Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: Comet

https://packages.ecosyste.ms/registries/pypi.org/packages/Comet

VOEvent Broker
14 versions
Latest release: almost 6 years ago
1 dependent package
2,826 downloads last month

Papers Mentioning Comet 248

10.1371/journal.ppat.1005606
Interrogating the Plasmodium Sporozoite Surface: Identification of Surface-Exposed Proteins and Demonstration of Glycosylation on CSP and TRAP by Mass Spectrometry-Based Proteomics
Cited by: 144
Author(s): Kristian E. Swearingen, Scott E. Lindner, Lirong Shi, Melanie J. Shears, Anke Harupa, Christine S. Hopp, Ashley M. Vaughan, Timothy A. Springer, Robert L. Moritz, Stefan H. I. Kappe, Photini Sinnis
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.ppat.1006256
Integrated systems biology analysis of KSHV latent infection reveals viral induction and reliance on peroxisome mediated lipid metabolism
Cited by: 51
Author(s): Zoi Sychev, Alex Hu, Terri A. DiMaio, Anthony Gitter, Nathan D. Camp, William Stafford Noble, Alejandro Wolf-Yadlin, Michael Lagunoff
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.ppat.1009293
A redox-active crosslinker reveals an essential and inhibitable oxidative folding network in the endoplasmic reticulum of malaria parasites
Cited by: 8
Author(s): David W. Cobb, Heather M. Kudyba, Alejandra Villegas, Michael R. Hoopmann, Rodrigo P. Baptista, Baylee Bruton, Michelle Krakowiak, Robert L. Moritz, Vasant Muralidharan
Software Mentions: 2
Published: almost 4 years ago
10.3390/proteomes8030014
A Critical Review of Bottom-Up Proteomics: The Good, the Bad, and the Future of This Field
Cited by: 133
Author(s): Emmalyn J. Dupree, Madhuri Jayathirtha, Hannah Yorkey, Marius Mihăşan, Brîndușa Alina Petre, Costel C. Darie
Software Mentions: 2
Published: over 4 years ago
10.1038/sdata.2014.31
A repository of assays to quantify 10,000 human proteins by SWATH-MS
Cited by: 373
Author(s): George Rosenberger, Ching Chiek Koh, Tiannan Guo, Hannes L. Röst, Petri Kouvonen, Ben C. Collins, Moritz Heusel, Yansheng Liu, Étienne Caron, Anton Vichalkovski, Marco Faini, Olga T. Schubert, Pouya Faridi, H. Alexander Ebhardt, Mariette Matondo, Henry Lam, Samuel L. Bader, D. S. Campbell, Eric W. Deutsch, Robert L. Moritz, Stephen Tate, Ruedi Aebersold
Software Mentions: 2
Published: about 10 years ago
10.1038/sdata.2015.74
Hair-bundle proteomes of avian and mammalian inner-ear utricles
Cited by: 12
Author(s): Phillip A. Wilmarth, Jocelyn F. Krey, Jung Bum Shin, Dongseok Choi, Larry L. David, Peter G. Barr-Gillespie
Software Mentions: 2
Published: almost 9 years ago
10.1038/s41597-019-0308-y
Growth phase proteomics of the heterotrophic marine bacterium Ruegeria pomeroyi
Cited by: 2
Author(s): Dasha Krayushkina, Emma Timmins‐Schiffman, Jessica F. Faux, Damon May, Michael Riffle, H. Rodger Harvey, Brook L. Nunn
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41597-020-00724-7
A comprehensive spectral assay library to quantify the Escherichia coli proteome by DIA/SWATH-MS
Cited by: 25
Author(s): Mukul K. Midha, Ulrike Kusebauch, David Shteynberg, Charu Kapil, Samuel L. Bader, Panga Jaipal Reddy, D. S. Campbell, Nitin S. Baliga, Robert L. Moritz
Software Mentions: 2
Published: about 4 years ago
10.1038/s41597-020-00744-3
A primary human T-cell spectral library to facilitate large scale quantitative T-cell proteomics
Cited by: 10
Author(s): Harshi Weerakoon, Jeremy Potriquet, Alok K. Shah, Sarah Reed, Buddhika A. Jayakody, Charu Kapil, Mukul K. Midha, Robert L. Moritz, Ailin Lepletier, Jason Mulvenna, John J. Miles, Michelle M. Hill
Software Mentions: 2
Published: almost 4 years ago
10.1038/s41598-018-22610-4
Cost-effective generation of precise label-free quantitative proteomes in high-throughput by microLC and data-independent acquisition
Cited by: 65
Author(s): Jakob Vowinckel, Aleksej Zelezniak, Roland Bruderer, Michael Mülleder, Lukas Reiter, Markus Ralser
Software Mentions: 2
Published: over 6 years ago
10.1038/s41598-018-27500-3
In planta proximity dependent biotin identification (BioID)
Cited by: 56
Author(s): Madiha Khan, Ji‐Young Youn, Anne‐Claude Gingras, Rajagopal Subramaniam, Darrell Desveaux
Software Mentions: 2
Published: over 6 years ago
10.3390/s20195480
An Artificial Intelligence-Based Collaboration Approach in Industrial IoT Manufacturing: Key Concepts, Architectural Extensions and Potential Applications
Cited by: 50
Author(s): Panagiotis Trakadas, Pieter Simoens, Panagiotis K. Gkonis, Lambros Sarakis, A. Angelopoulos, Alfonso P. Ramallo-González, Antonio Skármeta, Christos Trochoutsos, Daniel Calvο, Tomás Pariente, Keshav Chintamani, Izaskun Fernández, Aitor Arnáiz, Josiane Xavier Parreira, Pierluigi Petrali, Helen C. Leligou, Panagiotis Karkazis
Software Mentions: 2
Published: about 4 years ago
10.1038/onc.2017.219
The interactome of metabolic enzyme carbonic anhydrase IX reveals novel roles in tumor cell migration and invadopodia/MMP14-mediated invasion
Cited by: 92
Author(s): Mridula Swayampakula, Paul C. McDonald, Marylou Vallejo, Étienne Coyaud, Shawn C. Chafe, Ashley Westerback, Geetha Venkateswaran, Jata Shankar, Guozhong Gao, Estelle Laurent, Yuanmei Lou, Kevin L. Bennewith, Claudiu T. Supuran, Ivan R. Nabi, Brian Raught, Shoukat Dedhar
Software Mentions: 2
Published: over 7 years ago
10.7554/eLife.27860
Deep transcriptome annotation enables the discovery and functional characterization of cryptic small proteins
Cited by: 94
Author(s): Sondos Samandi, Annie Roy, Vivian Delcourt, Jean-François Lucier, Jules Gagnon, Maxime C. Beaudoin, Benoît Vanderperre, Marc-André Breton, Julie Motard, Jean-François Jacques, Mylène Brunelle, Isabelle Gagnon‐Arsenault, Isabelle Fournier, Aïda Ouangraoua, Darel J. Hunting, Alan A. Cohen, Christian R. Landry, Michelle S. Scott, Xavier Roucou
Software Mentions: 2
Published: about 7 years ago
10.7554/eLife.38839
The cargo receptor SURF4 promotes the efficient cellular secretion of PCSK9
Cited by: 67
Author(s): Brian T. Emmer, Geoffrey G. Hesketh, Emilee N. Kotnik, Vi T Tang, Paul J. Lascuna, Jie Xiang, Anne‐Claude Gingras, Xiao Wei Chen, David Ginsburg
Software Mentions: 2
Published: about 6 years ago
10.7554/eLife.28131
AIRE is a critical spindle-associated protein in embryonic stem cells
Cited by: 16
Author(s): Bin Gu, Jean-Philippe Lambert, Katie Cockburn, Anne‐Claude Gingras, Janet Rossant
Software Mentions: 2
Published: over 7 years ago
10.3390/ijms18040725
Methylmercury Induced Neurotoxicity and the Influence of Selenium in the Brains of Adult Zebrafish (Danio rerio)
Cited by: 29
Author(s): Josef Daniel Rasinger, Anne‐Katrine Lundebye, Samuel Penglase, Ståle Ellingsen, Heidi Amlund
Software Mentions: 2
Published: over 7 years ago
10.3390/ijms20040863
Application of Data-Independent Acquisition Approach to Study the Proteome Change from Early to Later Phases of Tomato Pathogenesis Responses
Cited by: 17
Author(s): Kai Fan, Kuo-Hsin Wang, Wen-Teng Chang, Jhih‐Ci Yang, Ching-Fang Yeh, Kai-Tan Cheng, Sheng-Chi Hung, Yet-Ran Chen
Software Mentions: 2
Published: almost 6 years ago
10.3390/ijms21207453
Proteome Analysis of Walnut Bacterial Blight Disease
Cited by: 10
Author(s): Cíntia Helena Duarte Sagawa, Renata de Almeida Barbosa Assis, Paulo A. Zaini, Phillip A. Wilmarth, Brett S. Phinney, Leandro Márcio Moreira, Abhaya M. Dandekar
Software Mentions: 2
Published: about 4 years ago
10.1021/acs.jproteome.9b00780
Machine Learning Strategy That Leverages Large Data sets to Boost Statistical Power in Small-Scale Experiments
Cited by: 13
Author(s): William E. Fondrie, William Stafford Noble
Software Mentions: 2
Published: almost 5 years ago
10.3389/fcimb.2019.00252
Thymic Microenvironment Is Modified by Malnutrition and Leishmania infantum Infection
Cited by: 19
Author(s): Mónica Losada-Barragán, Adriana Umaña‐Pérez, Jonathan Durães, Sergio Cuervo-Escobar, Andrés Rodríguez-Vega, Flávia L. Ribeiro-Gomes, Luiz Ricardo Berbert, Fernanda Nazaré Morgado, Renato Porrozzi, Daniella Arêas Mendes-da-Cruz, Priscila Ferreira de Aquino, Paulo C. Carvalho, Wilson Savino, Myriam Sánchez-Gómez, Gabrìel Padrón, Patrícia Cuervo
Software Mentions: 1
Published: over 5 years ago
10.3389/fcimb.2018.00413
The Micronemal Plasmodium Proteins P36 and P52 Act in Concert to Establish the Replication-Permissive Compartment Within Infected Hepatocytes
Cited by: 22
Author(s): Silvia A. Arredondo, Kristian E. Swearingen, Thomas Martinson, Ryan Steel, Dorender A. Dankwa, Anke Harupa, Nelly Camargo, William J. Betz, В. И. Вигдорович, Brian G. Oliver, Niwat Kangwanrangsan, Tomoko Ishino, D. Noah Sather, Sebastian A. Mikolajczak, Ashley M. Vaughan, Motomi Torii, Robert L. Moritz, Stefan H. I. Kappe
Software Mentions: 1
Published: almost 6 years ago
10.3389/fcimb.2021.642583
Deciphering Human Leukocyte Antigen Susceptibility Maps From Immunopeptidomics Characterization in Oncology and Infections
Cited by: 7
Author(s): Pablo Juanes-Velasco, Alicia Landeira-Viñuela, Vanessa Acebes-Fernández, Ángela-Patricia Hernández, Marina L. García-Vaquero, Carlota Arias-Hidalgo, Halin Bareke, Enrique Montalvillo, Rafael Góngora, Manuel Fuentes
Software Mentions: 1
Published: over 3 years ago
10.1186/s13568-019-0795-4
Understanding xylose isomerase from Burkholderia cenocepacia: insights into structure and functionality for ethanol production
Cited by: 4
Author(s): Igor Patrick Vasconcelos Vieira, Gabrielle T. Cordeiro, Diego E. B. Gomes, Rafael D. Melani, Leonardo F. Vilela, Gilberto B. Domont, Rafael D. Mesquita, Elis C. A. Eleuthério, Bianca C. Neves
Software Mentions: 1
Published: over 5 years ago
10.3389/fmicb.2016.01103
The Exposed Proteomes of Brachyspira hyodysenteriae and B. pilosicoli
Cited by: 14
Author(s): Vanessa Casas, S. Vadillo, Carlos San Juan Mesonada, Montserrat Carrascal, Joaquín Abian
Software Mentions: 1
Published: over 8 years ago
10.3390/v11121096
Exploring HIV-1 Transmission Dynamics by Combining Phylogenetic Analysis and Infection Timing
Cited by: 7
Author(s): Chris Verhofstede, Virginie Mortier, Kenny Dauwe, Steven Callens, Jessika Deblonde, Géraldine Dessilly, Marie-Luce Delforge, Katrien Fransen, André Deeke Sasse, Karolien Stoffels, Dominique Van Beckhoven, Fien Vanroye, Dolorès Vaira, Ellen Vancutsem, Kristel Van Laethem
Software Mentions: 1
Published: almost 5 years ago
10.3389/fmicb.2021.618209
Inactivation of Pepper Mild Mottle Virus in Water by Cold Atmospheric Plasma
Cited by: 17
Author(s): Arijana Filipić, David Dobnik, Magda Tušek Žnidarič, Bojana Žegura, Alja Štern, Gregor Primc, Miran Mozetič, Maja Ravnikar, Jana Žel, Ion Gutiérrez-Aguirre
Software Mentions: 1
Published: almost 4 years ago
10.1186/s12859-019-3034-8
Target-small decoy search strategy for false discovery rate estimation
Cited by: 9
Author(s): Hyunwoo Kim, Sangjeong Lee, Heejin Park
Software Mentions: 1
Published: about 5 years ago
10.15252/msb.20198828
Elucidating essential kinases of endothelin signalling by logic modelling of phosphoproteomics data
Cited by: 9
Author(s): Alexander Schäfer, Enio Gjerga, Richard W. D. Welford, Imke Renz, François Lehembre, Peter M.A. Groenen, Julio Sáez-Rodríguez, Ruedi Aebersold, Matthias Gstaiger
Software Mentions: 1
Published: over 5 years ago
10.15252/msb.20209536
From coarse to fine: the absolute <i>Escherichia coli</i> proteome under diverse growth conditions
Cited by: 60
Author(s): Matteo Mori, Zhongge Zhang, Amir Banaei‐Esfahani, Jean-Benoît Lalanne, Hiroyuki Okano, Ben C. Collins, Alexander Schmidt, Olga T. Schubert, Deok-Sun Lee, Gene-Wei Li, Ruedi Aebersold, Terence Hwa, Christina Ludwig
Software Mentions: 1
Published: over 3 years ago
10.7554/eLife.21069
The Ndc80 complex bridges two Dam1 complex rings
Cited by: 47
Author(s): Jae ook Kim, Alex Zelter, Neil T. Umbreit, Athena Bollozos, Michael Riffle, Richard S. Johnson, Michael J. MacCoss, Charles L. Asbury, Trisha N. Davis
Software Mentions: 1
Published: almost 8 years ago
10.3389/fpls.2016.00477
Proteomic Analysis of a Poplar Cell Suspension Culture Suggests a Major Role of Protein S-Acylation in Diverse Cellular Processes
Cited by: 19
Author(s): Vaibhav Srivastava, Joseph R. Weber, Erik Malm, Bruce W. Fouke, Vincent Bulone
Software Mentions: 1
Published: over 8 years ago
10.1186/s12859-021-04159-8
A workflow to identify novel proteins based on the direct mapping of peptide-spectrum-matches to genomic locations
Cited by: 4
Author(s): John C. Anders, Hannes Petruschke, Nico Jehmlich, Sven-Bastiaan Haange, Martin von Bergen, Peter F. Stadler
Software Mentions: 1
Published: over 3 years ago
10.1534/genetics.119.302525
Modulating Mistranslation Potential of tRNASer in<i>Saccharomyces cerevisiae</i>
Cited by: 21
Author(s): Matthew D. Berg, Yi Zhu, Julie Genereaux, Bianca Y. Ruiz, Ricard A. Rodríguez-Mias, Allan Tyler, Alexander T Bahcheli, Judit Villén, Christopher J. Brandl
Software Mentions: 1
Published: about 5 years ago
10.3390/molecules22010167
Hyperforin Exhibits Antigenotoxic Activity on Human and Bacterial Cells
Cited by: 15
Author(s): Petronela Imreová, Jana Feruszová, Stanislav Kyzek, Kristína Bodnárová, Martina Zdurienčíková, Katarína Kozics, Pavel Mučaji, Eliška Gálová, Andrea Ševčovičová, Eva Miadoková, Ivan Chalupa
Software Mentions: 1
Published: almost 8 years ago
10.3390/molecules25133028
Proteomic Profiling of Emiliania huxleyi Using a Three-Dimensional Separation Method Combined with Tandem Mass Spectrometry
Cited by: 5
Author(s): Goyeun Yun, Jong-Moon Park, Van-An Duong, Hookeun Lee, Jongho Jeon, Onyou Nam, Joonwon Lee, EonSeon Jin, Hookeun Lee
Software Mentions: 1
Published: over 4 years ago
10.1186/2041-9414-1-8
Radiation-induced DNA damage and repair in human γδ and αβ T-lymphocytes analysed by the alkaline comet assay
Cited by: 4
Author(s): Halina Lisowska, Marta Deperas-Kamińska, Siamak Haghdoost, Ingela Parmryd, Andrzej Wójcik
Software Mentions: 1
Published: almost 15 years ago
10.1074/mcp.M116.065490
MOB1 Mediated Phospho-recognition in the Core Mammalian Hippo Pathway
Cited by: 39
Author(s): Amber L. Couzens, Shawn Xiong, James D.R. Knight, Daniel Y.L. Mao, Sebastian Guettler, S. Picaud, Igor Kurinov, P. Filippakopoulos, Frank Sicheri, Anne‐Claude Gingras
Software Mentions: 1
Published: over 7 years ago
10.7554/eLife.52474
The GTPase Nog1 co-ordinates the assembly, maturation and quality control of distant ribosomal functional centers
Cited by: 33
Author(s): Purnima Klingauf‐Nerurkar, Ludovic Gillet, Daniela Portugal-Calisto, Michaela Oborská-Oplová, Martin Jäger, Olga T. Schubert, Agnese Pisano, Cohue Peña, Satyawada Rama Rao, Martin Altvater, Yeon Soo Chang, Ruedi Aebersold, Vikram Govind Panse
Software Mentions: 1
Published: almost 5 years ago
10.1186/s12859-018-2559-6
Accelerating a cross-correlation score function to search modifications using a single GPU
Cited by: 2
Author(s): Hyunwoo Kim, Sunggeun Han, Jung-Ho Um, Kyongseok Park
Software Mentions: 1
Published: almost 6 years ago
10.1016/j.jbc.2021.100397
Development of a colorimetric α-ketoglutarate detection assay for prolyl hydroxylase domain (PHD) proteins
Cited by: 6
Author(s): Samantha J. Wong, Alison E. Ringel, William Yuan, João A. Paulo, Haejin Yoon, Mark A. Currie, Marcia C. Haigis
Software Mentions: 1
Published: almost 4 years ago
10.1186/s12929-015-0156-9
Radioprotective potential of melatonin against 60Co γ-ray-induced testicular injury in male C57BL/6 mice
Cited by: 80
Author(s): Shahanshah Khan, Jawahar Singh Adhikari, Abbas Rizvi, N. K. Chaudhury
Software Mentions: 1
Published: over 9 years ago
10.1007/s10826-015-0263-y
Parent Programs for Reducing Adolescent’s Antisocial Behavior and Substance Use: A Randomized Controlled Trial
Cited by: 14
Author(s): Camilla Jalling, Maria Bodin, Anders Romelsjö, Håkan Källmén, Natalie Durbeej, Anders Tengström
Software Mentions: 1
Published: over 9 years ago
10.3390/jcm10112309
Proteomic Analyses of Vitreous in Proliferative Diabetic Retinopathy: Prior Studies and Future Outlook
Cited by: 6
Author(s): Sarah R. Weber, Yuanjun Zhao, Christopher Gates, Junwei Ma, Felipe da Veiga Leprevost, Venkatesha Basrur, Alexey I. Nesvizhskii, Thomas W. Gardner, Jeffrey M. Sundstrom
Software Mentions: 1
Published: over 3 years ago
10.3390/ijms131114766
Alzheimer’s Disease-Associated Neurotoxic Peptide Amyloid-Β Impairs Base Excision Repair in Human Neuroblastoma Cells
Cited by: 19
Author(s): Anne Forestier, Thierry Douki, Sylvie Sauvaigo, Viviana De Rosa, Christine Demeilliers, Walid Rachidi
Software Mentions: 1
Published: about 12 years ago
10.1016/j.molcel.2019.11.013
Global Landscape and Dynamics of Parkin and USP30-Dependent Ubiquitylomes in iNeurons during Mitophagic Signaling
Cited by: 126
Author(s): Alban Ordureau, João A. Paulo, Jiuchun Zhang, Heeseon An, Kirby N. Swatek, Joe R. Cannon, Qiaoqiao Wan, David Komander, J. Wade Harper
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms141019399
Inhibition of Oxidative Stress by Low-Molecular-Weight Polysaccharides with Various Functional Groups in Skin Fibroblasts
Cited by: 32
Author(s): Szu-Kai Chen, Chu-Hsi Hsu, Min-Lang Tsai, Rong-Huei Chen, Gregor P. C. Drummen
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.ppat.1006385
Platelet proteome reveals novel pathways of platelet activation and platelet-mediated immunoregulation in dengue
Cited by: 69
Author(s): Monique Ramos de Oliveira Trugilho, Eugênio D. Hottz, Giselle Villa Flor Brunoro, André Teixeira-Ferreira, Paulo C. Carvalho, Gustavo Salazar, Guy A. Zimmerman, Fernando A. Bozza, Jonás Perales
Software Mentions: 1
Published: over 7 years ago
10.3390/ijms18020435
Proteomic Analysis of Mitochondria-Enriched Fraction Isolated from the Frontal Cortex and Hippocampus of Apolipoprotein E Knockout Mice Treated with Alda-1, an Activator of Mitochondrial Aldehyde Dehydrogenase (ALDH2)
Cited by: 6
Author(s): Aneta Stachowicz, Rafał Olszanecki, Maciej Suski, Katarzyna Głombik, Agnieszka Basta‐Kaim, Dariusz Adamek, Ryszard Korbut
Software Mentions: 1
Published: almost 8 years ago
10.1093/molbev/msab149
Fundamental Identifiability Limits in Molecular Epidemiology
Cited by: 34
Author(s): Stilianos Louca, Angela McLaughlin, Ailene MacPherson, Jeffrey B. Joy, Matthew W. Pennell
Software Mentions: 1
Published: over 3 years ago
10.3390/polym12061398
Toxic Effects of Urethane Dimethacrylate on Macrophages Through Caspase Activation, Mitochondrial Dysfunction, and Reactive Oxygen Species Generation
Cited by: 12
Author(s): Chen Chang, Chen Yu Chiang, Yun‐Wei Chiang, Min‐Wei Lee, Chien‐Ying Lee, Hung-Yi Chen, Hui-Wen Lin, Yu‐Hsiang Kuan
Software Mentions: 1
Published: over 4 years ago
10.3390/polym13111766
Experimental, Computational, and Dimensional Analysis of the Mechanical Performance of Fused Filament Fabrication Parts
Cited by: 13
Author(s): Iván Rivet, Narges Dialami, Miguel Cervera, Michele Chiumenti, Guillermo Reyes, Marco A. Pérez
Software Mentions: 1
Published: over 3 years ago
10.1186/s12953-021-00179-7
Comparison of false-discovery rates of various decoy databases
Cited by: 5
Author(s): Sangjeong Lee, Heejin Park, Hyunwoo Kim
Software Mentions: 1
Published: about 3 years ago
10.15698/mic2017.10.594
Ydj1 governs fungal morphogenesis and stress response, and facilitates mitochondrial protein import via Mas1 and Mas2
Cited by: 26
Author(s): Jinglin Lucy Xie, Iryna Bohovych, Erin Oi-Yan Wong, Jean-Philippe Lambert, Anne‐Claude Gingras, Oleh Khalimonchuk, Leah E. Cowen, Michelle Leach
Software Mentions: 1
Published: about 7 years ago
10.3390/proteomes6010002
MetaGOmics: A Web-Based Tool for Peptide-Centric Functional and Taxonomic Analysis of Metaproteomics Data
Cited by: 41
Author(s): Michael Riffle, Damon May, Emma Timmins‐Schiffman, Molly P. Mikan, Daniel Jaschob, William Stafford Noble, Brook L. Nunn
Software Mentions: 1
Published: almost 7 years ago
10.3390/proteomes6010007
Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy-P Framework
Cited by: 36
Author(s): Clemens Blank, Caleb Easterly, Bjoern Gruening, James E. Johnson, Carolin A. Kolmeder, Praveen Kumar, Damon May, Subina Mehta, Bart Mesuere, Zachary D. Brown, Joshua E. Elias, W. Judson Hervey, Thomas McGowan, Thilo Muth, Brook L. Nunn, Joel D. Rudney, Alessandro Tanca, Timothy J. Griffin, Pratik Jagtap
Software Mentions: 1
Published: almost 7 years ago
10.1590/0074-02760160462
Characterisation of iunH gene knockout strain from Mycobacterium tuberculosis
Cited by: 8
Author(s): Anne Drumond Villela, Valnês S. Rodrigues-Junior, Antônio Frederico Michel Pinto, Priscila Lamb Wink, Zilpa Adriana Sánchez-Quitian, Guilherme Oliveira Petersen, Maria M. Campos, Luiz Augusto Basso, Daniel Silas Veras dos Santos
Software Mentions: 1
Published: over 7 years ago
10.1093/jrr/rrz017
Long-term exposure to a 40-GHz electromagnetic field does not affect genotoxicity or heat shock protein expression in HCE-T or SRA01/04 cells
Cited by: 9
Author(s): Satoshi Koyama, Eijiro Narita, Yukihisa Suzuki, Takeo Shiina, Masao Taki, Naoki Shinohara, Junji Miyakoshi
Software Mentions: 1
Published: over 5 years ago
10.1590/0074-02760170105
Construction of Mycobacterium tuberculosis cdd knockout and evaluation of invasion and growth in macrophages
Cited by: 2
Author(s): Anne Drumond Villela, Valnês S. Rodrigues-Junior, Antônio Frederico Michel Pinto, Virgínia Carla de Almeida Falcão, Zilpa Adriana Sánchez-Quitian, Paula Eichler, Cristiano Valim Bizarro, Luiz Augusto Basso, Daniel Silas Veras dos Santos
Software Mentions: 1
Published: about 7 years ago
10.1186/1748-717X-7-61
Factors influencing heterogeneity of radiation-induced DNA-damage measured by the alkaline comet assay
Cited by: 12
Author(s): Clemens Seidel, Christine Lautenschläger, Jürgen Dunst, Arndt-Christian Müller
Software Mentions: 1
Published: over 12 years ago
10.2478/v10019-012-0001-7
Genetic polymorphisms in homologous recombination repair genes in healthy Slovenian population and their influence on DNA damage
Cited by: 18
Author(s): Katja Goričar, Nina Erčulj, Maja Zadel, Vita Dolžan
Software Mentions: 1
Published: almost 13 years ago
10.3390/md15060162
Running the Stop Sign: Readthrough of a Premature UAG Termination Signal in the Translation of a Zebrafish (Danio rerio) Taurine Biosynthetic Enzyme
Cited by: 3
Author(s): Mary E. Larkin, Allen R. Place
Software Mentions: 1
Published: over 7 years ago
10.1155/2017/9460653
Antihypertensive Effects of Roselle-Olive Combination in L-NAME-Induced Hypertensive Rats
Cited by: 41
Author(s): Rehab F. Abdel-Rahman, Alyaa F. Hessin, Marwan Abdelbaset, Hanan A. Ogaly, Reham M. Abd‐Elsalam, Samah Hassan
Software Mentions: 1
Published: almost 8 years ago
10.1186/s12859-021-04315-0
Immunopeptidomics toolkit library (IPTK): a python-based modular toolbox for analyzing immunopeptidomics data
Cited by: 3
Author(s): Hesham ElAbd, Frauke Degenhardt, Tomas Koudelka, Ann-Kristin Kamps, Andreas Tholey, Petra Bächer, Tobias Lenz, André Franke, Mareike Wendorff
Software Mentions: 1
Published: over 3 years ago
10.1038/sdata.2018.157
A tissue-based draft map of the murine MHC class I immunopeptidome
Cited by: 44
Author(s): Heiko Schuster, Wenguang Shao, Tobias Weiss, Patrick G. A. Pedrioli, Patrick Roth, D. S. Campbell, Eric W. Deutsch, Robert L. Moritz, Oliver Planz, Hans‐Georg Rammensee, Ruedi Aebersold, Étienne Caron
Software Mentions: 1
Published: over 6 years ago
10.3390/life10120314
Comparative Proteomic Analysis of Walnut (Juglans regia L.) Pellicle Tissues Reveals the Regulation of Nut Quality Attributes
Cited by: 6
Author(s): Paulo A. Zaini, Noah G Feinberg, Filipa Grilo, Houston J Saxe, Michelle Salemi, Brett S. Phinney, Carlos H. Crisosto, Abhaya M. Dandekar
Software Mentions: 1
Published: almost 4 years ago
10.3390/nu10101532
African Nightshade (Solanum scabrum Mill.): Impact of Cultivation and Plant Processing on Its Health Promoting Potential as Determined in a Human Liver Cell Model
Cited by: 17
Author(s): Grace Akinyi Odongo, Nina Schlotz, Susanne Baldermann, Susanne Neugart, Susanne Huyskens-Keil, Benard Ngwene, Bernhard Trierweiler, Monika Schreiner, Evelyn Lamy
Software Mentions: 1
Published: about 6 years ago
10.1038/s41597-020-0449-z
Generation of a murine SWATH-MS spectral library to quantify more than 11,000 proteins
Cited by: 13
Author(s): Chuan-Qi Zhong, Jianfeng Wu, Xingfeng Qiu, Xi Chen, Changchuan Xie, Jiahuai Han
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms21239304
Geomagnetic Shielding Enhances Radiation Resistance by Promoting DNA Repair Process in Human Bronchial Epithelial Cells
Cited by: 7
Author(s): Xunwen Xue, Yasser Ali, Caorui Liu, Zhi-Qiang Hong, Wanrong Luo, Jing Nie, Bingyan Li, Yang Jiao, Ning-Ang Liu
Software Mentions: 1
Published: almost 4 years ago
10.3390/ani11061811
Mitigating the Growth, Biochemical Changes, Genotoxic and Pathological Effects of Copper Toxicity in Broiler Chickens by Supplementing Vitamins C and E
Cited by: 6
Author(s): Mohamed A. Hashem, Sahar S. Abd El Hamied, Eman Magdy Ahmed, Shimaa A. Amer, Mohamed El-Sharnouby
Software Mentions: 1
Published: over 3 years ago
10.3797/scipharm.1506-06
Protective Role of Curcumin Against N-Nitrosodiethylamine (NDEA) Induced Toxicity in Rats
Cited by: 1
Author(s): Fahad Ali, . Rahul, Smita Jyoti, Ambreen Fatima, Saba Khanam, Falaq Naz, Yasir Hasan Siddique
Software Mentions: 1
Published: almost 9 years ago
10.1038/s41598-017-06314-9
Comprehensive analysis of human protein N-termini enables assessment of various protein forms
Cited by: 47
Author(s): Jeonghun Yeom, Shinyeong Ju, Young-Wook Choi, Eunok Paek, Cheolju Lee
Software Mentions: 1
Published: over 7 years ago
10.1038/s41598-017-07612-y
Novel giardicidal compounds bearing proton pump inhibitor scaffold proceeding through triosephosphate isomerase inactivation
Cited by: 19
Author(s): Beatriz Hernández-Ochoa, Gabriel Navarrete‐Vázquez, Carlos Nava-Zuazo, Adriana Castillo-Villanueva, Sara T. Méndez, Angélica Torres-Arroyo, Saúl Gómez-Manzo, Jaime Marcial-Quino, Martha Ponce-Macotela, Yadira Rufino-González, Mario Noé Martínez-Gordillo, Guadalupe Palencia-Hernández, Nuria Esturau‐Escofet, Ernesto Calderón-Jaimes, Jesús Oria-Hernández, Horacio Reyes‐Vivas
Software Mentions: 1
Published: over 7 years ago
10.1042/BSR20191434
Prolonged use of finasteride-induced gonadal sex steroids alterations, DNA damage and menstrual bleeding in women
Cited by: 2
Author(s): Gadah Albasher, May Bin-Jumah, Saleh Alfarraj, Fatimah O. Al-Otibi, Nouf Alsultan, Saud Alarifi, Saad Alkahtani, Nahed S. Alharthi, Wedad Saeed Al-Qahtani
Software Mentions: 1
Published: almost 5 years ago
10.1038/s41598-017-09926-3
The EAL-domain protein FcsR regulates flagella, chemotaxis and type III secretion system in Pseudomonas aeruginosa by a phosphodiesterase independent mechanism
Cited by: 17
Author(s): Rossello Jéssica, Analı́a Lima, Magdalena Gil, Jorge Rodríguez Duarte, Agustín Correa, Paulo C. Carvalho, Arlinet Kierbel, Rosario Durán
Software Mentions: 1
Published: about 7 years ago
10.3390/biomedicines7040084
Outcomes of Gallic Acid on Alternariol Induced Cyto-Morphic and Genotoxic In Vivo Changes in Parotid Gland: 4-HNE Incorporated
Cited by: 1
Author(s): Mai A. Samak, Ahmed Elshatory, Eman M. Mohamed
Software Mentions: 1
Published: about 5 years ago
10.3390/ijms22105134
The Protective Effects of EMF-LTE against DNA Double-Strand Break Damage In Vitro and In Vivo
Cited by: 5
Author(s): Hee Kyung Jin, Kyuri Kim, Ga-Young Park, Minjeong Kim, Hae June Lee, Soon‐Ik Jeon, Woo Jung Kim, Hak Rim Kim, Kyung Min Lim, Yun‐Sil Lee
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-018-26079-z
Proteomic identification of Axc, a novel beta-lactamase with carbapenemase activity in a meropenem-resistant clinical isolate of Achromobacter xylosoxidans
Cited by: 9
Author(s): Frank Fleurbaaij, Alex A. Henneman, Jeroen Corver, Cornelis W. Knetsch, Wiep Klaas Smits, Sjoerd T. Nauta, Martin Giera, Irina Dragan, Nitin Kumar, Trevor D. Lawley, Aswin Verhoeven, Hans C. van Leeuwen, Ed J. Kuijper, Paul J. Hensbergen
Software Mentions: 1
Published: over 6 years ago
10.3390/ijms22115861
Diminazene Aceturate Stabilizes Atherosclerotic Plaque and Attenuates Hepatic Steatosis in apoE-Knockout Mice by Influencing Macrophages Polarization and Taurine Biosynthesis
Cited by: 8
Author(s): Aneta Stachowicz, Anna Wiśniewska, Katarzyna Kuś, Magdalena Białas, Magdalena Łomnicka, Justyna Totoń‐Żurańska, Anna Kiepura, Kamila Stachyra, Maciej Suski, Beata Bujak-Giżycka, Jacek Jawień, Rafał Olszanecki
Software Mentions: 1
Published: over 3 years ago
10.1155/2013/189352
Extremely Low-Frequency Magnetic Field Enhances the Therapeutic Efficacy of Low-Dose Cisplatin in the Treatment of Ehrlich Carcinoma
Cited by: 16
Author(s): Nihal Saad Elbialy, Monira M. Rageh
Software Mentions: 1
Published: almost 12 years ago
10.1038/s41598-018-29550-z
Randomized effectiveness Trial of the Family Check-Up versus Internet-delivered Parent Training (iComet) for Families of Children with Conduct Problems
Cited by: 24
Author(s): Ata Ghaderi, Christina Kadesjö, Annika Björnsdotter, Pia Enebrink
Software Mentions: 1
Published: over 6 years ago
10.1038/s41598-018-32308-2
Oxidative DNA damage induced by ROS-modulating agents with the ability to target DNA: A comparison of the biological characteristics of citrus pectin and apple pectin
Cited by: 116
Author(s): Fahimeh Salehi, Hossein Behboudi, Gholamreza Kavoosi
Software Mentions: 1
Published: about 6 years ago
10.1038/s41598-019-39368-y
USP7 Regulates Cytokinesis through FBXO38 and KIF20B
Cited by: 20
Author(s): Anna Georges, Étienne Coyaud, Edyta Marcon, Jack Greenblatt, Brian Raught, Lori Frappier
Software Mentions: 1
Published: over 5 years ago
10.1038/s41598-019-39400-1
A proteomic time course through the differentiation of human induced pluripotent stem cells into hepatocyte-like cells
Cited by: 13
Author(s): Tracey Hurrell, Charis-Patricia Segeritz, Ludovic Vallier, Kathryn S. Lilley, Allan Duncan Cromarty
Software Mentions: 1
Published: over 5 years ago
10.1242/bio.033647
Novel phosphorylation states of the yeast spindle pole body
Cited by: 11
Author(s): Kimberly K. Fong, Alex Zelter, Beth Graczyk, Jill M. Hoyt, Michael Riffle, Richard S. Johnson, Michael J. MacCoss, Trisha N. Davis
Software Mentions: 1
Published: almost 7 years ago
10.1186/1471-2458-14-1064
Universal parental support-How to reach out: a cross-sectional random sample of Swedish parents
Cited by: 8
Author(s): Karin Wallgren Thorslund, Jan Johansson Hanse, Ulf Axberg
Software Mentions: 1
Published: about 10 years ago
10.1186/s12866-019-1505-8
Unveiling the partners of the DRBD2-mRNP complex, an RBP in Trypanosoma cruzi and ortholog to the yeast SR-protein Gbp2
Cited by: 14
Author(s): Helisa Helena Wippel, Juliane Soldi Malgarin, Alexandre Haruo Inoue, Felipe da Veiga Leprevost, Paulo C. Carvalho, Samuel Goldenberg, Lysangela Ronalte Alves
Software Mentions: 1
Published: over 5 years ago
10.1038/s41598-020-71264-8
Myocardial proteomic profile in pulmonary arterial hypertension
Cited by: 10
Author(s): Mateusz K. Hołda, Aneta Stachowicz, Maciej Suski, Dorota Wojtysiak, Natalia Sowińska, Zbigniew Arent, Natalia Palka, Piotr Podolec, Grzegorz Kopeć
Software Mentions: 1
Published: about 4 years ago
10.1038/s41598-020-74939-4
Maximized quantitative phosphoproteomics allows high confidence dissection of the DNA damage signaling network
Cited by: 9
Author(s): Vitor M. Faça, Ethan J. Sanford, Jennifer Tieu, William Comstock, Shagun Gupta, Shannon Marshall, Haiyuan Yu, Marcus B. Smolka
Software Mentions: 1
Published: about 4 years ago
10.1186/s12879-020-4885-3
Comprehensive proteomics investigation of P. vivax-infected human plasma and parasite isolates
Cited by: 8
Author(s): Apoorva Venkatesh, Shalini Aggarwal, Sangit Kumar, Srushti Rajyaguru, Vipin Kumar, Sheetal Bankar, Jayanthi Shastri, Swati Patankar, Sanjeeva Srivastava
Software Mentions: 1
Published: over 4 years ago
10.1038/s41598-020-75592-7
Deep learning method for comet segmentation and comet assay image analysis
Cited by: 8
Author(s): Yiyu Hong, Hyounkoo Han, Hannah Lee, Donghwan Lee, Junsu Ko, Zhen-Yu Hong, Jiyoung Lee, Ju‐Hyung Seok, Hee Seon Lim, Woo‐Chan Son, Insuk Sohn
Software Mentions: 1
Published: about 4 years ago
10.1186/s12913-016-1736-4
Design and validation of a questionnaire to assess organizational culture in French hospital wards
Cited by: 8
Author(s): F. Saillour-Glénisson, S. Domecq, Marion Krêt, Matthieu Sibé, J. P. Dumond, Philippe Michel
Software Mentions: 1
Published: about 8 years ago
10.1186/s12864-020-6693-y
A cost-sensitive online learning method for peptide identification
Cited by: 2
Author(s): Xijun Liang, Zhonghang Xia, Ling Jian, Yongxiang Wang, Xinnan Niu, Andrew J. Link
Software Mentions: 1
Published: over 4 years ago
10.1186/s12864-016-3327-5
Evaluating the effect of database inflation in proteogenomic search on sensitive and reliable peptide identification
Cited by: 34
Author(s): Honglan Li, Yoon Sung Joh, Hyunwoo Kim, Eunok Paek, Sang Won Lee, Kyu Baek Hwang
Software Mentions: 1
Published: almost 8 years ago
10.1186/s12864-017-3491-2
Using the entrapment sequence method as a standard to evaluate key steps of proteomics data analysis process
Cited by: 11
Author(s): Xu Feng, Liwei Li, Jianhong Zhang, Yunping Zhu, Cheng Chang, Kunxian Shu, Jie Ma
Software Mentions: 1
Published: over 7 years ago
10.1155/2014/801346
Lymphocyte Oxidative Stress/Genotoxic Effects Are Related to Serum IgG and IgA Levels in Coke Oven Workers
Cited by: 6
Author(s): Meili Gao, Yongfei Li, Anqing Zheng, Xiaochang Xue, Lan Chen, Yu Kong
Software Mentions: 1
Published: almost 11 years ago
10.1155/2014/312521
A Review of Subsequence Time Series Clustering
Cited by: 56
Author(s): Seyedjamal Zolhavarieh, Saeed Aghabozorgi, Teh Ying Wah
Software Mentions: 1
Published: almost 11 years ago
10.1155/2015/534949
Smart TV-Smartphone Multiscreen Interactive Middleware for Public Displays
Cited by: 5
Author(s): Francisco Martínez-Pabón, Jaime Caicedo-Guerrero, Jhon Jairo Ibarra-Samboní, Gustavo Ramírez-González, Davinia Hernández‐Leo
Software Mentions: 1
Published: almost 10 years ago
10.3390/s8117493
Large Scale Environmental Monitoring through Integration of Sensor and Mesh Networks
Cited by: 19
Author(s): Raja Jurdak, Abdelhamid Nafaa, Alessio Barbirato
Software Mentions: 1
Published: almost 16 years ago
10.1186/s12951-021-00779-7
MSN, MWCNT and ZnO nanoparticle-induced CHO-K1 cell polarisation is linked to cytoskeleton ablation
Cited by: 10
Author(s): Karmveer Yadav, Syed Azmal Ali, Ashok Kumar Mohanty, Eshwarmoorthy Muthusamy, Kesavan Subaharan, Gautam Kaul
Software Mentions: 1
Published: almost 4 years ago