nference Publications

Effects of tumor mutation burden on the antigen presentation pathway

nference and Mayo Clinic Co-authored:
Enrique M. Garcia-Rivera, Jiho Park, Aakash Desai, Romain Boidot, Sandy Chevrier, Caroline Truntzer, Francois Ghiringhelli, Mitesh Borad, Aaron S. Mansfield

Hair loss in females and thromboembolism in males are significantly enriched in post-acute sequelae of COVID (PASC) relative to recent medical history

nference and Mayo Clinic Co-authored:
Elliot Akama-Garren, Praveen Anand, Tudor Cristea-Platon, Patrick Lenehan, Emily Lindemer, Sairam Bade, Saran Liukasemsarn, John C. O’Horo, Ryan T. Hurt, Rahul Kashyap, Amy W. Williams, Gregory J. Gores, Andrew D. Badley, Samir Awasthi, Venky Soundararajan

Case fatality rates for COVID-19 are higher than case fatality rates for motor vehicle accidents for individuals over 40 years of age

nference Authored:
Arjun Puranik, Michiel J.M. Niesen, Emily Lindemer, Patrick Lenehan, Tudor Cristea-Platon, Colin Pawlowski, Venky Soundararajan

Female-male differences in COVID vaccine adverse events have precedence in seasonal flu shots: a potential link to sex-associated baseline gene expression patterns

nference and Mayo Clinic Co-authored:
AJ Venkatakrishna, Praveen Kumar-M, Eli Silvert, Enrique Garcia-Rivera, Mariola Szenk, Rohit Suratekar, Patrick Lenehan, Emily Lindemer, John C. O’Horo, Amy W. Williams, Andrew D. Badley, Abinash Virk, Melanie D. Swift, Gregory J. Gores, Venky Soundararajan

COVID-associated pediatric hospitalization and ICU admission trends across a multi-state health system and the broader US population

nference and Mayo Clinic Co-authored:
AJ Venkatakrishnan, Colin Pawlowski, John C. O'Horo, Andrew Badley, John Halamka, Venky Soundararajan

A literature-derived knowledge graph augments the interpretation of single cell RNA-seq datasets

nference Authored:
Deeksha Doddahonnaiah, Patrick Lenehan, Travis Hughes, David Zemmour, Enrique Garcia-Rivera, AJ Venkatakrishnan, Ramakrisha Chilaka, Apoorv Khare, Akash Anand, Rakesh Barve, Viswanathan Thiagarajan, Venky Soundararajan

Counties with lower insurance coverage are associated with both slower vaccine rollout and higher COVID-19 incidence across the United States

nference Authored:
Emily Lindemer , Mayank Choudhary , Gregory Donadio , Colin Pawlowski , Venky Soundararajan

Pre-existing conditions are associated with COVID-19 patients' hospitalization, despite confirmed clearance of SARS-CoV-2 virus

nference and Mayo Clinic Co-authored:
Colin Pawlowski, AJ Venkatakrishnan, Eshwan Ramudu, Christian Kirkup, Arjun Puranik, Nikhil Kayal, Gabriela Berner, Akash Anand, Rakesh Barve, John C. O’Horo, Andrew D. Badley, Venky Soundararajan

Plasma IL-6 levels following corticosteroid therapy as an indicator of ICU length of stay in critically ill COVID-19 patients

nference and Mayo Clinic Co-authored:
Samir Awasthi, Tyler Wagner, AJ Venkatakrishnan, Arjun Puranik, Matthew Hurchik, Vineet Agarwal, Ian Conrad, Christian Kirkup, Raman Arunachalam, John O’Horo, Walter Kremers, Rahul Kashyap, William Morice, II, John Halamka, Amy W. Williams, William A. Faubion Jr., Andrew D. Badley, Gregory J. Gores, Venky Soundararajan

Enoxaparin is associated with lower rates of thrombosis, kidney injury, and mortality than Unfractionated Heparin in hospitalized COVID patients

nference and Mayo Clinic Co-authored:
Colin Pawlowski, AJ Venkatakrishnan, Christian Kirkup, Gabriela Berner, Arjun Puranik, John C. O’Horo, Andrew D. Badley, Venky Soundararajan

Healthcare disparities among anticoagulation therapies for severe COVID-19 patients in the multi-site VIRUS registry

nference and Mayo Clinic Co-authored:
Christian Kirkup, Colin Pawlowski, Arjun Puranik, Ian Conrad, John C. O’Horo, Dina Gomaa, Valerie M. Banner-Goodspeed, Jarrod M Mosier, Igor Borisovich Zabolotskikh, Steven K. Daugherty, Michael A. Bernstein, Howard A. Zaren, Vikas Bansal, Brian Pickering, Andrew D. Badley, Rahul Kashyap, AJ Venkatakrishnan,Venky Soundararajan

FDA-authorized COVID-19 vaccines are effective per real-world evidence synthesized across a multi-state health system

nference and Mayo Clinic Co-authored:
Colin Pawlowski, Patrick Lenehan, Arjun Puranik, Vineet Agarwal, AJ Venkatakrishnan, Michiel J.M. Niesen, John C. O’Horo, Abinash Virk, Melanie D. Swift, Andrew D. Badley, John Halamka, Venky Soundararajan.

Exploratory analysis of immunization records highlights decreased SARS-CoV-2 rates in individuals with recent non-COVID-19 vaccinations

nference and Mayo Clinic Co-authored:
Colin Pawlowski ,Arjun Puranik, Hari Bandi, AJ Venkatakrishnan, Vineet Agarwal, Richard Kennedy, John C. O’Horo, Gregory J. Gores, Amy W. Williams, John Halamka, Andrew D. Badley, Venky Soundararajan

Real-time analysis of a mass vaccination effort via an Artificial Intelligence platform confirms the safety of FDA-authorized COVID-19 vaccines

nference and Mayo Clinic Co-authored:
Reid McMurry, Patrick J. Lenehan, Samir Awasthi, Eli Silvert, Arjun Puranik, Colin Pawlowski, AJ Venkatakrishnan, Praveen Anand, Vineet Agarwal, John C. O’Horo, Gregory J. Gores, Amy W. Williams, Andrew D. Badley, John Halamka, Abinash Virk, Melanie D. Swift, Katie Carlson, Deeksha Doddahonnaiah, Anna Metzger, Nikhil Kayal, Gabi Berner, Eshwan Ramudu, Corinne Carpenter, Tyler Wagner, Ajit Rajasekharan, Venky Soundararajan

Published on January 2020

Authors - Himanshu, Baji, Karthik, etc.,

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Authored by nference and MayoClinic

Anemia prior to or during COVID-19 is a risk factor for rehospitalization after SARS-CoV-2 clearance

nference and Mayo Clinic Co-authored:
Patrick Lenehan, Eshwan Ramudu, AJ Venkatakrishnan, Gabriela Berner, Reid McMurry, John C. O’Horo, Andrew D. Badley, William G. Morice II, John Halamka, Venky Soundararajan

Building a Best-in-Class De-identification Tool for Electronic Medical Records Through Ensemble Learning

nference and Mayo Clinic Co-authored:
Karthik Murugadoss, Ajit Rajasekharan, Bradley Malin PhD, Vineet Agarwal, Sairam Bade, Jeff R. Anderson PHD, Jason L. Ross, William A. Faubion Jr., John D. Halamka MD, Venky Soundararajan, Sankar Ardhanari

Mapping each pre-existing condition’s association to short-term and long-term COVID-19 complications

nference and Mayo Clinic Co-authored:
AJ Venkatakrishnan, Colin Pawlowski, David Zemmour, Travis Hughes, Akash Anand, Gabriela Berner, Gabriela Berner, Nikhil Kayal, Arjun Puranik, Ian Conrad, Sairam Bade, Rakesh Barve, Purushottam Sinha, John C. O’Horo, Andrew D. Badley, Venky Soundararajan.

Long-term SARS-CoV-2 RNA shedding and its temporal association to IgG seropositivity

nference and Mayo Clinic Co-authored:
Vineet Agarwal, AJ Venkatakrishnan, Arjun Puranik, Christian Kirkup, Agustin Lopez-Marquez, Douglas W Challener, Elitza S Theel, John C. O Horo, Matthew J Binnicke, Walter K Kremers, William A Faubion Jr, Andrew D. Badley, Amy W Williams, Gregory J Gores, John D. Halamka,William G. Morice II, Venky Soundararajan

Benchmarking evolutionary tinkering underlying human–viral molecular mimicry shows multiple host pulmonary–arterial peptides mimicked by SARS-CoV-2

nference and Mayo Clinic Co-authored:
AJ Venkatakrishnan, Nikhil Kayal, Praveen Anand, Andrew D. Badley, George M. Church, Venky Soundararajan

Inference from longitudinal laboratory tests characterizes temporal evolution of COVID-19-associated coagulopathy (CAC)

nference, Mayo Clinic and Janssen Co-authored:
Colin Pawlowski, Tyler Wagner, Arjun Puranik, Karthik Murugadoss, Liam Loscalzo, A J Venkatakrishnan , Rajiv K Pruthi, Damon E Houghton, John C O’Horo, William G Morice 2nd, Amy W Williams, Gregory J Gores, John Halamka, Andrew D Badley, Elliot S Barnathan, Hideo Makimura, Najat Khan, Venky Soundararajan

Human cancers express TRAILshort, a dominant negative TRAIL splice variant, which impairs immune effector cell killing of tumor cells

nference and Mayo Clinic Co-authored:
Fatma Aboulnasr, Ashton Krogman, Rondell P Graham, Nathan W Cummins, Anisha Misra, Enrique Garcia-Rivera, Jeff R Anderson, Sekar Natesampillai, Nicole Kogan, Murali Aravamudan, Zilin Nie, Thomas D. Y. Chung, Richard J Buick, Andrew L Feldman, Rebecca L Kings, Anne J. Novak, Stephen M Ansell, Saad S Kenderian, Andrew D. Badley

SARS-CoV-2 strategically mimics proteolytic activation of human ENaC

nference and Mayo Clinic Co-authored:
Praveen Anand, Arjun Puranik, Murali Aravamudan, AJ Venkatakrishnan, Venky Soundararajan

Knowledge synthesis of 100 million biomedical documents augments the deep expression profiling of coronavirus receptors

nference and Janssen Co-authored:
AJ Venkatakrishnan, Arjun Puranik, Akash Anand, David Zemmour, Xiang Yao, Xiaoying Wu, Ramakrishna Chilaka, Dariusz K. Murakowski, Kristopher Standish, Bharathwaj Raghunathan, Tyler Wagner, Enrique Garcia-Rivera, Hugo Solomon, Abhinav Garg, Rakesh Barve, Anuli Anyanwu-Ofili, Najat Khan, Venky Soundararajan

Real-time biomedical knowledge synthesis of the exponentially growing world wide web using unsupervised neural networks

nference, Mayo Clinic and Janssen Co-authored:
Tyler Wagner, Samir Awasthi, Gayle Wittenberg, AJ Venkatakrishnan, Dan Tarjan, Anuli Anyanwu-Ofili, Andrew Badley, John Halamka, Christopher Flores, Najat Khan, Rakesh Barve, Venky Soundararajan

Patient segmentation using machine-learning based literature and genomic data synthesis uncovers novel cohorts of NSCLC and mesothelioma patients

nference and Mayo Clinic Co-authored:
Enrique Garcia-Rivera, Aaron S. Mansfield, Karthik Murugadoss, Murali Aravamudan

Recapitulation and Retrospective Prediction of Biomedical Associations Using Temporally-enabled Word Embeddings

nference and Mayo Clinic Co-authored:
Jiho Park, Agustin Lopez-Marquez, Arjun Puranik, Ajit Rajasekharan, Murali Aravamudan, Enrique Garcia-Rivera

Neoantigenic Potential of Complex Chromosomal Rearrangements in Mesothelioma

nference and Mayo Clinic Co-authored:
Aaron S. Mansfield, M.D., Tobias Peikert, James B. Smadbeck, Julia B. M. Udell, Enrique Garcia-Rivera, Laura Elsbernd, Courtney L. Erskine, Virginia P. Van Keulen, Farhad Kosari, Stephen J. Murphy, Hongzheng Ren, Vishnu V. Serla, Janet L. Schaefer Klein, Giannoula Karagouga, Faye R. Harris, Carlos Sosa, Sarah H. Johnson, Wendy Nevala, Svetomir N. Markovic, Aaron O. Bungum, Eric S. Edell, Haidong Dong,, John C. Cheville, Marie Christine Aubry, Jin Jen, and George Vasmatzis

Global connectivity of hub residues in Oncoprotein structures encodes genetic factors dictating personalized drug response to targeted Cancer therapy

nference Authored:
Venky Soundararajan, Murali Aravamudan