Neutrophil heterogeneity and emergence of a distinct population of CD11b/CD18-activated low-density neutrophils after trauma

Authors: Goretti Riça, Ingred, Joughin, Brian A., Teke, Martha E., Emmons, Tiffany R., Griffith, Alec M., Cahill, Laura A., Banner-Goodspeed, Valerie M., Robson, Simon C., Hernandez, Jonathan M., Segal, Brahm H., Otterbein, Leo E., Hauser, Carl J., Lederer, James A., Yaffe, Michael B.

Source: Journal of trauma and acute care surgery. 94(2):187-196

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100186917057.0x000001&indx=1&recIds=ETOCvdc_100186917057.0x000001

Biphasic JNK-Erk signaling separates the induction and maintenance of cell senescence after DNA damage induced by topoisomerase II inhibition

Authors: Netterfield, Tatiana S., Ostheimer, Gerard J., Tentner, Andrea R., Joughin, Brian A., Dakoyannis, Alexandra M., Sharma, Charvi D., Sorger, Peter K., Janes, Kevin A., Lauffenburger, Douglas A., Yaffe, Michael B.

Source: In Cell Systems 19 July 2023 14(7):582-604

Transite: A Computational Motif-Based Analysis Platform That Identifies RNA-Binding Proteins Modulating Changes in Gene Expression

Authors: Krismer, Konstantin, Bird, Molly A., Varmeh, Shohreh, Handly, Erika D., Gattinger, Anna, Bernwinkler, Thomas, Anderson, Daniel A., Heinzel, Andreas, Joughin, Brian A., Kong, Yi Wen, Cannell, Ian G., Yaffe, Michael B.

Source: In Cell Reports 25 August 2020 32(8)

Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation

Authors: Brubaker, Douglas K., Paulo, Joao A., Sheth, Shikha, Poulin, Emily J., Popow, Olesja, Joughin, Brian A., Strasser, Samantha Dale, Starchenko, Alina, Gygi, Steven P., Lauffenburger, Douglas A., Haigis, Kevin M.

Source: In Cell Systems 25 September 2019 9(3):258-270

VISAGE Reveals a Targetable Mitotic Spindle Vulnerability in Cancer Cells

Authors: Patterson, Jesse C., Joughin, Brian A., Prota, Andrea E., Mühlethaler, Tobias, Jonas, Oliver H., Whitman, Matthew A., Varmeh, Shohreh, Chen, Sen, Balk, Steven P., Steinmetz, Michel O., Lauffenburger, Douglas A., Yaffe, Michael B.

Source: In Cell Systems 24 July 2019 9(1):74-92

The Fanconi anemia core complex promotes CtIP-dependent end resection to drive homologous recombination at DNA double-strand breaks.

Authors: van de Kooij, Bert, van der Wal, Fenna J., Rother, Magdalena B., Wiegant, Wouter W., Creixell, Pau, Stout, Merula, Joughin, Brian A., Vornberger, Julia, Altmeyer, Matthias, van Vugt, Marcel A. T. M., Yaffe, Michael B., van Attikum, Haico

Source: Nature Communications; 8/16/2024, Vol. 15 Issue 1, p1-17, 17p

Subject Terms: HOMOLOGOUS recombination, DOUBLE-strand DNA breaks, FANCONI'S anemia, DNA repair, RECOMBINANT DNA

Substrate-based kinase activity inference identifies MK2 as driver of colitis

Authors: Strasser, Samantha Dale, Ghazi, Phaedra C, Starchenko, Alina, Boukhali, Myriam, Edwards, Amanda, Suarez-Lopez, Lucia, Lyons, Jesse, Changelian, Paul S, Monahan, Joseph B, Jacobsen, Jon, Brubaker, Douglas K, Joughin, Brian A, Yaffe, Michael B, Haas, Wilhelm, Lauffenburger, Douglas A, Haigis, Kevin M

Source: Integrative biology. 11(7):301-314

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An in vitro intestinal model captures immunomodulatory properties of the microbiota in inflammation

Authors: Lock, Jaclyn Y., Caboni, Mariaelena, Strandwitz, Philip, Morrissette, Madeleine, DiBona, Kevin, Joughin, Brian A., Lewis, Kim, Carrier, Rebecca L.

Source: Gut microbes. 14(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100184889757.0x000001&indx=1&recIds=ETOCvdc_100184889757.0x000001

The intrinsic substrate specificity of the human tyrosine kinome.

Authors: Yaron-Barir, Tomer M., Joughin, Brian A., Huntsman, Emily M., Kerelsky, Alexander, Cizin, Daniel M., Cohen, Benjamin M., Regev, Amit, Song, Junho, Vasan, Neil, Lin, Ting-Yu, Orozco, Jose M., Schoenherr, Christina, Sagum, Cari, Bedford, Mark T., Wynn, R. Max, Tso, Shih-Chia, Chuang, David T., Li, Lei, Li, Shawn S.-C., Creixell, Pau

Source: Nature; May2024, Vol. 629 Issue 8014, p1174-1181, 8p

Phosphoproteomics identifies microglial Siglec‐F inflammatory response during neurodegeneration

Authors: Morshed, Nader, Ralvenius, William T, Nott, Alexi, Watson, L Ashley, Rodriguez, Felicia H, Akay, Leyla A, Joughin, Brian A, Pao, Ping‐Chieh, Penney, Jay, LaRocque, Lauren, Mastroeni, Diego, Tsai, Li‐Huei, White, Forest M

Source: Molecular systems biology. 16(12)

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Multiplexed relative and absolute quantitative immunopeptidomics reveals MHC I repertoire alterations induced by CDK4/6 inhibition

Authors: Stopfer, Lauren E., Mesfin, Joshua M., Joughin, Brian A., Lauffenburger, Douglas A., White, Forest M.

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_100174598999.0x000001&indx=1&recIds=ETOCvdc_100174598999.0x000001

Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data

Authors: Holland, Christian H., Tanevski, Jovan, Perales-Patón, Javier, Gleixner, Jan, Kumar, Manu P., Mereu, Elisabetta, Joughin, Brian A., Stegle, Oliver, Lauffenburger, Douglas A., Heyn, Holger, Szalai, Bence, Saez-Rodriguez, Julio

Source: Genome biology. 21(1)

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A genome-scale in vivo loss-of-function screen identifies Phf6 as a lineage-specific regulator of leukemia cell growth

Authors: Meacham, Corbin E., Lawton, Lee N., Soto-Feliciano, Yadira M., Pritchard, Justin R., Joughin, Brian A., Ehrenberger, Tobias, Fenouille, Nina, Zuber, Johannes, Williams, Richard T., Young, Richard A.

Source: Genes & development. 29(5):483-488

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN600087135&indx=1&recIds=ETOCRN600087135

Protein kinases display minimal interpositional dependence on substrate sequence: potential implications for the evolution of signalling networks

Authors: Joughin, Brian A., Liu, Chengcheng, Lauffenburger, Douglas A., Hogue, Christopher W. V., Yaffe, Michael B.

Source: Philosophical Transactions: Biological Sciences, 2012 Sep . 367(1602), 2574-2583.

Access URL: https://www.jstor.org/stable/41621982

Quantitative Phospho-proteomics to Investigate the Polo-like Kinase 1-Dependent Phospho-proteome

Authors: Grosstessner-Hain, Karin ^‡, Hegemann, Björn ^{‡, ¶¶}, Novatchkova, Maria ^‡, Rameseder, Jonathan ^{¶, ‖}, Joughin, Brian A. ^‖, Hudecz, Otto ^§, Roitinger, Elisabeth ^‡, Pichler, Peter ^‡‡, Kraut, Norbert ^§§, Yaffe, Michael B. ^{‖, **}, Peters, Jan-Michael ^{‡, ‖‖}, Mechtler, Karl ^{‡, §, ‖‖, ‖‖‖}

Source: In Molecular & Cellular Proteomics November 2011 10(11)

Author Correction: Screening for CD19-specific chimaeric antigen receptors with enhanced signalling via a barcoded library of intracellular domains.

Authors: Gordon, Khloe S., Kyung, Taeyoon, Perez, Caleb R., Holec, Patrick V., Ramos, Azucena, Zhang, Angela Q., Agarwal, Yash, Liu, Yunpeng, Koch, Catherine E., Starchenko, Alina, Joughin, Brian A., Lauffenburger, Douglas A., Irvine, Darrell J., Hemann, Michael T., Birnbaum, Michael E.

Source: Nature Biomedical Engineering; Apr2023, Vol. 7 Issue 4, p599-602, 4p

PTMScout, a Web Resource for Analysis of High Throughput Post-translational Proteomics Studies

Authors: Naegle, Kristen M. ^{‡, §}, Gymrek, Melissa ^{‡, §}, Joughin, Brian A. ^¶, Wagner, Joel P. ^‡, Welsch, Roy E. ^‖, Yaffe, Michael B. ^{‡, ¶, **}, Lauffenburger, Douglas A. ^{‡, ¶}, White, Forest M. ^{‡, ¶, ‡‡}

Source: In Molecular & Cellular Proteomics November 2010 9(11):2558-2570

Integrated mapping of pharmacokinetics and pharmacodynamics in a patient-derived xenograft model of glioblastoma

Authors: Randall, Elizabeth C., Emdal, Kristina B., Laramy, Janice K., Kim, Minjee, Roos, Alison, Calligaris, David, Regan, Michael S., Gupta, Shiv K., Mladek, Ann C., Carlson, Brett L., Johnson, Aaron J., Lu, Fa-Ke, Xie, X. Sunney, Joughin, Brian A., Reddy, Raven J., Peng, Sen, Abdelmoula, Walid M., Jackson, Pamela R., Kolluri, Aarti, Kellersberger, Katherine A., Agar, Jeffrey N., Lauffenburger, Douglas A., Swanson, Kristin R., Tran, Nhan L., Elmquist, William F., White, Forest M., Sarkaria, Jann N., Agar, Nathalie Y. R.

Source: Nature communications. 9(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100129870001.0x000001&indx=1&recIds=ETOCvdc_100129870001.0x000001

Screening for CD19-specific chimaeric antigen receptors with enhanced signalling via a barcoded library of intracellular domains.

Authors: Gordon, Khloe S., Kyung, Taeyoon, Perez, Caleb R., Holec, Patrick V., Ramos, Azucena, Zhang, Angela Q., Agarwal, Yash, Liu, Yunpeng, Koch, Catherine E., Starchenko, Alina, Joughin, Brian A., Lauffenburger, Douglas A., Irvine, Darrell J., Hemann, Michael T., Birnbaum, Michael E.

Source: Nature Biomedical Engineering; Jul2022, Vol. 6 Issue 7, p855-866, 12p

Proteomics of Coagulopathy Following Injury Reveals Limitations of Using Laboratory Assessment to Define Trauma-Induced Coagulopathy to Predict Massive Transfusion.

Authors: Moore, Hunter B., Neal, Matthew D., Bertolet, Marnie, Joughin, Brian A., Yaffe, Michael B., Barrett, Christopher D., Bird, Molly A., Tracy, Russell P., Moore, Ernest E, Sperry, Jason L., Zuckerbraun, Brian S., Park, Myung S., Cohen, Mitchell J., Wisniewski, Stephen R., Morrissey, James H.

Source: Annals of Surgery Open; Jun2022, Vol. 3 Issue 2, p1-9, 9p