in remission and healthy young and old controls
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Benjamin Yeske, Jiancheng Hou, Daniel Y. Chu, Nagesh Adluru, Veena A. Nair, Poonam Beniwal-Patel, Sumona Saha, and Vivek Prabhakaran
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Crohn’s disease ,IBD ,structural imaging ,cognitive function ,gut-brain axis ,aging ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
IntroductionCrohn’s disease (CD), one of the main phenotypes of inflammatory bowel disease (IBD), can affect any part of the gastrointestinal tract. It can impact the function of gastrointestinal secretions, as well as increasing the intestinal permeability leading to an aberrant immunological response and subsequent intestinal inflammation. Studies have reported anatomical and functional brain changes in Crohn’s Disease patients (CDs), possibly due to increased inflammatory markers and microglial cells that play key roles in communicating between the brain, gut, and systemic immune system. To date, no studies have demonstrated similarities between morphological brain changes seen in IBD and brain morphometry observed in older healthy controls..MethodsFor the present study, twelve young CDs in remission (M = 26.08 years, SD = 4.9 years, 7 male) were recruited from an IBD Clinic. Data from 12 young age-matched healthy controls (HCs) (24.5 years, SD = 3.6 years, 8 male) and 12 older HCs (59 years, SD = 8 years, 8 male), previously collected for a different study under a similar MR protocol, were analyzed as controls. T1 weighted images and structural image processing techniques were used to extract surface-based brain measures, to test our hypothesis that young CDs have different brain surface morphometry than their age-matched young HCs and furthermore, appear more similar to older HCs. The phonemic verbal fluency (VF) task (the Controlled Oral Word Association Test, COWAT) (Benton, 1976) was administered to test verbal cognitive ability and executive control.Results/DiscussionOn the whole, CDs had more brain regions with differences in brain morphometry measures when compared to the young HCs as compared to the old HCs, suggesting that CD has an effect on the brain that makes it appear more similar to old HCs. Additionally, our study demonstrates this atypical brain morphometry is associated with function on a cognitive task. These results suggest that even younger CDs may be showing some evidence of structural brain changes that demonstrate increased resemblance to older HC brains rather than their similarly aged healthy counterparts.
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- 2024
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27. Post-partum psychosis in Sturge Weber Syndrome: A Case Report
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Anantprakash Saraf, Babhulkar, Sneh, Kumar, Vinay, and Joge, Vivek Prabhakar
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- 2018
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28. Development of an artificial intelligence model to predict survival at specific time intervals for lung cancer patients
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Babu Narayanan, Hemant Kulkarni, Karl Rudeen, Prajwal Chandrashekaraiah, Orr Inbar, Vivek Prabhakar Vaidya, Li Chen, Brigham Hyde, and Smita Agrawal
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Oncology ,Cancer Research ,medicine.medical_specialty ,business.industry ,Specific time ,medicine.disease ,03 medical and health sciences ,0302 clinical medicine ,030220 oncology & carcinogenesis ,Internal medicine ,medicine ,Probability of survival ,business ,Lung cancer ,Predictive modelling ,030215 immunology - Abstract
6556 Background: Survival prediction models for lung cancer patients could help guide their care and therapy decisions. The objectives of this study were to predict probability of survival beyond 90, 180 and 360 days from any point in a lung cancer patient’s journey. Methods: We developed a Gradient Boosting model (XGBoost) using data from 55k lung cancer patients in the ASCO CancerLinQ database that used 3958 unique variables including Dx and Rx codes, biomarkers, surgeries and lab tests from ≤1 year prior to the prediction point, which was chosen at random for each patient. We used 40% data for training, 25% for hyper-parameter tuning, 20% for testing and 15% for holdout validation. Death date available in the Electronic Health Record was cross checked by linkage to death registries. Results: The model was validated on the holdout set of 8,468 patients. The Area Under the Curve (AUC) for the model was 0.79. The precision and recall for predicting survival beyond the three time points were between 0.7-0.8 and 0.8-0.9 respectively (see table). This compares favourably to other lung cancer survival models created using different machine learning techniques (Jochems 2017, Dekker 2009). A Cox-PH model created using the top 20 variables also had a significantly lower performance (see table). Analysis of input variables yielded distinctive patterns for patient subgroups and time points. Tumor status, medications, lab values and functional status were found to be significant in patient sub cohorts. Conclusions: An AI model to predict survival of lung cancer patients built using a large real world dataset yielded high accuracy. This general model can further be used to predict survival of sub cohorts stratified by variables such as stage or various treatment effects. Such a model could be useful for assessing patient risk and treatment options, evaluating cost and quality of care or determining clinical trial eligibility. [Table: see text]
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- 2019
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29. Unified topological inference for brain networks in temporal lobe epilepsy using the Wasserstein distance
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Moo K. Chung, Camille Garcia Ramos, Felipe Branco De Paiva, Jedidiah Mathis, Vivek Prabhakaran, Veena A. Nair, Mary E. Meyerand, Bruce P. Hermann, Jeffrey R. Binder, and Aaron F. Struck
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Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Persistent homology offers a powerful tool for extracting hidden topological signals from brain networks. It captures the evolution of topological structures across multiple scales, known as filtrations, thereby revealing topological features that persist over these scales. These features are summarized in persistence diagrams, and their dissimilarity is quantified using the Wasserstein distance. However, the Wasserstein distance does not follow a known distribution, posing challenges for the application of existing parametric statistical models. To tackle this issue, we introduce a unified topological inference framework centered on the Wasserstein distance. Our approach has no explicit model and distributional assumptions. The inference is performed in a completely data driven fashion. We apply this method to resting-state functional magnetic resonance images (rs-fMRI) of temporal lobe epilepsy patients collected from two different sites: the University of Wisconsin-Madison and the Medical College of Wisconsin. Importantly, our topological method is robust to variations due to sex and image acquisition, obviating the need to account for these variables as nuisance covariates. We successfully localize the brain regions that contribute the most to topological differences. A MATLAB package used for all analyses in this study is available at https://github.com/laplcebeltrami/PH-STAT.
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- 2023
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30. Tractography passes the test: Results from the diffusion-simulated connectivity (disco) challenge
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Gabriel Girard, Jonathan Rafael-Patiño, Raphaël Truffet, Dogu Baran Aydogan, Nagesh Adluru, Veena A. Nair, Vivek Prabhakaran, Barbara B. Bendlin, Andrew L. Alexander, Sara Bosticardo, Ilaria Gabusi, Mario Ocampo-Pineda, Matteo Battocchio, Zuzana Piskorova, Pietro Bontempi, Simona Schiavi, Alessandro Daducci, Aleksandra Stafiej, Dominika Ciupek, Fabian Bogusz, Tomasz Pieciak, Matteo Frigo, Sara Sedlar, Samuel Deslauriers-Gauthier, Ivana Kojčić, Mauro Zucchelli, Hiba Laghrissi, Yang Ji, Rachid Deriche, Kurt G Schilling, Bennett A. Landman, Alberto Cacciola, Gianpaolo Antonio Basile, Salvatore Bertino, Nancy Newlin, Praitayini Kanakaraj, Francois Rheault, Patryk Filipiak, Timothy M. Shepherd, Ying-Chia Lin, Dimitris G. Placantonakis, Fernando E. Boada, Steven H. Baete, Erick Hernández-Gutiérrez, Alonso Ramírez-Manzanares, Ricardo Coronado-Leija, Pablo Stack-Sánchez, Luis Concha, Maxime Descoteaux, Sina Mansour L., Caio Seguin, Andrew Zalesky, Kenji Marshall, Erick J. Canales-Rodríguez, Ye Wu, Sahar Ahmad, Pew-Thian Yap, Antoine Théberge, Florence Gagnon, Frédéric Massi, Elda Fischi-Gomez, Rémy Gardier, Juan Luis Villarreal Haro, Marco Pizzolato, Emmanuel Caruyer, and Jean-Philippe Thiran
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Diffusion MRI ,Connectivity ,Monte carlo simulation ,Tractography ,Numerical substrates ,Microstructure ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Estimating structural connectivity from diffusion-weighted magnetic resonance imaging is a challenging task, partly due to the presence of false-positive connections and the misestimation of connection weights. Building on previous efforts, the MICCAI-CDMRI Diffusion-Simulated Connectivity (DiSCo) challenge was carried out to evaluate state-of-the-art connectivity methods using novel large-scale numerical phantoms. The diffusion signal for the phantoms was obtained from Monte Carlo simulations. The results of the challenge suggest that methods selected by the 14 teams participating in the challenge can provide high correlations between estimated and ground-truth connectivity weights, in complex numerical environments. Additionally, the methods used by the participating teams were able to accurately identify the binary connectivity of the numerical dataset. However, specific false positive and false negative connections were consistently estimated across all methods. Although the challenge dataset doesn’t capture the complexity of a real brain, it provided unique data with known macrostructure and microstructure ground-truth properties to facilitate the development of connectivity estimation methods.
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- 2023
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31. Network phenotypes and their clinical significance in temporal lobe epilepsy using machine learning applications to morphological and functional graph theory metrics
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Camille Garcia-Ramos, Veena Nair, Rama Maganti, Jedidiah Mathis, Lisa L. Conant, Vivek Prabhakaran, Jeffrey R. Binder, Beth Meyerand, Bruce Hermann, and Aaron F. Struck
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Medicine ,Science - Abstract
Abstract Machine learning analyses were performed on graph theory (GT) metrics extracted from brain functional and morphological data from temporal lobe epilepsy (TLE) patients in order to identify intrinsic network phenotypes and characterize their clinical significance. Participants were 97 TLE and 36 healthy controls from the Epilepsy Connectome Project. Each imaging modality (i.e., Resting-state functional Magnetic Resonance Imaging (RS-fMRI), and structural MRI) rendered 2 clusters: one comparable to controls and one deviating from controls. Participants were minimally overlapping across the identified clusters, suggesting that an abnormal functional GT phenotype did not necessarily mean an abnormal morphological GT phenotype for the same subject. Morphological clusters were associated with a significant difference in the estimated lifetime number of generalized tonic–clonic seizures and functional cluster membership was associated with age. Furthermore, controls exhibited significant correlations between functional GT metrics and cognition, while for TLE participants morphological GT metrics were linked to cognition, suggesting a dissociation between higher cognitive abilities and GT-derived network measures. Overall, these findings demonstrate the existence of clinically meaningful minimally overlapping phenotypes of morphological and functional GT networks. Functional network properties may underlie variance in cognition in healthy brains, but in the pathological state of epilepsy the cognitive limits might be primarily related to structural cerebral network properties.
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- 2022
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32. Chromoblastomycosis due to Fonsecaea pedrosoi: an old wine in a rare bottle
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Kavitha R Dinesh, Vivek Prabhakar, Anil Kumar, Vivek Vinod, Malini Eapen, Jacob Thomas, Sadia Khan, and Shamsul Karim
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Male ,Microbiological Techniques ,Pathology ,medicine.medical_specialty ,Fonsecaea ,Microbiology ,Ascomycota ,Virology ,Phialophora ,medicine ,Humans ,Subcutaneous mycosis ,Skin pathology ,Skin ,Microscopy ,Chromoblastomycosis ,biology ,General Medicine ,Middle Aged ,biology.organism_classification ,medicine.disease ,Fonsecaea pedrosoi ,Phaeohyphomycosis ,Infectious Diseases ,Parasitology - Abstract
Chromoblastomycosis is a chronic subcutaneous mycosis commonly caused by Fonsecaea, Phialophora, and Cladophialophora spp. Out of these, Fonsecaea pedrosoi is the most common etiological agent, implicated in 70%–90% of the cases reported worldwide. The histopathological diagnosis of chromoblastomycosis is based on visualization of medlar or sclerotic bodies in the tissue. These sclerotic bodies divide by planar division. Rarely, budding is seen in these sclerotic bodies. As this entity can be confused with phaeohyphomycosis, it is important to be aware of such a presentation also. We report two cases of chromoblastomycosis that showed budding sclerotic bodies.
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- 2014
33. Late dominance of the right hemisphere during narrative comprehension
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Vahab Youssofzadeh, Lisa Conant, Jeffrey Stout, Candida Ustine, Colin Humphries, William L. Gross, Priyanka Shah-Basak, Jed Mathis, Elizabeth Awe, Linda Allen, Edgar A. DeYoe, Chad Carlson, Christopher T. Anderson, Rama Maganti, Bruce Hermann, Veena A. Nair, Vivek Prabhakaran, Beth Meyerand, Jeffrey R. Binder, and Manoj Raghavan
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Language ,Magnetoencephalography ,Narrative comprehension ,Story ,Math ,Beta band power decrements ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
PET and fMRI studies suggest that auditory narrative comprehension is supported by a bilateral multilobar cortical network. The superior temporal resolution of magnetoencephalography (MEG) makes it an attractive tool to investigate the dynamics of how different neuroanatomic substrates engage during narrative comprehension. Using beta-band power changes as a marker of cortical engagement, we studied MEG responses during an auditory story comprehension task in 31 healthy adults. The protocol consisted of two runs, each interleaving 7 blocks of the story comprehension task with 15 blocks of an auditorily presented math task as a control for phonological processing, working memory, and attention processes. Sources at the cortical surface were estimated with a frequency-resolved beamformer. Beta-band power was estimated in the frequency range of 16–24 Hz over 1-sec epochs starting from 400 msec after stimulus onset until the end of a story or math problem presentation. These power estimates were compared to 1-second epochs of data before the stimulus block onset. The task-related cortical engagement was inferred from beta-band power decrements. Group-level source activations were statistically compared using non-parametric permutation testing. A story-math contrast of beta-band power changes showed greater bilateral cortical engagement within the fusiform gyrus, inferior and middle temporal gyri, parahippocampal gyrus, and left inferior frontal gyrus (IFG) during story comprehension. A math-story contrast of beta power decrements showed greater bilateral but left-lateralized engagement of the middle frontal gyrus and superior parietal lobule. The evolution of cortical engagement during five temporal windows across the presentation of stories showed significant involvement during the first interval of the narrative of bilateral opercular and insular regions as well as the ventral and lateral temporal cortex, extending more posteriorly on the left and medially on the right. Over time, there continued to be sustained right anterior ventral temporal engagement, with increasing involvement of the right anterior parahippocampal gyrus, STG, MTG, posterior superior temporal sulcus, inferior parietal lobule, frontal operculum, and insula, while left hemisphere engagement decreased. Our findings are consistent with prior imaging studies of narrative comprehension, but in addition, they demonstrate increasing right-lateralized engagement over the course of narratives, suggesting an important role for these right-hemispheric regions in semantic integration as well as social and pragmatic inference processing.
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- 2022
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34. Insights from the IronTract challenge: Optimal methods for mapping brain pathways from multi-shell diffusion MRI
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Chiara Maffei, Gabriel Girard, Kurt G. Schilling, Dogu Baran Aydogan, Nagesh Adluru, Andrey Zhylka, Ye Wu, Matteo Mancini, Andac Hamamci, Alessia Sarica, Achille Teillac, Steven H. Baete, Davood Karimi, Fang-Cheng Yeh, Mert E. Yildiz, Ali Gholipour, Yann Bihan-Poudec, Bassem Hiba, Andrea Quattrone, Aldo Quattrone, Tommy Boshkovski, Nikola Stikov, Pew-Thian Yap, Alberto de Luca, Josien Pluim, Alexander Leemans, Vivek Prabhakaran, Barbara B. Bendlin, Andrew L. Alexander, Bennett A. Landman, Erick J. Canales-Rodríguez, Muhamed Barakovic, Jonathan Rafael-Patino, Thomas Yu, Gaëtan Rensonnet, Simona Schiavi, Alessandro Daducci, Marco Pizzolato, Elda Fischi-Gomez, Jean-Philippe Thiran, George Dai, Giorgia Grisot, Nikola Lazovski, Santi Puch, Marc Ramos, Paulo Rodrigues, Vesna Prčkovska, Robert Jones, Julia Lehman, Suzanne N. Haber, and Anastasia Yendiki
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Validation ,Tractography ,Anatomic tracing ,Diffusion MRI ,White matter anatomy ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Limitations in the accuracy of brain pathways reconstructed by diffusion MRI (dMRI) tractography have received considerable attention. While the technical advances spearheaded by the Human Connectome Project (HCP) led to significant improvements in dMRI data quality, it remains unclear how these data should be analyzed to maximize tractography accuracy. Over a period of two years, we have engaged the dMRI community in the IronTract Challenge, which aims to answer this question by leveraging a unique dataset. Macaque brains that have received both tracer injections and ex vivo dMRI at high spatial and angular resolution allow a comprehensive, quantitative assessment of tractography accuracy on state-of-the-art dMRI acquisition schemes. We find that, when analysis methods are carefully optimized, the HCP scheme can achieve similar accuracy as a more time-consuming, Cartesian-grid scheme. Importantly, we show that simple pre- and post-processing strategies can improve the accuracy and robustness of many tractography methods. Finally, we find that fiber configurations that go beyond crossing (e.g., fanning, branching) are the most challenging for tractography. The IronTract Challenge remains open and we hope that it can serve as a valuable validation tool for both users and developers of dMRI analysis methods.
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- 2022
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35. BCI-FES With Multimodal Feedback for Motor Recovery Poststroke
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Alexander B. Remsik, Peter L. E. van Kan, Shawna Gloe, Klevest Gjini, Leroy Williams, Veena Nair, Kristin Caldera, Justin C. Williams, and Vivek Prabhakaran
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brain-computer interface ,functional electrical stimulation ,stroke ,motor functional recovery ,closed-loop system ,open-loop system ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
An increasing number of research teams are investigating the efficacy of brain-computer interface (BCI)-mediated interventions for promoting motor recovery following stroke. A growing body of evidence suggests that of the various BCI designs, most effective are those that deliver functional electrical stimulation (FES) of upper extremity (UE) muscles contingent on movement intent. More specifically, BCI-FES interventions utilize algorithms that isolate motor signals—user-generated intent-to-move neural activity recorded from cerebral cortical motor areas—to drive electrical stimulation of individual muscles or muscle synergies. BCI-FES interventions aim to recover sensorimotor function of an impaired extremity by facilitating and/or inducing long-term motor learning-related neuroplastic changes in appropriate control circuitry. We developed a non-invasive, electroencephalogram (EEG)-based BCI-FES system that delivers closed-loop neural activity-triggered electrical stimulation of targeted distal muscles while providing the user with multimodal sensory feedback. This BCI-FES system consists of three components: (1) EEG acquisition and signal processing to extract real-time volitional and task-dependent neural command signals from cerebral cortical motor areas, (2) FES of muscles of the impaired hand contingent on the motor cortical neural command signals, and (3) multimodal sensory feedback associated with performance of the behavioral task, including visual information, linked activation of somatosensory afferents through intact sensorimotor circuits, and electro-tactile stimulation of the tongue. In this report, we describe device parameters and intervention protocols of our BCI-FES system which, combined with standard physical rehabilitation approaches, has proven efficacious in treating UE motor impairment in stroke survivors, regardless of level of impairment and chronicity.
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- 2022
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36. fMRI Data Demonstrate Evidence of Change in Brain Connectivity following Migraine Surgery
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Nick Albano, MD, Ahmed M. Afifi, MD, Vivek Prabhakaran, and Veena Nair
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Surgery ,RD1-811 - Published
- 2022
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37. Characterizing the relationship between lesion-activation distance using fMRI and verbal measures in brain tumor patients
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Sean P. Riley, Daniel Y. Chu, Veena A. Nair, Mustafa K. Baskaya, John S. Kuo, Mary Elizabeth Meyerand, and Vivek Prabhakaran
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fMRI ,Imaging ,Tumor ,Language ,Surgery ,RD1-811 ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Functional resonance magnetic imaging (fMRI) allows for identification of eloquent cortex in pre-treatment planning. Previous studies have shown a correlation among lesion to activation distance (LAD) measures and morbidity and mortality. This study investigates the relationship between LAD, well-established language centers (Wernicke’s and Broca’s), and language performance measures. We included a sample population of brain tumor patients that received language fMRI (verbal fluency and sentence verification) for pre-treatment assessment (n = 51). LAD to the nearest language area was measured and divided into groups ≤ 10 mm and > 10 mm. Verbal fluency scores were compared between these groups. Additionally, patients were divided into similar groups based on LAD to either Broca’s or Wernicke’s areas, and the verbal fluency scores and sentence verification accuracy (n = 29) were subsequently compared between groups. Brain tumor patients with LAD ≤ 10 mm to either language area had significantly lower verbal fluency scores (p = 0.028). The difference in verbal fluency scores between groups with LAD ≤ 10 mm and > 10 mm to Wernicke’s area trends toward significance (p = 0.067). The sentence verification accuracy was significantly lower in patients with LAD ≤ 10 mm to either language area (p = 0.039). These findings suggest that there exists a significant relationship between LAD to language centers and measures; greater language deficits are seen when LAD ≤ 10 mm.
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- 2022
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38. A real-world study of US patients with metastatic ovarian, fallopian tube, and peritoneal cancer (mOFPC) using integrated electronic health records (EHR) and claims datasets.
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P B, Avinash, Funingana, Gabriel, Singh, Neeraj, George, Rohini, Sowa, Anna, Chakkrapani, Sangavai, Priya, Vandana, Vaidya, Vivek Prabhakar, Vidal, Laura, Saini, Kamal S., and Agrawal, Smita
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- 2023
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39. Development of natural language processing (NLP) models for extracting key features from unstructured notes to create real-world data (RWD) assets for clinical research at scale.
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Agrawal, Smita, George, Rohini, Vaidya, Vivek Prabhakar, Chakkrapani, Sangavai, Prajapati, Rambaksh, Tankala, Srikanth, Parmar, Dhaval, Lakkimsetty, Vinay Phani Santosh, Bhardwaj, Tapasya, Ashwani, Ashwani, Mendonca, Emma, Narayanan, Babu, Swaminathan, Krishna Kumar, and Mukherjee, Pranay
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- 2023
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40. Enhancement in line of therapy (LoT) derivation from real-world data (RWD) from electronic health records (EHR) via integration of medical claims data.
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Agrawal, Smita, P B, Avinash, George, Rohini, Singh, Neeraj, Soni, Megha, Chakkrapani, Sangavai, Priya, Vandana, and Vaidya, Vivek Prabhakar
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- 2023
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41. Tractography dissection variability: What happens when 42 groups dissect 14 white matter bundles on the same dataset?
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Kurt G. Schilling, François Rheault, Laurent Petit, Colin B. Hansen, Vishwesh Nath, Fang-Cheng Yeh, Gabriel Girard, Muhamed Barakovic, Jonathan Rafael-Patino, Thomas Yu, Elda Fischi-Gomez, Marco Pizzolato, Mario Ocampo-Pineda, Simona Schiavi, Erick J. Canales-Rodríguez, Alessandro Daducci, Cristina Granziera, Giorgio Innocenti, Jean-Philippe Thiran, Laura Mancini, Stephen Wastling, Sirio Cocozza, Maria Petracca, Giuseppe Pontillo, Matteo Mancini, Sjoerd B. Vos, Vejay N. Vakharia, John S. Duncan, Helena Melero, Lidia Manzanedo, Emilio Sanz-Morales, Ángel Peña-Melián, Fernando Calamante, Arnaud Attyé, Ryan P. Cabeen, Laura Korobova, Arthur W. Toga, Anupa Ambili Vijayakumari, Drew Parker, Ragini Verma, Ahmed Radwan, Stefan Sunaert, Louise Emsell, Alberto De Luca, Alexander Leemans, Claude J. Bajada, Hamied Haroon, Hojjatollah Azadbakht, Maxime Chamberland, Sila Genc, Chantal M.W. Tax, Ping-Hong Yeh, Rujirutana Srikanchana, Colin D. Mcknight, Joseph Yuan-Mou Yang, Jian Chen, Claire E. Kelly, Chun-Hung Yeh, Jerome Cochereau, Jerome J. Maller, Thomas Welton, Fabien Almairac, Kiran K Seunarine, Chris A. Clark, Fan Zhang, Nikos Makris, Alexandra Golby, Yogesh Rathi, Lauren J. O'Donnell, Yihao Xia, Dogu Baran Aydogan, Yonggang Shi, Francisco Guerreiro Fernandes, Mathijs Raemaekers, Shaun Warrington, Stijn Michielse, Alonso Ramírez-Manzanares, Luis Concha, Ramón Aranda, Mariano Rivera Meraz, Garikoitz Lerma-Usabiaga, Lucas Roitman, Lucius S. Fekonja, Navona Calarco, Michael Joseph, Hajer Nakua, Aristotle N. Voineskos, Philippe Karan, Gabrielle Grenier, Jon Haitz Legarreta, Nagesh Adluru, Veena A. Nair, Vivek Prabhakaran, Andrew L. Alexander, Koji Kamagata, Yuya Saito, Wataru Uchida, Christina Andica, Masahiro Abe, Roza G. Bayrak, Claudia A.M. Gandini Wheeler-Kingshott, Egidio D'Angelo, Fulvia Palesi, Giovanni Savini, Nicolò Rolandi, Pamela Guevara, Josselin Houenou, Narciso López-López, Jean-François Mangin, Cyril Poupon, Claudio Román, Andrea Vázquez, Chiara Maffei, Mavilde Arantes, José Paulo Andrade, Susana Maria Silva, Vince D. Calhoun, Eduardo Caverzasi, Simone Sacco, Michael Lauricella, Franco Pestilli, Daniel Bullock, Yang Zhan, Edith Brignoni-Perez, Catherine Lebel, Jess E Reynolds, Igor Nestrasil, René Labounek, Christophe Lenglet, Amy Paulson, Stefania Aulicka, Sarah R. Heilbronner, Katja Heuer, Bramsh Qamar Chandio, Javier Guaje, Wei Tang, Eleftherios Garyfallidis, Rajikha Raja, Adam W. Anderson, Bennett A. Landman, and Maxime Descoteaux
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Tractography ,Bundle segmentation ,White matter ,Fiber pathways ,Dissection ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
White matter bundle segmentation using diffusion MRI fiber tractography has become the method of choice to identify white matter fiber pathways in vivo in human brains. However, like other analyses of complex data, there is considerable variability in segmentation protocols and techniques. This can result in different reconstructions of the same intended white matter pathways, which directly affects tractography results, quantification, and interpretation. In this study, we aim to evaluate and quantify the variability that arises from different protocols for bundle segmentation. Through an open call to users of fiber tractography, including anatomists, clinicians, and algorithm developers, 42 independent teams were given processed sets of human whole-brain streamlines and asked to segment 14 white matter fascicles on six subjects. In total, we received 57 different bundle segmentation protocols, which enabled detailed volume-based and streamline-based analyses of agreement and disagreement among protocols for each fiber pathway. Results show that even when given the exact same sets of underlying streamlines, the variability across protocols for bundle segmentation is greater than all other sources of variability in the virtual dissection process, including variability within protocols and variability across subjects. In order to foster the use of tractography bundle dissection in routine clinical settings, and as a fundamental analytical tool, future endeavors must aim to resolve and reduce this heterogeneity. Although external validation is needed to verify the anatomical accuracy of bundle dissections, reducing heterogeneity is a step towards reproducible research and may be achieved through the use of standard nomenclature and definitions of white matter bundles and well-chosen constraints and decisions in the dissection process.
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- 2021
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42. Differences in Diffusion Tensor Imaging White Matter Integrity Related to Verbal Fluency Between Young and Old Adults
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Benjamin Yeske, Jiancheng Hou, Nagesh Adluru, Veena A. Nair, and Vivek Prabhakaran
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diffusion tensor imaging (DTI) ,aging ,tract-based spatial statistics (TBSS) ,white matter integrity ,verbal fluency ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Throughout adulthood, the brain undergoes an array of structural and functional changes during the typical aging process. These changes involve decreased brain volume, reduced synaptic density, and alterations in white matter (WM). Although there have been some previous neuroimaging studies that have measured the ability of adult language production and its correlations to brain function, structural gray matter volume, and functional differences between young and old adults, the structural role of WM in adult language production in individuals across the life span remains to be thoroughly elucidated. This study selected 38 young adults and 35 old adults for diffusion tensor imaging (DTI) and performed the Controlled Oral Word Association Test to assess verbal fluency (VF). Tract-Based Spatial Statistics were employed to evaluate the voxel-based group differences of diffusion metrics for the values of fractional anisotropy (FA), mean diffusivity (MD), axial diffusivity (AD), radial diffusivity (RD), and local diffusion homogeneity (LDH) in 12 WM regions of interest associated with language production. To investigate group differences on each DTI metric, an analysis of covariance (ANCOVA) controlling for sex and education level was performed, and the statistical threshold was considered at p < 0.00083 (0.05/60 labels) after Bonferroni correction for multiple comparisons. Significant differences in DTI metrics identified in the ANCOVA were used to perform correlation analyses with VF scores. Compared to the old adults, the young adults had significantly (1) increased FA values on the bilateral anterior corona radiata (ACR); (2) decreased MD values on the right ACR, but increased MD on the left uncinate fasciculus (UF); and (3) decreased RD on the bilateral ACR. There were no significant differences between the groups for AD or LDH. Moreover, the old adults had only a significant correlation between the VF score and the MD on the left UF. There were no significant correlations between VF score and DTI metrics in the young adults. This study adds to the growing body of research that WM areas involved in language production are sensitive to aging.
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- 2021
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43. Ipsilesional Mu Rhythm Desynchronization Correlates With Improvements in Affected Hand Grip Strength and Functional Connectivity in Sensorimotor Cortices Following BCI-FES Intervention for Upper Extremity in Stroke Survivors
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Alexander B. Remsik, Klevest Gjini, Leroy Williams, Peter L. E. van Kan, Shawna Gloe, Erik Bjorklund, Cameron A. Rivera, Sophia Romero, Brittany M. Young, Veena A. Nair, Kristin E. Caldera, Justin C. Williams, and Vivek Prabhakaran
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brain-computer interface ,sensorimotor rhythm ,Mu ,Beta ,stroke ,motor function ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Stroke is a leading cause of acquired long-term upper extremity motor disability. Current standard of care trajectories fail to deliver sufficient motor rehabilitation to stroke survivors. Recent research suggests that use of brain-computer interface (BCI) devices improves motor function in stroke survivors, regardless of stroke severity and chronicity, and may induce and/or facilitate neuroplastic changes associated with motor rehabilitation. The present sub analyses of ongoing crossover-controlled trial NCT02098265 examine first whether, during movements of the affected hand compared to rest, ipsilesional Mu rhythm desynchronization of cerebral cortical sensorimotor areas [Brodmann’s areas (BA) 1-7] is localized and tracks with changes in grip force strength. Secondly, we test the hypothesis that BCI intervention results in changes in frequency-specific directional flow of information transmission (direct path functional connectivity) in BA 1-7 by measuring changes in isolated effective coherence (iCoh) between cerebral cortical sensorimotor areas thought to relate to electrophysiological signatures of motor actions and motor learning. A sample of 16 stroke survivors with right hemisphere lesions (left hand motor impairment), received a maximum of 18–30 h of BCI intervention. Electroencephalograms were recorded during intervention sessions while outcome measures of motor function and capacity were assessed at baseline and completion of intervention. Greater desynchronization of Mu rhythm, during movements of the impaired hand compared to rest, were primarily localized to ipsilesional sensorimotor cortices (BA 1-7). In addition, increased Mu desynchronization in the ipsilesional primary motor cortex, Post vs. Pre BCI intervention, correlated significantly with improvements in hand function as assessed by grip force measurements. Moreover, the results show a significant change in the direction of causal information flow, as measured by iCoh, toward the ipsilesional motor (BA 4) and ipsilesional premotor cortices (BA 6) during BCI intervention. Significant iCoh increases from ipsilesional BA 4 to ipsilesional BA 6 were observed in both Mu [8–12 Hz] and Beta [18–26 Hz] frequency ranges. In summary, the present results are indicative of improvements in motor capacity and behavior, and they are consistent with the view that BCI-FES intervention improves functional motor capacity of the ipsilesional hemisphere and the impaired hand.
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- 2021
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44. ChemInform Abstract: Catalyst-Free Aziridination and Unexpected Homologation of Aziridines from Imines.
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Branco, Paula Serio, primary, Raje, Vivek Prabhakar, additional, Dourado, Jorge, additional, and Gordo, Joana, additional
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- 2010
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45. Catalyst-free aziridination and unexpected homologation of aziridines from imines
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Branco, Paula Sério, primary, Raje, Vivek Prabhakar, additional, Dourado, Jorge, additional, and Gordo, Joana, additional
- Published
- 2010
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46. Translingual Neural Stimulation With the Portable Neuromodulation Stimulator (PoNS®) Induces Structural Changes Leading to Functional Recovery In Patients With Mild-To-Moderate Traumatic Brain Injury
- Author
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Jiancheng Hou, Arman Kulkarni, Neelima Tellapragada, Veena Nair, Yuri Danilov, Kurt Kaczmarek, Beth Meyerand, Mitchell Tyler, and Vivek Prabhakaran
- Subjects
dynamic gait index (dgi) ,grey matter volume (gmv) ,sensory organization test (sot) ,translingual neural stimulation (tlns) ,traumatic brain injuries ,Medical physics. Medical radiology. Nuclear medicine ,R895-920 - Abstract
Traumatic brain injury (TBI) of varying severity can result in balance and movement disorders, for which the benefits of treatment with physical therapy has limits. In this study, patients with post-TBI balance issues received translingual neural stimulation (TLNS) in concert with physical therapy and the effects on the grey matter volume (GMV) were evaluated. TBI-related balance and movement impairments were also assessed through Sensory Organization Test (SOT) and Dynamic Gait Index (DGI) scoring. When comparing pre- and post-intervention results, the most prominent GMV changes were increases within the cerebellum, and temporal regions, which are involved in automatic processing of gait, balance, motor control, and visual-motion. Decreases of GMV in frontal, occipital lobes (involved in less automatic processing or more conscious/effortful processing of gait, balance, motor control, and vision) positively correlated to increases in SOT/DGI scores. These results indicate that TLNS can produce brain plasticity changes leading to positive changes in functional assessments. Overall, these data indicate that TLNS delivered in conjunction with physical therapy, is a safe, effective, and integrative way to treat TBI.
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- 2019
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47. Brain-Computer Interface Training With Functional Electrical Stimulation: Facilitating Changes in Interhemispheric Functional Connectivity and Motor Outcomes Post-stroke
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Anita M. Sinha, Veena A. Nair, and Vivek Prabhakaran
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brain-computer interface ,stroke ,upper extremity ,resting-state fMRI ,neurorehabilitation ,motor recovery ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
While most survivors of stroke experience some spontaneous recovery and receive treatment in the subacute setting, they are often left with persistent impairments in upper limb sensorimotor function which impact autonomy in daily life. Brain-Computer Interface (BCI) technology has shown promise as a form of rehabilitation that can facilitate motor recovery after stroke, however, we have a limited understanding of the changes in functional connectivity and behavioral outcomes associated with its use. Here, we investigate the effects of EEG-based BCI intervention with functional electrical stimulation (FES) on resting-state functional connectivity (rsFC) and motor outcomes in stroke recovery. 23 patients post-stroke with upper limb motor impairment completed BCI intervention with FES. Resting-state functional magnetic resonance imaging (rs-fMRI) scans and behavioral data were collected prior to intervention, post- and 1-month post-intervention. Changes in rsFC within the motor network and behavioral measures were investigated to identify brain-behavior correlations. At the group-level, there were significant increases in interhemispheric and network rsFC in the motor network after BCI intervention, and patients significantly improved on the Action Research Arm Test (ARAT) and SIS domains. Notably, changes in interhemispheric rsFC from pre- to both post- and 1 month post-intervention correlated with behavioral improvements across several motor-related domains. These findings suggest that BCI intervention with FES can facilitate interhemispheric connectivity changes and upper limb motor recovery in patients after stroke.
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- 2021
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48. Editorial: Breakthrough BCI Applications in Medicine
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Christoph Guger, Vivek Prabhakaran, Rossella Spataro, Dean J. Krusienski, and Adam O. Hebb
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BCI ,clinical applications ,P300 ,motor imagery ,EEG ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Published
- 2020
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49. Predicting primary outcomes of brain tumor patients with advanced neuroimaging MRI measures
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Svyat Vergun, Josh I. Suhonen, Veena A. Nair, J.S. Kuo, M.K. Baskaya, Camille Garcia-Ramos, Elizabeth E. Meyerand, and Vivek Prabhakaran
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Surgery ,RD1-811 ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Background: Advanced neuroimaging measures along with clinical variables acquired during standard imaging protocols provide a rich source of information for brain tumor patient treatment and management. Machine learning analysis has had much recent success in neuroimaging applications for normal and patient populations and has potential, specifically for brain tumor patient outcome prediction. The purpose of this work was to construct, using the current patient population distribution, a high accuracy predictor for brain tumor patient outcomes of mortality and morbidity (i.e., transient and persistent language and motor deficits). The clinical value offered is a statistical tool to help guide treatment and planning as well as an investigation of the influential factors of the disease process. Methods: Resting state fMRI, diffusion tensor imaging, and task fMRI data in combination with clinical and demographic variables were used to represent the tumor patient population (n = 62; mean age = 51.2 yrs.) in a machine learning analysis in order to predict outcomes. Results: A support vector machine classifier with a t-test filter and recursive feature elimination predicted patient mortality (18-month interval) with 80.7% accuracy, language deficits (transient) with 74.2%, motor deficits with 71.0%, language outcomes (persistent) with 80.7% and motor outcomes with 83.9%. The most influential features of the predictors were resting fMRI connectivity, and fractional anisotropy and mean diffusivity measures in the internal capsule, brain stem and superior and inferior longitudinal fasciculi. Conclusions: This study showed that advanced neuroimaging data with machine learning methods can potentially predict patient outcomes and reveal influential factors driving the predictions. Keywords: Machine-learning, fMRI, DTI, Tumor patients, Outcome prediction
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- 2018
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50. Psychomotor slowing is associated with anomalies in baseline and prospective large scale neural networks in youth with epilepsy
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Camille Garcia-Ramos, Kevin Dabbs, Elizabeth Meyerand, Vivek Prabhakaran, David Hsu, Jana Jones, Michael Seidenberg, and Bruce Hermann
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Computer applications to medicine. Medical informatics ,R858-859.7 ,Neurology. Diseases of the nervous system ,RC346-429 - Abstract
Purpose: Psychomotor slowing is a common but understudied cognitive impairment in epilepsy. Here we test the hypothesis that psychomotor slowing is associated with alterations in brain status reflected through analysis of large scale structural networks. We test the hypothesis that children with epilepsy with cognitive slowing at diagnosis will exhibit a cross-sectional and prospective pattern of altered brain development. Methods: A total of 78 children (age 8–18) with new/recent onset idiopathic epilepsies underwent 1.5 T MRI with network analysis of cortical, subcortical and cerebellar volumes. Children with epilepsy were divided into slow and fast psychomotor speed groups (adjusted for age, intelligence and epilepsy syndrome). Results: At baseline, slow-speed performers (SSP) presented lower modularity, lower global efficiency, higher transitivity, and lower number of hubs than fast-speed performers (FSP). Community structure in SSP exhibited poor association between cortical regions and both subcortical structures and the cerebellum while FSP presented well-defined communities. Prospectively, SSP displayed lower modularity but higher global efficiency and transitivity compared to FSP. Modules in FSP showed higher integration between and within themselves compared to SSP. SSP showed hubs mainly from frontal and temporal regions while in FSP were spread among frontal, temporal, parietal, subcortical areas and the left cerebellum. Implications: Results suggest the presence of widespread alterations in large scale networks between fast- and slow-speed children with recent onset epilepsies both at baseline and 2 years later. Slower processing speed appears to be a marker of abnormal brain development antecedent to epilepsy onset as well as brain development over the 2 years following diagnosis.
- Published
- 2018
- Full Text
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