pypi: Scaffold | Projects | Ecosyste.ms: Papers

10.1371/journal.pbio.1000105

Stress-Dependent Coordination of Transcriptome and Translatome in Yeast
Cited by: 131
Author(s): Regula E. Halbeisen, André P. Gerber
Software Mentions: 1
Published: over 17 years ago

Fungal and host protein persulfidation are functionally correlated and modulate both virulence and antifungal response
Cited by: 6
Author(s): Mónica Sueiro-Olivares, Jennifer Scott, Sara Gago, Dunja Petrovic, Emilia Kouroussis, Jasmina Živanović, Yidong Yu, Marlene Strobel, Cristina Cunha, Darren D Thomson, Rachael Fortune‐Grant, Sina Thusek, Paul Bowyer, Andreas Beilhack, Agostinho Carvalho, Elaine Bignell, Miloš R. Filipović, Jorge Amich
Software Mentions: 1
Published: over 5 years ago

10.1186/1754-6834-3-22

Rapid optimization of enzyme mixtures for deconstruction of diverse pretreatment/biomass feedstock combinations
Cited by: 142
Author(s): Goutami Banerjee, Suzana Car, John S. Scott-Craig, Melissa S. Borrusch, Jonathan D. Walton
Software Mentions: 1
Published: almost 16 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: almost 8 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 10 years ago

10.1186/s13068-016-0580-4

Mapping N-linked glycosylation of carbohydrate-active enzymes in the secretome of Aspergillus nidulans grown on lignocellulose
Cited by: 21
Author(s): Marcelo Ventura Rubio, Mariane Paludetti Zubieta, João Paulo L. Franco Cairo, Felipe Calzado, Adriana Franco Paes Leme, Fábio M. Squina, Rolf A. Prade, André Damásio
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pbio.1000418

Highly Divergent Mitochondrial ATP Synthase Complexes in Tetrahymena thermophila
Cited by: 74
Author(s): Praveen Balabaskaran Nina, Natalya V. Dudkina, Lesley A. Kane, Jennifer E. Van Eyk, Egbert J. Boekema, Michael W. Mather, Akhil B. Vaidya
Software Mentions: 1
Published: about 16 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: about 11 years ago

10.3390/plants9020172

Stimulation of Insect Herbivory by Elevated Temperature Outweighs Protection by the Jasmonate Pathway
Cited by: 10
Author(s): Nathan E. Havko, George Kapali, Michael R. Das, Gregg A. Howe
Software Mentions: 1
Published: over 6 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: over 6 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: almost 13 years ago

10.3390/plants10030519

Deciphering the Proteotoxic Stress Responses Triggered by the Perturbed Thylakoid Proteostasis in Arabidopsis
Cited by: 2
Author(s): Kenji Nishimura, Reiko Nakagawa, Chisato Hachisuga, Yuri Munekage
Software Mentions: 1
Published: over 5 years ago

10.3390/plants2030530

Identification of CP12 as a Novel Calcium-Binding Protein in Chloroplasts
Cited by: 19
Author(s): Agostinho G. Rocha, Ute C. Vothknecht
Software Mentions: 1
Published: about 13 years ago

10.1186/s13068-014-0151-5

Identification and characterization of core cellulolytic enzymes from Talaromyces cellulolyticus (formerly Acremonium cellulolyticus) critical for hydrolysis of lignocellulosic biomass
Cited by: 61
Author(s): Hiroyuki Inoue, Stephen R. Decker, Larry E. Taylor, Shinichi Yano, Shigeki Sawayama
Software Mentions: 1
Published: almost 12 years ago

10.1186/s12864-016-3048-9

High throughput techniques to reveal the molecular physiology and evolution of digestion in spiders
Cited by: 24
Author(s): Felipe J. Fuzita, Martijn W. H. Pinkse, José Salvatori Patané, Peter Verhaert, Adriana Rios Lopes
Software Mentions: 1
Published: about 10 years ago

10.1007/s00216-012-5767-3

De novo subtype and strain identification of botulinum neurotoxin type B through toxin proteomics
Cited by: 48
Author(s): Suzanne R. Kalb, Jakub Baudys, Jon C. Rees, Theresa J. Smith, Leonard A. Smith, Charles H. Helma, Karen K. Hill, Skadi Kull, Sebastian Kirchner, Martin B. Dorner, Brigitte G. Dorner, James L. Pirkle, John R. Barr
Software Mentions: 1
Published: over 14 years ago

10.1186/s40478-020-00911-y

Diversity in Aβ deposit morphology and secondary proteome insolubility across models of Alzheimer-type amyloidosis
Cited by: 9
Author(s): Guilian Xu, Susan Fromholt, Paramita Chakrabarty, Fanchao Zhu, Xuefei Liu, Michael C. Pace, Jin Koh, Todd E. Golde, Yona Levites, Jada Lewis, David R. Borchelt
Software Mentions: 1
Published: over 6 years ago

10.1042/AN20130027

Identification of Bax-Interacting Proteins in Oligodendrocyte Progenitors during Glutamate Excitotoxicity and Perinatal Hypoxia–Ischemia
Cited by: 26
Author(s): Sopio Simonishvili, Mohit Raja Jain, Hong Li, Steven W. Levison, Teresa L. Wood
Software Mentions: 1
Published: almost 13 years ago

10.3390/plants9101383

A Cytoplasmic Receptor-like Kinase Contributes to Salinity Tolerance
Cited by: 7
Author(s): Nir Sade, Weng Fei, Hiromi Tajima, Yarden Zeron, Lei Zhang, María del Mar Rubio Wilhelmi, George Q. Day, Zvi Peleg, Eduardo Blumwald
Software Mentions: 1
Published: almost 6 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: over 12 years ago

10.1042/BSR20190395

Proteomic screening of plasma identifies potential noninvasive biomarkers associated with significant/advanced fibrosis in patients with nonalcoholic fatty liver disease
Cited by: 15
Author(s): Wei Hou, Michael G. Janech, Philip M. Sobolesky, Alison M. Bland, Salma Samsuddin, William Alazawi, Wing Kin Syn
Software Mentions: 1
Published: over 6 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 11 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 8 years ago

10.1002/pld3.18

Cross-species complementation reveals conserved functions for EARLY FLOWERING 3 between monocots and dicots
Cited by: 17
Author(s): He Huang, Malia Gehan, Sarah E. Huss, Sophie Alvarez, César Lizárraga, Ellen L. Gruebbling, John Gierer, Michael J. Naldrett, Rebecca K. Bindbeutel, Bradley S. Evans, Todd C. Mockler, Dmitri A. Nusinow
Software Mentions: 1
Published: almost 9 years ago

10.1042/BSR20203544

Comparative analysis of extracellular proteomes reveals putative effectors of the boxwood blight pathogens, Calonectria henricotiae and C. pseudonaviculata
Cited by: 3
Author(s): Xiao Yang, Michael B. McMahon, Sowmya Ramachandran, Wesley M. Garrett, Nicholas LeBlanc, Jo Anne Crouch, Nina Shishkoff, Douglas G. Luster
Software Mentions: 1
Published: over 5 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: about 13 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: about 12 years ago

10.1111/pbi.12711

Biochemical characterization of metabolism-based atrazine resistance inAmaranthus tuberculatusand identification of an expressedGSTassociated with resistance
Cited by: 44
Author(s): Anton F. Evans, Sarah R. O’Brien, Rong Ma, Aaron G. Hager, Chance W. Riggins, Kris N. Lambert, Dean E. Riechers
Software Mentions: 1
Published: over 9 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 11 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: almost 8 years ago

10.14814/phy2.12853

Astrocyte-mediated regulation of multidrug resistance<scp>P</scp>-glycoprotein in fetal and neonatal brain endothelial cells: age-dependent effects
Cited by: 14
Author(s): Stephanie Baello, Majid Iqbal, William Gibb, Stephen G. Matthews
Software Mentions: 1
Published: about 10 years ago

10.1042/BSR20150220

Human fallopian tube proteome shows high coverage of mesenchymal stem cells associated proteins
Cited by: 10
Author(s): Chenyuan Wang, Yang Liu, Cheng Chang, Songfeng Wu, Jie Gao, Yang Zhang, Yingjie Chen, Fan Zhong, Gaopi Deng
Software Mentions: 1
Published: over 10 years ago

10.1007/s41048-018-0055-1

Molecular architecture of mouse and human pancreatic zymogen granules: protein components and their copy numbers
Cited by: 3
Author(s): JinSook Lee, Joseph A. Caruso, Garrett Hubbs, Patricia M. Schnepp, James H. Woods, Jingye Fang, Chunying Li, Kezhong Zhang, Paul M. Stemmer, Bhanu P. Jena, Xuequn Chen
Software Mentions: 1
Published: over 8 years ago

10.14814/phy2.14608

Comparative plasma proteomics in muscle atrophy during cancer‐cachexia and disuse: The search for atrokines
Cited by: 13
Author(s): Seongkyun Lim, Kirsten R. Dunlap, Megan E. Rosa‐Caldwell, Wesley S. Haynie, Lisa T. Jansen, Tyrone A. Washington
Software Mentions: 1
Published: almost 6 years ago

10.14814/phy2.14731

Profiling plasma‐extracellular vesicle proteins and microRNAs in diabetes onset in middle‐aged male participants in the ELSA‐Brasil study
Cited by: 8
Author(s): Laureane Nunes Masi, Paulo A Lotufo, Frederico Moraes Ferreira, Alice Cristina Rodrigues, Tamires Duarte Afonso Serdan, Talita Souza‐Siqueira, Aécio Assunção Braga, Magda Elizabeth Graciano Saldarriaga, Tatiana Carolina Alba-Loureiro, Fernanda Teixeira Borges, Diego Pulzatto Cury, Mário Hiroyuki Hirata, Renata Gorjão, Tania C. Pithon‐Curi, Simão Augusto Lottenberg, Ligia Maria Giongo Fedeli, Helder Takashi Imoto Nakaya, Isabela Judith Martins Benseñor, Rui Curi, Sandro Massao Hirabara
Software Mentions: 1
Published: over 5 years ago

10.3390/biom10060820

An Isoform of the Oncogenic Splice Variant AIMP2-DX2 Detected by a Novel Monoclonal Antibody
Cited by: 1
Author(s): Dae Gyu Kim, Tin Nguyen, Nam Hoon Kwon, Junsik Sung, Semi Lim, Eun Joo Kang, Jihye Lee, Woo Young Seo, Arum Kim, Yoon Soo Chang, Hyunbo Shim, Sung Hoon Kim
Software Mentions: 1
Published: over 6 years ago

10.14814/phy2.14610

Resistant starch slows the progression of CKD in the 5/6 nephrectomy mouse model
Cited by: 14
Author(s): Oleg Karaduta, Galina Glazko, Zeljko Dvanajscak, John M. Arthur, Samuel G. Mackintosh, Lisa Orr, Yasir Rahmatallah, Laxmi Yeruva, Alan J. Tackett, Boris Zybailov
Software Mentions: 1
Published: almost 6 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 5 years ago

10.14814/phy2.12116

The exocyst and regulatory GTPases in urinary exosomes
Cited by: 24
Author(s): Maria F. Chacon-Heszele, Soo Young Choi, Xiaofeng Zuo, Jeong‐In Baek, Chris W. Ward, Joshua H. Lipschutz
Software Mentions: 1
Published: about 12 years ago

10.3390/biom10081126

Structure-Antifouling Activity Relationship and Molecular Targets of Bio-Inspired(thio)xanthones
Cited by: 20
Author(s): Joana R. Almeida, Andreia Palmeira, Alexandre Campos, Isabel Cunha, Micaela Freitas, Aldo Barreiro Felpeto, Maria V. Turkina, Vı́tor Vasconcelos, Madalena Pinto, Marta Correia-da-Silva, Emı́lia Sousa
Software Mentions: 1
Published: about 6 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 11 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 10 years ago

10.3390/pharmaceutics11010031

Protein Corona Fingerprints of Liposomes: New Opportunities for Targeted Drug Delivery and Early Detection in Pancreatic Cancer
Cited by: 38
Author(s): Sara Palchetti, Damiano Caputo, Luca Digiacomo, Anna Laura Capriotti, Roberto Coppola, Daniela Pozzi, Giulio Caracciolo
Software Mentions: 1
Published: over 7 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: over 13 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 12 years ago

10.3390/pharmaceutics12020101

17β-Estradiol Delivered in Eye Drops: Evidence of Impact on Protein Networks and Associated Biological Processes in the Rat Retina through Quantitative Proteomics
Cited by: 6
Author(s): László Prókai, Khadiza Zaman, Vien Nguyen, Katalin Prókai-Tátrai
Software Mentions: 1
Published: over 6 years ago

10.3390/pharmaceutics13091392

Proteomics-Based Retinal Target Engagement Analysis and Retina-Targeted Delivery of 17β-Estradiol by the DHED Prodrug for Ocular Neurotherapy in Males
Cited by: 4
Author(s): Katalin Prókai-Tátrai, Khadiza Zaman, Vien Nguyen, Daniel L. De La Cruz, László Prókai
Software Mentions: 1
Published: about 5 years ago

10.3390/biom3020270

Overcoming Challenges and Opening New Opportunities in Glycoproteomics
Cited by: 5
Author(s): Ten‐Yang Yen, Sucharita Dutta, Christina Litsakos-Cheung, Alejandro A. Corona, Leslie C. Timpe, Bruce A. Macher
Software Mentions: 1
Published: over 13 years ago

10.3390/biom9090504

Integrative Analysis of the Core Fruit Lignification Toolbox in Pear Reveals Targets for Fruit Quality Bioengineering
Cited by: 14
Author(s): Yunpeng Cao, Xiaoxu Li, Lan Jiang
Software Mentions: 1
Published: almost 7 years ago

10.7717/peerj.2058

Potential urinary aging markers of 20-month-old rats
Cited by: 9
Author(s): Xundou Li, Youhe Gao
Software Mentions: 1
Published: over 10 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: almost 8 years ago

10.3390/biomedicines9070786

Circulating Extracellular Vesicle Proteins and MicroRNA Profiles in Subcortical and Cortical-Subcortical Ischaemic Stroke
Cited by: 14
Author(s): Laura Otero-Ortega, Elisa Alonso-López, María Pérez‐Mato, Fernando Laso-García, Mari Carmen Gómez-de Frutos, Luke Diekhorst, Marı́a Laura Garcı́a-Bermejo, Elisa Conde-Moreno, Blanca Fuentes, María Alonso de Leciñana, Susana B. Bravo, Exuperio Díez–Tejedor, María Gutiérrez-Fernández
Software Mentions: 1
Published: about 5 years ago

10.7717/peerj.813

Effects of anesthetics pentobarbital sodium and chloral hydrate on urine proteome
Cited by: 10
Author(s): Mindi Zhao, Xundou Li, Menglin Li, Youhe Gao
Software Mentions: 1
Published: over 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 8 years ago

10.7717/peerj.4510

Proteomic identification of galectin-11 and 14 ligands fromHaemonchus contortus
Cited by: 7
Author(s): Dhanasekaran Sakthivel, Jaclyn Swan, Sarah Preston, Shakif-Azam, Pierre Faou, Yaqing Jiao, Rachael Downs, Harinda Rajapaksha, Robin B. Gasser, David Piedrafita, Travis Beddoe
Software Mentions: 1
Published: over 8 years ago

10.3390/biomedicines9010008

Similarities and Differences in Extracellular Vesicle Profiles between Ischaemic Stroke and Myocardial Infarction
Cited by: 13
Author(s): Laura Otero-Ortega, Elisa Alonso-López, María Pérez‐Mato, Fernando Laso-García, Mari Carmen Gómez-de Frutos, Luke Diekhorst, Marı́a Laura Garcı́a-Bermejo, Elisa Conde-Moreno, Blanca Fuentes, María Alonso de Leciñana, Eduardo Armada, Lorena Buiza-Palomino, Exuperio Díez–Tejedor, María Gutiérrez-Fernández
Software Mentions: 1
Published: over 5 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: over 12 years ago

10.7717/peerj.3886

Alpha-arylphorin is a mitogen in the Heliothis virescens midgut cell secretome upon Cry1Ac intoxication
Cited by: 12
Author(s): Anaïs Castagnola, Jerreme Jackson, Omaththage P. Perera, Cris Oppert, Shigetoshi Eda, Juan Luís Jurat-Fuentes
Software Mentions: 1
Published: almost 9 years ago

10.1155/2014/810562

Age and SPARC Change the Extracellular Matrix Composition of the Left Ventricle
Cited by: 36
Author(s): Lisandra E. de Castro Brás, Hiroe Toba, Catalin F. Baicu, Michael R. Zile, Susan T. Weintraub, Merry L. Lindsey, Amy D. Bradshaw
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 11 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 5 years ago

10.7717/peerj.2911

Species-specific pharmacology of maximakinin, an amphibian homologue of bradykinin: putative prodrug activity at the human B2receptor and peptidase resistance in rats
Cited by: 5
Author(s): Xavier Charest‐Morin, Hélène Bachelard, Mélissa Jean, François Marceau
Software Mentions: 1
Published: over 9 years ago

10.1155/2017/7508316

Proteomic Analysis of Liver Proteins in a Rat Model of Chronic Restraint Stress-Induced Depression
Cited by: 8
Author(s): Cong Liu, Zhengguang Guo, Ronghua Zhao, Wei Sun, Ming Xie
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-020-07299-y

Shotgun proteomics of peach fruit reveals major metabolic pathways associated to ripening
Cited by: 12
Author(s): Ricardo Nilo-Poyanco, Carol Moraga, Gianfranco Benedetto, Ariel Orellana, Aparecida Marques de Almeida
Software Mentions: 1
Published: over 5 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: about 10 years ago

10.7717/peerj.2007

Sequence/structural analysis of xylem proteome emphasizes pathogenesis-related proteins, chitinases andβ-1, 3-glucanases as key players in grapevine defense againstXylella fastidiosa
Cited by: 13
Author(s): Sandeep Chakraborty, Rafael Nascimento, Paulo A. Zaini, Hossein Gouran, Basuthkar J. Rao, Luiz Ricardo Goulart, Abhaya M. Dandekar
Software Mentions: 1
Published: over 10 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: about 5 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 14 years ago

10.7717/peerj.754

Amyloid domains in the cell nucleus controlled by nucleoskeletal protein lamin B1 reveal a new pathway of mercury neurotoxicity
Cited by: 15
Author(s): Florian Arnhold, Karl‐Heinz Gührs, Anna von Mikecz
Software Mentions: 1
Published: over 11 years ago

10.1155/2015/208017

Secretome Identifies Tenascin-X as a Potent Marker of Ovarian Cancer
Cited by: 10
Author(s): M. Kramer, Sandra Pierredon, Pascale Ribaux, Jean-Christophe Tille, Patrick Petignat, Marie Cohen
Software Mentions: 1
Published: over 11 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: over 11 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 14 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 10 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 15 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 8 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 15 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 15 years ago

10.7717/peerj.7535

Identification of a nativeBacillus thuringiensisstrain from Sri Lanka active against Dipel-resistantPlutella xylostella
Cited by: 14
Author(s): Rashini Yasara Baragamaarachchi, Jayanetti Koralage Ramani Radhika Samarasekera, Ovitigala Vithanage Don Sisira Jagathpriya Weerasena, Kurt Lamour, Juan Luís Jurat-Fuentes
Software Mentions: 1
Published: about 7 years ago

10.1155/2019/4165735

Quantitative Proteomic Analyses of a Pathogenic Strain and Its Highly Passaged Attenuated Strain ofMycoplasma hyopneumoniae
Cited by: 5
Author(s): Sha Li, Liurong Fang, Wei Liu, Tao Song, Fuwei Zhao, Ruoxi Zhang, Dan Wang, Shaobo Xiao
Software Mentions: 1
Published: about 7 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: about 10 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: over 15 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 14 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 12 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 13 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: about 10 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: almost 13 years ago

10.7717/peerj.7717

Urine proteome changes in rats subcutaneously inoculated with approximately ten tumor cells
Cited by: 7
Author(s): Jing Wei, Wenqi Meng, Youhe Gao
Software Mentions: 1
Published: almost 7 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 15 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: over 13 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 14 years ago

10.1186/s12969-017-0220-y

Homocysteine, folate, hs-C-reactive protein, tumor necrosis factor alpha and inflammatory proteins: are these biomarkers related to nutritional status and cardiovascular risk in childhood-onset systemic lupus erythematosus?
Cited by: 11
Author(s): Roberta Garcia Salomão, Luciana Martins de Carvalho, Clarice Izumi, Érika Silva Czernisz, José César Rosa, Sonir Roberto Rauber Antonini, Ana Carolina Bueno, Maria Olímpia Ribeiro do Vale Almada, Carolina de Almeida Coelho‐Landell, Alceu Afonso Jordão, Virgínia Paes Leme Ferriani, Jacqueline Pontes Monteiro
Software Mentions: 1
Published: over 8 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: almost 13 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: over 16 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: over 13 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: almost 12 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 9 years ago

10.3390/pathogens5020040

Comparison of Surface Proteomes of Adherence Variants of Listeria Monocytogenes Using LC-MS/MS for Identification of Potential Surface Adhesins
Cited by: 9
Author(s): Hung King Tiong, Steven D. Hartson, Peter M. Muriana
Software Mentions: 1
Published: over 10 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 12 years ago

10.3390/biology8030053

ApoA-I-Mediated Lipoprotein Remodeling Monitored with a Fluorescent Phospholipid
Cited by: 6
Author(s): Edward B. Neufeld, Masaki Satō, Scott M. Gordon, Vinay Durbhakula, Nicolás Francone, Angel Aponte, Gizem Yilmaz, Denis Sviridov, Maureen Sampson, Jingrong Tang, Milton Pryor, Alan T. Remaley
Software Mentions: 1
Published: about 7 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: about 14 years ago

Projects: pypi: Scaffold

Enhanced Analysis

Science Score: 65/100

Penalties:

Papers Mentioning Scaffold 1,866