cran: Andromeda | Projects | Ecosyste.ms: Papers

10.1371/journal.pgen.1006620

Mutations in mitochondrial DNA causing tubulointerstitial kidney disease
Cited by: 47
Author(s): Thomas M. Connor, Simon Hoer, Andrew Mallett, Daniel P. Gale, Aurora Gómez-Durán, Viktor Posse, Robin Antrobus, Pablo Moreno, Marco Sciacovelli, Christian Frezza, Jennifer Duff, Neil Sheerin, John A. Sayer, Margaret Ashcroft, Michael S. Wiesener, Gavin Hudson, Claes M. Gustafsson, Patrick F. Chinnery, Patrick H. Maxwell
Software Mentions: 3
Published: over 9 years ago

10.1016/j.redox.2020.101491

Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin
Cited by: 55
Author(s): Amir Ata Saei, Hjalmar Gullberg, Pierre Sabatier, Christian M. Beusch, Katarina Johansson, Bo Lundgren, Per I. Arvidsson, Elias S.J. Arnér, Roman A. Zubarev
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1006088

Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response
Cited by: 21
Author(s): Matthew E. MacGilvray, Evgenia Shishkova, Deborah Chasman, Michael Place, Anthony Gitter, Joshua J. Coon, Audrey P. Gasch
Software Mentions: 3
Published: over 8 years ago

10.1002/pmic.201700388

Integrative Analysis of Proteome and Ubiquitylome Reveals Unique Features of Lysosomal and Endocytic Pathways in Gefitinib‐Resistant Non‐Small Cell Lung Cancer Cells
Cited by: 19
Author(s): Wang Li, Heyong Wang, Yan Yang, Tian Zhao, Zhixiong Zhang, Ye Tian, Zhaomie Shi, Xiaojun Peng, Fēi Li, Yonghong Feng, Lei Zhang, Gening Jiang, Fan Zhang
Software Mentions: 3
Published: about 8 years ago

10.3390/proteomes9030034

Evaluation of the Sensitivity of Proteomics Methods Using the Absolute Copy Number of Proteins in a Single Cell as a Metric
Cited by: 11
Author(s): Benjamin C. Orsburn
Software Mentions: 3
Published: about 5 years ago

10.1002/pmic.202000319

DDASSQ: An open‐source, multiple peptide sequencing strategy for label free quantification based on an OpenMS pipeline in the KNIME analytics platform
Cited by: 5
Author(s): M. Svecla, G Garrone, Fiorenza Farè, Giacomo Aletti, Giuseppe Danilo Norata, Giangiacomo Beretta
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pgen.1008681

The domesticated transposase ALP2 mediates formation of a novel Polycomb protein complex by direct interaction with MSI1, a core subunit of Polycomb Repressive Complex 2 (PRC2)
Cited by: 20
Author(s): Christos N. Velanis, Pumi Perera, Bennett Thomson, Erica de Leau, Shih Chieh Liang, Ben Hartwig, Alexander Förderer, Harry Thornton, Pedro Arêde, Jiawen Chen, Kimberly M. Webb, Serin Gümüs, Geert De Jaeger, Clinton A. Page, C. Nathan Hancock, Christos Spanos, Juri Rappsilber, Philipp Voigt, Franziska Turck, Frank Wellmer, Justin Goodrich
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pbio.3001344

Structure of the human C9orf72-SMCR8 complex reveals a multivalent protein interaction architecture
Cited by: 6
Author(s): Julia Nörpel, Simone Cavadini, Andreas Schenk, Alexandra Graff-Meyer, Daniel Heß, Jan Seebacher, Jeffrey A. Chao, Varun Bhaskar
Software Mentions: 3
Published: about 5 years ago

10.7554/eLife.57861

Profiling of myristoylation in Toxoplasma gondii reveals an N-myristoylated protein important for host cell penetration
Cited by: 19
Author(s): Malgorzata Broncel, Caia Dominicus, Luis Vigetti, Stephanie D. Nofal, Edward Bartlett, Bastien Touquet, Alex Hunt, Bethan A. Wallbank, Stefania Federico, Stephen Matthews, J. M. Young, Edward W. Tate, Isabelle Tardieux, Moritz Treeck
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.ppat.1009580

A Ran-binding protein facilitates nuclear import of human papillomavirus type 16
Cited by: 10
Author(s): Kun-Yi Lai, Matteo Rizzato, Inci Aydin, Ruth Villalonga-Planells, Hannes C.A. Drexler, Mario Schelhaas
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.ppat.1008841

Phosphorylation controls RNA binding and transcription by the influenza virus polymerase
Cited by: 13
Author(s): Anthony R. Dawson, Gary Wilson, Elyse C. Freiberger, Arindam Mondal, Joshua J. Coon, Andrew Mehle
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.ppat.1009326

The pentose phosphate pathway constitutes a major metabolic hub in pathogenic Francisella
Cited by: 13
Author(s): Héloïse Rytter, Anne Jamet, Jason Ziveri, Elodie Ramond, Mathieu Coureuil, Pauline Lagouge-Roussey, Daniel Euphrasie, Fabiola Tros, Nicolas Goudin, Cérina Chhuon, Ivan Nemazanyy, Fabrício Edgar de Moraes, Carlos Alberto Labate, Ida Chiara Guerrera, Alain Charbit
Software Mentions: 2
Published: about 5 years ago

10.3389/fpls.2017.01669

Improved Quantitative Plant Proteomics via the Combination of Targeted and Untargeted Data Acquisition
Cited by: 15
Author(s): Gene Hart‐Smith, Rodrigo S. Reis, Peter M. Waterhouse, Marc R. Wilkins
Software Mentions: 2
Published: almost 9 years ago

10.3389/fpls.2015.00739

Global analysis of lysine acetylation in strawberry leaves
Cited by: 60
Author(s): Xianping Fang, Wenyue Chen, Yun Zhao, Songlin Ruan, Heng-Mu Zhang, Chengqi Yan, Liang Jin, Lingling Cao, Jun Zhu, Huiqin Ma, Zhongyi Cheng
Software Mentions: 2
Published: about 11 years ago

10.3389/fpls.2021.622795

Magnetic Field Induced Changes in the Shoot and Root Proteome of Barley (Hordeum vulgare L.)
Cited by: 7
Author(s): Azita Shabrangy, Arindam Ghatak, Shuang Zhang, Alfred Priller, Palak Chaturvedi
Software Mentions: 2
Published: over 5 years ago

10.3389/fphys.2020.00520

Inflammatory Drivers of Cardiovascular Disease: Molecular Characterization of Senescent Coronary Vascular Smooth Muscle Cells
Cited by: 19
Author(s): Stevan D. Stojanović, Maximilian Fuchs, Meik Kunz, Xiaoyan Ke, Annette Just, Andreas Pich, Johann Bauersachs, Jan Fiedler, Daniel Sedding, Thomas Thum
Software Mentions: 2
Published: over 6 years ago

10.1186/1471-2164-14-906

The neuropeptide complement of the marine annelid Platynereis dumerilii
Cited by: 117
Author(s): Markus Conzelmann, Elizabeth A. Williams, Karsten Krug, Mirita Franz‐Wachtel, Boris Maček, Gáspár Jékely
Software Mentions: 2
Published: over 13 years ago

10.3389/fpls.2020.00872

Seed Metabolism and Pathogen Resistance Enhancement in Pisum sativum During Colonization of Arbuscular Mycorrhizal Fungi: An Integrative Metabolomics-Proteomics Approach
Cited by: 9
Author(s): Nima Ranjbar Sistani, Getinet Desalegn, Hans‐Peter Kaul, Stefanie Wienkoop
Software Mentions: 2
Published: over 6 years ago

10.1002/advs.202004846

SPOP and OTUD7A Control EWS–FLI1 Protein Stability to Govern Ewing Sarcoma Growth
Cited by: 23
Author(s): Siyuan Su, Jianfeng Chen, Yao Jiang, Ying Wang, T. PanduRanga Vital, Jiaming Zhang, Christian Laggner, Kong T. Nguyen, Zhen-Gang Zhu, Alex W. Prevatte, Nelson W. Barker, Laura E. Herring, Ian J. Davis, Pengda Liu
Software Mentions: 2
Published: over 5 years ago

10.3389/fneur.2017.00110

Phosphoproteome Profiling Reveals Circadian Clock Regulation of Posttranslational Modifications in the Murine Hippocampus
Cited by: 22
Author(s): Cheng‐Kang Chiang, Bo Xu, Neel Mehta, Janice Mayne, Warren Sun, Kai Cheng, Zhibin Ning, Jing Dong, Hanfa Zou, Hai-Ying Mary Cheng, Daniel Figeys
Software Mentions: 2
Published: over 9 years ago

10.1074/mcp.O116.058438

Proteoform-Specific Insights into Cellular Proteome Regulation
Cited by: 3
Author(s): Emma L. Norris, Madeleine J. Headlam, Keyur A. Dave, David Smith, Alexander Bukreyev, Toshna Singh, Buddhika A. Jayakody, Keith J. Chappell, Peter L. Collins, Jeffrey J. Gorman
Software Mentions: 2
Published: almost 10 years ago

10.1186/s12864-019-6344-3

Comparison of the molecular and cellular phenotypes of common mouse syngeneic models with human tumors
Cited by: 87
Author(s): Wenyan Zhong, Jeremy S. Myers, Fang Wang, Kai Wang, Justin Lucas, Edward Rosfjord, Judy Lucas, Andrea T. Hooper, Sharon Yang, Lu Anna Lemon, Magali Guffroy, Chad May, Jadwiga Bienkowska, Paul A. Rejto
Software Mentions: 2
Published: over 6 years ago

10.3389/fnins.2019.00143

Cx43-Associated Secretome and Interactome Reveal Synergistic Mechanisms for Glioma Migration and MMP3 Activation
Cited by: 9
Author(s): Qurratulain Aftab, Marc Mesnil, Emmanuel Ojefua, Alisha Poole, Jenna Noordenbos, Pierre‐Olivier Strale, Chris Sitko, Caitlin Le, Nikolay Stoynov, Leonard J. Foster, Wun-Chey Sin, Christian C. Naus, Vincent C. Chen
Software Mentions: 2
Published: over 7 years ago

10.3389/fpls.2018.01590

Quantitative Phosphoproteomic and System-Level Analysis of TOR Inhibition Unravel Distinct Organellar Acclimation in Chlamydomonas reinhardtii
Cited by: 28
Author(s): Valentin Roustan, Wolfram Weckwerth
Software Mentions: 2
Published: almost 8 years ago

10.3389/fnmol.2018.00345

S-palmitoylation Is Required for the Control of Growth Cone Morphology of DRG Neurons by CNP-Induced cGMP Signaling
Cited by: 13
Author(s): Alexandre Dumoulin, Alina Dagane, Gunnar Dittmar, Fritz G. Rathjen
Software Mentions: 2
Published: almost 8 years ago

10.1073/pnas.2007056117

Histone variants in archaea and the evolution of combinatorial chromatin complexity
Cited by: 27
Author(s): Kathryn M Stevens, Jacob B. Swadling, Antoine Hocher, Corinna Bang, Simonetta Gribaldo, Ruth A. Schmitz, Tobias Warnecke
Software Mentions: 2
Published: almost 6 years ago

10.1074/mcp.RA118.001036

Comparative Secretome Analyses of Human and Zoonotic Staphylococcus aureus Isolates CC8, CC22, and CC398
Cited by: 25
Author(s): Tobias Busche, Mélanie Hillion, Vu Van Loi, David T. Berg, Birgit Walther, Torsten Semmler, Birgit Strommenger, Wolfgang Witte, Christiane Cuny, Alexander Mellmann, Mark A. Holmes, Jörn Kalinowski, Lorenz Adrian, Jörg Bernhardt, Haike Antelmann
Software Mentions: 2
Published: almost 8 years ago

10.3389/fmicb.2020.594743

Systematic Analysis of Lysine Lactylation in the Plant Fungal Pathogen Botrytis cinerea
Cited by: 37
Author(s): Mingming Gao, Ning Zhang, Wenxing Liang
Software Mentions: 2
Published: almost 6 years ago

10.1074/mcp.RA118.000650

Proteomic Analysis of the Cell Cycle of Procylic Form Trypanosoma brucei
Cited by: 34
Author(s): Thomas W. M. Crozier, Michele Tinti, Richard J. Wheeler, Tony Ly, Michael A. J. Ferguson, Angus I. Lamond
Software Mentions: 2
Published: over 8 years ago

10.3389/fmolb.2021.659058

Phenotypic and Multi-Omics Characterization of Escherichia coli K-12 Adapted to Chlorhexidine Identifies the Role of MlaA and Other Cell Envelope Alterations Regulated by Stress Inducible Pathways in CHX Resistance
Cited by: 7
Author(s): Branden S. J. Gregorchuk, Shelby L Reimer, Kari A. C. Green, Nicola Helen Cartwright, Daniel R. Beniac, Shannon L Hiebert, Timothy F. Booth, Patrick Chong, Garrett Westmacott, George G. Zhanel, Denice C. Bay
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2015.00084

Novel Flp pilus biogenesis-dependent natural transformation
Cited by: 32
Author(s): Angel Angelov, Paul M. P. van Bergen, Florian Nadler, Philipp Hornburg, Antoni Lichev, Maria Übelacker, Fiona Pachl, Bernhard Küster, Wolfgang Liebl
Software Mentions: 2
Published: over 11 years ago

10.3390/biom10111581

The Proteasome Activators Blm10/PA200 Enhance the Proteasomal Degradation of N-Terminal Huntingtin
Cited by: 7
Author(s): Azzam Aladdin, Yanhua Yao, Ciyu Yang, Günther Kahlert, Marvi Ghani, Nikolett Király, Anita Boratkó, Karen Uray, Gunnar Dittmar, Krisztina Tar
Software Mentions: 2
Published: almost 6 years ago

10.1074/mcp.RA120.002273

Thermal Proteome Profiling in Zebrafish Reveals Effects of Napabucasin on Retinoic Acid Metabolism
Cited by: 7
Author(s): Niels Leijten, Petra A Bakker, Herman P. Spaink, Jeroen den Hertog, Simone Lemeer
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2019.00384

Mixotrophic Growth Under Micro-Oxic Conditions in the Purple Sulfur Bacterium “Thiodictyon syntrophicum”
Cited by: 14
Author(s): Samuel M. Luedin, Nicola Storelli, Francesco Danza, Samuele Roman, Matthias Wittwer, Joël F. Pothier, Mauro Tonolla
Software Mentions: 2
Published: over 7 years ago

10.1074/mcp.M115.056481

Quantitative Cross-linking/Mass Spectrometry Using Isotope-labeled Cross-linkers and MaxQuant
Cited by: 28
Author(s): Zhuo A. Chen, Lutz Fischer, Jürgen Cox, Juri Rappsilber
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2020.00209

Comparative Proteomics of Meat Spoilage Bacteria Predicts Drivers for Their Coexistence on Modified Atmosphere Packaged Meat
Cited by: 18
Author(s): Sandra Kolbeck, Christina Ludwig, Chen Meng, Maik Hilgarth, Rudi F. Vogel
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2018.02977

Xylem Sap Proteomics Reveals Distinct Differences Between R Gene- and Endophyte-Mediated Resistance Against Fusarium Wilt Disease in Tomato
Cited by: 34
Author(s): Francisco J. de Lamo, Maria E. Constantin, David H. Fresno, Sjef Boeren, Martijn Rep, Frank L. W. Takken
Software Mentions: 2
Published: almost 8 years ago

10.3389/fnmol.2021.658339

Broad Influence of Mutant Ataxin-3 on the Proteome of the Adult Brain, Young Neurons, and Axons Reveals Central Molecular Processes and Biomarkers in SCA3/MJD Using Knock-In Mouse Model
Cited by: 7
Author(s): Kalina Wiatr, Łukasz Marczak, J. Pérot, Emmanuel Brouillet, Julien Flament, Maciej Figiel
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2020.00189

Loss of the Periplasmic Chaperone Skp and Mutations in the Efflux Pump AcrAB-TolC Play a Role in Acquired Resistance to Antimicrobial Peptides in Salmonella typhimurium
Cited by: 11
Author(s): Gal Kapach, Reut Nuri, Christiane Schmidt, Adi Danin, Shir Ferrera, Alon Savidor, Roman G. Gerlach, Yechiel Shai
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2017.02599

Low Concentrations of Vitamin C Reduce the Synthesis of Extracellular Polymers and Destabilize Bacterial Biofilms
Cited by: 61
Author(s): Santosh Pandit, Vaishnavi Ravikumar, Alyaa M. Abdel-Haleem, Abderahmane Derouiche, Venkata Raghavendra Subrahmanya Sar Mokkapati, Carina Sihlbom, Katsuhiko Mineta, Takashi Gojobori, Xin Gao, Fredrik Westerlund, Ivan Mijaković
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2019.03101

Proteomic Investigation Uncovers Potential Targets and Target Sites of Pneumococcal Serine-Threonine Kinase StkP and Phosphatase PhpP
Cited by: 25
Author(s): Claudia Hirschfeld, Alejandro Gómez-Mejía, Jürgen Bartel, Christian Hentschker, Manfred Rohde, Sandra Maaß, Sven Hammerschmidt, Dörte Becher
Software Mentions: 2
Published: over 6 years ago

10.1111/apha.13496

Exercise‐dependent increases in protein synthesis are accompanied by chromatin modifications and increased MRTF‐SRF signalling
Cited by: 23
Author(s): Francesca Solagna, Leonardo Nogara, Kenneth A. Dyar, Franziska Greulich, Ashfaq Ali Mir, Clara Türk, Theresa Bock, Alessia Geremia, Martina Baraldo, Roberta Sartori, Jean Farup, N. Henriette Uhlenhaut, Kristian Vissing, Marcus Krüger, Bert Blaauw
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2014.00432

Characterization of the surfaceome of the metal-reducing bacterium Desulfotomaculum reducens
Cited by: 16
Author(s): Elena Dalla Vecchia, Paul Shao, Elena I. Suvorova, Diego Chiappe, Romain Hamelin, Rizlan Bernier‐Latmani
Software Mentions: 2
Published: about 12 years ago

10.3389/fmicb.2020.564350

Global Proteomic Analysis of Lysine Crotonylation in the Plant Pathogen Botrytis cinerea
Cited by: 7
Author(s): Ning Zhang, Zhenzhou Yang, Wenxing Liang, Mengjie Liu
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2019.00094

Combined Transcriptome and Proteome Analysis of RpoS Regulon Reveals Its Role in Spoilage Potential of Pseudomonas fluorescens
Cited by: 21
Author(s): Xiaoxiang Liu, Jun Xu, Junli Zhu, Peng Du, Aijun Sun
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2021.634366

The Role of Pseudo-Orthocaspase (SyOC) of Synechocystis sp. PCC 6803 in Attenuating the Effect of Oxidative Stress
Cited by: 3
Author(s): Saul Lema A, Marina Klemenčič, Franziska Völlmy, Maarten Altelaar, Christiane Funk
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2021.618566

Distinct Human Gut Microbial Taxonomic Signatures Uncovered With Different Sample Processing and Microbial Cell Disruption Methods for Metaproteomic Analysis
Cited by: 10
Author(s): Carmen García-Durán, Raquel Martínez-López, Inés Zapico, Enrique Pérez, Eduardo Romeu, Javier Arroyo, María Luisa Hernáez, Aida Pitarch, Lucía Monteoliva, Concha Gil
Software Mentions: 2
Published: about 5 years ago

10.1186/s12864-016-3432-5

Proteomics informed by transcriptomics for characterising active transposable elements and genome annotation in Aedes aegypti
Cited by: 52
Author(s): Kevin Maringer, Amjad Yousuf, Kate J Heesom, Jun Fan, David A. Lee, Ana Fernández-Sesma, Conrad Bessant, David A. Matthews, Andrew D. Davidson
Software Mentions: 2
Published: over 9 years ago

10.3389/fnmol.2021.623659

Targeted Quantification of Detergent-Insoluble RNA-Binding Proteins in Human Brain Reveals Stage and Disease Specific Co-aggregation in Alzheimer’s Disease
Cited by: 12
Author(s): Qi Guo, Eric B. Dammer, Maotian Zhou, Sean R. Kundinger, Marla Gearing, James J. Lah, Aĺlan I. Levey, Zhandong Liu, Nicholas T. Seyfried
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.643441

Comparative Analysis of Global Proteome and Lysine Acetylome Between Naive CD4+ T Cells and CD4+ T Follicular Helper Cells
Cited by: 2
Author(s): Ming Zhao, Sujie Jia, Xiaofei Gao, Hong Qiu, Ruifang Wu, Haijing Wu, Qianjin Lu
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2020.01981

Biogenesis of HLA Ligand Presentation in Immune Cells Upon Activation Reveals Changes in Peptide Length Preference
Cited by: 7
Author(s): Fabio Marino, Aikaterini Semilietof, Justine Michaux, HuiSong Pak, George Coukos, Markus Müller, Michal Bassani-Sternberg
Software Mentions: 2
Published: about 6 years ago

10.3389/fimmu.2020.00033

Molecular Signatures of Neuroinflammation Induced by αSynuclein Aggregates in Microglial Cells
Cited by: 47
Author(s): Satyapriya Sarkar, Eric B. Dammer, Emir Malovic, Abby L. Olsen, Syed Ali Raza, Tianwen Gao, Hailian Xiao, Danielle Oliver, Duc M. Duong, Valerie Joers, Nicholas T. Seyfried, Meixiang Huang, Thomas Kukar, Malú G. Tansey, Anumantha G. Kanthasamy, Srikant Rangaraju
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2020.565484

Prenatal Endotoxin Exposure Induces Fetal and Neonatal Renal Inflammation via Innate and Th1 Immune Activation in Preterm Pigs
Cited by: 8
Author(s): Tik Muk, Pingping Jiang, Allan Stensballe, Kerstin Skovgaard, Per Torp Sangild, Duc Ninh Nguyen
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12861-018-0177-1

Short term optical defocus perturbs normal developmental shifts in retina/RPE protein abundance
Cited by: 11
Author(s): Nina Riddell, Pierre Faou, Sheila G. Crewther
Software Mentions: 2
Published: about 8 years ago

10.3389/fimmu.2021.573266

Pneumolysin Is Responsible for Differential Gene Expression and Modifications in the Epigenetic Landscape of Primary Monocyte Derived Macrophages
Cited by: 5
Author(s): Joby Cole, Adrienn Angyal, Richard D. Emes, Tim Mitchell, Mark J. Dickman, David H. Dockrell
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2020.581070

Plasma Proteome Responses in Salmonid Fish Following Immunization
Cited by: 8
Author(s): Fiona K. Bakke, Milena Mira Monte, David Stead, Dwight R. Causey, Alex Douglas, Daniel J. Macqueen, Helen Dooley
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmed.2017.00159

Proteomics of Eosinophil Activation
Cited by: 6
Author(s): Deane F. Mosher, Emily M. Wilkerson, Keren B. Turton, Alexander S. Hebert, Joshua J. Coon
Software Mentions: 2
Published: almost 9 years ago

10.1016/j.molcel.2016.11.001

A SUMO-Dependent Protein Network Regulates Chromosome Congression during Oocyte Meiosis
Cited by: 66
Author(s): Federico Pelisch, Triin Tammsalu, Bin Wang, Ellis Jaffray, Anton Gartner, Ronald T. Hay
Software Mentions: 2
Published: over 9 years ago

10.3389/fgene.2020.551495

Systematic Identification of Hub Genes in Placenta Accreta Spectrum Based on Integrated Transcriptomic and Proteomic Analysis
Cited by: 5
Author(s): Bingnan Chen, Di Wang, Yue Bian, Jiapo Li, Tian Yang, Na Li, Chong Qiao
Software Mentions: 2
Published: about 6 years ago

10.3389/fimmu.2021.702359

PPE38-Secretion-Dependent Proteins of M. tuberculosis Alter NF-kB Signalling and Inflammatory Responses in Macrophages
Cited by: 3
Author(s): James Gallant, Tiaan Heunis, Caroline G. G. Beltran, Karin Schildermans, Sven C. M. Bruijns, Inge Mertens, Wilbert Bitter, Samantha L. Sampson
Software Mentions: 2
Published: about 5 years ago

10.1016/j.molcel.2019.08.005

Polyamines Control eIF5A Hypusination, TFEB Translation, and Autophagy to Reverse B Cell Senescence
Cited by: 189
Author(s): Hanlin Zhang, Ghada Alsaleh, Jack Feltham, Yizhe Sun, Gennaro Napolitano, Thomas Riffelmacher, P. David Charles, Lisa Frau, Philip Hublitz, Zhanru Yu, Shabaz Mohammed, Andrea Ballabio, Stefan Balabanov, Jane Mellor, Anna Katharina Simon
Software Mentions: 2
Published: almost 7 years ago

10.1042/BCJ20200309

Use of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signalling networks using SILAC-based phosphoproteomics
Cited by: 19
Author(s): Dominic P. Byrne, Christopher J. Clarke, Philip Brownridge, Anton Kalyuzhnyy, Simon Perkins, Amy E. Campbell, David Mason, Andrew R. Jones, Patrick A. Eyers
Software Mentions: 2
Published: about 6 years ago

10.1042/BCJ20200930

Development of a multiplexed targeted mass spectrometry assay for LRRK2-phosphorylated Rabs and Ser910/Ser935 biomarker sites
Cited by: 26
Author(s): Raja Sekhar Nirujogi, Francesca Tonelli, Matthew Taylor, Paweł Lis, Alexander Zimprich, Esther Sammler, Dario R. Alessi
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2020.616435

Multi-Omics Analysis of Diabetic Nephropathy Reveals Potential New Mechanisms and Drug Targets
Cited by: 16
Author(s): Qian Sha, Jinxiu Lyu, Meng Zhao, Haijuan Li, Mengzhe Guo, Qiang Sun
Software Mentions: 2
Published: almost 6 years ago

10.3389/fmicb.2021.725612

The Binary Toxin of Clostridioides difficile Alters the Proteome and Phosphoproteome of HEp-2 Cells
Cited by: 8
Author(s): Florian Stieglitz, Ralf Gerhard, Andreas Pich
Software Mentions: 2
Published: about 5 years ago

10.3389/fncel.2021.662035

Integrative Cell Type-Specific Multi-Omics Approaches Reveal Impaired Programs of Glial Cell Differentiation in Mouse Culture Models of DM1
Cited by: 10
Author(s): Anchel González-Barriga, Louison Lallemant, Diana Mihaela Dincã, Sandra Bráz, Hélène Polvèche, Paul Magneron, Cédric Pionneau, Aline Huguet-Lachon, Jean‐Baptiste Claude, Cérina Chhuon, Ida Chiara Guerrera, Cyril F. Bourgeois, Didier Auboeuf, Geneviève Gourdon, Mário Gomes‐Pereira
Software Mentions: 2
Published: over 5 years ago

10.1186/s12943-018-0890-1

Proteogenomic characterization and comprehensive integrative genomic analysis of human colorectal cancer liver metastasis
Cited by: 56
Author(s): Yu‐Shui Ma, Tao Huang, Xiaoming Zhong, Hongwei Zhang, Xianling Cong, Hong Xu, Gai‐Xia Lu, Fei Yu, Sheng Xue, Zhongwei Lv, Da Fu
Software Mentions: 2
Published: almost 8 years ago

10.3389/fcimb.2018.00145

The Loss of Expression of a Single Type 3 Effector (CT622) Strongly Reduces Chlamydia trachomatis Infectivity and Growth
Cited by: 14
Author(s): Mathilde M. Cossé, Michael L. Barta, Derek J. Fisher, Lena K. Oesterlin, Béatrice Niragire, Stéphanie Perrinet, Gaël A. Millot, P. Scott Hefty, Agathe Subtil
Software Mentions: 2
Published: over 8 years ago

10.3389/fendo.2019.00872

Dysregulation of the Mitochondrial Proteome Occurs in Mice Lacking Adiponectin Receptor 1
Cited by: 7
Author(s): Mark E Pepin, Christoph Koentges, Katharina Pfeil, Johannes Gollmer, Sophia Kersting, Sebastian Wiese, Michael M. Hoffmann, Katja E. Odening, Constantin von zur Mühlen, Philipp Diehl, Peter Stachon, Dennis Wolf, Adam R. Wende, Christoph Bode, Andreas Zirlik, Heiko Bugger
Software Mentions: 2
Published: almost 7 years ago

10.3389/fcimb.2017.00521

Immunomodulatory Effects of Amblyomma variegatum Saliva on Bovine Cells: Characterization of Cellular Responses and Identification of Molecular Determinants
Cited by: 12
Author(s): Valérie Rodrigues, Bernard Fernandez, Arthur Vercoutere, Léo Chamayou, Alexandre Andersen, Oana Vigy, Edith Demettre, Martial Séveno, Rosalie Aprelon, Ken Giraud-Girard, Frédéric Stachurski, Étienne Loire, Nathalie Vachiéry, Philippe Holzmüller
Software Mentions: 2
Published: over 8 years ago

10.1007/s00726-021-03006-7

Gamma-gliadin specific celiac disease antibodies recognize p31-43 and p57-68 alpha gliadin peptides in deamidation related manner as a result of cross-reaction
Cited by: 7
Author(s): Ádám Diós, Rita Elek, Ildikò Szabó, Szilvia Horváth, Judit Gyimesi, Róbert Király, Katharina Werkstetter, Sibylle Koletzko, László Fésüs, Ilma Rita Korponay-Szabó
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2020.544043

Comparative Transcriptional Profiling of Motor Neuron Disorder-Associated Genes in Various Human Cell Culture Models
Cited by: 8
Author(s): Stefan Hauser, Stefanie Schuster, Elena Heuten, Philip Höflinger, Jakob Admard, Yvonne Schelling, Ana Velić, Boris Maček, Stephan Ossowski, Lüdger Schöls
Software Mentions: 2
Published: almost 6 years ago

10.3389/fcimb.2020.00443

Investigating Non-sterilizing Cure in TB Patients at the End of Successful Anti-TB Therapy
Cited by: 20
Author(s): Caroline G. G. Beltran, Tiaan Heunis, James Gallant, Rouxjeane Venter, Nelita du Plessis, André G. Loxton, Matthias Trost, Jill Winter, Stephanus T. Malherbe, Bavesh D Kana, Gerhard Walzl
Software Mentions: 2
Published: about 6 years ago

10.3389/fendo.2019.00674

Glucocorticoid Treatment Leads to Aberrant Ion and Macromolecular Transport in Regenerating Zebrafish Fins
Cited by: 18
Author(s): Johannes R. Schmidt, Karina Geurtzen, Martin von Bergen, Kristin Schubert, Franziska Knopf
Software Mentions: 2
Published: almost 7 years ago

10.3390/foods9091147

An Artificial Intelligence Characterised Functional Ingredient, Derived from Rice, Inhibits TNF-α and Significantly Improves Physical Strength in an Inflammaging Population
Cited by: 13
Author(s): Kathy Kennedy, Brian Keogh, Cyril Lopez, Alessandro Adelfio, Brendan Molloy, Alish Kerr, Audrey Wall, Gaël Jalowicki, Thérèse A. Holton, Nora Khaldi
Software Mentions: 2
Published: about 6 years ago

10.3390/foods9091150

Living the Sweet Life: How Liquorilactobacillus hordei TMW 1.1822 Changes Its Behavior in the Presence of Sucrose in Comparison to Glucose
Cited by: 7
Author(s): Julia Bechtner, Christina Ludwig, Michael Kiening, Frank Jakob, Rudi F. Vogel
Software Mentions: 2
Published: about 6 years ago

10.3389/fbioe.2018.00019

Phosphoproteome of the Oleaginous Green Alga, Chlorella vulgaris UTEX 395, under Nitrogen-Replete and -Deplete Conditions
Cited by: 1
Author(s): Michael T. Guarnieri, Alida T. Gerritsen, Calvin A. Henard, Eric P. Knoshaug
Software Mentions: 2
Published: over 8 years ago

10.1186/s13229-017-0160-x

Developmental disruption of amygdala transcriptome and socioemotional behavior in rats exposed to valproic acid prenatally
Cited by: 41
Author(s): Chris Barrett, Thomas Hennessey, Katelyn M. Gordon, Steven J. Ryan, Morgan L. McNair, Kerry J. Ressler, Donald G. Rainnie
Software Mentions: 2
Published: about 9 years ago

10.1155/2013/275390

The Application of SILAC Mouse in Human Body Fluid Proteomics Analysis Reveals Protein Patterns Associated with IgA Nephropathy
Cited by: 10
Author(s): Shilin Zhao, Rongxia Li, Xiaoyan Cai, Wan-Jia Chen, Qingrun Li, Tao Xing, Zhu Wang, Y. Eugene Chen, Rong Zeng, Deng Yueyi
Software Mentions: 2
Published: over 13 years ago

10.1096/fj.202002484R

Sperm proteins and cancer‐testis antigens are released by the seminiferous tubules in mice and men
Cited by: 14
Author(s): Liza O’Donnell, Diane Rebourcet, Laura F. Dagley, Raouda Sgaier, Giuseppe Infusini, Peter J. O’Shaughnessy, Frédéric Chalmel, Daniela Fietz, W. Weidner, Julien M. D. Legrand, Robin M. Hobbs, Robert I McLachlan, Andrew I. Webb, Adrian Pilatz, Thorsten Diemer, Lee B. Smith, Peter G. Stanton
Software Mentions: 2
Published: over 5 years ago

10.1038/s41426-018-0210-2

Associating H2O2-and NO-related changes in the proteome of Mycobacterium smegmatis with enhanced survival in macrophage
Cited by: 9
Author(s): Naadir Ganief, Jessica Sjouerman, Claudia Albeldas, Kehilwe C. Nakedi, Clemens Hermann, Bridget Calder, Jonathan M. Blackburn, Nelson C. Soares
Software Mentions: 2
Published: almost 8 years ago

10.7717/peerj.2433

Metaproteomics of saliva identifies human protein markers specific for individuals with periodontitis and dental caries compared to orally healthy controls
Cited by: 53
Author(s): Daniel Belstrøm, Rosa Rakownikow Jersie-Christensen, David Lyon, Christian Damgaard, Lars Juhl Jensen, Palle Holmstrup, Jesper V. Olsen
Software Mentions: 2
Published: about 10 years ago

10.1186/s13072-021-00382-y

Rbm10 facilitates heterochromatin assembly via the Clr6 HDAC complex
Cited by: 4
Author(s): Martina Weigt, Qingsong Gao, Hyoju Ban, Haijin He, Guido Mastrobuoni, Stefan Kempa, Wei Chen, Fēi Li
Software Mentions: 2
Published: over 5 years ago

10.15252/embr.202052289

Role of FAM134 paralogues in endoplasmic reticulum remodeling, ER‐phagy, and Collagen quality control
Cited by: 42
Author(s): Alessio Reggio, Viviana Buonomo, Rayene Berkane, Ramachandra M Bhaskara, Mariana Edith Tellechea, Ilaria Peluso, Elena Polishchuk, Giorgia Di Lorenzo, Carmine Cirillo, Marianna Esposito, Adeela Hussain, Antje K. Huebner, Christian A. Hübner, Carmine Settembre, Gerhard Hummer, Paolo Grumati, Alexandra Stolz
Software Mentions: 2
Published: about 5 years ago

10.1186/s40478-019-0736-0

Transcriptome and proteome profiling of neural stem cells from the human subventricular zone in Parkinson’s disease
Cited by: 27
Author(s): Vanessa Donega, Saskia M. Burm, Miriam E. van Strien, Emma J. van Bodegraven, Iryna Paliukhovich, Hanneke Geut, Wilma D. J. van de Berg, Ka Wan Li, August B. Smit, Onur Basak, Elly M. Hol
Software Mentions: 2
Published: over 7 years ago

10.1186/s13072-019-0265-x

Citrullination of HP1γ chromodomain affects association with chromatin
Cited by: 17
Author(s): Meike Wiese, Andrew J. Bannister, Srinjan Basu, Wayne Boucher, Kai J. Wohlfahrt, Maria A. Christophorou, Michael L. Nielsen, David Klenerman, Ernest D. Laue, Tony Kouzarides
Software Mentions: 2
Published: over 7 years ago

10.3389/fmicb.2019.02596

Multiomic Fermentation Using Chemically Defined Synthetic Hydrolyzates Revealed Multiple Effects of Lignocellulose-Derived Inhibitors on Cell Physiology and Xylose Utilization in Zymomonas mobilis
Cited by: 13
Author(s): Yaoping Zhang, Jessica M. Vera, Dan Xie, Jose Serate, Edward L. Pohlmann, John N. Russell, Alexander S. Hebert, Joshua J. Coon, Trey K. Sato, Robert Landick
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12953-018-0139-3

In-depth proteomic analyses of Haliotis laevigata (greenlip abalone) nacre and prismatic organic shell matrix
Cited by: 25
Author(s): Karlheinz Mann, Nicolas Cerveau, Meike Gummich, Monika Fritz, Matthias Mann, Daniel J. Jackson
Software Mentions: 2
Published: over 8 years ago

10.15252/emmm.201910880

Phosphorylation of TFCP2L1 by CDK1 is required for stem cell pluripotency and bladder carcinogenesis
Cited by: 43
Author(s): Jinbeom Heo, Byeong‐Joo Noh, Seungun Lee, Hye‐Yeon Lee, YongHwan Kim, Jisun Lim, Hyein Ju, Hwan Yeul Yu, Chae‐Min Ryu, Peter Cw Lee, Hee Jong Jeong, Yumi Oh, Kyunggon Kim, Sangjin Kim, Jaekyoung Son, Bumsik Hong, Jong Soo Kim, Yong Mee Cho, Dong‐Myung Shin
Software Mentions: 2
Published: almost 7 years ago

10.12688/wellcomeopenres.15421.1

Proteome turnover in the bloodstream and procyclic forms of Trypanosoma brucei measured by quantitative proteomics
Cited by: 26
Author(s): Michele Tinti, Maria Lucia S. Güther, Thomas W. M. Crozier, Angus I. Lamond, Michael A. J. Ferguson
Software Mentions: 2
Published: almost 7 years ago

10.15252/embj.2019102731

CLUH granules coordinate translation of mitochondrial proteins with mTORC1 signaling and mitophagy
Cited by: 36
Author(s): David Pla‐Martín, Désirée Schatton, Janica L. Wiederstein, Marie‐Charlotte Marx, Salim Khiati, Marcus Krüger, Elena I. Rugarli
Software Mentions: 2
Published: over 6 years ago

10.15252/embj.2020104419

Cyclin A triggers Mitosis either via the Greatwall kinase pathway or Cyclin B
Cited by: 47
Author(s): Nadia Hégarat, Adrijana Crncec, Maria F. Suarez Peredo Rodriguez, Fabio Echegaray Iturra, Yan Gu, Oliver Busby, Paul Lang, Alexis R. Barr, Chris Bakal, Masato T. Kanemaki, Angus I. Lamond, Béla Novák, Tony Ly, Helfrid Hochegger
Software Mentions: 2
Published: over 6 years ago

10.1242/dmm.033092

Fetal articular cartilage regeneration versus adult fibrocartilaginous repair: secretome proteomics unravels molecular mechanisms in an ovine model
Cited by: 16
Author(s): Iris Ribitsch, Rupert L. Mayer, Monika Egerbacher, Simone Gabner, Maciej M. Kańduła, Julie Rosser, Eva Haltmayer, Ulrike Auer, Sinan Gültekin, Johann Huber, Andrea Bileck, David P. Kreil, Christopher Gerner, Florien Jenner
Software Mentions: 2
Published: about 8 years ago

10.1016/j.devcel.2019.09.018

N-WASP Control of LPAR1 Trafficking Establishes Response to Self-Generated LPA Gradients to Promote Pancreatic Cancer Cell Metastasis
Cited by: 35
Author(s): Amélie Juin, Heather J. Spence, Kirsty J. Martin, Ewan J. McGhee, Matthew Neilson, Marie F.A. Cutiongco, Nikolaj Gadegaard, Gillian Mackay, Loïc Fort, Sérgio Lilla, Gabriela Kalna, Peter A. Thomason, Yvette W. H. Koh, Jim C. Norman, Robert H. Insall, Laura M. Machesky
Software Mentions: 2
Published: almost 7 years ago

10.1016/j.dib.2015.08.010

Dataset from the global phosphoproteomic mapping of early mitotic exit in human cells
Cited by: 8
Author(s): Samuel Rogers, Rachael A. McCloy, Benjamin L. Parker, Rima Chaudhuri, Velimir Gayevskiy, Nolan J. Hoffman, D. Neil Watkins, Roger J. Daly, David E. James, Andrew Burgess
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.devcel.2019.04.003

Reductional Meiosis I Chromosome Segregation Is Established by Coordination of Key Meiotic Kinases
Cited by: 27
Author(s): Stefan Galander, Rachael Barton, Weronika E. Borek, Christos Spanos, David A. Kelly, Daniel Robertson, Juri Rappsilber, Adèle L. Marston
Software Mentions: 2
Published: over 7 years ago

10.1111/cobi.12695

A generalized approach for producing, quantifying, and validating citizen science data from wildlife images
Cited by: 186
Author(s): Alexandra Swanson, Margaret Kosmala, Chris Lintott, Craig Packer
Software Mentions: 2
Published: over 10 years ago

10.1038/s42003-021-01797-9

Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics
Cited by: 38
Author(s): Chia‐Feng Tsai, Peng Fei Zhang, David Scholten, Kendall J. Martin, Yiting Wang, Rui Zhao, William B. Chrisler, Dhwani Patel, Maowei Dou, Yuzhi Jia, Carolina Reduzzi, Xia Liu, Ronald J. Moore, Kristin Burnum-Johnson, Miao-Hsia Lin, Chuan‐Chih Hsu, Jon Jacobs, Jacob Kagan, Sudhir Srivastava, Karin D. Rodland, H. Steven Wiley, Weijun Qian, Richard Smith, Ying Zhu, Massimo Cristofanilli, Tao Liu, Huiping Liu, Tujin Shi
Software Mentions: 2
Published: over 5 years ago

10.1038/s42003-021-02364-y

HLA-B and cysteinylated ligands distinguish the antigen presentation landscape of extracellular vesicles
Cited by: 8
Author(s): Julia Bauzá‐Martinez, Albert J. R. Heck, Wei Wu
Software Mentions: 2
Published: about 5 years ago

10.1242/dmm.045096

CHIP mutations affect the heat shock response differently in human fibroblasts and iPSC-derived neurons
Cited by: 5
Author(s): Stefanie Schuster, Elena Heuten, Ana Velić, Jakob Admard, Matthis Synofzik, Stephan Ossowski, Boris Maček, Stefan Hauser, Lüdger Schöls
Software Mentions: 2
Published: almost 6 years ago

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Papers Mentioning Andromeda 1,724