Discrete-state models identify pathway specific B cell states across diseases and infections at single-cell resolution

Authors: Kassis, George, Palshikar, Mukta G., Hilchey, Shannon P., Zand, Martin S., Thakar, Juilee

Source: In Journal of Theoretical Biology 21 April 2024 583

Transfusion reactions associated with COVID‐19 convalescent plasma in outpatient clinical trials

Authors: Huaman, Moises A., Raval, Jay S., Paxton, James H., Mosnaim, Giselle S., Patel, Bela, Anjan, Shweta, Meisenberg, Barry R., Levine, Adam C., Marshall, Christi E., Yarava, Anusha, Shenoy, Aarthi G., Heath, Sonya L., Currier, Judith S., Fukuta, Yuriko, Blair, Janis E., Spivak, Emily S., Petrini, Joann R., Broderick, Patrick B., Rausch, William, Cordisco, MarieElena, Hammel, Jean, Greenblatt, Benjamin, Cluzet, Valerie C., Cruser, Daniel, Oei, Kevin, Abinante, Matthew, Hammitt, Laura L., Sutcliffe, Catherine G., Forthal, Donald N., Zand, Martin S., Cachay, Edward R., Kassaye, Seble G., Ram, Malathi, Wang, Ying, Das, Piyali, Lane, Karen, McBee, Nichol A., Gawad, Amy L., Karlen, Nicky, Ford, Daniel E., Laeyendecker, Oliver, Pekosz, Andrew, Klein, Sabra L., Ehrhardt, Stephan, Lau, Bryan, Baksh, Sheriza N., Shade, David M., Casadevall, Arturo, Hanley, Daniel F., Ou, Jiangda, Gniadek, Thomas J., Ziman, Alyssa, Shoham, Shmuel, Gebo, Kelly A., Bloch, Evan M., Tobian, Aaron A. R., Sullivan, David J., Gerber, Jonathan M.

Source: Transfusion. 63(9):1639-1648

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100192724361.0x000001&indx=1&recIds=ETOCvdc_100192724361.0x000001

Executable Network Models of Integrated Multiomics Data

Authors: Palshikar, Mukta G., Min, Xiaojun, Crystal, Alexander, Meng, Jiayue, Hilchey, Shannon P., Zand, Martin S., Thakar, Juilee

Source: Journal of proteome research. 22(5):1546-1556

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN632515398&indx=1&recIds=ETOCRN632515398

Ventilation during COVID-19 in a school for students with intellectual and developmental disabilities (IDD).

Authors: Zand, Martin S.^1,2,3 (AUTHOR) martin_zand@urmc.rochester.edu, Spallina, Samantha⁴ (AUTHOR), Ross, Alexis⁵ (AUTHOR), Zandi, Karen⁵ (AUTHOR), Pawlowski, Anne⁵ (AUTHOR), Seplaki, Christopher L.^3,6 (AUTHOR), Herington, Jonathan⁷ (AUTHOR), Corbett, Anthony M.² (AUTHOR), Kaukeinen, Kimberly² (AUTHOR), Holden-Wiltse, Jeanne² (AUTHOR), Freedman, Edward G.⁴ (AUTHOR), Alcantara, Lisette² (AUTHOR), Li, Dongmei² (AUTHOR), Cameron, Andrew⁸ (AUTHOR), Beaumont, Nicole⁴ (AUTHOR), Dozier, Ann³ (AUTHOR), Dewhurst, Stephen⁹ (AUTHOR), Foxe, John J.⁴ (AUTHOR)

Source: PLoS ONE. 4/3/2024, Vol. 19 Issue 4, p1-17. 17p.

Subject Terms: *COVID-19 pandemic, *DEVELOPMENTAL disabilities, *INTELLECTUAL disabilities, *VENTILATION, *BUSINESS partnerships, *STUDENT health

Company/Entity: UNIVERSITY of Rochester (Rochester, N.Y.)

Predicting Acute Kidney Injury at Hospital Re-entry Using High-dimensional Electronic Health Record Data

Authors: Weisenthal, Samuel J., Quill, Caroline, Farooq, Samir, Kautz, Henry, Zand, Martin S.

Subject Terms: Computer Science - Machine Learning, Statistics - Machine Learning

Access URL: http://arxiv.org/abs/1807.09865

Revealing patterns in HIV viral load data and classifying patients via a novel machine learning cluster summarization method

Authors: Farooq, Samir, Weisenthal, Samuel J., Trayhan, Melissa, White, Robert J., Bush, Kristen, Mariuz, Peter R., Zand, Martin S.

Subject Terms: Quantitative Biology - Quantitative Methods, Computer Science - Learning, Statistics - Machine Learning

Access URL: http://arxiv.org/abs/1804.11195

Properties of Healthcare Teaming Networks as a Function of Network Construction Algorithms

Authors: Zand, Martin S., Trayhan, Melissa, Farooq, Samir A., Fucile, Christopher, Ghoshal, Grourab, White, Robert J., Quill, Caroline M., Rosenberg, Alexander, Serrano, Hugo, Chafi, Hassan, Boudreau, Timothy

Subject Terms: Computer Science - Social and Information Networks, Computer Science - Data Structures and Algorithms, Physics - Physics and Society

Access URL: http://arxiv.org/abs/1610.02575

Antibody Response to SARS-CoV-2 Vaccines in Transplant Recipients and Hemodialysis Patients: Data from the Dominican Republic.

Authors: Alcantara Sanchez, Lisette, Alvarez Guerra, Eloy, Li, Dongmei, King, Samantha M., Hilchey, Shannon P., Zhou, Qian, Dewhurst, Stephen, Fiscella, Kevin, Zand, Martin S.

Source: Vaccines; Dec2024, Vol. 12 Issue 12, p1312, 21p

Subject Terms: ANTIBODY formation, COVID-19 pandemic, COVID-19 vaccines, IMMUNE response, VACCINE effectiveness

Measuring the Serologic Response to Severe Acute Respiratory Syndrome Coronavirus 2: Methods and Meaning

Authors: Pecora, Nicole D., Zand, Martin S.

Source: In Clinics in Laboratory Medicine December 2020 40(4):603-614

Correction: Ventilation during COVID-19 in a school for students with intellectual and developmental disabilities (IDD).

Authors: Zand, Martin S. (AUTHOR), Spallina, Samantha (AUTHOR), Ross, Alexis (AUTHOR), Zandi, Karen (AUTHOR), Pawlowski, Anne (AUTHOR), Seplaki, Christopher L. (AUTHOR), Herington, Jonathan (AUTHOR), Corbett, Anthony M. (AUTHOR), Kaukeinen, Kimberly (AUTHOR), Holden-Wiltse, Jeanne (AUTHOR), Freedman, Edward G. (AUTHOR), Alcantara, Lisette (AUTHOR), Li, Dongmei (AUTHOR), Cameron, Andrew (AUTHOR), Beaumont, Nicole (AUTHOR), Dozier, Ann (AUTHOR), Dewhurst, Stephen (AUTHOR), Foxe, John J. (AUTHOR)

Source: PLoS ONE. 11/8/2024, Vol. 19 Issue 11, p1-2. 2p.

Subject Terms: *DIAGNOSTIC use of polymerase chain reaction, *COVID-19 pandemic, *CONTACT tracing, *DEVELOPMENTAL disabilities, *REGRESSION analysis, *RANK correlation (Statistics)

WikiNetworks: translating manually created biological pathways for topological analysis

Authors: Palshikar, Mukta G, Hilchey, Shannon P, Zand, Martin S, Thakar, Juilee

Source: Bioinformatics. 38(3):869-871

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100139037477.0x000001&indx=1&recIds=ETOCvdc_100139037477.0x000001

An evaluation of RNA-seq differential analysis methods.

Authors: Li, Dongmei¹ (AUTHOR) Dongmei_Li@urmc.rochester.edu, Zand, Martin S.^1,2 (AUTHOR), Dye, Timothy D.³ (AUTHOR), Goniewicz, Maciej L.⁴ (AUTHOR), Rahman, Irfan⁵ (AUTHOR), Xie, Zidian¹ (AUTHOR)

Source: PLoS ONE. 9/16/2022, Vol. 17 Issue 9, p1-19. 19p.

Subject Terms: *NEGATIVE binomial distribution, *RNA sequencing, *LOGNORMAL distribution, *PREDICATE calculus, *FALSE discovery rate, *NUCLEOTIDE sequencing, *BINOMIAL distribution

Predicting hospital-onset Clostridium difficile using patient mobility data: A network approach

Authors: Bush, Kristen, Barbosa, Hugo, Farooq, Samir, Weisenthal, Samuel J., Trayhan, Melissa, White, Robert J., Noyes, Ekaterina I., Ghoshal, Gourab, Zand, Martin S.

Source: Infection control and hospital epidemiology. 40(12):1380-1386

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN623196298&indx=1&recIds=ETOCRN623196298

Anamnestic broadly reactive antibodies induced by H7N9 virus more efficiently bind to seasonal H3N2 strains

Authors: Chen, Yao, Hilchey, Shannon P., Wang, Jiong, Garigen, Jessica, Zand, Martin S., Huang, Junqiong

Source: Human vaccines & immunotherapeutics. 18(6)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100180431449.0x000001&indx=1&recIds=ETOCvdc_100180431449.0x000001

Visualizing nationwide variation in medicare Part D prescribing patterns

Authors: Rosenberg, Alexander, Fucile, Christopher, White, Robert J., Trayhan, Melissa, Farooq, Samir, Quill, Caroline M., Nelson, Lisa A., Weisenthal, Samuel J., Bush, Kristen, Zand, Martin S.

Source: BMC medical informatics and decision making. 18(1):1-19

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100185412310.0x000001&indx=1&recIds=ETOCvdc_100185412310.0x000001

Ion-Current-Based Temporal Proteomic Profiling of Influenza-A-Virus-Infected Mouse Lungs Revealed Underlying Mechanisms of Altered Integrity of the Lung Microvascular Barrier

Authors: Shen, Shichen, Li, Jun, Hilchey, Shannon, Shen, Xiaomeng, Tu, Chengjian, Qiu, Xing, Ng, Andrew, Ghaemmaghami, Sina, Wu, Hulin, Zand, Martin S.

Source: Journal of proteome research. 15(2):540-553

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN604927157&indx=1&recIds=ETOCRN604927157

Clinical and Analytic Accuracy of Simultaneously Acquired Hemoglobin Measurements: A Multi-Institution Cohort Study to Minimize Redundant Laboratory Usage.

Authors: Dziorny, Adam C., Jones, Chloe, Salant, Jennifer A., Kubis, Sherri, Zand, Martin S., Wolfe, Heather A., Srinivasan, Vijay

Source: Pediatric Critical Care Medicine; Nov2023, Vol. 24 Issue 11, pe520-e530, 11p

Tofacitinab in Renal Transplantation

Authors: Zand, Martin S.

Source: In Transplantation Reviews July 2013 27(3):85-89

Cyclosporine a directly affects human and mouse b cell migration in vitro by disrupting a hIF-1 αdependent, o2 sensing, molecular switch

Authors: Hilchey, Shannon P, Palshikar, Mukta G, Emo, Jason A, Li, Dongmei, Garigen, Jessica, Wang, Jiong, Mendelson, Eric S, Cipolla, Valentina, Thakar, Juilee, Zand, Martin S

Source: BMC immunology. 21(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100164366102.0x000001&indx=1&recIds=ETOCvdc_100164366102.0x000001

A Mixture Model with Dependent Observations for the Analysis of CSFE-Labeling Experiments

Authors: Hyrien, Ollivier, Zand, Martin S.

Source: Journal of the American Statistical Association, 2008 Mar 01. 103(481), 222-239.

Access URL: https://www.jstor.org/stable/27640033