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

10.7717/peerj.2007
Sequence/structural analysis of xylem proteome emphasizes pathogenesis-related proteins, chitinases and<i>β</i>-1, 3-glucanases as key players in grapevine defense against<i>Xylella fastidiosa</i>
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 8 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: almost 8 years ago
10.7717/peerj.3886
Alpha-arylphorin is a mitogen in the <i>Heliothis virescens</i> 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: about 7 years ago
10.7717/peerj.4510
Proteomic identification of galectin-11 and 14 ligands from<i>Haemonchus contortus</i>
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 6 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 9 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 8 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 3 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: almost 5 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: almost 6 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: over 10 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: about 4 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: almost 4 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: about 4 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: over 8 years ago
10.1111/pbi.12711
Biochemical characterization of metabolism-based atrazine resistance in<i>Amaranthus tuberculatus</i>and identification of an expressed<i>GST</i>associated 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 7 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: about 7 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: about 4 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 11 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 3 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: almost 5 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: over 14 years ago
10.1371/journal.pbio.3001247
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 3 years ago
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 15 years ago
10.1371/journal.pbio.2000733
The Machado–Joseph Disease Deubiquitinase Ataxin-3 Regulates the Stability and Apoptotic Function of p53
Cited by: 59
Author(s): Hongmei Li, Xiaoling Li, Ning Guan, Shu Zhu, Xinwen Ma, Xiuli Liu, Chunying Liu, Min Huang, Imke Schmitt, Ullrich Wüllner, Yamei Niu, Caixia Guo, Qiang Wang, Tie-Shan Tang
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pbio.3000425
Targeting oxidative pentose phosphate pathway prevents recurrence in mutant Kras colorectal carcinomas
Cited by: 15
Author(s): Wenchao Gao, Yuting Xu, Tao Chen, Zunguo Du, Xiujuan Liu, Zhiqian Hu, Wei Dong, Chunfang Gao, Wei Zhang, Qingquan Li
Software Mentions: 1
Published: about 5 years ago
10.1371/journal.pbio.1000559
High-Throughput Chemical Screen Identifies a Novel Potent Modulator of Cellular Circadian Rhythms and Reveals CKIα as a Clock Regulatory Kinase
Cited by: 212
Author(s): Tsuyoshi Hirota, Jae Woo Lee, Warren G. Lewis, Eric Erquan Zhang, Ghislaı̀n Breton, Xianzhong Liu, Michael Garcia, Eric C. Peters, Jean Pierre Etchegaray, David Traver, Peter G. Schultz, Steve A. Kay
Software Mentions: 1
Published: almost 14 years ago
10.1371/journal.pbio.3000308
Phosphorylation of the VAR2CSA extracellular region is associated with enhanced adhesive properties to the placental receptor CSA
Cited by: 12
Author(s): Dominique Dorin‐Semblat, Marilou Tétard, Aurélie Claës, Jean-Philippe Semblat, Sébastien Dechavanne, Z. Fourati, Romain Hamelin, Florence Armand, Graziella Matesic, Sofia Nunes-Silva, Anand Srivastava, Stéphane Gangnard, José-Juan Lopez-Rubio, Marc Moniatte, Christian Doerig, Artur Scherf, B Gamain
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pbio.1001648
A Meiosis-Specific Form of the APC/C Promotes the Oocyte-to-Embryo Transition by Decreasing Levels of the Polo Kinase Inhibitor Matrimony
Cited by: 36
Author(s): Zachary J. Whitfield, Jennifer Chisholm, R. Scott Hawley, Terry L. Orr‐Weaver
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pbio.1000276
2-D Structure of the A Region of Xist RNA and Its Implication for PRC2 Association
Cited by: 213
Author(s): Sylvain Maenner, Magali Blaud, Laëtitia Fouillen, Anne Savoye, Virginie Marchand, Agnès Dubois, Sarah Sanglier‐Cianférani, Alain Van Dorsselaer, Philippe Clerc, Philip Avner, Athanase Visvikis, Christiane Branlant
Software Mentions: 1
Published: almost 15 years ago
10.1371/journal.pbio.3000590
Lack of the MHC class II chaperone H2-O causes susceptibility to autoimmune diseases
Cited by: 15
Author(s): Robin A Welsh, Nianbin Song, Catherine A. Foss, Tatiana Boronina, Robert N. Cole, Scheherazade Sadegh‐Nasseri
Software Mentions: 1
Published: almost 5 years ago
10.1371/journal.pbio.1000291
Modulation of Heat Shock Transcription Factor 1 as a Therapeutic Target for Small Molecule Intervention in Neurodegenerative Disease
Cited by: 165
Author(s): Daniel W. Neef, Michelle L. Turski, Dennis J. Thiele
Software Mentions: 1
Published: almost 15 years ago
10.1371/journal.pbio.1001597
Quantitative Control of Protein S-Palmitoylation Regulates Meiotic Entry in Fission Yeast
Cited by: 59
Author(s): Mingzi M. Zhang, Pei-Yun Jenny Wu, Felice D. Kelly, Paul Nurse, Howard C. Hang
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pbio.3000437
Conservation and divergence of protein pathways in the vertebrate heart
Cited by: 14
Author(s): Joel D. Federspiel, Panna Tandon, Caralynn M. Wilczewski, Lauren Wasson, Laura E. Herring, Samvida S. Venkatesh, Ileana M. Cristea, Frank L. Conlon
Software Mentions: 1
Published: about 5 years ago
10.1371/journal.pbio.1000139
RIN4 Functions with Plasma Membrane H+-ATPases to Regulate Stomatal Apertures during Pathogen Attack
Cited by: 237
Author(s): Jun Li, James M. Elmore, Anja Thoe Fuglsang, Michael G. Palmgren, Brian J. Staskawicz, Gitta Coaker
Software Mentions: 1
Published: over 15 years ago
10.1371/journal.pcbi.1007882
A fully joint Bayesian quantitative trait locus mapping of human protein abundance in plasma
Cited by: 18
Author(s): Hélène Ruffieux, Jérôme Carayol, Radu Popescu, Mary‐Ellen Harper, Robert Dent, Wim H. M. Saris, Arne Astrup, Jörg Hager, A. C. Davison, Armand Valsesia
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pcbi.1004508
Systematic Prediction of Scaffold Proteins Reveals New Design Principles in Scaffold-Mediated Signal Transduction
Cited by: 13
Author(s): Jianfei Hu, Johnathan Neiswinger, Jin Zhang, Heng Zhu, Jiang Qian
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pgen.1003305
Discovery of a Splicing Regulator Required for Cell Cycle Progression
Cited by: 39
Author(s): Elena S. Suvorova, Matthew McKnight Croken, Stella Kratzer, Li-Min Ting, Magnolia María Conde de Felipe, Bharath Balu, Meng L. Markillie, Louis M. Weiss, Kami Kim, Michael White
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pgen.1004756
The Talin Head Domain Reinforces Integrin-Mediated Adhesion by Promoting Adhesion Complex Stability and Clustering
Cited by: 29
Author(s): Stephanie J. Ellis, Emily Lostchuck, Benjamin T. Goult, Mohamed Bouaouina, Michael J. Fairchild, Pablo López-Ceballos, David A. Calderwood, Guy Tanentzapf
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pgen.1002673
Principles of Carbon Catabolite Repression in the Rice Blast Fungus: Tps1, Nmr1-3, and a MATE–Family Pump Regulate Glucose Metabolism during Infection
Cited by: 104
Author(s): Jessie Fernandez, Janet Wright, David E. Hartline, Cristian F. Quispe, Nandakumar Madayiputhiya, Richard A. Wilson
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pgen.1009667
The RNA-binding protein Igf2bp3 is critical for embryonic and germline development in zebrafish
Cited by: 4
Author(s): Yin Ho Vong, Lavanya Sivashanmugam, Rebecca Leech, Andreas Zaucker, Alexandra M. E. Jones, Karuna Sampath
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pgen.1006002
Sc65-Null Mice Provide Evidence for a Novel Endoplasmic Reticulum Complex Regulating Collagen Lysyl Hydroxylation
Cited by: 46
Author(s): Melissa E. Heard, Roberta Besio, Mary Ann Weis, J.P.N. Rai, David M. Hudson, Milena Dimori, Sarah M. Zimmerman, Jeffrey A. Kamykowski, William R. Hogue, Frances L. Swain, Marie Schluterman Burdine, Samuel G. Mackintosh, Alan J. Tackett, Larry J. Suva, David R. Eyre, Roy Morello
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pgen.1005575
The Ciliopathy Protein CC2D2A Associates with NINL and Functions in RAB8-MICAL3-Regulated Vesicle Trafficking
Cited by: 62
Author(s): Ruxandra Bachmann‐Gagescu, Margo Dona, Lisette Hetterschijt, E.L.G.M. Tonnaer, Theo Peters, Erik de Vrieze, Dorus A. Mans, Sylvia E. C. van Beersum, Ian G. Phelps, Heleen H. Arts, Jan E.E. Keunen, Marius Ueffing, Ronald Roepman, Karsten Boldt, Dan Doherty, Cecilia B. Moens, Stephan C.F. Neuhauss, Hannie Kremer, Erwin van Wijk
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pgen.1006192
Tracking the Fragile X Mental Retardation Protein in a Highly Ordered Neuronal RiboNucleoParticles Population: A Link between Stalled Polyribosomes and RNA Granules
Cited by: 75
Author(s): Rachid El Fatimy, Laetitia Davidovic, Sarah Tremblay, Xavier H. Jaglin, Alain Y. Dury, Claude Robert, Paul De Koninck, Édouard W. Khandjian
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pgen.1003943
Ribosome Synthesis and MAPK Activity Modulate Ionizing Radiation-Induced Germ Cell Apoptosis in Caenorhabditis elegans
Cited by: 27
Author(s): Ralf Eberhard, Lilli Stergiou, E. Hofmann, Jen Hofmann, Simon Haenni, Youjin Teo, André Furger, Michael O. Hengartner
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pgen.1005714
Branched-Chain Aminotransferases Control TORC1 Signaling in Saccharomyces cerevisiae
Cited by: 57
Author(s): Joanne M. Kingsbury, Neelam Dabas Sen, María E. Cárdenas
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pgen.1006996
Chlamydomonas DYX1C1/PF23 is essential for axonemal assembly and proper morphology of inner dynein arms
Cited by: 30
Author(s): Ryôichi Yamamoto, Jagan Mohan Obbineni, Lea M. Alford, Takahiro Ide, Mikito Owa, Juyeon Hwang, Takahide Kon, Kazuo Inaba, Noliyanda James, Stephen M. King, Takashi Ishikawa, Winfield S. Sale, Susan K. Dutcher
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pgen.1004516
An Essential Nonredundant Role for Mycobacterial DnaK in Native Protein Folding
Cited by: 59
Author(s): Allison Fay, Michael S. Glickman
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pgen.1009126
Mutations in PIH proteins MOT48, TWI1 and PF13 define common and unique steps for preassembly of each, different ciliary dynein
Cited by: 16
Author(s): Ryôichi Yamamoto, Shiho Yanagi, Masahito Nagao, Yuya Yamasaki, Yoshinori Tanaka, Winfield S. Sale, Toshiki Yagi, Takahide Kon
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pgen.1008691
Mutation of CFAP57, a protein required for the asymmetric targeting of a subset of inner dynein arms in Chlamydomonas, causes primary ciliary dyskinesia
Cited by: 33
Author(s): Ximena M. Bustamante-Marin, Amjad Horani, Mihaela Stoyanova, Wu Lin Charng, Mathieu Bottier, Patrick R. Sears, Weining Yin, M. Leigh Anne Daniels, Hailey Bowen, Donald F. Conrad, Michael R. Knowles, Lawrence E. Ostrowski, Maimoona A. Zariwala, Susan K. Dutcher
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pgen.1003977
Active Transport and Diffusion Barriers Restrict Joubert Syndrome-Associated ARL13B/ARL-13 to an Inv-like Ciliary Membrane Subdomain
Cited by: 90
Author(s): Sebiha Cevik, Anna A. W. M. Sanders, Erwin van Wijk, Karsten Boldt, Lara Clarke, Jeroen van Reeuwijk, Yuichi Hori, Nicola Horn, Lisette Hetterschijt, Anita Wdowicz, Andrea Mullins, Katarzyna Kaczyńska, Oktay I. Kaplan, Sylvia E. C. van Beersum, Kui Wu, Stef J.F. Letteboer, Dorus A. Mans, Toshiaki Katada, Kenji Kontani, Marius Ueffing, Ronald Roepman, Hannie Kremer, Oliver E. Blacque
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pgen.1007487
Role of Bicaudal C1 in renal gluconeogenesis and its novel interaction with the CTLH complex
Cited by: 23
Author(s): Lucía C. Leal-Esteban, Benjamin Rothé, Simon Fortier, Manuela Isenschmid, Daniel Constam
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pgen.1002786
FANCJ/BACH1 Acetylation at Lysine 1249 Regulates the DNA Damage Response
Cited by: 41
Author(s): Jenny Xie, Min Peng, Shawna Guillemette, Steven Quan, Stephanie Maniatis, Yuliang Wu, Aditya Venkatesh, Scott A. Shaffer, Robert M. Brosh, Sharon B. Cantor
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pgen.1007051
Condensin II and GAIT complexes cooperate to restrict LINE-1 retrotransposition in epithelial cells
Cited by: 17
Author(s): Jacqueline R. Ward, K.I. Vasu, Emily Deutschman, Dalia Halawani, Peter A. Larson, Dongmei Zhang, Belinda Willard, Paul L. Fox, John V. Moran, Michelle S. Longworth
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pgen.1007693
Non-proteolytic activity of 19S proteasome subunit RPT-6 regulates GATA transcription during response to infection
Cited by: 9
Author(s): Abiola Olumuyiwa Olaitan, Alejandro Aballay
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pgen.1007696
Functional equivalence of germ plasm organizers
Cited by: 30
Author(s): Pritesh Krishnakumar, Stephan Riemer, Roshan Priyarangana Perera, Thomas Lingner, Alexander Goloborodko, Hazem Khalifa, Franck Bontems, Felix Kaufholz, Mohamed A. El-Brolosy, Roland Dosch
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pgen.1002652
Context-Dependent Dual Role of SKI8 Homologs in mRNA Synthesis and Turnover
Cited by: 28
Author(s): Eavan Dorcey, Antía Rodríguez-Villalón, Paula Salinas, Luca Santuari, Sylvain Pradervand, Keith Harshman, Christian S. Hardtke
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pgen.1005022
Seizures Are Regulated by Ubiquitin-specific Peptidase 9 X-linked (USP9X), a De-Ubiquitinase
Cited by: 62
Author(s): Lily Paemka, Vinit B. Mahajan, Salleh N. Ehaideb, Jessica M. Skeie, Men Chee Tan, Shu Wu, Allison Cox, Levi P. Sowers, Jozef Gécz, Lachlan A. Jolly, Polly J. Ferguson, Benjamin W. Darbro, Amy Schneider, Ingrid E. Scheffer, Gemma L. Carvill, Heather C Mefford, Hatem El‐Shanti, Stephen A. Wood, J. Robert Manak, Alexander G. Bassuk
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pgen.1003960
CRIS—A Novel cAMP-Binding Protein Controlling Spermiogenesis and the Development of Flagellar Bending
Cited by: 43
Author(s): Anke Miriam Krähling, Luis J. Álvarez, Katharina Debowski, Qui Van, Monika Gunkel, Stephan Irsen, Ashraf Al‐Amoudi, Timo Strünker, Elisabeth Kremmer, Eberhard Krause, Ingo Voigt, Simone Wörtge, Ari Waisman, Ingo Weyand, Reinhard Seifert, U. Benjamin Kaupp, Dagmar Wachten
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pgen.1006238
Pfh1 Is an Accessory Replicative Helicase that Interacts with the Replisome to Facilitate Fork Progression and Preserve Genome Integrity
Cited by: 34
Author(s): Karin R. McDonald, Amanda J. Guise, Parham Pourbozorgi-Langroudi, Ileana M. Cristea, Virginia A. Zakian, John A. Capra, Nasim Sabouri
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pgen.1004987
Proteotoxic Stress Induces Phosphorylation of p62/SQSTM1 by ULK1 to Regulate Selective Autophagic Clearance of Protein Aggregates
Cited by: 237
Author(s): Junghyun Lim, M. Lenard Lachenmayer, Shuai Wu, Wenchao Li, Mondira Kundu, Rong Wang, Masaaki Komatsu, Young J. Oh, Yanxiang Zhao, Zhenyu Yue
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pgen.1005837
Adaptive Remodeling of the Bacterial Proteome by Specific Ribosomal Modification Regulates Pseudomonas Infection and Niche Colonisation
Cited by: 45
Author(s): Richard Little, Lucia Grenga, Gerhard Saalbach, Alexandra M. Howat, Sebastian Pfeilmeier, Eleftheria Trampari, Jacob G. Malone
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pgen.1007011
Formation of a TBX20-CASZ1 protein complex is protective against dilated cardiomyopathy and critical for cardiac homeostasis
Cited by: 19
Author(s): Leslie Kennedy, Erin Kaltenbrun, Todd M. Greco, Brenda Temple, Laura E. Herring, Ileana M. Cristea, Frank L. Conlon
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pgen.1001196
DNA Methylation and Normal Chromosome Behavior in Neurospora Depend on Five Components of a Histone Methyltransferase Complex, DCDC
Cited by: 92
Author(s): Zachary A. Lewis, Keyur K. Adhvaryu, Shinji Honda, Anthony L. Shiver, Marijn Knip, Ragna Sack, Eric U. Selker
Software Mentions: 1
Published: about 14 years ago
10.1371/journal.pgen.1004057
Molecular Characterization of Host-Specific Biofilm Formation in a Vertebrate Gut Symbiont
Cited by: 123
Author(s): Steven A. Frese, Donald MacKenzie, Daniel A. Peterson, Robert Schmaltz, Teresa Fangman, You Zhou, Chaomei Zhang, Andrew K. Benson, Liz A. Cody, Francis Mulholland, Nathalie Juge, Jens Walter
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pntd.0001002
A Proteomic and Cellular Analysis of Uropods in the Pathogen Entamoeba histolytica
Cited by: 32
Author(s): Jacques Marquay Markiewicz, Sylvie Syan, Chung-Chau Hon, Christian Weber, Daniela M. Faust, Nancy Guillén
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pntd.0001442
Novel Structural Components of the Ventral Disc and Lateral Crest in Giardia intestinalis
Cited by: 58
Author(s): Kari D. Hagen, Matthew P. Hirakawa, Susan A. House, Cindi L. Schwartz, Jonathan K Pham, Michael J. Cipriano, Moises J. De La Torre, Albert C. Sek, Gary Du, Brystal M. Forsythe, Scott C. Dawson
Software Mentions: 1
Published: almost 13 years ago
10.1371/journal.pntd.0007960
Annexin A2 depletion exacerbates the intracerebral microhemorrhage induced by acute rickettsia and Ebola virus infections
Cited by: 7
Author(s): Zhengchen Su, Qing Chang, Aleksandra Drelich, Thomas R. Shelite, Barbara M. Judy, Yakun Liu, Jie Xiao, Changchen Zhou, Xi He, Yang Jin, Taís B. Saito, Shao-Jun Tang, Lynn Soong, Maki Wakamiya, Xiang Fang, Alexander Bukreyev, Thomas G. Ksiazek, William K. Russell, Bin Gong
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pntd.0009638
Sandfly Fever Sicilian Virus-Leishmania major co-infection modulates innate inflammatory response favoring myeloid cell infections and skin hyperinflammation
Cited by: 10
Author(s): Ellen Heirwegh, Emily MacLean, Jinlei He, Shaden Kamhawi, Selena M. Sagan, Martin Olivier
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pntd.0002939
Proteomic Analysis of Adult Ascaris suum Fluid Compartments and Secretory Products
Cited by: 53
Author(s): James F. Chehayeb, Alan P. Robertson, R. J. Martin, Timothy G. Geary
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pntd.0001370
Proteomic Analysis of Excretory-Secretory Products of Heligmosomoides polygyrus Assessed with Next-Generation Sequencing Transcriptomic Information
Cited by: 76
Author(s): Yovany Moreno, P Gros, Mifong Tam, Mariela Segura, Rajesh M. Valanparambil, Timothy G. Geary, Mary M. Stevenson
Software Mentions: 1
Published: about 13 years ago
10.1371/journal.pntd.0009442
Aedes aegypti SNAP and a calcium transporter ATPase influence dengue virus dissemination
Cited by: 6
Author(s): Alejandro Marín-López, Junjun Jiang, Yuchen Wang, Yongguo Cao, Tyler MacNeil, Andrew K. Hastings, Erol Fikrig
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pntd.0001643
Proteomic Analysis of the Cyst Stage of Entamoeba histolytica
Cited by: 40
Author(s): Ibne Karim M. Ali, Rashidul Haque, A. K. Siddique, Nicholas E. Sherman, Sean A. Gray, Gerard A. Cangelosi, William A. Petri
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pntd.0004951
Differential Gel Electrophoresis (DIGE) Evaluation of Naphthoimidazoles Mode of Action: A Study in Trypanosoma cruzi Bloodstream Trypomastigotes
Cited by: 11
Author(s): Giselle Villa Flor Brunoro, Vítor Marcel Faça, Marcelle Almeida Caminha, André Teixeira da Silva Ferreira, Monique Ramos de Oliveira Trugilho, Kelly C. G. de Moura, Jonás Perales, Richard H. Valente, Rubem Figueiredo Sadok Menna-Barreto
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pntd.0003375
Peptidases Compartmentalized to the Ascaris suum Intestinal Lumen and Apical Intestinal Membrane
Cited by: 12
Author(s): Douglas P. Jasmer, Bruce A. Rosa, Makedonka Mitreva
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pntd.0009027
Major antigen and paramyosin proteins as candidate biomarkers for serodiagnosis of canine infection by zoonotic Onchocerca lupi
Cited by: 3
Author(s): Maria Stefanía Latrofa, Giuseppe Palmisano, Giada Annoscia, Ciro Leonardo Pierri, Ramaswamy Chandrashekar, Domenico Otranto
Software Mentions: 1
Published: almost 4 years ago
10.1371/journal.pntd.0002151
A Potential Role for the Interaction of Wolbachia Surface Proteins with the Brugia malayi Glycolytic Enzymes and Cytoskeleton in Maintenance of Endosymbiosis
Cited by: 36
Author(s): Elena Melnikow, Shulin Xu, Jing Liu, Aaron Bell, Elodie Ghedin, Thomas R. Unnasch, Sara Lustigman
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pntd.0004688
Tegument Glycoproteins and Cathepsins of Newly Excysted Juvenile Fasciola hepatica Carry Mannosidic and Paucimannosidic N-glycans
Cited by: 30
Author(s): Garcia-Campos Andres, Ravidà Alessandra, Dieu Linh Nguyen, Krystyna Cwiklinski, John P. Dalton, Cornelis H. Hokke, Sandra M. O’Neill, Grace Mulcahy
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pntd.0003731
Tissue Localization and Extracellular Matrix Degradation by PI, PII and PIII Snake Venom Metalloproteinases: Clues on the Mechanisms of Venom-Induced Hemorrhage
Cited by: 77
Author(s): Cristina Herrera, Teresa Escalante, Mathieu Benoit Voisin, Alexandra Rucavado, Diego Morazán, Jéssica K. A. Macêdo, Juan J. Calvete, Libia Sanz, Sussan Nourshargh, José Marı́a Gutiérrez, Jay W. Fox
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pntd.0004085
Identification of Newly Synthesized Proteins by Echinococcus granulosus Protoscoleces upon Induction of Strobilation
Cited by: 21
Author(s): João Antônio Debarba, Karina Mariante Monteiro, Hércules Moura, John R. Barr, Henrique Bunselmeyer Ferreira, Arnaldo Zaha
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pntd.0002442
Comparison of Phylogeny, Venom Composition and Neutralization by Antivenom in Diverse Species of Bothrops Complex
Cited by: 127
Author(s): Leijiane F. Sousa, Carolina Alves Nicolau, Pedro S. Peixoto, Juliana L. Bernardoni, Sâmella Silva de Oliveira, José Antônio Portes-Junior, Rosa Helena Veras Mourão, Isa Lima-dos-Santos, Ida Sigueko Sano-Martins, Hipócrates de Menezes Chalkidis, Richard H. Valente, Ana Maria Moura-da-Silva
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pntd.0004988
Characterizing the Syphilis-Causing Treponema pallidum ssp. pallidum Proteome Using Complementary Mass Spectrometry
Cited by: 25
Author(s): Kara Osbak, Stanley Houston, Karen V. Lithgow, Conor J. Meehan, Michal Strouhal, David Šmajs, Caroline E. Cameron, Xaveer Van Ostade, Chris Kenyon, Geert A. Van Raemdonck
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pntd.0006214
Blood coagulation abnormalities in multibacillary leprosy patients
Cited by: 12
Author(s): Débora Santos da Silva, Lisandra Antônia Castro Teixeira, Daniela Gois Beghini, André Teixeira da Silva Ferreira, Márcia de Berredo Moreira Pinho, Patrícia Sammarco Rosa, Marli Rambaldi Ribeiro, Mônica Di Calafiori Freire, Mariana A. Hacker, José Augusto da Costa Nery, Maria Cristina Vidal Pessolani, Ana Tovar, Euzenir Nunes Sarno, Jonás Perales, Fernando A. Bozza, Danuza Esquenazi, Robson Q. Monteiro, Flávio Alves Lara
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pntd.0006443
Aminopeptidase secreted by Chromobacterium sp. Panama inhibits dengue virus infection by degrading the E protein
Cited by: 40
Author(s): Raúl G. Saraiva, Jingru Fang, Sang‐Wook Kang, Yesseinia I. Angleró-Rodríguez, Yuemei Dong, George Dimopoulos
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pntd.0004054
A Proteomic Analysis of the Body Wall, Digestive Tract, and Reproductive Tract of Brugia malayi
Cited by: 27
Author(s): C. Paul Morris, Sasisekhar Bennuru, Laura E. Kropp, Jesse A. Zweben, Zhaojing Meng, Roger R. Taylor, King C. Chan, Timothy D. Veenstra, Thomas B. Nutman, Edward Mitre
Software Mentions: 1
Published: about 9 years ago
10.1371/journal.pntd.0004599
Muscle Tissue Damage Induced by the Venom of Bothrops asper: Identification of Early and Late Pathological Events through Proteomic Analysis
Cited by: 36
Author(s): Cristina Herrera, Jéssica K. A. Macêdo, Andrés Feoli, Teresa Escalante, Alexandra Rucavado, José Marı́a Gutiérrez, Jay W. Fox
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pntd.0007533
Leishmania major degrades murine CXCL1 – An immune evasion strategy
Cited by: 5
Author(s): Matthew S. Yorek, Barun Poudel, Lalita Mazgaeen, R. Marshall Pope, Mary E. Wilson, Prajwal Gurung
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0165031
MUC1-ARF—A Novel MUC1 Protein That Resides in the Nucleus and Is Expressed by Alternate Reading Frame Translation of MUC1 mRNA
Cited by: 11
Author(s): Michael Chalick, Oded Jacobi, Edward Pichinuk, Christian Garbar, Armand Bensussan, Alan K. Meeker, Ravit Ziv, Tania Zehavi, Nechama I. Smorodinsky, John Hilkens, Franz Georg Hanisch, D. B. Rubinstein, Daniel H. Wreschner
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pone.0126243
A Draft Map of Rhesus Monkey Tissue Proteome for Biomedical Research
Cited by: 2
Author(s): Jingyun Lee, Kimberly Q. McKinney, Yong-Yook Lee, Hae-Na Chung, Antonis J. Pavlopoulos, K. Y. Jung, Woong‐Ki Kim, Marcelo J. Kuroda, David K. Han, Sunil Hwang
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0084471
Elevated Peptides in Lung Lavage Fluid Associated with Bronchiolitis Obliterans Syndrome
Cited by: 4
Author(s): Matthew D. Stone, Stephen B. Harvey, Gary L. Nelsestuen, Cavan Reilly, Marshall I. Hertz, Chris H. Wendt
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0117495
Exosomes Released from Breast Cancer Carcinomas Stimulate Cell Movement
Cited by: 138
Author(s): D. Ahmasi Harris, Sajni Patel, Marjan Guček, An Hendrix, Wendy Westbroek, Justin W. Taraska
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0154465
Identification of Candidate Serum Biomarkers for Schistosoma mansoni Infected Mice Using Multiple Proteomic Platforms
Cited by: 8
Author(s): Manal Kardoush, Brian J. Ward, Momar Ndao
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0058463
Structural Insights into the Mechanism of Phosphoregulation of the Retinoblastoma Protein
Cited by: 15
Author(s): Ekaterina P. Lamber, Fabienne Beuron, Edward P. Morris, Dmitri I. Svergun, Sibylle Mittnacht
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0207897
Hypervirulent group A Streptococcus emergence in an acaspular background is associated with marked remodeling of the bacterial cell surface
Cited by: 13
Author(s): Jessica Galloway-Peña, Sruti DebRoy, Chelcy E Brumlow, Xiqi Li, Truc T. Tran, Nicola Horstmann, Hui Yao, Ken Chen, Fang Wang, Bih Fang Pan, David H. Hawke, Erika J. Thompson, César A. Arias, Vance G. Fowler, Micah M. Bhatti, Awdhesh Kalia, Anthony R. Flores, Samuel A. Shelburne
Software Mentions: 1
Published: almost 6 years ago
10.1371/journal.pone.0039338
Fragile Mental Retardation Protein Interacts with the RNA-Binding Protein Caprin1 in Neuronal RiboNucleoProtein Complexes
Cited by: 56
Author(s): Rachid El Fatimy, Sarah Tremblay, Alain Y. Dury, Samuel Solomon, Paul De Koninck, John W. Schrader, Édouard W. Khandjian
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0074701
Identification of a Novel and Unique Transcription Factor in the Intraerythrocytic Stage of Plasmodium falciparum
Cited by: 12
Author(s): Kanako Komaki-Yasuda, Mitsuru Okuwaki, Kyosuke Nagata, Shin-ichiro Kawazu, Shigeyuki Kano
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0147203
Analysis of Phosphorylation of the Receptor-Like Protein Kinase HAESA during Arabidopsis Floral Abscission
Cited by: 24
Author(s): Isaiah Taylor, Ying Wang, Kati Seitz, John M. Baer, Stefan Bennewitz, Brian Mooney, John C. Walker
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pone.0225864
Prolonged fasting followed by refeeding modifies proteome profile and parvalbumin expression in the fast-twitch muscle of pacu (Piaractus mesopotamicus)
Cited by: 5
Author(s): Rafaela Nunes da Silva‐Gomes, Maria Laura Gabriel Kuniyoshi, Bruno Oliveira da Silva Duran, Bruna Tereza Thomazini Zanella, Paula Paccielli Freire, Tassiana Gutierrez de Paula, Bruno Evaristo de Almeida Fantinatti, Rondinelle Artur Simões Salomão, Robson Francisco Carvalho, Lucilene Delazari dos Santos, Maeli Dal-Pai-Silva
Software Mentions: 1
Published: almost 5 years ago
10.1371/journal.pone.0015960
Histone Variants and Their Post-Translational Modifications in Primary Human Fat Cells
Cited by: 32
Author(s): Åsa Jufvas, Peter Strålfors, Alexander V. Vener
Software Mentions: 1
Published: almost 14 years ago
10.1371/journal.pone.0059462
Alix Serves as an Adaptor That Allows Human Parainfluenza Virus Type 1 to Interact with the Host Cell ESCRT System
Cited by: 13
Author(s): Jim Boonyaratanakornkit, Henrick Schomacker, Peter L. Collins, Alexander Schmidt
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pone.0164993
A High-Yield Two-Hour Protocol for Extraction of Human Hair Shaft Proteins
Cited by: 22
Author(s): Sing Ying Wong, Ching Chin Lee, Ali Ashrafzadeh, Sarni Mat Junit, Noor Nazirahanie Abrahim, Onn Haji Hashim
Software Mentions: 1
Published: about 8 years ago