cran: Andromeda | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0058456

Cell Cycle-Regulated Protein Abundance Changes in Synchronously Proliferating HeLa Cells Include Regulation of Pre-mRNA Splicing Proteins
Cited by: 19
Author(s): Karen R. Lane, Yu Yoshida, Patrick E. Lackey, Xian Chen, William F. Marzluff, Jeanette Gowen Cook
Software Mentions: 1
Published: over 11 years ago

10.1074/mcp.M116.061986

Quantitative Protein Profiling of Chlamydia trachomatis Growth Forms Reveals Defense Strategies Against Tryptophan Starvation
Cited by: 25
Author(s): Ole Østergaard, Frank Follmann, Anja Olsen, Niels H. H. Heegaard, Peter Andersen, Ida Rosenkrands
Software Mentions: 1
Published: almost 8 years ago

10.1074/mcp.M116.062539

The Primary Effect on the Proteome of ARID1A-mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post-transcriptional Level
Cited by: 21
Author(s): Aaron R. Goldman, Benjamin G. Bitler, Zachary T. Schug, José R. Conejo-Garcia, Rugang Zhang, David W. Speicher
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0226235

Heterologous expression of a glycosyl hydrolase and cellular reprogramming enable Zymomonas mobilis growth on cellobiose
Cited by: 5
Author(s): Nagendra Prasad Kurumbang, Jessica M. Vera, Alexander S. Hebert, Joshua J. Coon, Robert Landick
Software Mentions: 1
Published: over 4 years ago

10.1074/mcp.RA118.000767

Rapid Remodeling of the Host Epithelial Cell Proteome by the Listeriolysin O (LLO) Pore-forming Toxin
Cited by: 24
Author(s): Julien Karim Malet, Francis Impens, Frédéric A. Carvalho, Mélanie Hamon, Pascale Cossart, David Ribet
Software Mentions: 1
Published: over 6 years ago

10.3390/biom11081094

What Antarctic Plants Can Tell Us about Climate Changes: Temperature as a Driver for Metabolic Reprogramming
Cited by: 14
Author(s): Laura Bertini, Flora Cozzolino, Sara Proietti, Gaia Salvatore Falconieri, Ilaria Iacobucci, Rosanna Salvia, Patrizia Falabella, Maria Monti, Carla Caruso
Software Mentions: 1
Published: over 3 years ago

10.3390/antibiotics10050501

Proteomic Charting of Imipenem Adaptive Responses in a Highly Carbapenem Resistant Clinical Enterobacter roggenkampii Isolate
Cited by: 1
Author(s): Suruchi Nepal, Sandra Maaß, Stefano Grasso, Francis M. Cavallo, Jürgen Bartel, Dörte Becher, Erik Bathoorn, Jan Maarten van Dijl
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0050545

Proteomic Investigations of Lysine Acetylation Identify Diverse Substrates of Mitochondrial Deacetylase Sirt3
Cited by: 129
Author(s): E-ri Maria Sol, Sebastian Wagner, Brian T. Weinert, Amit Kumar, Hyun‐Seok Kim, Chu‐Xia Deng, Chunaram Choudhary
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0039494

An Improvement of Shotgun Proteomics Analysis by Adding Next-Generation Sequencing Transcriptome Data in Orange
Cited by: 15
Author(s): Jiaping Song, Rong Sun, Dazhi Li, Fengji Tan, Xin Li, Pingping Jiang, X. Huang, Liang Lin, Zhiming Deng, Yong Zhang
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0025884

A SILAC-Based Screen for Methyl-CpG Binding Proteins Identifies RBP-J as a DNA Methylation and Sequence-Specific Binding Protein
Cited by: 49
Author(s): Stefanie J. J. Bartels, Cornelia G. Spruijt, Arie B. Brinkman, Pascal W.T.C. Jansen, Michiel Vermeulen, Hendrik G. Stunnenberg
Software Mentions: 1
Published: about 13 years ago

10.1074/mcp.RA119.001777

PolySTest: Robust Statistical Testing of Proteomics Data with Missing Values Improves Detection of Biologically Relevant Features
Cited by: 18
Author(s): Veit Schwämmle, Christina E Hagensen, Adelina Rogowska-Wrzesińska, Ole N. Jensen
Software Mentions: 1
Published: over 4 years ago

10.3390/biom11081230

Epithelial Cell Line Derived from Endometriotic Lesion Mimics Macrophage Nervous Mechanism of Pain Generation on Proteome and Metabolome Levels
Cited by: 4
Author(s): Benjamin Neuditschko, Marlene Leibetseder, Julia Brunmair, Gerhard Hagn, Lukas Skos, Marlene C. Gerner, Samuel M. Meier‐Menches, Iveta Yotova, Christopher Gerner
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0139591

Malaria Parasite-Infected Erythrocytes Secrete PfCK1, the Plasmodium Homologue of the Pleiotropic Protein Kinase Casein Kinase 1
Cited by: 29
Author(s): Dominique Dorin‐Semblat, Claudia Demarta‐Gatsi, Romain Hamelin, Florence Armand, Teresa G. Carvalho, Marc Moniatte, Christian Doerig
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0036619

Comparative SILAC Proteomic Analysis of Trypanosoma brucei Bloodstream and Procyclic Lifecycle Stages
Cited by: 149
Author(s): Michael D. Urbaniak, Maria Lucia S. Güther, Michael A. J. Ferguson
Software Mentions: 1
Published: over 12 years ago

10.3390/biom11010113

Eicosanoid Content in Fetal Calf Serum Accounts for Reproducibility Challenges in Cell Culture
Cited by: 11
Author(s): Laura Niederstaetter, Benjamin Neuditschko, Julia Brunmair, Lukas Janker, Andrea Bileck, Giorgia Del Favero, Christopher Gerner
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pone.0233639

Urinary proteomics links keratan sulfate degradation and lysosomal enzymes to early type 1 diabetes
Cited by: 6
Author(s): Julie A.D. Van, Sergi Clotet-Freixas, Anne-Christin Hauschild, Ihor Batruch, Igor Jurišica, Yesmino Elia, Farid H. Mahmud, Etienne Sochett, Eleftherios P. Diamandis, James W. Scholey, Ana Konvalinka
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0115228

HSP90 Inhibition Enhances Antimitotic Drug-Induced Mitotic Arrest and Cell Death in Preclinical Models of Non-Small Cell Lung Cancer
Cited by: 15
Author(s): Brenda O’Connell, Katie O’Callaghan, Bonnie Tillotson, Mark Douglas, Nafeeza Hafeez, Kip A. West, Howard M. Stern, Janid A. Ali, Paul S. Changelian, Christian Fritz, Vito J. Palombella, Karen McGovern, Jeffery L. Kutok
Software Mentions: 1
Published: almost 10 years ago

10.1074/mcp.RA118.001043

Whole Proteome Profiling of N-Myristoyltransferase Activity and Inhibition Using Sortase A
Cited by: 19
Author(s): Andrea Goya Grocin, Remigiusz A. Serwa, Julia Morales-Sanfrutos, Markus Ritzefeld, Edward W. Tate
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0193677

Mobile phone specific electromagnetic fields induce transient DNA damage and nucleotide excision repair in serum-deprived human glioblastoma cells
Cited by: 13
Author(s): Halh Al-Serori, Franziska Ferk, Michael Kundi, Andrea Bileck, Christopher Gerner, Miroslav Mišík, Armen Nersesyan, Monika Waldherr, Manuel Murbach, Tamara T. Lah, Christel Herold‐Mende, Andrew Collins, Siegfried Knasmüller
Software Mentions: 1
Published: over 6 years ago

10.1074/mcp.RA120.002370

Proteomic Identification of Coxiella burnetii Effector Proteins Targeted to the Host Cell Mitochondria During Infection
Cited by: 9
Author(s): Laura F. Fielden, Nichollas E. Scott, Catherine S Palmer, Chen Ai Khoo, Hayley J Newton, Diana Stojanovski
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pone.0123403

Comparative Proteome Analysis of Multi-Layer Cocoon of the Silkworm, Bombyx mori
Cited by: 33
Author(s): Yan Zhang, Ping Zhao, Dandan Wang, Pengchao Guo, Xiaomeng Guo, Qianru Song, Weiwei Zhang, Qingyou Xia
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0228893

Changes in the proteome of sea urchin Paracentrotus lividus coelomocytes in response to LPS injection into the body cavity
Cited by: 7
Author(s): Luigi Inguglia, Marco Chiaramonte, Vincenzo Arizza, Lilla Turiák, Károly Vékey, László Drahos, Rosa Pitonzo, Giuseppe Avellone, Vita Di Stefano
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0152231

A Proteomics Approach to Identify New Putative Cardiac Intercalated Disk Proteins
Cited by: 21
Author(s): Siddarth Soni, A. Raaijmakers, Linsey M. Raaijmakers, Johan Damen, Leonie van Stuijvenberg, Marc A. Vos, Albert J. R. Heck, Toon A.B. van Veen, Arjen Scholten
Software Mentions: 1
Published: over 8 years ago

10.1074/mcp.RA120.002231

Slight Deuterium Enrichment in Water Acts as an Antioxidant: Is Deuterium a Cell Growth Regulator?
Cited by: 9
Author(s): Xuepei Zhang, Jin Wang, Roman A. Zubarev
Software Mentions: 1
Published: about 4 years ago

10.3390/biomedicines8080246

Mass-Spectrometry Based Proteome Comparison of Extracellular Vesicle Isolation Methods: Comparison of ME-kit, Size-Exclusion Chromatography, and High-Speed Centrifugation
Cited by: 30
Author(s): Anders Askeland, Anne Borup, Ole Østergaard, Jesper V. Olsen, Sigrid Marie Lund, Gunna Christiansen, Søren Risom Kristensen, Niels H. H. Heegaard, Shona Pedersen
Software Mentions: 1
Published: over 4 years ago

10.3390/biomedicines9081013

Regulation of the HTRA2 Protease Activity by an Inhibitory Antibody-Derived Peptide Ligand and the Influence on HTRA2-Specific Protein Interaction Networks in Retinal Tissues
Cited by: 7
Author(s): Carsten Schmelter, Kristian Nzogang Fomo, Natarajan Perumal, Norbert Pfeiffer, Franz H. Grus
Software Mentions: 1
Published: over 3 years ago

10.3390/antibiotics9110757

Putative Antimicrobial Peptides of the Posterior Salivary Glands from the Cephalopod Octopus vulgaris Revealed by Exploring a Composite Protein Database
Cited by: 6
Author(s): Daniela Almeida, Dany Domínguez-Pérez, Ana Lemos de Matos, Guillermı́n Agüero-Chapin, Hugo Osório, Vı́tor Vasconcelos, Alexandre Campos, Agostinho Antunes
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pone.0139083

Proteomic Analysis of the Ubiquitin Landscape in the Drosophila Embryonic Nervous System and the Adult Photoreceptor Cells
Cited by: 25
Author(s): Juanma Ramírez, Martínez Amador, Benoît Lectez, So Young Lee, Maribel Franco, Rosa Barrio, Gunnar Dittmar, Ugo Mayor
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0118974

Metabolic Remodeling in Moderate Synchronous versus Dyssynchronous Pacing-Induced Heart Failure: Integrated Metabolomics and Proteomics Study
Cited by: 37
Author(s): Junko Shibayama, Tatiana Yuzyuk, James E. Cox, Aman Makaju, Matt Miller, Justin G. Lichter, Hui Li, Jane D Leavy, Sarah Franklin, Zaĭtsev Av
Software Mentions: 1
Published: over 9 years ago

10.1074/mcp.RA120.002123

The Neuroproteomic Basis of Enhanced Perception and Processing of Brood Signals That Trigger Increased Reproductive Investment in Honeybee (Apis mellifera) Workers
Cited by: 9
Author(s): Xufeng Zhang, Han Hu, Bin Han, Qiaohong Wei, Lifeng Meng, Fan Wu, Fang Yu, Feng Mao, Chuan Ma, Olav Rueppell, Jianke Li
Software Mentions: 1
Published: about 4 years ago

10.3390/biomedicines8080249

Novel Bradykinin-Potentiating Peptides and Three-Finger Toxins from Viper Venom: Combined NGS Venom Gland Transcriptomics and Quantitative Venom Proteomics of the Azemiops feae Viper
Cited by: 16
Author(s): Vladislav V. Babenko, Rustam H. Ziganshin, Christoph Weise, Igor A. Dyachenko, Elvira R. Shaykhutdinova, А. Н. Мурашев, Maxim N. Zhmak, Vladislav G. Starkov, Anh Hoang, Victor I. Tsetlin, Yuri N. Utkin
Software Mentions: 1
Published: over 4 years ago

10.1074/mcp.RA118.000652

Doxorubicin-induced DNA Damage Causes Extensive Ubiquitination of Ribosomal Proteins Associated with a Decrease in Protein Translation*
Cited by: 25
Author(s): Vincentius A. Halim, Iraia García-Santisteban, Daniël O. Warmerdam, Bram van den Broek, Albert J. R. Heck, Shabaz Mohammed, René H. Medema
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0218374

Enhanced trypsin on a budget: Stabilization, purification and high-temperature application of inexpensive commercial trypsin for proteomics applications
Cited by: 26
Author(s): Søren Heissel, Sigurd J. Frederiksen, Jakob Bunkenborg, Peter Højrup
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0166494

Proteomic Signatures of Thymomas
Cited by: 8
Author(s): Linan Wang, Owen E. Branson, Konstantin Shilo, Charles L. Hitchcock, Michael A. Freitas
Software Mentions: 1
Published: about 8 years ago

10.1074/mcp.M114.047407

The Impact II, a Very High-Resolution Quadrupole Time-of-Flight Instrument (QTOF) for Deep Shotgun Proteomics *
Cited by: 142
Author(s): Scarlet Beck, Annette Michalski, Oliver Raether, Markus Lubeck, Stephanie Kaspar, Niels Goedecke, Carsten Baessmann, Daniel Hornburg, Florian Meier, Igor Paron, Nils A. Kulak, Juergen Cox, Matthias Mann
Software Mentions: 1
Published: over 9 years ago

10.3390/biomedicines9091145

Transgelin Contributes to a Poor Response of Metastatic Renal Cell Carcinoma to Sunitinib Treatment
Cited by: 3
Author(s): Pavla Bouchalová, Jindřich Beránek, Petr Lapčík, David Potěšil, Ján Podhorec, Alexandr Poprach, Pavel Bouchal
Software Mentions: 1
Published: about 3 years ago

10.1186/1471-2164-12-358

Identification of alternative splice variants in Aspergillus flavus through comparison of multiple tandem MS search algorithms
Cited by: 12
Author(s): Kung-Yen Chang, David C. Muddiman
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0213469

Analyzing bioactive effects of the minor hop compound xanthohumol C on human breast cancer cells using quantitative proteomics
Cited by: 22
Author(s): Simon Roehrer, Verena Stork, Christina Ludwig, Mirjana Minceva, Jürgen Behr
Software Mentions: 1
Published: over 5 years ago

10.1074/mcp.TIR117.000383

High-throughput and Sensitive Immunopeptidomics Platform Reveals Profound Interferonγ-Mediated Remodeling of the Human Leukocyte Antigen (HLA) Ligandome
Cited by: 146
Author(s): Chloé Chong, Fabio Marino, HuiSong Pak, Julien Racle, Roy Thomas Daniel, Markus Müller, David Gfeller, George Coukos, Michal Bassani-Sternberg
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0219932

Quantitative proteomics reveals TMOD1-related proteins associated with water balance regulation
Cited by: 4
Author(s): Wenjun Wang, Dong Xu, Liang Zhong, Wenxi Zhang, Jiancheng Kang, Jing Zhou, Weibo Ka, Dawei Sun, Xue Xia, Lide Xie, Weijuan Yao
Software Mentions: 1
Published: over 5 years ago

10.1074/mcp.TIR119.001560

Sensitive Determination of Proteolytic Proteoforms in Limited Microscale Proteome Samples
Cited by: 66
Author(s): Samuel Weng, Fatih Demir, Enes K. Ergin, Sabrina Dirnberger, Anuli Uzozie, Domenic Tuscher, Lorenz Nierves, Janice Tsui, Pitter F. Huesgen, Philipp F. Lange
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0253254

Influence of collagen and some proteins on gel properties of jellyfish gelatin
Cited by: 15
Author(s): Artima Lueyot, Vilai Rungsardthong, Savitri Vatanyoopaisarn, Pokkwan Hutangura, Benjamaporn Wonganu, Pisit Wongsa‐Ngasri, Sawanya Charoenlappanit, Sittiruk Roytrakul, Benjawan Thumthanaruk
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0215005

Proteomic profiling of ascidians as a tool for biomonitoring marine environments
Cited by: 8
Author(s): Zafrir Kuplik, Lion Novak, Noa Shenkar
Software Mentions: 1
Published: over 5 years ago

10.1074/mcp.RA119.001546

The Secretome Profiling of a Pediatric Airway Epithelium Infected with hRSV Identified Aberrant Apical/Basolateral Trafficking and Novel Immune Modulating (CXCL6, CXCL16, CSF3) and Antiviral (CEACAM1) Proteins
Cited by: 15
Author(s): Olivier Touzelet, Lindsay Broadbent, Stuart D. Armstrong, Waleed Aljabr, Elaine Cloutman-Green, Ultan F. Power, Julian A. Hiscox
Software Mentions: 1
Published: over 4 years ago

10.1155/2019/3689091

Mass Spectrometry Amyloid Typing Is Reproducible across Multiple Organ Sites
Cited by: 15
Author(s): Dušan Holub, Pavla Flodrová, Tomáš Pika, Patrik Flodr, Marián Hajdúch, Petr Džubák
Software Mentions: 1
Published: almost 6 years ago

10.3390/antibiotics8040248

Proteomic and Metabolomic Analyses of a Tea-Tree Oil-Selected Staphylococcus aureus Small Colony Variant
Cited by: 4
Author(s): Nathanial Torres, Steven D. Hartson, Janet Rogers, John E. Gustafson
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0166306

Enhanced Detection of Low-Abundance Human Plasma Proteins by Integrating Polyethylene Glycol Fractionation and Immunoaffinity Depletion
Cited by: 20
Author(s): Zhao Liu, ST Fan, Haipeng Liu, Jia Yu, Rui Qiao, Mei Zhou, Yongtao Yang, Jian Zhou, Peng Xie
Software Mentions: 1
Published: about 8 years ago

10.1016/j.mcpro.2021.100082

A New Parallel High-Pressure Packing System Enables Rapid Multiplexed Production of Capillary Columns
Cited by: 11
Author(s): Johannes B. Müller-Reif, Fynn M. Hansen, Lisa Schweizer, Peter V. Treit, Philipp Geyer, Matthias Mann
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pone.0126694

Proteomic Investigation of the Response of Enterococcus faecalis V583 when Cultivated in Urine
Cited by: 22
Author(s): Magnus Ø. Arntzen, Ingrid Lea Karlskås, Morten Skaugen, Vincent G. H. Eijsink, Geir Mathiesen
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0174431

Insulin and diet-induced changes in the ubiquitin-modified proteome of rat liver
Cited by: 11
Author(s): Shilpa R. Nagarajan, Amanda E. Brandon, Jessie McKenna, Harrison C. Shtein, Thinh Q. Nguyen, Eurwin Suryana, Philip Poronnik, Gregory J. Cooney, Darren N. Saunders, Andrew J. Hoy
Software Mentions: 1
Published: over 7 years ago

10.1074/mcp.M116.064261

Proteome and Secretome Analysis Reveals Differential Post-transcriptional Regulation of Toll-like Receptor Responses
Cited by: 25
Author(s): Marijke Koppenol-Raab, Virginie Sjoelund, Nathan P. Manes, Rachel A. Gottschalk, Bhaskar Dutta, Zachary Benet, Iain D. C. Fraser, Aleksandra Nita‐Lazar
Software Mentions: 1
Published: over 7 years ago

10.1155/2019/7052456

Label-Free LC-MS/MS Proteomics Analyses Reveal Proteomic Changes Accompanying<i>MSTN</i>KO in C2C12 Cells
Cited by: 6
Author(s): Lamei Wang, Yu Huang, Xiaolong Wang
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0148407

Circular RNAs Co-Precipitate with Extracellular Vesicles: A Possible Mechanism for circRNA Clearance
Cited by: 291
Author(s): Erika Lasda, Roy Parker
Software Mentions: 1
Published: almost 9 years ago

10.1074/mcp.RA120.002152

Novel Proteome Extraction Method Illustrates a Conserved Immunological Signature of MSI-H Colorectal Tumors
Cited by: 0
Author(s): E Vainer, Juliane Kania-Almog, Ghadeer Zatara, Yishai Levin, Gilad W. Vainer
Software Mentions: 1
Published: about 4 years ago

10.1155/2019/3950628

Quantitative Proteomic Analysis Reveals the Deregulation of Nicotinamide Adenine Dinucleotide Metabolism and CD38 in Inflammatory Bowel Disease
Cited by: 47
Author(s): Longgui Ning, Siyu Guo, Zeyu Sun, Fenming Zhang, Chengfu Xu, Xinhe Lou, Sha Li, Haojie Du, Hongtan Chen, Guofan Xu
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pntd.0005250

Characterisation of Antigen B Protein Species Present in the Hydatid Cyst Fluid of Echinococcus canadensis G7 Genotype
Cited by: 16
Author(s): Ana Maite Folle, Eduardo S. Kitano, Analı́a Lima, Magdalena Gil, Marcela Alejandra Cucher, Gustavo Mourglia‐Ettlin, Leo Kei Iwai, Mara Cecília Rosenzvit, Carlos Batthyány, Ana Maria da Costa Ferreira
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pntd.0006045

Quantitative label-free proteomic analysis of human urine to identify novel candidate protein biomarkers for schistosomiasis
Cited by: 22
Author(s): Olugbenga Samson Onile, Bridget Calder, Nelson C. Soares, Chiaka I. Anumudu, Jonathan M. Blackburn
Software Mentions: 1
Published: about 7 years ago

10.1074/mcp.TIR118.000900

Online Parallel Accumulation–Serial Fragmentation (PASEF) with a Novel Trapped Ion Mobility Mass Spectrometer
Cited by: 524
Author(s): Florian Meier, Andreas David Brunner, Scarlet Koch, Heiner Koch, Markus Lubeck, Michael Krause, Niels Goedecke, Jens Decker, Thomas Kosinski, Melvin A. Park, Nicolai Bache, Ole Hoerning, Jürgen Cox, Oliver Räther, Matthias Mann
Software Mentions: 1
Published: almost 6 years ago

10.1155/2014/916212

Power of Proteomics in Linking Oxidative Stress and Female Infertility
Cited by: 73
Author(s): Sajal Gupta, Jana Ghulmiyyah, Rakesh K. Sharma, Jessica El Halabi, Ashok Agarwal
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pntd.0006090

Quantitative proteomic analysis of amastigotes from Leishmania (L.) amazonensis LV79 and PH8 strains reveals molecular traits associated with the virulence phenotype
Cited by: 20
Author(s): Eloiza de Rezende, Rebeca Kawahara, Maurício Scavassini Peña, Giuseppe Palmisano, Beatriz S. Stolf
Software Mentions: 1
Published: almost 7 years ago

10.1074/mcp.O116.065136

Loss-less Nano-fractionator for High Sensitivity, High Coverage Proteomics
Cited by: 157
Author(s): Nils A. Kulak, Philipp Geyer, Matthias Mann
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pntd.0007651

A BONCAT-iTRAQ method enables temporally resolved quantitative profiling of newly synthesised proteins in Leishmania mexicana parasites during starvation
Cited by: 10
Author(s): Karunakaran A. Kalesh, Paul W. Denny
Software Mentions: 1
Published: almost 5 years ago

10.1074/mcp.RA120.002301

Interspecies Differences in Proteome Turnover Kinetics Are Correlated With Life Spans and Energetic Demands
Cited by: 33
Author(s): Kyle Swovick, Denis Firsanov, Kevin Welle, Jennifer R. Hryhorenko, John Pierce Wise, Craig George, Todd Sformo, Andrei Seluanov, Vera Gorbunova, Sina Ghaemmaghami
Software Mentions: 1
Published: almost 4 years ago

10.1016/j.biomaterials.2018.05.032

Neighboring cells override 3D hydrogel matrix cues to drive human MSC quiescence
Cited by: 33
Author(s): Sandra Reis Ferreira, Peter Faull, Alexis J. Seymour, Tracy T. L. Yu, Sandra Loaiza, Holger W. Auner, Ambrosius P. Snijders, Eileen Gentleman
Software Mentions: 1
Published: about 6 years ago

10.1186/s12864-020-07365-5

Proteome-wide and lysine crotonylation profiling reveals the importance of crotonylation in chrysanthemum (Dendranthema grandiforum) under low-temperature
Cited by: 11
Author(s): Ping Lin, Huiru Bai, Ling He, Qiuxiang Huang, Qin-han Zeng, Yuanzhi Pan, Beibei Jiang, Fan Zhang, Lei Zhang, Qinglin Liu
Software Mentions: 1
Published: almost 4 years ago

10.3390/antibiotics10020116

Staphylococcus aureus Interferes with Streptococci Spatial Distribution and with Protein Expression of Species within a Polymicrobial Oral Biofilm
Cited by: 7
Author(s): Etyene Schnurr, Pune Nina Paqué, Thomas Attin, Paolo Nanni, Jonas Grossmann, Silva Holtfreter, Barbara M. Bröker, Christian Köhler, Binh An Diep, Apoena de Aguiar Ribeiro, Thomas Thurnheer
Software Mentions: 1
Published: almost 4 years ago

10.1186/s40478-020-00943-4

Transmission of ALS pathogenesis by the cerebrospinal fluid
Cited by: 26
Author(s): Pooja-Shree Mishra, Hejer Boutej, Geneviève Soucy, Christine Bareil, Sunil Kumar, Vincent Picher-Martel, Nicolas Dupré, Jasna Križ, Jean‐Pierre Julien
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pntd.0001371

The Salivary Secretome of the Tsetse Fly Glossina pallidipes (Diptera: Glossinidae) Infected by Salivary Gland Hypertrophy Virus
Cited by: 21
Author(s): Henry M. Kariithi, İkbal Agah İnce, Sjef Boeren, Adly M. M. Abd-Alla, Andrew G. Parker, Serap Aksoy, Just M. Vlak, Monique M. van Oers
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pntd.0008190

Proteomic analysis of the processes leading to Madurella mycetomatis grain formation in Galleria mellonella larvae
Cited by: 17
Author(s): Gerard Sheehan, Mickey Konings, Wilson Lim, Ahmed Hassan Fahal, Kevin Kavanagh, Wendy W. J. van de Sande
Software Mentions: 1
Published: over 4 years ago

10.1128/MCB.00775-15

Sorbs1 and -2 Interact with CrkL and Are Required for Acetylcholine Receptor Cluster Formation
Cited by: 28
Author(s): Peter T. Hallock, Sherry Chin, Steven P. Blais, Thomas A. Neubert, David J. Glass
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pntd.0008720

High-quality nuclear genome for Sarcoptes scabiei—A critical resource for a neglected parasite
Cited by: 20
Author(s): Pasi K. Korhonen, Robin B. Gasser, Guorong Ma, Tao Wang, Andreas J. Stroehlein, Neil D. Young, Ang C, Danny Fernando, H. Lu, Sara Taylor, Simone Reynolds, Ehtesham Mofiz, Shivashankar H. Najaraj, Harsha Gowda, Anil K. Madugundu, Santosh Renuse, Deborah C. Holt, Akhilesh Pandey, Anthony T. Papenfuss, Katja Fischer
Software Mentions: 1
Published: about 4 years ago

10.1128/MCB.00248-19

Omomyc Reveals New Mechanisms To Inhibit the MYC Oncogene
Cited by: 40
Author(s): Mark Demma, Claudio Mapelli, Angie Sun, Smaranda Bodea, Benjamin Ruprecht, Sarah Javaid, Derek Wiswell, Eric S. Muise, Shiying Chen, John Zelina, Federica Orvieto, Alessia Santoprete, Simona Altezza, Federica Tucci, Enrique Escandón, Brian E. Hall, Kallol Ray, Abbas M. Walji, Jennifer O’Neil
Software Mentions: 1
Published: about 5 years ago

10.3390/biology10010058

Does KRAS Play a Role in the Regulation of Colon Cancer Cells-Derived Exosomes?
Cited by: 2
Author(s): Shu Kee Eng, Ilma Ruzni Imtiaz, Bey Hing Goh, Long Chiau Ming, Ya Chee Lim, Wai Leng Lee
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pntd.0006873

Inhibition of histone methyltransferase EZH2 in Schistosoma mansoni in vitro by GSK343 reduces egg laying and decreases the expression of genes implicated in DNA replication and noncoding RNA metabolism
Cited by: 25
Author(s): Adriana S. A. Pereira, Murilo Sena Amaral, Elton J. R. Vasconcelos, David S. Pires, Huma Asif, Luis DaSilva, David A. Morales-Vicente, Vitor Coutinho Carneiro, Cláudia Blanes Angeli, Giuseppe Palmisano, Marcelo Rosado Fantappíé, Raymond J. Pierce, João Carlos Setúbal, Sérgio Verjovski-Almeida
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pntd.0004299

Genomic and Proteomic Studies on the Mode of Action of Oxaboroles against the African Trypanosome
Cited by: 32
Author(s): Deuan C. Jones, Bernardo J. Foth, Michael D. Urbaniak, Stephen Patterson, Han B. Ong, Matthew Berriman, Alan H. Fairlamb
Software Mentions: 1
Published: almost 9 years ago

10.1007/s11010-019-03559-y

Cytoplasmic SIRT1 inhibits cell migration and invasion by impeding epithelial–mesenchymal transition in ovarian carcinoma
Cited by: 16
Author(s): Tong Yang, Ru Zhou, Shentong Yu, Shu‐Hong Yu, Zhuqing Cui, Peizhen Hu, Jinsong Liu, Qing Qiao, Jing Zhang
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pntd.0004837

A Proteomic Investigation of Hepatic Resistance to Ascaris in a Murine Model
Cited by: 20
Author(s): Gwendoline Deslyper, Thomas J. Colgan, Andrew J. Cooper, Celia V. Holland, James C. Carolan
Software Mentions: 1
Published: over 8 years ago

10.1007/s11010-019-03593-w

A key metabolic integrator, coenzyme A, modulates the activity of peroxiredoxin 5 via covalent modification
Cited by: 20
Author(s): Jovana Baković, Bess Yi Kun Yu, Daniel Silva, Sew Peak Chew, Sang Eun Kim, Seungjoon Ahn, Laura Palmer, Lujain Aloum, Giacomo Stanzani, О. М. Маланчук, Michael R. Duchen, Mervyn Singer, Valeriy Filonenko, Tae‐Hoon Lee, Mark Skehel, Ivan Gout
Software Mentions: 1
Published: over 5 years ago

10.1186/s40659-021-00327-5

Proteome profiling of different rat brain regions reveals the modulatory effect of prolonged maternal separation on proteins involved in cell death-related processes
Cited by: 6
Author(s): Zdeňka Drastichová, Vladimı́r Rudajev, Gergely Pallag, Jiřı́ Novotný
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pgen.1009088

Genetic compensation prevents myopathy and heart failure in an in vivo model of Bag3 deficiency
Cited by: 11
Author(s): Federica Diofano, Karolina Weinmann, Isabelle Schneider, Kevin Thiessen, Wolfgang Rottbauer, Steffen Just
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pgen.1006629

The Legionella pneumophila genome evolved to accommodate multiple regulatory mechanisms controlled by the CsrA-system
Cited by: 54
Author(s): Tobias Sahr, Christophe Rusniok, Francis Impens, Giulia Oliva, Odile Sismeiro, Jean‐Yves Coppée, Carmen Buchrieser
Software Mentions: 1
Published: almost 8 years ago

10.1016/j.molcel.2020.05.035

DDI2 Is a Ubiquitin-Directed Endoprotease Responsible for Cleavage of Transcription Factor NRF1
Cited by: 37
Author(s): A. Barbara Dirac-Svejstrup, Jane Walker, Peter Faull, Vesela Encheva, Vyacheslav Akimov, Michele Puglia, David N. Perkins, Sandra Kümper, Suchete S. Hunjan, Blagoy Blagoev, Ambrosius P. Snijders, David J. Powell, Jesper Q. Svejstrup
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pgen.1007189

The non-classical nuclear import carrier Transportin 1 modulates circadian rhythms through its effect on PER1 nuclear localization
Cited by: 20
Author(s): Sandra Korge, Bert Maier, Franziska Brüning, Lea Ehrhardt, Thomas Korte, Matthias Mann, Andreas Herrmann, María S. Robles, Achim Kramer
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pgen.1004695

The Proteomic Landscape of the Suprachiasmatic Nucleus Clock Reveals Large-Scale Coordination of Key Biological Processes
Cited by: 53
Author(s): Cheng‐Kang Chiang, Neel Mehta, Abhilasha Patel, Peng Zhang, Zhibin Ning, Janice Mayne, Warren Sun, Hai-Ying Mary Cheng, Daniel Figeys
Software Mentions: 1
Published: about 10 years ago

10.1016/j.molcel.2017.01.003

Serine ADP-Ribosylation Depends on HPF1
Cited by: 235
Author(s): Juán José Bonfiglio, Pietro Fontana, Qi Zhang, Thomas Colby, Ian Gibbs-Seymour, Ilian Atanassov, Edward Bartlett, Roko Žaja, Ivan Ahel, Ivan Matić
Software Mentions: 1
Published: over 7 years ago

10.1186/s12575-016-0043-0

Reliable FASP-based procedures for optimal quantitative proteomic and phosphoproteomic analysis on samples from acute myeloid leukemia patients
Cited by: 48
Author(s): Maria Hernandez-Valladares, Elise Aasebø, Olav Mjaavatten, Marc Vaudel, Øystein Bruserud, Frode S. Berven, Frode Selheim
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pgen.1005554

Uncovering Hidden Layers of Cell Cycle Regulation through Integrative Multi-omic Analysis
Cited by: 45
Author(s): Ranen Aviner, Anjana Shenoy, Orna Elroy‐Stein, Tamar Geiger
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pgen.1006099

Cavin4b/Murcb Is Required for Skeletal Muscle Development and Function in Zebrafish
Cited by: 10
Author(s): Michael P. Housley, Brian Njaine, Filomena Ricciardi, Oliver A. Stone, Soraya Hölper, Marcus Krüger, Sawa Kostin, Didier Y. R. Stainier
Software Mentions: 1
Published: over 8 years ago

10.1042/BCJ20160502

TLR and TNF-R1 activation of the MKK3/MKK6–p38α axis in macrophages is mediated by TPL-2 kinase
Cited by: 50
Author(s): Michael J. Pattison, Olivia Mitchell, Helen Flynn, Chao-Sheng Chen, Huei-Ting Yang, Hakem Ben-Addi, Stefan Boeing, Ambrosius P Snijders, Steve Ley
Software Mentions: 1
Published: about 8 years ago

10.1042/BCJ20180043

Protein CoAlation and antioxidant function of coenzyme A in prokaryotic cells
Cited by: 54
Author(s): Yugo Tsuchiya, Alexander Zhyvoloup, Jovana Baković, Naam Thomas, Bess Yi Kun Yu, Sayoni Das, Christine Orengo, Clare L. Newell, John M. Ward, Giorgio Saladino, Federico Comitani, Francesco Luigi Gervasio, О. М. Маланчук, А. И. Хоруженко, Valeriy Filonenko, Sew Y. Peak‐Chew, Mark Skehel, Ivan Gout
Software Mentions: 1
Published: over 6 years ago

10.1186/s12885-019-5521-8

Endothelial cell-derived nidogen-1 inhibits migration of SK-BR-3 breast cancer cells
Cited by: 12
Author(s): Daniela A. Ferraro, Francesca Patella, Sara Zanivan, Cinzia Donato, Nicola Aceto, Monica Giannotta, Maren Diepenbruck, Gerhard Christofori, Martin Buess
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pgen.1003576

Integrative “Omics”-Approach Discovers Dynamic and Regulatory Features of Bacterial Stress Responses
Cited by: 54
Author(s): Bork A. Berghoff, Anne Konzer, Nils N. Mank, Mario Looso, Tom Rische, Konrad U. Förstner, Marcus Krüger, Gabriele Klug
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1006291

Multisite Phosphorylation of NuMA-Related LIN-5 Controls Mitotic Spindle Positioning in C. elegans
Cited by: 15
Author(s): Vincent Portegijs, Lars-Eric Fielmich, Matilde Galli, Ruben Schmidt, Javier Muñoz, Tim van Mourik, Anna Akhmanova, Albert J. R. Heck, Mike Boxem, Sander van den Heuvel
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pcbi.1004325

Alternatively Spliced Homologous Exons Have Ancient Origins and Are Highly Expressed at the Protein Level
Cited by: 77
Author(s): Federico Abascal, Iakes Ezkurdia, Juan Rodriguez-Rivas, José Manuel Rodrı́guez, Ángela del Pozo, Jesús Vázquez, Alfonso Valencia, Michael L. Tress
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pbio.1001856

The RSF1 Histone-Remodelling Factor Facilitates DNA Double-Strand Break Repair by Recruiting Centromeric and Fanconi Anaemia Proteins
Cited by: 40
Author(s): Fabio Pessina, Noel F. Lowndes
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pbio.2002267

A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum
Cited by: 50
Author(s): Florian Fabiani, Thibaud T. Renault, Britta Peters, Tobias Dietsche, Eric Galvez, Alina Guse, Karen Freier, Emmanuelle Charpentier, Till Strowig, Mirita Franz‐Wachtel, Boris Maček, Samuel Wagner, Michael Hensel, Marc Erhardt
Software Mentions: 1
Published: over 7 years ago

10.1186/s12885-017-3784-5

The ANDROMEDA prospective cohort study: predictive value of combined criteria to tailor breast cancer screening and new opportunities from circulating markers: study protocol
Cited by: 13
Author(s): Livia Giordano, Federica Gallo, Elisabetta Petracci, Giovanna Chiorino, Nereo Segnan
Software Mentions: 1
Published: about 7 years ago

10.1007/s10456-019-09688-8

Cancer-associated fibroblast-derived WNT2 increases tumor angiogenesis in colon cancer
Cited by: 141
Author(s): Daniela Unterleuthner, Patrick Neuhold, Katharina Schwarz, Lukas Janker, Benjamin Neuditschko, Harini Nivarthi, Ilija Crnčec, Nina Kramer, Christine Unger, Markus Hengstschläger, Robert Eferl, Richard Moriggl, Wolfgang Sommergruber, Christopher Gerner, Helmut Dolznig
Software Mentions: 1
Published: about 5 years ago

10.1186/s40478-017-0466-0

Enhanced exosome secretion in Down syndrome brain - a protective mechanism to alleviate neuronal endosomal abnormalities
Cited by: 81
Author(s): Sébastien A. Gauthier, Rocío Pérez‐González, Ajay Sharma, Fang-Ke Huang, Melissa J. Alldred, Monika Pawlik, Gurjinder Kaur, Stephen D. Ginsberg, Thomas A. Neubert
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pbio.3000264

Cyclic AMP signalling controls key components of malaria parasite host cell invasion machinery
Cited by: 55
Author(s): Avnish Patel, Abigail J. Perrin, Helen Flynn, C. Bisson, Chrislaine Withers‐Martinez, Moritz Treeck, Christian Flueck, Giuseppe Nicastro, Stephen R. Martin, Andrés Ramos, Tim‐Wolf Gilberger, Ambrosius P. Snijders, Michael J. Blackman, David A. Baker
Software Mentions: 1
Published: over 5 years ago

Projects: cran: Andromeda

Papers Mentioning Andromeda 1,724