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: Scaffold

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

Simple project scaffolding for Python
5 versions
Latest release: about 1 year ago
343 downloads last month

Papers Mentioning Scaffold 1,866

10.1371/journal.pone.0127180
The Successful Diagnosis and Typing of Systemic Amyloidosis Using A Microwave-Assisted Filter-Aided Fast Sample Preparation Method and LC/MS/MS Analysis
Cited by: 13
Author(s): Weiyi Sun, Jian Sun, Lili Zou, Kaini Shen, Dingrong Zhong, Daobin Zhou, Wei Sun, Jian Li
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0119335
Recombinant Pvs48/45 Antigen Expressed in E. coli Generates Antibodies that Block Malaria Transmission in Anopheles albimanus Mosquitoes
Cited by: 31
Author(s): Myriam Arévalo‐Herrera, Andrés Vallejo, Kelly Rubiano, Yezid Solarte, Catherin Marín, Alejandro Castellanos, Nora Céspedes
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0130288
Hey bHLH Proteins Interact with a FBXO45 Containing SCF Ubiquitin Ligase Complex and Induce Its Translocation into the Nucleus
Cited by: 8
Author(s): Daniela Salat, Anja Winkler, Henning Urlaub, Manfred Gessler
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0191307
Salivary proteomics of healthy dogs: An in depth catalog
Cited by: 21
Author(s): Sheila M. F. Torres, Eva Furrow, Clarissa Pimentel de Souza, Jennifer L. Granick, Ebbing P. de Jong, Timothy J. Griffin, Xiong Wang
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0148900
Mutagenicity in a Molecule: Identification of Core Structural Features of Mutagenicity Using a Scaffold Analysis
Cited by: 16
Author(s): Keh‐Ying Hsu, Bo‐Han Su, Yi-Shu Tu, Olivia A. Lin, Yufeng J. Tseng
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pone.0116756
Proteomic Analysis of Pure Human Airway Gland Mucus Reveals a Large Component of Protective Proteins
Cited by: 38
Author(s): Nam Soo Joo, Idil A. Evans, Hyung‐Ju Cho, Il Ho Park, John F. Engelhardt, Jeffrey J. Wine
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0187981
Proteomics of Staphylococcus aureus biofilm matrix in a rat model of orthopedic implant-associated infection
Cited by: 26
Author(s): Mei-Guey Lei, Ravi Gupta, Chia Y. Lee
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pone.0242381
Registered report protocol: Quantitative analysis of septin Cdc10-associated proteome in Cryptococcus neoformans
Cited by: 1
Author(s): Stephani Martinez Barrera, Stephanie D. Byrum, Samuel G. Mackintosh, Lukasz Kozubowski
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pone.0213269
Adolescent idiopathic scoliosis associated POC5 mutation impairs cell cycle, cilia length and centrosome protein interactions
Cited by: 21
Author(s): Amani Hassan, Stefan Parent, Hélène Mathieu, Charlotte Zaouter, Sirinart Molidperee, Edward T. Bagu, Soraya Barchi, Isabelle Villemure, Shunmoogum A. Patten, Florina Moldovan
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0142650
Comparison of Different Buffers for Protein Extraction from Formalin-Fixed and Paraffin-Embedded Tissue Specimens
Cited by: 26
Author(s): Kaini Shen, Jian Sun, Xinxin Cao, Daobin Zhou, Jian Li
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pone.0183261
Identification of putative QTLs for seedling stage phosphorus starvation response in finger millet (Eleusine coracana L. Gaertn.) by association mapping and cross species synteny analysis
Cited by: 44
Author(s): Muthusamy Ramakrishnan, S. Antony Ceasar, K. K. Vinod, V. Duraipandiyan, Thumadath Palayullaparambil Ajeesh Krishna, Hari D. Upadhyaya, Naïf Abdullah Al-Dhabi, S. Ignacimuthu
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0038061
Differences in Immunoglobulin Light Chain Species Found in Urinary Exosomes in Light Chain Amyloidosis (AL)
Cited by: 34
Author(s): Marina Ramı́rez-Alvarado, Christopher J. Ward, Bing Huang, Xun Gong, Marie C. Hogan, Benjamin J. Madden, M. Cristine Charlesworth, Nelson Leung
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0095118
Physcomitrella patens Has Kinase-LRR R Gene Homologs and Interacting Proteins
Cited by: 11
Author(s): Yusuke Tanigaki, Kenji Ito, Y. Obuchi, Akiko Kosaka, Katsuyuki T. Yamato, Masahiro Okanami, Mikko Lehtonen, Jari P. T. Valkonen, Motomu Akita
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0081758
Rab GTPase Prenylation Hierarchy and Its Potential Role in Choroideremia Disease
Cited by: 53
Author(s): Monika Köhnke, Christine Delon, Marcus L. Hastie, Uyen Nguyen, Yao‐Wen Wu, Herbert Waldmann, Roger S. Goody, Jeffrey J. Gorman, Kirill Alexandrov
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0179996
Whole transcriptomic and proteomic analyses of an isogenic M. tuberculosis clinical strain with a naturally occurring 15 Kb genomic deletion
Cited by: 6
Author(s): Carla Duncan, Frances Jamieson, JoLynn Troudt, Linda Izzo, Helle Bielefeldt‐Ohmann, Angelo A. Izzo, Carolina Mehaffy
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0094831
Proteomic Analysis of Cattle Tick Rhipicephalus (Boophilus) microplus Saliva: A Comparison between Partially and Fully Engorged Females
Cited by: 136
Author(s): Lucas Tirloni, José Reck, Renata Maria Soares Terra, João Ricardo Martins, Albert Mulenga, Nicholas E. Sherman, Jay W. Fox, John R. Yates, Carlos Termignoni, Antônio Frederico Michel Pinto, Itabajara da Silva Vaz
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0071859
Comparative Proteomics Reveals Novel Components at the Plasma Membrane of Differentiated HepaRG Cells and Different Distribution in Hepatocyte- and Biliary-Like Cells
Cited by: 21
Author(s): Catalina Petrareanu, Alina Macovei, Izabela Sokolowska, Alisa G. Woods, Catalin Lazar, Gabriel Lucian Radu, Costel C. Darie, Norica Branza‐Nichita
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0257338
The effects of fossil taxa, hypothetical predicted ancestors, and a molecular scaffold on pseudoextinction analyses of extant placental orders
Cited by: 2
Author(s): Peggy L. Brady, Mark S. Springer
Software Mentions: 1
Published: about 3 years ago
10.1371/journal.pone.0174771
Time- and radiation-dose dependent changes in the plasma proteome after total body irradiation of non-human primates: Implications for biomarker selection
Cited by: 24
Author(s): Stephanie D. Byrum, Marie Schluterman Burdine, Lisa Orr, Samuel G. Mackintosh, Simon Authier, Mylène Pouliot, Martin Hauer‐Jensen, Alan J. Tackett
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0047845
Quantitative Proteomic Analysis of Niemann-Pick Disease, Type C1 Cerebellum Identifies Protein Biomarkers and Provides Pathological Insight
Cited by: 60
Author(s): Stephanie M. Cologna, Xiao Jiang, Peter S. Backlund, Céline Cluzeau, Michelle K. Dail, Nicole M. Yanjanin, Stephan Siebel, Cynthia L. Toth, Hyun Sik Jun, Christopher A. Wassif, Alfred L. Yergey, Forbes D. Porter
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pone.0110443
Rapid Isolation of Extracellular Vesicles from Cell Culture and Biological Fluids Using a Synthetic Peptide with Specific Affinity for Heat Shock Proteins
Cited by: 141
Author(s): Anirban Ghosh, Michelle Davey, Ian C. Chute, Steven G. Griffiths, Scott A. Lewis, Simi Chacko, David A. Barnett, Nicolas Crapoulet, Sébastien Fournier, Andrew P. Joy, Michelle C. Caissie, Amanda D. Ferguson, Mélissa Daigle, Maria‐Victoria Meli, Stephen M. Lewis, Rodney J. Ouellette
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0056780
Systematic Screens for Proteins That Interact with the Mucolipidosis Type IV Protein TRPML1
Cited by: 15
Author(s): Ellen Spooner, Brooke M. McLaughlin, Talya S. Lepow, Tyler Durns, Justin R. Randall, Cameron P. Upchurch, Katherine Miller, Erin M. Campbell, Hanna Fares
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0009075
Comprehensive Identification and Modified-Site Mapping of S-Nitrosylated Targets in Prostate Epithelial Cells
Cited by: 76
Author(s): Ying‐Wai Lam, Yong Yuan, J.E. Isaac, C. V. Suresh Babu, Jarosław Meller, Shuk‐Mei Ho
Software Mentions: 1
Published: almost 15 years ago
10.1371/journal.pone.0074187
The Suppressor of AAC2 Lethality SAL1 Modulates Sensitivity of Heterologously Expressed Artemia ADP/ATP Carrier to Bongkrekate in Yeast
Cited by: 7
Author(s): Monika Wysocka-Kapcińska, Beáta Törőcsik, Lilla Turiák, George Tsaprailis, Cynthia L. David, Andrea Hunt, Károly Vékey, Vera Ádám-Vizi, Róża Kucharczyk, Christos Chinopoulos
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0054942
Identification of GPCR-Interacting Cytosolic Proteins Using HDL Particles and Mass Spectrometry-Based Proteomic Approach
Cited by: 25
Author(s): Ka Young Chung, Peter W. Day, Gisselle Velez-Ruiz, Roger K. Sunahara, Brian K. Kobilka
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0114476
Computational and Experimental Analysis of the Secretome of Methylococcus capsulatus (Bath)
Cited by: 7
Author(s): Stine Indrelid, Geir Mathiesen, Morten Jacobsen, Tor Lea, C Kleiveland
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pone.0159231
A Cytolethal Distending Toxin Variant from Aggregatibacter actinomycetemcomitans with an Aberrant CdtB That Lacks the Conserved Catalytic Histidine 160
Cited by: 5
Author(s): Davor Obradović, Rok Gašperšič, Simon Caserman, Adrijana Leonardi, Maja Jamnik, Zdravko Podlesek, Katja Seme, Gregor Anderluh, Igor Križaj, Peter Maček, Matej Butala
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0023067
The Redox State of Transglutaminase 2 Controls Arterial Remodeling
Cited by: 44
Author(s): Jeroen van den Akker, Ed VanBavel, Remon van Geel, Hanke L. Matlung, Bilge Güvenç Tuna, George M.C. Janssen, Peter A. van Veelen, Wilbert C. Boelens, Jo G. R. De Mey, Erik N. T. P. Bakker
Software Mentions: 1
Published: about 13 years ago
10.1371/journal.pone.0166657
Evaluation of Stem Cell-Derived Red Blood Cells as a Transfusion Product Using a Novel Animal Model
Cited by: 12
Author(s): Sandeep N. Shah, Monique P. Gelderman, Emily M.A. Lewis, John Farrel, Francine Wood, Michael Brad Strader, Abdu I. Alayash, Jaroslav G. Vostal
Software Mentions: 1
Published: almost 8 years ago
10.1371/journal.pone.0116091
Herpes Simplex Virus 2 (HSV-2) Infected Cell Proteins Are among the Most Dominant Antigens of a Live-Attenuated HSV-2 Vaccine
Cited by: 13
Author(s): Joshua Geltz, Edward Gershburg, William P. Halford
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pone.0035898
Congenic Strain Analysis Reveals Genes That Are Rapidly Evolving Components of a Prezygotic Isolation Mechanism Mediating Incipient Reinforcement
Cited by: 12
Author(s): Christina M. Laukaitis, Corina Mauss, Robert C. Karn
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0253384
Shotgun proteomics of Brassica rapa seed proteins identifies vicilin as a major seed storage protein in the mature seed
Cited by: 7
Author(s): Mahmudur Rahman, Qi Guo, Abdul Baten, Ramil Mauleon, Amina Khatun, Lei Liu, Bronwyn J. Barkla
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0158470
Intrinsic Tau Acetylation Is Coupled to Auto-Proteolytic Tau Fragmentation
Cited by: 33
Author(s): Todd J. Cohen, Brian H. Constance, Andrew Hwang, Michael J. James, Chao Yuan
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0248717
Identification of individual components of a commercial wheat germ acid phosphatase preparation
Cited by: 1
Author(s): Veronica R. Moorman, Alexandra M Brayton
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0038954
Identification of a Candidate Proteomic Signature to Discriminate Multipotent and Non-Multipotent Stromal Cells
Cited by: 11
Author(s): Michael Rosu‐Myles, Yi‐Min She, Joel Fair, Gauri Muradia, Jelica Mehic, Pablo Menéndez, Shiv S. Prasad, Terry D. Cyr
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0121826
Identification of Multiple Metabolic Enzymes from Mice Cochleae Tissue Using a Novel Functional Proteomics Technology
Cited by: 4
Author(s): David L. Wang, Hui Li, Ruqiang Liang, Jianxin Bao
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0020029
Secretome-Based Identification of ULBP2 as a Novel Serum Marker for Pancreatic Cancer Detection
Cited by: 49
Author(s): Ya-Ting Chang, Chih‐Ching Wu, Yi‐Ming Shyr, Tse‐Ching Chen, Tsann‐Long Hwang, Ta‐Sen Yeh, Kai-Ping Chang, Hao‐Ping Liu, Yuling Liu, Ming–Hung Tsai, Yu‐Sun Chang, Jau‐Song Yu
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0202260
The N-recognin UBR4 of the N-end rule pathway is required for neurogenesis and homeostasis of cell surface proteins
Cited by: 17
Author(s): Sung Tae Kim, Yoon Jee Lee, Takafumi Tasaki, Joonsung Hwang, Min Jueng Kang, Eugene C. Yi, Bo Yeon Kim, Yong Tae Kwon
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pone.0029307
Differential Phosphorylation of Ribosomal Proteins in Arabidopsis thaliana Plants during Day and Night
Cited by: 54
Author(s): Maria V. Turkina, Hanna Klang Årstrand, Alexander V. Vener
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pone.0084112
Ovocalyxin-36 Is a Pattern Recognition Protein in Chicken Eggshell Membranes
Cited by: 46
Author(s): Cristianne Cordeiro, Hamed Esmaili, G. A. Ansah, Maxwell T. Hincke
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0208394
Proteomic analysis of liver tissue from dogs with chronic hepatitis
Cited by: 9
Author(s): Yuri A. Lawrence, Lawrence J. Dangott, Aline Rodrigues Hoffmann, Jörg M. Steiner, Jan S. Suchodolski, Jonathan A. Lidbury
Software Mentions: 1
Published: almost 6 years ago
10.1371/journal.pone.0015332
Perfluorooctanoic Acid for Shotgun Proteomics
Cited by: 34
Author(s): Chandra Sekhar Rao Kadiyala, Sara E. Tomechko, Masaru Miyagi
Software Mentions: 1
Published: almost 14 years ago
10.1371/journal.pone.0051078
Cytosolic, Autocrine Alpha-1 Proteinase Inhibitor (A1PI) Inhibits Caspase-1 and Blocks IL-1β Dependent Cytokine Release in Monocytes
Cited by: 13
Author(s): Yonggang Wang, Yong He, Bindu Abraham, Farshid N. Rouhani, Mark Brantly, Dorothy E. Scott, Jennifer L. Reed
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0206530
Cold plasma effect on the proteome of Pseudomonas aeruginosa – Role for bacterioferritin
Cited by: 6
Author(s): Ka Pui Sharon Yau, Anthony B. Murphy, Ling Zhong, Anne Mai‐Prochnow
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pone.0063610
The Novel Ubiquitin Ligase Complex, SCFFbxw4, Interacts with the COP9 Signalosome in an F-Box Dependent Manner, Is Mutated, Lost and Under-Expressed in Human Cancers
Cited by: 22
Author(s): William W. Lockwood, Sahiba K. Chandel, Greg L. Stewart, Hediye Erdjument‐Bromage, Levi J. Beverly
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0157860
Phosphorylation Sites Identified in the NEIL1 DNA Glycosylase Are Potential Targets for the JNK1 Kinase
Cited by: 14
Author(s): Aishwarya Prakash, Vy Bao Cao, Sylvie Doublié
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0077471
Analysis of the Sperm Head Protein Profiles in Fertile Men: Consistency across Time in the Levels of Expression of Heat Shock Proteins and Peroxiredoxins
Cited by: 14
Author(s): Elsa Kichine, Marcos Di Falco, Barbara F. Hales, Bernard Robaire, Peter Chan
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0091537
Analysis of Isotopic Labeling in Peptide Fragments by Tandem Mass Spectrometry
Cited by: 18
Author(s): Doug K. Allen, Bradley S. Evans, Igor G. L. Libourel
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0018121
The Serine 814 of TRPC6 Is Phosphorylated under Unstimulated Conditions
Cited by: 9
Author(s): Simon M. Bousquet, Michaël Monet, Guylain Boulay
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0056063
A Two-Component System (XydS/R) Controls the Expression of Genes Encoding CBM6-Containing Proteins in Response to Straw in Clostridium cellulolyticum
Cited by: 22
Author(s): Hamza Celik, Jean-Charles Blouzard, Birgit Voigt, Dörte Becher, Valentine Trotter, Henri-Pierre Fiérobe, Chantal Tardif, Sandrine Pagès, Pascale de Philip
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0032895
Chemotherapeutic Sensitization of Leptomycin B Resistant Lung Cancer Cells by Pretreatment with Doxorubicin
Cited by: 29
Author(s): Chao Lü, Changxia Shao, Everardo Cobos, Kamaleshwar P. Singh, Weimin Gao
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0153534
Identification of VPS13C as a Galectin-12-Binding Protein That Regulates Galectin-12 Protein Stability and Adipogenesis
Cited by: 34
Author(s): Ri Yao Yang, Huiting Xue, Liang Yu, Antonio Velayos‐Baeza, Anthony P. Monaco, Fu Tong Liu
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0116092
Upregulation of Glycolytic Enzymes, Mitochondrial Dysfunction and Increased Cytotoxicity in Glial Cells Treated with Alzheimer’s Disease Plasma
Cited by: 20
Author(s): Tharusha Jayasena, Anne Poljak, Nady Braidy, George A. Smythe, Mark J. Raftery, Mark A. Hill, Henry Brodaty, Julian N. Trollor, Nicole A. Kochan, Perminder S. Sachdev
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0248000
A proteomics approach for the identification of cullin-9 (CUL9) related signaling pathways in induced pluripotent stem cell models
Cited by: 3
Author(s): Natalya A. Ortolano, Alejandra I. Romero-Morales, Megan L. Rasmussen, Caroline Bodnya, Leigh A. Kline, Piyush Joshi, Jon P. Connelly, Kristie L. Rose, Shondra M. Pruett-Miller, Vivian Gama
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0178438
Elucidation of the compatible interaction between banana and Meloidogyne incognita via high-throughput proteome profiling
Cited by: 6
Author(s): Aisyafaznim Al-Idrus, Sébastien Carpentier, Mohamad Taufiq Ahmad, Bart Panis, Mohamed Zeriouh
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0099104
Archaeal Tuc1/Ncs6 Homolog Required for Wobble Uridine tRNA Thiolation Is Associated with Ubiquitin-Proteasome, Translation, and RNA Processing System Homologs
Cited by: 31
Author(s): Nikita E. Chavarria, Sungmin Hwang, Shiyun Cao, Xian Fu, M. M. Holman, Dina Elbanna, S. Rodríguez, Deanna Arrington, Markus Englert, Sivakumar Uthandi, Dieter Söll, Julie A. Maupin-Furlow
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0039424
MALDI Imaging Mass Spectrometry for In Situ Proteomic Analysis of Preneoplastic Lesions in Pancreatic Cancer
Cited by: 52
Author(s): Barbara M. Grüner, Hannes Hahne, Paweł K. Mazur, Marija Trajkovic‐Arsic, Stefan A. Maier, Irene Espósito, Evdokia Kalideris, Christoph Michalski, Jörg Kleeff, Sandra Rauser, Roland M. Schmid, Bernhard Küster, Axel Walch, Jens T. Siveke
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0164796
The Specific α1-Adrenergic Receptor Antagonist Prazosin Influences the Urine Proteome
Cited by: 6
Author(s): Mindi Zhao, Jianhuang Wu, Youhe Gao
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pone.0172737
Analysis of Spo0M function in Bacillus subtilis
Cited by: 13
Author(s): Luz Adriana Vega-Cabrera, Adán Guerrero, José Luis Rodríguez-Mejía, Marı́a Luisa Tabche, Christopher D. Wood, Rosa-María Gutiérrez-Rios, Enrique Merino, Liliana Pardo-López
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0205762
Severity of clinical dry eye manifestations influences protein expression in tear fluid of patients with primary Sjögren’s syndrome
Cited by: 16
Author(s): Lara A. Aqrawi, Xiangjun Chen, Janicke Liaaen Jensen, Mathias Kaurstad Morthen, Bernd Thiede, Øygunn Aass Utheim, Øyvind Palm, Behzod Tashbayev, Tor Paaske Utheim, Hilde Kanli Galtung
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pone.0112158
Identification of Regulatory Factors for Mesenchymal Stem Cell-Derived Salivary Epithelial Cells in a Co-Culture System
Cited by: 18
Author(s): Yun‐Jong Park, Jin Koh, Adrienne E. Gauna, Sixue Chen, Seunghee Cha
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pone.0135663
Proteomic Analysis of Disease Stratified Human Pancreas Tissue Indicates Unique Signature of Type 1 Diabetes
Cited by: 22
Author(s): Tanya C. Burch, Margaret A. Morris, Martha Campbell-Thompson, Alberto Pugliese, Jerry L. Nadler, Julius O. Nyalwidhe
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pone.0105047
The Proteome of Cholesteryl-Ester-Enriched Versus Triacylglycerol-Enriched Lipid Droplets
Cited by: 65
Author(s): Victor K. Khor, Robert Ahrends, Yun‐Lian Lin, Wen-Jun Shen, Christopher M. Adams, Ann N. Roseman, Yuan Cortez, Mary N. Teruel, Salman Azhar, Fredric B. Kraemer
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0051345
Disruption of the S41 Peptidase Gene in Mycoplasma mycoides capri Impacts Proteome Profile, H2O2 Production, and Sensitivity to Heat Shock
Cited by: 13
Author(s): Ayman B. Allam, Mary Bomberger Brown, Leticia Reyes
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0071654
Proteomic Analysis of Signaling Network Regulation in Renal Cell Carcinomas with Differential Hypoxia-Inducible Factor-2α Expression
Cited by: 10
Author(s): Lokesh Dalasanur Nagaprashantha, Tatjana Talamantes, Jyotsana Singhal, Jia Guo, Rit Vatsyayan, Navin Rauniyar, Yogesh C. Awasthi, Sharad S. Singhal, László Prókai
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0115644
Synthesis and Evaluation of a Novel Adenosine-Ribose Probe for Global-Scale Profiling of Nucleoside and Nucleotide-Binding Proteins
Cited by: 5
Author(s): Shikha Mahajan, Roman Manetsch, David J. Merkler, Stanley M. Stevens
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pone.0193771
Identification of proteins interacting with the mitochondrial small heat shock protein Hsp22 of Drosophila melanogaster: Implication in mitochondrial homeostasis
Cited by: 11
Author(s): Afrooz Dabbaghizadeh, Geneviève Morrow, Yasmine Ould Amer, Étienne Hébert Chatelain, Nicolas Pichaud, Robert M. Tanguay
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0003923
Media Ion Composition Controls Regulatory and Virulence Response of Salmonella in Spaceflight
Cited by: 138
Author(s): James W. Wilson, C. Mark Ott, Laura Quick, Richard R. Davis, Kerstin Höner zu Bentrup, Aurélie Crabbé, Emily Richter, Shameema Sarker, Jennifer Barrila, Steffen Porwollik, Pui Cheng, Michael McClelland, George Tsaprailis, Timothy Radabaugh, Andrea Hunt, Miti Shah, Mayra Nelman-Gonzalez, Steve Hing, Macarena Parra, Paula Dumars, Kelly L. Norwood, Ramona Bober, Jennifer Devich, Ashleigh Ruggles, Autumn Cdebaca, Satro Narayan, J. D. Benjamin, Carla Goulart, Mark Rupert, Luke Catella, Michael J. Schurr, Kent L. Buchanan, Lisa A. Morici, James McCracken, Marc D. Porter, Duane L. Pierson, Scott M. Smith, Max Mergeay, Natalie Leys, Heidemarie M. Stefanyshyn-Piper, Dominic Gorie, Cheryl A. Nickerson
Software Mentions: 1
Published: almost 16 years ago
10.1371/journal.pone.0119350
Comparative Proteome Analysis of Brown Adipose Tissue in Obese C57BL/6J Mice Using iTRAQ-Coupled 2D LC-MS/MS
Cited by: 13
Author(s): Juan Li, Weigang Zhao, Zhufang Shen, Tao Yuan, Shuainan Liu, Quan Liu, Yong Fu, Wei Sun
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0181779
Microwave & magnetic proteomics of macrophages from patients with HIV-associated cognitive impairment
Cited by: 3
Author(s): Yisel M. Cantres-Rosario, Frances M. Acevedo-Mariani, Juliana Pérez-Laspiur, William E. Haskins, Marinés Plaud, Yadira M. Cantres-Rosario, Richard L. Skolasky, Israel J Méndez-Bermúdez, Valerie Wojna, Loyda M. Meléndez
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0082622
Proteomic Analysis of a NAP1 Clostridium difficile Clinical Isolate Resistant to Metronidazole
Cited by: 58
Author(s): Patrick Chong, Tarah Lynch, Stuart McCorrister, Pamela Kibsey, Mark A. Miller, Denise Gravel, Garrett Westmacott, Michael R. Mulvey
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0140826
Metabolic Interplay between the Asian Citrus Psyllid and Its Profftella Symbiont: An Achilles’ Heel of the Citrus Greening Insect Vector
Cited by: 62
Author(s): John S. Ramsey, Richard S. Johnson, Jason S. Hoki, Angela Kruse, Jaclyn Mahoney, Mark E. Hilf, Wayne B. Hunter, David G. Hall, Frank C. Schroeder, Michael J. MacCoss, Michelle Cilia
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pone.0157895
The Eukaryotic-Specific ISD11 Is a Complex-Orphan Protein with Ability to Bind the Prokaryotic IscS
Cited by: 6
Author(s): Robert Yan, Martin Friemel, Claudia M. N. Aloisi, Martijn A. Huynen, Ian A. Taylor, Silke Leimkühler, Annalisa Pastore
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0020979
Positive Selection Shaped the Convergent Evolution of Independently Expanded Kallikrein Subfamilies Expressed in Mouse and Rat Saliva Proteomes
Cited by: 17
Author(s): Robert C. Karn, Christina M. Laukaitis
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0076108
Metaproteome Analysis of Endodontic Infections in Association with Different Clinical Conditions
Cited by: 36
Author(s): José C. Provenzano, José F. Siqueira, Isabela N. Rôças, Romênia R. Domingues, Adriana Franco Paes Leme, Márcia R. S. Silva
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0095507
In Vivo Substrates of the Lens Molecular Chaperones αA-Crystallin and αB-Crystallin
Cited by: 27
Author(s): Usha P. Andley, James P. Malone, R. Reid Townsend
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0227449
Pathologic properties of SOD3 variant R213G in the cardiovascular system through the altered neutrophils function
Cited by: 3
Author(s): Myung-Ja Kwon, Kyo‐Young Lee, Won-Gug Ham, Lee-Jung Tak, Gaurav Agrahari, Taeyoon Kim
Software Mentions: 1
Published: almost 5 years ago
10.1371/journal.pone.0220225
Genome annotation improvements from cross-phyla proteogenomics and time-of-day differences in malaria mosquito proteins using untargeted quantitative proteomics
Cited by: 2
Author(s): Lisa Imrie, Thierry Le Bihan, Áine O’Toole, Paul V. Hickner, William A. Dunn, Benjamin Alexander Weise, Samuel S. C. Rund
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0132949
Enterococcus faecalis Glycolipids Modulate Lipoprotein-Content of the Bacterial Cell Membrane and Host Immune Response
Cited by: 8
Author(s): Christian Theilacker, Ann-Kristin Diederich, Andreas Otto, Irina G. Sava, Dominique Wobser, Yinyin Bao, Katrin Hese, Melanie Broszat, Philipp Henneke, Dörte Becher, Johannes Hüebner
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0037035
Peptide Array X-Linking (PAX): A New Peptide-Protein Identification Approach
Cited by: 16
Author(s): Hirokazu Okada, Akiyoshi Uezu, Erik J. Soderblom, M. Arthur Moseley, Frank B. Gertler, Scott H. Soderling
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0167086
An Accessory Protease Inhibitor to Increase the Yield and Quality of a Tumour-Targeting mAb in Nicotiana benthamiana Leaves
Cited by: 27
Author(s): Philippe V. Jutras, Carla Marusic, Chiara Lonoce, Carole Deflers, Marie‐Claire Goulet, Eugenio Benvenuto, Dominique Michaud, Marcello Donini
Software Mentions: 1
Published: almost 8 years ago
10.1371/journal.pone.0011380
HOIL-1L Interacting Protein (HOIP) as an NF-κB Regulating Component of the CD40 Signaling Complex
Cited by: 27
Author(s): Bruce S. Hostager, Daniel K. Fox, Douglas Whitten, Curtis G. Wilkerson, Betty A. Eipper, Victor P. Francone, Paul B. Rothman, John Colgan
Software Mentions: 1
Published: over 14 years ago
10.1371/journal.pone.0166883
Overexpressed Proteins in Hypervirulent Clade 8 and Clade 6 Strains of Escherichia coli O157:H7 Compared to E. coli O157:H7 EDL933 Clade 3 Strain
Cited by: 12
Author(s): Natalia Amigo, Qí Zhāng, Ariel Fernando Amadío, Qun‐Jie Zhang, Wanderson Marques da Silva, Baiyuan Cui, Zhongjian Chen, Mariano Larzábal, Jinlong Bei, Angel Cataldi
Software Mentions: 1
Published: almost 8 years ago
10.1371/journal.pone.0203708
The DEAD-box RNA-binding protein DDX6 regulates parental RNA decay for cellular reprogramming to pluripotency
Cited by: 11
Author(s): Daisuke Kami, Tomoya Kitani, Akihiro Nakamura, Naoki Wakui, Ryuta Mizutani, Masahito Ohue, Fuyuki Kametani, Nobuyoshi Akimitsu, Satoshi Gojo
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pone.0047866
Venom Proteome of the Box Jellyfish Chironex fleckeri
Cited by: 56
Author(s): Diane L. Brinkman, Ammar Aziz, Alex Loukas, Jeremy Potriquet, Jamie Seymour, Jason Mulvenna
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0115454
Did Androgen-Binding Protein Paralogs Undergo Neo- and/or Subfunctionalization as the Abp Gene Region Expanded in the Mouse Genome?
Cited by: 9
Author(s): Robert C. Karn, Amanda Chung, Christina M. Laukaitis
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pone.0040896
First Insight into the Kinome of Human Regulatory T Cells
Cited by: 14
Author(s): Sebastian König, Michaël Probst-Kepper, Tobias Reinl, Andreas Jeron, Jochen Huehn, Burkhart Schraven, Lothar Jänsch
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0228871
Variability in protein cargo detection in technical and biological replicates of exosome-enriched extracellular vesicles
Cited by: 13
Author(s): Suma Tiruvayipati, Donald J. Wolfgeher, Yue Ming, Fangfang Duan, Jorge Andrade, Hui Jiang, Lucia Schuger
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0074502
Identification of an Intrinsic Determinant Critical for Maspin Subcellular Localization and Function
Cited by: 18
Author(s): Sijana H. Dzinic, Alexander Kaplun, Xiao Hua Li, M. Margarida Bernardo, Yan Meng, Ivory Dean, David Krass, Paul M. Stemmer, Namhee Shin, Fulvio Lonardo, Sheng Shen
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0135973
Polysomes of Trypanosoma brucei: Association with Initiation Factors and RNA-Binding Proteins
Cited by: 33
Author(s): Claudius Klein, Monica Terrao, Diana Inchaustegui Gil, Christine Clayton
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0067513
The Cardiac Acetyl-Lysine Proteome
Cited by: 82
Author(s): D. Brian Foster, Ting Liu, Jasma Rucker, Robert N. O’Meally, Lauren DeVine, Robert N. Cole, Brian O’Rourke
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0119222
Quantitative Proteomics Reveal Distinct Protein Regulations Caused by Aggregatibacter actinomycetemcomitans within Subgingival Biofilms
Cited by: 36
Author(s): Kai Bao, Nagihan Bostancı, Nathalie Selevsek, Thomas Thurnheer, Georgios N. Belibasakis
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0100426
Four Escherichia coli O157:H7 Phages: A New Bacteriophage Genus and Taxonomic Classification of T1-Like Phages
Cited by: 49
Author(s): Yan D. Niu, Tim A. McAllister, John H. E. Nash, Andrew M. Kropinski, Kim Stanford
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0077484
Cell Survival Following Radiation Exposure Requires miR-525-3p Mediated Suppression of ARRB1 and TXN1
Cited by: 17
Author(s): Anne Kraemer, Žarko Barjaktarović, Hakan Sarioglu, Klaudia Winkler, Friederike Eckardt‐Schupp, Soile Tapio, Michael J. Atkinson, Simone Moertl
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0087613
Genome-Wide Analysis of Antiviral Signature Genes in Porcine Macrophages at Different Activation Statuses
Cited by: 35
Author(s): Yongming Sang, Wyatt Brichalli, Raymond R. R. Rowland, Frank Blecha
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0071769
Cofilin Oligomer Formation Occurs In Vivo and Is Regulated by Cofilin Phosphorylation
Cited by: 24
Author(s): Pankaj Goyal, Dharmendra Pandey, Daniela Brünnert, Elke Hammer, Marek Zygmunt, Wolfgang Siess
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0231114
Drosophila MARF1 ensures proper oocyte maturation by regulating nanos expression
Cited by: 8
Author(s): Shinichi Kawaguchi, Mizuki Ueki, Toshie Kai
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0104316
Vaccine-Mediated Immune Responses to Experimental Pulmonary Cryptococcus gattii Infection in Mice
Cited by: 36
Author(s): A. K. Chaturvedi, Rumanasma S. Hameed, Karen L. Wozniak, Camaron R. Hole, Chrissy M. Leopold Wager, Susan T. Weintraub, José L. Lopez-Ribot, Floyd L. Wormley
Software Mentions: 1
Published: over 10 years ago
10.3390/cancers13174419
Defining the Tumor Microenvironment by Integration of Immunohistochemistry and Extracellular Matrix Targeted Imaging Mass Spectrometry
Cited by: 9
Author(s): Denys Rujchanarong, Julia Lefler, Janet Saunders, Sarah Pippin, Laura Spruill, Jennifer R. Bethard, Lauren E. Ball, Anand Mehta, Richard Drake, Michael C. Ostrowski, Peggi Angel
Software Mentions: 1
Published: about 3 years ago
10.3390/cancers13071660
Malignant Pleural Mesothelioma Interactome with 364 Novel Protein-Protein Interactions
Cited by: 8
Author(s): Kalyani B. Karunakaran, Naveena Yanamala, Gregory R. Boyce, Michael J. Becich, Madhavi K. Ganapathiraju
Software Mentions: 1
Published: over 3 years ago