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105. Mining Developers’ Workflows from IDE Usage

Author

Ioannou, Constantina, Burattin, Andrea, Weber, Barbara, van der Aalst, Wil, Series Editor, Mylopoulos, John, Series Editor, Rosemann, Michael, Series Editor, Shaw, Michael J., Series Editor, Szyperski, Clemens, Series Editor, Matulevičius, Raimundas, editor, and Dijkman, Remco, editor

Published
2018
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106. Toward an Automated Labeling of Event Log Attributes

Author

Abbad Andaloussi, Amine, Burattin, Andrea, Weber, Barbara, van der Aalst, Wil, Series Editor, Mylopoulos, John, Series Editor, Rosemann, Michael, Series Editor, Shaw, Michael J., Series Editor, Szyperski, Clemens, Series Editor, Gulden, Jens, editor, Reinhartz-Berger, Iris, editor, Schmidt, Rainer, editor, Guerreiro, Sérgio, editor, Guédria, Wided, editor, and Bera, Palash, editor

Published
2018
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107. A Framework for Online Conformance Checking

Author

Burattin, Andrea, Carmona, Josep, van der Aalst, Wil M. P., Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, Teniente, Ernest, editor, and Weidlich, Matthias, editor

Published
2018
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108. Measuring and Explaining Cognitive Load During Design Activities: A Fine-Grained Approach

Author

Weber, Barbara, Neurauter, Manuel, Burattin, Andrea, Pinggera, Jakob, Davis, Christopher, Spagnoletti, Paolo, Series editor, De Marco, Marco, Series editor, Pouloudi, Nancy, Series editor, Te'eni, Dov, Series editor, vom Brocke, Jan, Series editor, Winter, Robert, Series editor, Baskerville, Richard, Series editor, Davis, Fred D., editor, Riedl, René, editor, Léger, Pierre-Majorique, editor, and Randolph, Adriane B., editor

Published
2018
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109. Who Is Behind the Model? Classifying Modelers Based on Pragmatic Model Features

Author

Burattin, Andrea, Soffer, Pnina, Fahland, Dirk, Mendling, Jan, Reijers, Hajo A., Vanderfeesten, Irene, Weidlich, Matthias, Weber, Barbara, Hutchison, David, Editorial Board Member, Kanade, Takeo, Editorial Board Member, Kittler, Josef, Editorial Board Member, Kleinberg, Jon M., Editorial Board Member, Mattern, Friedemann, Editorial Board Member, Mitchell, John C., Editorial Board Member, Naor, Moni, Editorial Board Member, Pandu Rangan, C., Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Terzopoulos, Demetri, Editorial Board Member, Tygar, Doug, Editorial Board Member, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Weske, Mathias, editor, Montali, Marco, editor, Weber, Ingo, editor, and vom Brocke, Jan, editor

Published
2018
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110. Online Conformance Checking Using Behavioural Patterns

Author

Burattin, Andrea, van Zelst, Sebastiaan J., Armas-Cervantes, Abel, van Dongen, Boudewijn F., Carmona, Josep, Hutchison, David, Editorial Board Member, Kanade, Takeo, Editorial Board Member, Kittler, Josef, Editorial Board Member, Kleinberg, Jon M., Editorial Board Member, Mattern, Friedemann, Editorial Board Member, Mitchell, John C., Editorial Board Member, Naor, Moni, Editorial Board Member, Pandu Rangan, C., Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Terzopoulos, Demetri, Editorial Board Member, Tygar, Doug, Editorial Board Member, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Weske, Mathias, editor, Montali, Marco, editor, Weber, Ingo, editor, and vom Brocke, Jan, editor

Published
2018
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111. Heuristics Miners for Streaming Event Data

Author

Burattin, Andrea, Sperduti, Alessandro, and van der Aalst, Wil M. P.

Subjects
Computer Science - Databases, H.2.8, F.1.2
Abstract

More and more business activities are performed using information systems. These systems produce such huge amounts of event data that existing systems are unable to store and process them. Moreover, few processes are in steady-state and due to changing circumstances processes evolve and systems need to adapt continuously. Since conventional process discovery algorithms have been defined for batch processing, it is difficult to apply them in such evolving environments. Existing algorithms cannot cope with streaming event data and tend to generate unreliable and obsolete results. In this paper, we discuss the peculiarities of dealing with streaming event data in the context of process mining. Subsequently, we present a general framework for defining process mining algorithms in settings where it is impossible to store all events over an extended period or where processes evolve while being analyzed. We show how the Heuristics Miner, one of the most effective process discovery algorithms for practical applications, can be modified using this framework. Different stream-aware versions of the Heuristics Miner are defined and implemented in ProM. Moreover, experimental results on artificial and real logs are reported.

Published
2012
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121. Conclusions and Future Work

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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122. Process Mining

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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123. Process Mining for Stream Data Sources

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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124. Hands-On: Obtaining Test Data

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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125. User-Guided Discovery of Process Models

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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127. Results Interpretation and Evaluation

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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128. Automatic Configuration of Mining Algorithm

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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129. Heuristics Miner for Time Interval

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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131. Long-term View Scenario

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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132. Data Preparation

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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133. Quality Criteria in Process Mining

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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134. Data Mining for Information System Data

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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136. Introduction

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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146. Event Streams

Author

Burattin, Andrea, van der Aalst, Wil, Series editor, Mylopoulos, John, Series editor, Rosemann, Michael, Series editor, Shaw, Michael J., Series editor, Szyperski, Clemens, Series editor, and Burattin, Andrea

Published
2015
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147. LINE1 are spliced in non-canonical transcript variants to regulate T cell quiescence and exhaustion

Author

Federica Marasca, Shruti Sinha, Rebecca Vadalà, Benedetto Polimeni, Valeria Ranzani, Elvezia Maria Paraboschi, Filippo Vittorio Burattin, Marco Ghilotti, Mariacristina Crosti, Maria Luce Negri, Susanna Campagnoli, Samuele Notarbartolo, Andrea Sartore-Bianchi, Salvatore Siena, Daniele Prati, Giovanni Montini, Giuseppe Viale, Olga Torre, Sergio Harari, Renata Grifantini, Giulia Soldà, Stefano Biffo, Sergio Abrignani, Beatrice Bodega, Marasca, F, Sinha, S, Vadalà, R, Polimeni, B, Ranzani, V, Paraboschi, E, Burattin, F, Ghilotti, M, Crosti, M, Negri, M, Campagnoli, S, Notarbartolo, S, Sartore-Bianchi, A, Siena, S, Prati, D, Montini, G, Viale, G, Torre, O, Harari, S, Grifantini, R, Soldà, G, Biffo, S, Abrignani, S, and Bodega, B

Subjects
CD4-Positive T-Lymphocytes, Transcription, Genetic, RNA Splicing, RNA-Binding Proteins, TIL, LINE1, Mechanistic Target of Rapamycin Complex 1, Lymphocyte Activation, Phosphoproteins, Chromatin, Heterogeneous-Nuclear Ribonucleoproteins, Histones, Transcription Factors, TFII, Long Interspersed Nucleotide Elements, Lymphocytes, Tumor-Infiltrating, Gene Expression Regulation, Interferon Regulatory Factors, Genetics, Humans, RNA, Polypyrimidine Tract-Binding Protein, Signal Transduction
Abstract

How gene expression is controlled to preserve human T cell quiescence is poorly understood. Here we show that non-canonical splicing variants containing long interspersed nuclear element 1 (LINE1) enforce naive CD4+ T cell quiescence. LINE1-containing transcripts are derived from CD4+ T cell-specific genes upregulated during T cell activation. In naive CD4+ T cells, LINE1-containing transcripts are regulated by the transcription factor IRF4 and kept at chromatin by nucleolin; these transcripts act in cis, hampering levels of histone 3 (H3) lysine 36 trimethyl (H3K36me3) and stalling gene expression. T cell activation induces LINE1-containing transcript downregulation by the splicing suppressor PTBP1 and promotes expression of the corresponding protein-coding genes by the elongating factor GTF2F1 through mTORC1. Dysfunctional T cells, exhausted in vitro or tumor-infiltrating lymphocytes (TILs), accumulate LINE1-containing transcripts at chromatin. Remarkably, depletion of LINE1-containing transcripts restores TIL effector function. Our study identifies a role for LINE1 elements in maintaining T cell quiescence and suggests that an abundance of LINE1-containing transcripts is critical for T cell effector function and exhaustion.

Published
2022

150. LINE1 are spliced in non-canonical transcript variants to regulate T cell quiescence and exhaustion

Author

Marasca, F, Sinha, S, Vadalà, R, Polimeni, B, Ranzani, V, Paraboschi, E, Burattin, F, Ghilotti, M, Crosti, M, Negri, M, Campagnoli, S, Notarbartolo, S, Sartore-Bianchi, A, Siena, S, Prati, D, Montini, G, Viale, G, Torre, O, Harari, S, Grifantini, R, Soldà, G, Biffo, S, Abrignani, S, Bodega, B, Marasca, Federica, Sinha, Shruti, Vadalà, Rebecca, Polimeni, Benedetto, Ranzani, Valeria, Paraboschi, Elvezia Maria, Burattin, Filippo Vittorio, Ghilotti, Marco, Crosti, Mariacristina, Negri, Maria Luce, Campagnoli, Susanna, Notarbartolo, Samuele, Sartore-Bianchi, Andrea, Siena, Salvatore, Prati, Daniele, Montini, Giovanni, Viale, Giuseppe, Torre, Olga, Harari, Sergio, Grifantini, Renata, Soldà, Giulia, Biffo, Stefano, Abrignani, Sergio, Bodega, Beatrice, Marasca, F, Sinha, S, Vadalà, R, Polimeni, B, Ranzani, V, Paraboschi, E, Burattin, F, Ghilotti, M, Crosti, M, Negri, M, Campagnoli, S, Notarbartolo, S, Sartore-Bianchi, A, Siena, S, Prati, D, Montini, G, Viale, G, Torre, O, Harari, S, Grifantini, R, Soldà, G, Biffo, S, Abrignani, S, Bodega, B, Marasca, Federica, Sinha, Shruti, Vadalà, Rebecca, Polimeni, Benedetto, Ranzani, Valeria, Paraboschi, Elvezia Maria, Burattin, Filippo Vittorio, Ghilotti, Marco, Crosti, Mariacristina, Negri, Maria Luce, Campagnoli, Susanna, Notarbartolo, Samuele, Sartore-Bianchi, Andrea, Siena, Salvatore, Prati, Daniele, Montini, Giovanni, Viale, Giuseppe, Torre, Olga, Harari, Sergio, Grifantini, Renata, Soldà, Giulia, Biffo, Stefano, Abrignani, Sergio, and Bodega, Beatrice

Abstract

How gene expression is controlled to preserve human T cell quiescence is poorly understood. Here we show that non-canonical splicing variants containing long interspersed nuclear element 1 (LINE1) enforce naive CD4+ T cell quiescence. LINE1-containing transcripts are derived from CD4+ T cell-specific genes upregulated during T cell activation. In naive CD4+ T cells, LINE1-containing transcripts are regulated by the transcription factor IRF4 and kept at chromatin by nucleolin; these transcripts act in cis, hampering levels of histone 3 (H3) lysine 36 trimethyl (H3K36me3) and stalling gene expression. T cell activation induces LINE1-containing transcript downregulation by the splicing suppressor PTBP1 and promotes expression of the corresponding protein-coding genes by the elongating factor GTF2F1 through mTORC1. Dysfunctional T cells, exhausted in vitro or tumor-infiltrating lymphocytes (TILs), accumulate LINE1-containing transcripts at chromatin. Remarkably, depletion of LINE1-containing transcripts restores TIL effector function. Our study identifies a role for LINE1 elements in maintaining T cell quiescence and suggests that an abundance of LINE1-containing transcripts is critical for T cell effector function and exhaustion.

Published
2022

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