Sepsis pathogenesis and outcome are shaped by the balance between the transcriptional states of systemic inflammation and antimicrobial response

Authors: Brandes-Leibovitz, Rachel ^{1, 18}, Riza, Anca ^{2, 3, 18}, Yankovitz, Gal ¹, Pirvu, Andrei ^{2, 3}, Dorobantu, Stefania ^{2, 3}, Dragos, Adina ^{2, 3}, Streata, Ioana ^{2, 3}, Ricaño-Ponce, Isis ⁷, de Nooijer, Aline ⁷, Dumitrescu, Florentina ^{4, 5}, Antonakos, Nikolaos ⁶, Antoniadou, Eleni ⁷, Dimopoulos, George ⁸, Koutsodimitropoulos, Ioannis ⁹, Kontopoulou, Theano ¹⁰, Markopoulou, Dimitra ¹¹, Aimoniotou, Eleni ¹², Komnos, Apostolos ¹³, Dalekos, George N. ¹⁴, Ioana, Mihai ^{2, 3}, Giamarellos-Bourboulis, Evangelos J. ^{6, 15}, Gat-Viks, Irit ^{1, 19, ∗}, Netea, Mihai G. ^{2, 16, 17, 19, 20, ∗∗}

Source: In Cell Reports Medicine 19 November 2024 5(11)

Distinct gene programs underpinning disease tolerance and resistance in influenza virus infection

Authors: Cohn, Ofir, Yankovitz, Gal, Peshes-Yaloz, Naama, Steuerman, Yael, Frishberg, Amit, Brandes, Rachel, Mandelboim, Michal, Hamilton, Jennifer R., Hagai, Tzachi, Amit, Ido, Netea, Mihai G., Hacohen, Nir, Iraqi, Fuad A., Bacharach, Eran, Gat-Viks, Irit

Source: In Cell Systems 21 December 2022 13(12):1002-1015

A Minimum-Labeling Approach for Reconstructing Protein Networks across Multiple Conditions

Authors: Mazza, Arnon, Gat-Viks, Irit, Farhan, Hesso, Sharan, Roded

Subject Terms: Quantitative Biology - Quantitative Methods, Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/1307.7803

Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing

Authors: Steuerman, Yael, Cohen, Merav, Peshes-Yaloz, Naama, Valadarsky, Liran, Cohn, Ofir, David, Eyal, Frishberg, Amit, Mayo, Lior, Bacharach, Eran, Amit, Ido, Gat-Viks, Irit

Source: In Cell Systems 27 June 2018 6(6):679-691

Biliary atresia human cholangiocyte organoids demonstrate increased oxidative stress response

Authors: Hamody, Yara, Har-Zahav, Adi, danan, Keren, Shamir, Raanan, Gat-Viks, Irit, Waisbourd-Zinman, Orith

Source: Journal of hepatology. 78(S1):S955-S956

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100195501054.0x000001&indx=1&recIds=ETOCvdc_100195501054.0x000001

Cell composition analysis of bulk genomics using single-cell data

Authors: Frishberg, Amit, Peshes-Yaloz, Naama, Cohn, Ofir, Rosentul, Diana, Steuerman, Yael, Valadarsky, Liran, Yankovitz, Gal, Mandelboim, Michal, Iraqi, Fuad, Amit, Ido, Mayo, Lior, Bacharach, Eran, Gat-Viks, Irit

Source: Nature methods. 16(4):327-332

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100129129647.0x000001&indx=1&recIds=ETOCvdc_100129129647.0x000001

Anemia measurements to distinguish between viral and bacterial infections in the emergency department

Authors: Steuerman, Yael, Wasserman, Asaf, Zeltser, David, Shapira, Itzhak, Trotzky, Daniel, Halpern, Pinchas, Meilik, Ahuva, Raykhshtat, Eli, Berliner, Shlomo, Rogowski, Ori, Gat-Viks, Irit, Shenhar-Tsarfaty, Shani

Source: European journal of clinical microbiology & infectious diseases. 38(12):2331-2339

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100126890777.0x000001&indx=1&recIds=ETOCvdc_100126890777.0x000001

Regenerating the Injured Spinal Cord at the Chronic Phase by Engineered iPSCs‐Derived 3D Neuronal Networks

Authors: Wertheim, Lior, Edri, Reuven, Goldshmit, Yona, Kagan, Tomer, Noor, Nadav, Ruban, Angela, Shapira, Assaf, Gat‐Viks, Irit, Assaf, Yaniv, Dvir, Tal

Source: Advanced science. 9(11)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100146859704.0x000001&indx=1&recIds=ETOCvdc_100146859704.0x000001

Reconstructing Chain Functions in Genetic Networks.

Authors: Gat-Viks, Irit, Karp, Richard M., Shamir, Ron

Source: SIAM Journal on Discrete Mathematics; 2006, Vol. 20 Issue 3, p727-740, 14p

Stratification of Atherosclerosis based on Plasma Metabolic States.

Authors: Menaker, Yuval, van den Munckhof, Inge, Scarpa, Alice, Placek, Katarzyna, Brandes-Leibovitz, Rachel, Glantzspiegel, Yossef, Joosten, Leo A B, Rutten, Joost H W, Netea, Mihai G, Gat-Viks, Irit, Riksen, Niels P

Source: Journal of Clinical Endocrinology & Metabolism; May2024, Vol. 109 Issue 5, p1250-1262, 13p

Subject Terms: ATHEROSCLEROSIS, MYOCARDIAL infarction, CARDIOVASCULAR diseases

The host transcriptional response to superinfection by influenza A virus and Streptococcus pneumoniae.

Authors: Cohn, Ofir, Yankovitz, Gal, Mandelboim, Michal, Peshes-Yaloz, Naama, Brandes, Rachel, Bacharach, Eran, Gat-Viks, Irit

Source: MSystems; Apr2024, Vol. 9 Issue 4, p1-17, 17p

Extracellular Matrix Proteolysis by MT1-MMP Contributes to Influenza-Related Tissue Damage and Mortality

Authors: Talmi-Frank, Dalit, Altboum, Zeev, Solomonov, Inna, Udi, Yael, Jaitin, Diego Adhemar, Klepfish, Mordehay, David, Eyal, Zhuravlev, Alina, Keren-Shaul, Hadas, Winter, Deborah R., Gat-Viks, Irit, Mandelboim, Michal, Ziv, Tamar, Amit, Ido, Sagi, Irit

Source: In Cell Host & Microbe 12 October 2016 20(4):458-470

Identifying genetic susceptibility to Aspergillus fumigatus infection using collaborative cross mice and RNA‐Seq approach.

Authors: Yosief, Roa'a H. S., Lone, Iqbal M., Nachshon, Aharon, Himmelbauer, Heinz, Gat‐Viks, Irit, Iraqi, Fuad A.

Source: Animal Models & Experimental Medicine; Feb2024, Vol. 7 Issue 1, p36-47, 12p

Leveraging the cell lineage to predict cell-type specificity of regulatory variation from bulk genomics.

Authors: Yankovitz, Gal¹, Cohn, Ofir¹, Bacharach, Eran¹, Peshes-Yaloz, Naama¹, Steuerman, Yael¹, Iraqi, Fuad A.², Gat-Viks, Irit¹

Source: Genetics; Apr2021, Vol. 217 Issue 4, p1-11, 11p

Pleural macrophages translocate to the lung during infection to promote improved influenza outcomes.

Authors: Stumpff II, James P., Sang Yong Kimb, McFadden, Matthew I., Nishida, Andrew, Shirazi, Roksana, Steuerman, Yael, Gat-Viks, Irit, Forero, Adriana, Nair, Meera G., Morrison, Juliet

Source: Proceedings of the National Academy of Sciences of the United States of America; 12/19/2023, Vol. 120 Issue 51, p1-12, 12p

Subject Terms: LUNG infections, INFLUENZA, MACROPHAGES, SEASONAL influenza, VIRUS diseases, PLANNING techniques, SCHOOL absenteeism

An IFNγ-dependent immune–endocrine circuit lowers blood glucose to potentiate the innate antiviral immune response

Authors: Šestan, Marko, Mikašinović, Sanja, Benić, Ante, Wueest, Stephan, Dimitropoulos, Christoforos, Mladenić, Karlo, Krapić, Mia, Hiršl, Lea, Glantzspiegel, Yossef, Rasteiro, Ana, Aliseychik, Maria, Cekinović Grbeša, Đurđica, Turk Wensveen, Tamara, Babić, Marina, Gat-Viks, Irit, Veiga-Fernandes, Henrique, Konrad, Daniel, Wensveen, Felix M., Polić, Bojan

Source: Nature Immunology; 20240101, Issue: Preprints p1-13, 13p

The pathophysiology of sepsis and precision-medicine-based immunotherapy

Authors: Giamarellos-Bourboulis, Evangelos J., Aschenbrenner, Anna C., Bauer, Michael, Bock, Christoph, Calandra, Thierry, Gat-Viks, Irit, Kyriazopoulou, Evdoxia, Lupse, Mihaela, Monneret, Guillaume, Pickkers, Peter, Schultze, Joachim L., van der Poll, Tom, van de Veerdonk, Frank L., Vlaar, Alexander P. J., Weis, Sebastian, Joost Wiersinga, W., Netea, Mihai G.

Source: Nature Immunology; January 2024, Vol. 25 Issue: 1 p19-28, 10p

Genome-wide CRISPR screen identifies host dependency factors for influenza A virus infection

Authors: Li, Bo, Clohisey, Sara M., Chia, Bing Shao, Wang, Bo, Cui, Ang, Eisenhaure, Thomas, Schweitzer, Lawrence D., Hoover, Paul, Parkinson, Nicholas J., Nachshon, Aharon, Smith, Nikki, Regan, Tim, Farr, David, Gutmann, Michael U., Bukhari, Syed Irfan, Law, Andrew, Sangesland, Maya, Gat-Viks, Irit, Digard, Paul, Vasudevan, Shobha, Lingwood, Daniel, Dockrell, David H., Doench, John G., Baillie, J. Kenneth, Hacohen, Nir

Source: Nature communications. 11(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100131056965.0x000001&indx=1&recIds=ETOCvdc_100131056965.0x000001

Predicting Phenotypic Diversity from Molecular and Genetic Data.

Authors: Harel, Tom¹, Peshes-Yaloz, Naama¹, Bacharach, Eran¹, Gat-Viks, Irit¹, iritgv@tauex.tau.ac.il

Source: Genetics; Sep2019, Vol. 213 Issue 1, p297-311, 15p

Systematic Discovery of TLR Signaling Components Delineates Viral-Sensing Circuits

Authors: Chevrier, Nicolas, Mertins, Philipp, Artyomov, Maxim N., Shalek, Alex K., Iannacone, Matteo, Ciaccio, Mark F., Gat-Viks, Irit, Tonti, Elena, DeGrace, Marciela M., Clauser, Karl R., Garber, Manuel, Eisenhaure, Thomas M., Yosef, Nir, Robinson, Jacob, Sutton, Amy, Andersen, Mette S., Root, David E., von Andrian, Ulrich, Jones, Richard B., Park, Hongkun, Carr, Steven A., Regev, Aviv, Amit, Ido, Hacohen, Nir

Source: In Cell 2011 147(4):853-867