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

10.3390/foods9070932
Health Promoting Bioactive Properties of Novel Hairless Canary Seed Flour after In Vitro Gastrointestinal Digestion
Cited by: 9
Author(s): Emily Mason, Lamia L’Hocine, Allaoua Achouri, Mélanie Pitre, Salwa Karboune
Software Mentions: 1
Published: over 4 years ago
10.3390/foods10010104
Upstream Regulator Analysis of Wooden Breast Myopathy Proteomics in Commercial Broilers and Comparison to Feed Efficiency Proteomics in Pedigree Male Broilers
Cited by: 7
Author(s): Walter Bottje, Kentu Lassiter, V. A. Kuttappan, Nicholas J. Hudson, Casey M. Owens, Behnam Abasht, Sami Dridi, Byung-Whi Kong
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.freeradbiomed.2018.11.022
The human allicin-proteome: S-thioallylation of proteins by the garlic defence substance allicin and its biological effects
Cited by: 50
Author(s): Martin C. H. Gruhlke, Haike Antelmann, Jörg Bernhardt, Veronika Kloubert, Lothar Rink, Alan Slusarenko
Software Mentions: 1
Published: almost 6 years ago
10.3389/fbioe.2016.00100
The Chlorella vulgaris S-Nitrosoproteome under Nitrogen-Replete and -Deplete Conditions
Cited by: 9
Author(s): Calvin A. Henard, Michael T. Guarnieri, Eric P. Knoshaug
Software Mentions: 1
Published: almost 8 years ago
10.3389/fbioe.2020.00491
Personalized Graphene Oxide-Protein Corona in the Human Plasma of Pancreatic Cancer Patients
Cited by: 42
Author(s): Riccardo Di Santo, Luca Digiacomo, Erica Quagliarini, Anna Laura Capriotti, Aldo Laganá, Riccardo Zenezini Chiozzi, Damiano Caputo, Chiara Cascone, Roberto Coppola, Daniela Pozzi, Giulio Caracciolo
Software Mentions: 1
Published: over 4 years ago
10.3389/fbioe.2015.00044
Standard Flow Liquid Chromatography for Shotgun Proteomics in Bioenergy Research
Cited by: 40
Author(s): Susana M. González Fernández-Niño, Andreia M. Smith-Moritz, Leanne Jade G. Chan, Paul D. Adams, Joshua L. Heazlewood, Young-Mo Kim
Software Mentions: 1
Published: over 9 years ago
10.3389/fcvm.2020.00093
Extracellular Matrix Disparities in an Nkx2-5 Mutant Mouse Model of Congenital Heart Disease
Cited by: 4
Author(s): Deanna Bousalis, Christopher S. Lacko, Nora Hlavac, Fariz F. Alkassis, Rebecca A. Wachs, Sahba Mobini, Christine E. Schmidt, Hideko Kasahara
Software Mentions: 1
Published: over 4 years ago
10.3389/fcell.2021.741662
Interactions and Cytotoxicity of Human Neurodegeneration- Associated Proteins Tau and α-Synuclein in the Simple Model Dictyostelium discoideum
Cited by: 3
Author(s): Katelyn Mroczek, Sanjanie Fernando, Paul R. Fisher, Sarah J. Annesley
Software Mentions: 1
Published: about 3 years ago
10.3389/fcell.2020.00125
KANK2 Links αVβ5 Focal Adhesions to Microtubules and Regulates Sensitivity to Microtubule Poisons and Cell Migration
Cited by: 19
Author(s): Mladen Paradžik, Jonathan D. Humphries, Nikolina Stojanović, Davor Nestić, Dragomira Majhen, Ana Dekanić, Ivana Samaržija, Delphine Sedda, Igor Weber, Andreja Ambriović-Ristov
Software Mentions: 1
Published: over 4 years ago
10.3389/fcell.2021.682476
Deciphering the in vivo Dynamic Proteomics of Mesenchymal Stem Cells in Critical Limb Ischemia
Cited by: 4
Author(s): Yipeng Du, Xiaoting Li, Wenying Yan, Zicheng Zeng, Dunzheng Han, Hong Ouyang, Xiu-Di Pan, Biao Luo, Bohua Zhou, Qiang Fu, Dagang Lü, Zheng Huang, Zhiliang Li
Software Mentions: 1
Published: over 3 years ago
10.3389/fcell.2020.00716
BAG5 Promotes Alpha-Synuclein Oligomer Formation and Functionally Interacts With the Autophagy Adaptor Protein p62
Cited by: 4
Author(s): Erik Loewen Friesen, Yu Tong Zhang, Rebecca Earnshaw, Mitchell L. de Snoo, Darren M O'Hara, Victoria Agapova, Hien Chau, Sophie G. Ngana, Kevin S. Chen, Lorraine V. Kalia, Suneil K. Kalia
Software Mentions: 1
Published: over 4 years ago
10.3389/fcell.2021.657456
Visualization and Identification of Bioorthogonally Labeled Exosome Proteins Following Systemic Administration in Mice
Cited by: 7
Author(s): Eric Zhang, Yanwen Liu, Chaoshan Han, Chengming Fan, Lu Wang, Wang‐Ping Chen, Yipeng Du, Dunzheng Han, Baron Arnone, Shuyuan Xu, Yuhua Wei, James A. Mobley, Gangjian Qin
Software Mentions: 1
Published: over 3 years ago
10.3389/fpls.2021.675507
Transition From Proto-Kranz-Type Photosynthesis to HCO3– Use Photosynthesis in the Amphibious Plant Hygrophila polysperma
Cited by: 6
Author(s): Genki Horiguchi, Kaori Matsumoto, Kyosuke Nemoto, Mayu Inokuchi, Naoki Hirotsu
Software Mentions: 1
Published: over 3 years ago
10.3389/fpls.2019.00580
Elimination of Omega-1,2 Gliadins From Bread Wheat (Triticum aestivum) Flour: Effects on Immunogenic Potential and End-Use Quality
Cited by: 34
Author(s): Susan B. Altenbach, Han-Chang Chang, Xuechen Yu, Bradford W. Seabourn, Peter H.R. Green, Armin Alaedini
Software Mentions: 1
Published: over 5 years ago
10.3389/fpls.2013.00065
Comparative Proteomics of Chloroplasts Envelopes from Bundle Sheath and Mesophyll Chloroplasts Reveals Novel Membrane Proteins with a Possible Role in C4-Related Metabolite Fluxes and Development
Cited by: 12
Author(s): Kalpana Manandhar-Shrestha, Banita Tamot, Evan P.S. Pratt, S. Saitie, Andrea Bräutigam, Andreas P.M. Weber, Susanne Hoffmann-Benning
Software Mentions: 1
Published: almost 12 years ago
10.3389/fpls.2014.00661
Plant natriuretic peptides induce proteins diagnostic for an adaptive response to stress
Cited by: 21
Author(s): Ilona Turek, Claudius Marondedze, Janet Wheeler, Chris Gehring, Helen Ruth Irving
Software Mentions: 1
Published: almost 10 years ago
10.3389/fpls.2020.01053
Wheat Line “RYNO3936” Is Associated With Delayed Water Stress-Induced Leaf Senescence and Rapid Water-Deficit Stress Recovery
Cited by: 10
Author(s): Marlon-Schylor L. le Roux, N. Francois V. Burger, Maré Vlok, K. Kunert, Christopher A. Cullis, Anna‐Maria Botha
Software Mentions: 1
Published: over 4 years ago
10.3389/fpls.2021.663707
dsRNA Molecules From the Tobacco Mosaic Virus p126 Gene Counteract TMV-Induced Proteome Changes at an Early Stage of Infection
Cited by: 5
Author(s): Naga Charan Konakalla, Mukesh Nitin, Athanasios Kaldis, Hema Masarapu, Sébastien Carpentier, Andreas E. Voloudakis
Software Mentions: 1
Published: over 3 years ago
10.3389/fpls.2018.00860
Sex-Dependent Variation of Pumpkin (Cucurbita maxima cv. Big Max) Nectar and Nectaries as Determined by Proteomics and Metabolomics
Cited by: 16
Author(s): Elizabeth C. Chatt, Patrick von Aderkas, Clay J. Carter, Derek Smith, Monica L. Elliott, Basil J. Nikolau
Software Mentions: 1
Published: over 6 years ago
10.3389/fpls.2012.00164
MRMaid: The SRM Assay Design Tool for Arabidopsis and Other Species
Cited by: 14
Author(s): Jun Fan, Fady Mohareb, Alexandra M. E. Jones, Conrad Bessant
Software Mentions: 1
Published: almost 13 years ago
10.3389/fpls.2019.00936
Tomato Dynamin Related Protein 2A Associates With LeEIX2 and Enhances PRR Mediated Defense by Modulating Receptor Trafficking
Cited by: 10
Author(s): Lorena Pizarro, Meirav Leibman‐Markus, Silvia Schuster, Maya Bar, Adi Avni
Software Mentions: 1
Published: over 5 years ago
10.3389/fpls.2020.569552
Putative Bifunctional Chorismate Mutase/Prephenate Dehydratase Contributes to the Virulence of Acidovorax citrulli
Cited by: 9
Author(s): Minyoung Kim, Jong-Chan Lee, Lynn Heo, Sang-Wook Han
Software Mentions: 1
Published: about 4 years ago
10.3389/fpls.2016.02023
Proteome Analysis Reveals Extensive Light Stress-Response Reprogramming in the Seagrass Zostera muelleri (Alismatales, Zosteraceae) Metabolism
Cited by: 40
Author(s): Manoj Kumar, Matthew P. Padula, Peter A. Davey, Mathieu Pernice, Zhijian Jiang, Gaurav Sablok, Loretto Contreras–Porcia, Peter J. Ralph
Software Mentions: 1
Published: almost 8 years ago
10.3389/fpls.2020.00232
The Arabidopsis Proteins AtNHR2A and AtNHR2B Are Multi-Functional Proteins Integrating Plant Immunity With Other Biological Processes
Cited by: 7
Author(s): R. N. Singh, Rohana Liyanage, Chirag Gupta, Jackson O. Lay, Andy Pereira, Clemencia M. Rojas
Software Mentions: 1
Published: over 4 years ago
10.3389/fpls.2016.01314
Proteomic Studies on the Effects of Lipo-Chitooligosaccharide and Thuricin 17 under Unstressed and Salt Stressed Conditions in Arabidopsis thaliana
Cited by: 45
Author(s): Sowmyalakshmi Subramanian, Alfred Souleimanov, Donald L. Smith
Software Mentions: 1
Published: about 8 years ago
10.3389/frobt.2018.00081
Immersive VR and Education: Embodied Design Principles That Include Gesture and Hand Controls
Cited by: 150
Author(s): Mina C. Johnson-Glenberg
Software Mentions: 1
Published: over 6 years ago
10.3389/fsurg.2016.00005
Elevated Serum Levels of Alpha-Fetoprotein in Patients with Infantile Hemangioma Are Not Derived from within the Tumor
Cited by: 8
Author(s): Tinte Itinteang, Alice M. Chibnall, Reginald Marsh, Jonathan C. Dunne, Sophie de Jong, Paul F. Davis, Philip Leadbitter, Swee T. Tan
Software Mentions: 1
Published: almost 9 years ago
10.3389/fsurg.2015.00026
Expression of Cathepsins B, D, and G in Infantile Hemangioma
Cited by: 21
Author(s): Tinte Itinteang, Daria A. Chudakova, Jonathan C. Dunne, Paul F. Davis, Swee T. Tan
Software Mentions: 1
Published: over 9 years ago
10.3389/fnsyn.2015.00020
Physical Interactions and Functional Relationships of Neuroligin 2 and Midbrain Serotonin Transporters
Cited by: 10
Author(s): Ran Ye, Meagan A. Quinlan, Hideki Iwamoto, Hao Wu, Noah H. Green, Christopher S. Jetter, Douglas G. McMahon, Jeremy Veestra-VanderWeele, Pat Levitt, Randy D. Blakely
Software Mentions: 1
Published: almost 9 years ago
10.3389/fvets.2019.00418
Salivary Scavenger and Agglutinin (SALSA) Is Expressed in Mucosal Epithelial Cells and Decreased in Bronchial Epithelium of Asthmatic Horses
Cited by: 4
Author(s): Gary Kwok Cheong Lee, Laurence Tessier, Dorothee Bienzle
Software Mentions: 1
Published: almost 5 years ago
10.3389/fvets.2018.00141
Development of a Multidimensional Proteomic Approach to Detect Circulating Immune Complexes in Cattle Experimentally Infected With Mycobacterium bovis
Cited by: 6
Author(s): Syeda A. Hadi, W. Ray Waters, Mitchell V. Palmer, Konstantin P. Lyashchenko, Srinand Sreevatsan
Software Mentions: 1
Published: over 6 years ago
10.3389/fvets.2018.00040
Trypanosoma equiperdum Low Molecular Weight Proteins As Candidates for Specific Serological Diagnosis of Dourine
Cited by: 10
Author(s): Mirella Luciani, Tiziana Di Febo, Massimiliano Orsini, Ivanka Krasteva, Angela Cattaneo, Michele Podaliri Vulpiani, Chiara Di Pancrazio, Ángela Bachi, Manuela Tittarelli
Software Mentions: 1
Published: over 6 years ago
10.1186/1742-9994-11-41
Litter size manipulation in laboratory mice: an example of how proteomic analysis can uncover new mechanisms underlying the cost of reproduction
Cited by: 17
Author(s): Marine Plumel, Antoine Stier, Danièle Thiersé, Alain Van Dorsselaer, François Criscuolo, Fabrice Bertile
Software Mentions: 1
Published: over 10 years ago
10.1007/s10142-019-00694-z
Exploiting the reference genome sequence of hexaploid wheat: a proteomic study of flour proteins from the cultivar Chinese Spring
Cited by: 22
Author(s): Susan B. Altenbach, Han-Chang Chang, Annamaria Simon-Buss, Toni Mohr, Naxin Huo, Yong Gu
Software Mentions: 1
Published: over 5 years ago
10.1016/j.funbio.2012.07.004
Expression and secretion of Aspergillus fumigatus proteases are regulated in response to different protein substrates
Cited by: 50
Author(s): Edward John Farnell, Karine Rousseau, David J. Thornton, Paul Bowyer, Sarah E. Herrick
Software Mentions: 1
Published: about 12 years ago
10.1534/g3.114.012625
Histone H2B Ubiquitination Promotes the Function of the Anaphase-Promoting Complex/Cyclosome in<i>Schizosaccharomyces pombe</i>
Cited by: 12
Author(s): Zachary C. Elmore, Janel R. Beckley, Jun‐Song Chen, Kathleen L. Gould
Software Mentions: 1
Published: over 10 years ago
10.1534/g3.116.035675
Candida albicans Is Resistant to Polyglutamine Aggregation and Toxicity
Cited by: 6
Author(s): Michelle Leach, TaeHyung Kim, Sonja E. DiGregorio, Cathy Collins, Zhaolei Zhang, Martin L. Duennwald, Leah E. Cowen
Software Mentions: 1
Published: almost 8 years ago
10.1534/g3.118.200877
Identifying <i>Pseudomonas syringae</i> Type III Secreted Effector Function via a Yeast Genomic Screen
Cited by: 15
Author(s): Ahwon Lee, D. Patrick Bastedo, Ji‐Young Youn, Timothy Lo, Maggie A. Middleton, Inga Kireeva, Jee Yeon Lee, Sara Sharifpoor, Anastasia Baryshnikova, Jianfeng Zhang, Pauline W. Wang, Sergio G. Peisajovich, Michael Constanzo, Brenda Andrews, Charles Boone, Darrell Desveaux, David S. Guttman
Software Mentions: 1
Published: almost 6 years ago
10.1534/g3.119.400863
Nonsynonymous Mutations in Linker-2 of the Pdr5 Multidrug Transporter Identify a New RNA Stability Element
Cited by: 3
Author(s): Hadiar Rahman, Andrew Rudrow, Joshua Carneglia, Sister Stephen Patrick Joly, Dante Nicotera, Michael J. Naldrett, John S. Choy, Suresh V. Ambudkar, John Golin
Software Mentions: 1
Published: almost 5 years ago
10.1093/gastro/gou066
Bile proteomics for differentiation of malignant from benign biliary strictures: a pilot study
Cited by: 37
Author(s): Udayakumar Navaneethan, Vennisvasanth Lourdusamy, Preethi G.K. Venkatesh, Belinda Willard, Madhusudhan R. Sanaka, Mansour A. Parsi
Software Mentions: 1
Published: about 10 years ago
10.3390/genes11040449
Ecological Processes Affecting Long-Term Eukaryote and Prokaryote Biofilm Persistence in Nitrogen Removal from Sewage
Cited by: 3
Author(s): Inga Leena Angell, Linda Bergaust, Jon Fredrik Hanssen, Else Marie Aasen, Knut Rudi
Software Mentions: 1
Published: over 4 years ago
10.3390/genes12030397
Expansion and Diversification of Fluorescent Protein Genes in Fifteen Acropora Species during the Evolution of Acroporid Corals
Cited by: 4
Author(s): Rio Kashimoto, Kanako Hisata, Chuya Shinzato, Noriyuki Satoh, Eiichi Shoguchi
Software Mentions: 1
Published: over 3 years ago
10.1534/genetics.119.302558
Germ Cell Lineage Homeostasis in <i>Drosophila</i> Requires the Vasa RNA Helicase
Cited by: 13
Author(s): Zeljko Durdevic, Anne Ephrussi
Software Mentions: 1
Published: about 5 years ago
10.1186/gb-2007-8-3-r34
Hawkeye: an interactive visual analytics tool for genome assemblies
Cited by: 80
Author(s): Michael C. Schatz, Adam M. Phillippy, Ben Shneiderman, Steven L. Salzberg
Software Mentions: 1
Published: almost 18 years ago
10.1186/gb-2013-14-10-r119
A screen for hydroxymethylcytosine and formylcytosine binding proteins suggests functions in transcription and chromatin regulation
Cited by: 267
Author(s): Mario Iurlaro, Gabriella Ficz, David Oxley, Eun‐Ang Raiber, Martin Bachman, Michael J. Booth, Simon Andrews, Shankar Balasubramanian, Wolf Reik
Software Mentions: 1
Published: almost 12 years ago
10.1186/s13059-015-0582-8
A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome
Cited by: 231
Author(s): Jarrod Chapman, Martin Mascher, Aydın Buluç, Kerrie Barry, Evangelos Georganas, Adam M. Session, Veronika Strnadova, Jerry Jenkins, Sunish K. Sehgal, Leonid Oliker, Jeremy Schmutz, Katherine Yelick, Uwe Scholz, Robbie Waugh, Jesse Poland, Gary J. Muehlbauer, Nils Stein, Daniel S. Rokhsar
Software Mentions: 1
Published: almost 10 years ago
10.1093/gigascience/giaa045
Sequencing smart: De novo sequencing and assembly approaches for a non-model mammal
Cited by: 15
Author(s): Graham Etherington, Darren Heavens, David Baker, Ashleigh Lister, Rose McNelly, G Accinelli Garcia, Bernardo Clavijo, Iain C. Macaulay, Wilfried Haerty, Federica Di Palma
Software Mentions: 1
Published: over 4 years ago
10.1093/glycob/cwz029
Characterizing the selectivity of ER α-glucosidase inhibitors
Cited by: 14
Author(s): Sarah O’Keefe, Quentin P. Roebuck, Namiki Izumi, Shuichi Hirono, Atsushi Kato, Robert J. Nash, Stephen High
Software Mentions: 1
Published: over 5 years ago
10.1007/s13577-012-0053-4
Proteomic analysis of differential protein expression by brain metastases of gynecological malignancies
Cited by: 34
Author(s): Ayako Yoshida, Naoki Okamoto, Akiko Tozawa-Ono, Hirotaka Koizumi, Kazushige Kiguchi, Bunpei Ishizuka, Toshio Kumai, Nao Suzuki
Software Mentions: 1
Published: over 11 years ago
10.1128/IAI.00255-15
Persistent Staphylococcus aureus Isolates from Two Independent Cases of Bacteremia Display Increased Bacterial Fitness and Novel Immune Evasion Phenotypes
Cited by: 29
Author(s): Rebecca Richards, Richard D. Haigh, Ben Pascoe, Samuel K. Sheppard, Francis W. Price, David R. Jenkins, Kumar Rajakumar, Julie A. Morrissey
Software Mentions: 1
Published: over 9 years ago
10.1128/IAI.00386-17
Salmonella enterica Serovar Typhimurium Alters the Extracellular Proteome of Macrophages and Leads to the Production of Proinflammatory Exosomes
Cited by: 61
Author(s): Winnie W. Hui, Kamil Hercík, Sayali Belsare, Navatha Alugubelly, Beata Clapp, Carlos Rinaldi, Mariola J. Edelmann
Software Mentions: 1
Published: almost 7 years ago
10.1128/IAI.00673-20
The Yersinia pestis GTPase BipA Promotes Pathogenesis of Primary Pneumonic Plague
Cited by: 4
Author(s): Samantha D Crane, Srijon Kaushik Banerjee, Kara R. Eichelberger, Richard C. Kurten, William E. Goldman, Roger D. Pechous
Software Mentions: 1
Published: almost 4 years ago
10.1007/s10753-019-00957-8
Chinese Birch Pollen Allergy and Immunotherapy in Mice
Cited by: 10
Author(s): Zhibo Xie, Jie Yin
Software Mentions: 1
Published: almost 6 years ago
10.3390/insects10090282
The Effect of Diet on the Composition and Stability of Proteins Secreted by Honey Bees in Honey
Cited by: 18
Author(s): Oleg Lewkowski, Carmen Ioana Mureşan, Dirk Dobritzsch, Matthew Fuszard, Silvio Erler
Software Mentions: 1
Published: about 5 years ago
10.1590/S1677-5538.IBJU.2020.02.07
Editorial Comment: New Insights on the Mechanisms Affecting Fertility in Men with Non-Seminoma Testicular Cancer before Cancer Therapy.
Cited by: 0
Author(s): Gustavo Cardoso Guimarães
Software Mentions: 1
Published: almost 5 years ago
10.1172/jci.insight.96184
Nox4 reprograms cardiac substrate metabolism via protein O-GlcNAcylation to enhance stress adaptation
Cited by: 43
Author(s): Adam Nabeebaccus, Anna Zoccarato, Anne Dragøy Hafstad, Célio X.C. Santos, Ellen Aasum, Alison C. Brewer, Min Zhang, Matteo Beretta, Xiaoke Yin, James A. West, Katrin Schröder, Julian L. Griffin, Thomas R. Eykyn, E. Dale Abel, Manuel Mayr, Ajay M. Shah
Software Mentions: 1
Published: almost 7 years ago
10.1172/jci.insight.135923
Elevating EGFR-MAPK program by a nonconventional Cdc42 enhances intestinal epithelial survival and regeneration
Cited by: 16
Author(s): Xiao Zhang, Sheila Bandyopadhyay, Leandro Araújo, Kevin Tong, Juan Flores, Daniel Laubitz, Yanlin Zhao, George Yap, Jingren Wang, Qingze Zou, Ronaldo P. Ferraris, Lanjing Zhang, Wenwei Hu, Edward M. Bonder, Pawel R. Kiela, Robert J. Coffey, Michael P. Verzi, Ivaylo I. Ivanov, Nan Gao
Software Mentions: 1
Published: over 4 years ago
10.1172/jci.insight.142073
Early defects in mucopolysaccharidosis type IIIC disrupt excitatory synaptic transmission
Cited by: 7
Author(s): Camila Pará, Poulomee Bose, L. Travi Bruno, Erika Freemantle, Mahsa Taherzadeh, Xuefang Pan, Chanshuai Han, Peter S. McPherson, Jean-Claude Lacaille, Éric Bonneil, Pierre Thibault, Claire O’Leary, Brian Bigger, Carlos R. Morales, Graziella Di Cristo, Alexey V. Pshezhetsky
Software Mentions: 1
Published: over 3 years ago
10.1016/j.jaci.2017.01.039
Proteomic analysis of filaggrin deficiency identifies molecular signatures characteristic of atopic eczema
Cited by: 42
Author(s): Martina S. Elias, Heather A. Long, Carla F. Newman, P. David Wilson, Andrew B. West, Paul McGill, Keith Wu, Michael Donaldson, Nick J. Reynolds
Software Mentions: 1
Published: about 7 years ago
10.1128/JB.00099-20
YjbH Requires Its Thioredoxin Active Motif for the Nitrosative Stress Response, Cell-to-Cell Spread, and Protein-Protein Interactions in <i>Listeria monocytogenes</i>
Cited by: 4
Author(s): Brittany R. Ruhland
Software Mentions: 1
Published: over 4 years ago
10.1074/jbc.M113.463372
Comparative Proteomic Analysis of Supportive and Unsupportive Extracellular Matrix Substrates for Human Embryonic Stem Cell Maintenance
Cited by: 53
Author(s): Despina Soteriou, Banu İskender, Adam Byron, Jonathan D. Humphries, Simon Borg–Bartolo, Marie-Claire Haddock, M. Baxter, David Knight, Martin J. Humphries, Susan J. Kimber
Software Mentions: 1
Published: over 11 years ago
10.1074/jbc.M113.453373
Characterization of Proprotein Convertase Subtilisin/Kexin Type 9 (PCSK9) Trafficking Reveals a Novel Lysosomal Targeting Mechanism via Amyloid Precursor-like Protein 2 (APLP2)
Cited by: 56
Author(s): Rachel M. DeVay, David L. Shelton, Lei Hong
Software Mentions: 1
Published: over 11 years ago
10.1074/jbc.M114.550657
Norovirus Translation Requires an Interaction between the C Terminus of the Genome-linked Viral Protein VPg and Eukaryotic Translation Initiation Factor 4G
Cited by: 53
Author(s): Liliane Chung, Dalan Bailey, Eoin N Leen, Edward Emmott, Yasmin Chaudhry, Lisa O. Roberts, Stephen Curry, Nicolas Locker, Ian Goodfellow
Software Mentions: 1
Published: over 10 years ago
10.1074/jbc.M114.590471
A Conformational Sampling Model for Radical Catalysis in Pyridoxal Phosphate- and Cobalamin-dependent Enzymes
Cited by: 5
Author(s): Binuraj R. K. Menon, Karl Fisher, Stephen E. J. Rigby, Nigel S. Scrutton, D. Leys
Software Mentions: 1
Published: almost 10 years ago
10.1074/jbc.M115.677419
Conserved Overlapping Gene Arrangement, Restricted Expression, and Biochemical Activities of DNA Polymerase ν (POLN)
Cited by: 10
Author(s): Kei-ichi Takata, Junya Tomida, Shelley Reh, Lisa M. Swanhart, Minoru Takata, Neil A. Hukriede, Richard D. Wood
Software Mentions: 1
Published: about 9 years ago
10.1074/jbc.M115.661439
Bacterial Rotary Export ATPases Are Allosterically Regulated by the Nucleotide Second Messenger Cyclic-di-GMP
Cited by: 82
Author(s): Eleftheria Trampari, C.E.M. Stevenson, Richard Little, Thomas Wilhelm, David M. Lawson, Jacob G. Malone
Software Mentions: 1
Published: about 9 years ago
10.1074/jbc.M116.724344
Unexpected Activity of a Novel Kunitz-type Inhibitor
Cited by: 28
Author(s): David W. Smith, Irina G. Tikhonova, Heather Jewhurst, Orla Drysdale, Jan Dvořák, Mark W. Robinson, Krystyna Cwiklinski, John P. Dalton
Software Mentions: 1
Published: about 8 years ago
10.1074/jbc.M116.758003
The Shigella Virulence Factor IcsA Relieves N-WASP Autoinhibition by Displacing the Verprolin Homology/Cofilin/Acidic (VCA) Domain
Cited by: 17
Author(s): Rui Mauricio, Cy M. Jeffries, Dmitri I. Svergun, Janet E. Deane
Software Mentions: 1
Published: almost 8 years ago
10.1074/jbc.RA118.001777
Stat3-mediated alterations in lysosomal membrane protein composition
Cited by: 24
Author(s): Bethan Lloyd-Lewis, Caroline C. Krueger, Timothy J. Sargeant, Michael D’Angelo, Michael J. Deery, Renata Feret, Julie A. Howard, Kathryn S. Lilley, Christine J. Watson
Software Mentions: 1
Published: over 6 years ago
10.1074/jbc.RA117.001483
Structural and compositional diversity of fibrillin microfibrils in human tissues
Cited by: 51
Author(s): Alexander Eckersley, Kieran T. Mellody, Suzanne M. Pilkington, Christopher E.M. Griffiths, Rachel Watson, Ronan O’Cualain, Clair Baldock, David Knight, Michael J. Sherratt
Software Mentions: 1
Published: over 6 years ago
10.1074/jbc.M117.789305
Intestinal mucin activates human dendritic cells and IL-8 production in a glycan-specific manner
Cited by: 21
Author(s): Felipe Melo-González, Thomas M. Fenton, Cecilia Forss, Catherine Smedley, Anu Goenka, Andrew S. MacDonald, David J. Thornton, Mark A. Travis
Software Mentions: 1
Published: over 6 years ago
10.1074/jbc.RA118.006452
Substitutions in the β subunits of sickle-cell hemoglobin improve oxidative stability and increase the delay time of sickle-cell fiber formation
Cited by: 9
Author(s): Fantao Meng, Tigist Kassa, Michael Brad Strader, Jayashree Soman, John S. Olson
Software Mentions: 1
Published: over 5 years ago
10.1074/jbc.RA120.014616
ELK-1 ubiquitination status and transcriptional activity are modulated independently of F-Box protein FBXO25
Cited by: 2
Author(s): Reyna Sara Quintero-Barceinas, Franziska Gehringer, Charles Ducker, Janice Saxton, Peter E. Shaw
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.jbc.2021.100278
Proteomic identification and validation of novel interactions of the putative tumor suppressor PRELP with membrane proteins including IGFI-R and p75NTR
Cited by: 8
Author(s): Hirofumi Kosuge, Makoto Nakakido, Satoru Nagatoishi, Tetsuya Fukuda, Yoshio Bando, Shin-ichi Ohnuma, Kouhei Tsumoto
Software Mentions: 1
Published: almost 4 years ago
10.1074/jbc.RA120.015162
The deubiquitinase TRABID stabilizes the K29/K48-specific E3 ubiquitin ligase HECTD1
Cited by: 18
Author(s): Lee D. Harris, Janic Le Pen, Nico Scholz, Juliusz Mieszczanek, Natalie Vaughan, Simon Davis, G. Berridge, Benedikt M. Kessler, Mariann Bienz, Julien Licchesi
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.jbc.2021.100639
The multidomain architecture of a bacteriophage endolysin enables intramolecular synergism and regulation of bacterial lysis
Cited by: 10
Author(s): Frank Oechslin, Carmen Menzi, Philippe Moreillon, Grégory Resch
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.jbc.2021.100690
Tolerance to nascent protein misfolding stress requires fine-tuning of the cAMP/PKA pathway
Cited by: 4
Author(s): Paraskevi Kritsiligkou, Karol Nowicki-Osuch, Zorana Carter, Christopher J. Kershaw, Declan R. Creamer, Alan J. Weids, Chris M. Grant
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.jbc.2021.101079
Phosphorylation of slit diaphragm proteins NEPHRIN and NEPH1 upon binding of HGF promotes podocyte repair
Cited by: 3
Author(s): Ashish K. Solanki, Ehtesham Arif, Pankaj Srivastava, Christopher M. Furcht, Bushra Rahman, Pei Wen, Avinash Singh, Lawrence B. Holzman, Wayne R. Fitzgibbon, Milos N. Budisavljevic, Glenn P. Lobo, Sang Ho Kwon, Zhe Han, Matthew J. Lazzara, Joshua H. Lipschutz, Deepak Nihalani
Software Mentions: 1
Published: about 3 years ago
10.1186/s13036-019-0177-0
Functional cellulose-based hydrogels as extracellular matrices for tissue engineering
Cited by: 106
Author(s): Sayan Deb Dutta, Dinesh Kumar Patel, Ki-Taek Lim
Software Mentions: 1
Published: over 5 years ago
10.14440/jbm.2016.129
Serum proteins are extracted along with monolayer cells in plasticware and interfere with protein analysis
Cited by: 8
Author(s): Xin Hong, Yuling Meng, Steven N. Kalkanis
Software Mentions: 1
Published: over 8 years ago
10.7150/jca.40964
Quantitative proteomic analysis of bile in extrahepatic cholangiocarcinoma patients
Cited by: 15
Author(s): Kuk Hui Son, Chi Bum Ahn, Hyo Jung Kim, Jae Seon Kim
Software Mentions: 1
Published: almost 5 years ago
10.1083/jcb.201802088
Cell adhesion is regulated by CDK1 during the cell cycle
Cited by: 104
Author(s): Max Jones, Janet A. Askari, Jonathan D. Humphries
Software Mentions: 1
Published: over 6 years ago
10.1083/jcb.201709137
Phosphorylation of IRE1 at S729 regulates RIDD in B cells and antibody production after immunization
Cited by: 42
Author(s): Chih-Hang Anthony Tang, Shiun Chang, Adrienne W. Paton, James C. Paton, Dmitry I. Gabrilovich, Hidde L. Ploegh, Juan R. Del Valle, Chih‐Chi Andrew Hu
Software Mentions: 1
Published: over 6 years ago
10.1083/jcb.201809089
Phosphoregulation of tropomyosin is crucial for actin cable turnover and division site placement
Cited by: 16
Author(s): Saravanan Palani, D Köster, Tomoyuki Hatano, Anton Kamnev, Taishi Kanamaru, Holly R. Brooker, Juan R. Hernández-Fernaud, Alexandra M. E. Jones, Jonathan Millar, Daniel P. Mulvihill, Mohan K. Balasubramanian
Software Mentions: 1
Published: about 5 years ago
10.1083/jcb.201811014
GRAF2, WDR44, and MICAL1 mediate Rab8/10/11–dependent export of E-cadherin, MMP14, and CFTR ΔF508
Cited by: 16
Author(s): Safa Lucken-Ardjomande Häsler, Yvonne Vallis, Mathias Pasche, Harvey T. McMahon
Software Mentions: 1
Published: over 4 years ago
10.1111/jcmm.13145
Atrial electrophysiological and molecular remodelling induced by obstructive sleep apnoea
Cited by: 28
Author(s): Devika Channaveerappa, Jacob C. Lux, Kelly L. Wormwood, Timothy A. Heintz, Meredith McLerie, Jacqueline A. Treat, Hannah King, Donia Alnasser, Robert J. Goodrow, Glenn Ballard, Robert S. Decker, Costel C. Darie, Brian K. Panama
Software Mentions: 1
Published: over 7 years ago
10.1111/jcmm.15733
Toll‐like receptor involvement in adolescent scoliotic facet joint degeneration
Cited by: 4
Author(s): Daniel G Bisson, Kai Sheng, Semsi Kocabas, Emerson Krock, Alisson Roberto Teles, Neil Saran, Jean Ouellet, Lisbet Haglund
Software Mentions: 1
Published: about 4 years ago
10.1111/jcmm.16318
Dysregulation of ferroptosis may involve in the development of non‐small‐cell lung cancer in Xuanwei area
Cited by: 19
Author(s): Guangjian Li, Jiapeng Yang, Genming Zhao, Shen Zy, Kang Yang, Linwei Tian, Qinghua Zhou, Ying Chen, Yunchao Huang
Software Mentions: 1
Published: almost 4 years ago
10.1242/jcs.152470
Promiscuous methionyl-tRNA synthetase mediates adaptive mistranslation against oxidative stresses
Cited by: 64
Author(s): Jin Young Lee, Dae Gyu Kim, Byung Gyu Kim, Won-Mo Yang, Jung Sun Hong, Taehee Kang, Yung-Hwan Oh, Kyung Rok Kim, Byung Woo Han, Byung Joon Hwang, Beom Sik Kang, Mi Sun Kang, Myung Hee Kim, Nam Hoon Kwon, Sung Hoon Kim
Software Mentions: 1
Published: almost 11 years ago
10.1242/jcs.199398
Compositionally distinct nuclear pore complexes of functionally distinct dimorphic nuclei in ciliate <i>Tetrahymena</i>
Cited by: 24
Author(s): Mutsuo Iwamoto, Hiroko Osakada, Chie Mori, Yasuhiro Fukuda, Koji Nagao, Chikashi Obuse, Yasushi Hiraoka, Tokuko Haraguchi
Software Mentions: 1
Published: almost 8 years ago
10.1242/jcs.214924
Mutations that prevent methylation of cohesin render sensitivity to DNA damage
Cited by: 2
Author(s): Swastika Sanyal, Lucia Molnárová, Judita Richterova, Barbora Huraiová, Zsigmond Benkő, Silvia Poláková, Ingrid Čipáková, Andrea Ševčovičová, Katarína Gaplovská-Kyselá, Karl Mechtler, Luboš Čipák, Juraj Gregáň
Software Mentions: 1
Published: almost 7 years ago
10.1186/1758-2946-3-14
Analysis of in vitrobioactivity data extracted from drug discovery literature and patents: Ranking 1654 human protein targets by assayed compounds and molecular scaffolds
Cited by: 32
Author(s): Christopher Southan, Kiran Boppana, Sarma A.R.P. Jagarlapudi, Sorel Mureşan
Software Mentions: 1
Published: over 13 years ago
10.1186/1758-2946-4-20
Mining collections of compounds with Screening Assistant 2
Cited by: 26
Author(s): Vincent Le Guilloux, Alban Arrault, Lionel Colliandre, Stéphane Bourg, Philippe Vayer, Luc Morin‐Allory
Software Mentions: 1
Published: about 12 years ago
10.1186/s13321-016-0186-7
Scaffold analysis of PubChem database as background for hierarchical scaffold-based visualization
Cited by: 11
Author(s): Jakub Velkoborský, David Hoksza
Software Mentions: 1
Published: almost 8 years ago
10.1186/s13321-017-0213-3
Scaffold Hunter: a comprehensive visual analytics framework for drug discovery
Cited by: 48
Author(s): Till Schäfer, Nils M. Kriege, Lina Humbeck, Karsten Klein, Oliver Koch, Petra Mutzel
Software Mentions: 1
Published: over 7 years ago
10.1186/2043-9113-1-17
Quantitative analysis of histone exchange for transcriptionally active chromatin
Cited by: 14
Author(s): Stephanie D. Byrum, Sean D. Taverna, Alan J. Tackett
Software Mentions: 1
Published: almost 14 years ago
10.1186/2043-9113-1-23
Preferential expression of potential markers for cancer stem cells in large cell neuroendocrine carcinoma of the lung. An FFPE proteomic study
Cited by: 24
Author(s): Masatoshi Nomura, Tetsuya Fukuda, Kiyonaga Fujii, Takeshi Kawamura, Hiromasa Tojo, Makoto Kihara, Yoshio Bando, Adi F. Gazdar, Masahiro Tsuboi, Hisashi Oshiro, Toshitaka Nagao, Tetsuya Ohira, Norihiko Ikeda, Noriko Gotoh, Harubumi Kato, György Markó-Varga, Toshihide Nishimura
Software Mentions: 1
Published: almost 14 years ago
10.3390/jcm9030639
Urine E-cadherin: A Marker for Early Detection of Kidney Injury in Diabetic Patients
Cited by: 9
Author(s): Michael Koziolek, G. Muêller, Gry H. Dihazi, Klaus Jung, Constanze Altubar, Manuel Wallbach, Ivana Hanzec Marković, Dirk Roggenbuck, Olaf Jahn, Hülya Karaköse, Christof Lenz, Henning Urlaub, Abdelhi Dihazi, Abdellatif El Meziane, Hassan Dihazi
Software Mentions: 1
Published: over 4 years ago
10.3390/jcm9092915
Characterization of LP-Z Lipoprotein Particles and Quantification in Subjects with Liver Disease Using a Newly Developed NMR-Based Assay
Cited by: 14
Author(s): Shimpi Bedi, Erwin Garcia, Elias J. Jeyarajah, Irina Shalaurova, Maria Camila Pérez-Matos, Zhigang Jiang, Robin Dullaart, Steven P. Matyus, William J. Kirk, James D. Otvos, W. Sean Davidson, Margery A. Connelly
Software Mentions: 1
Published: about 4 years ago
10.3390/jcm10040793
Patients with Proliferative Lupus Nephritis Have Autoantibodies That React to Moesin and Demonstrate Increased Glomerular Moesin Expression
Cited by: 2
Author(s): Dawn J. Caster, Erik A. Korte, Michael L. Merchant, Jon B. Klein, Michelle T. Barati, Ami Joglekar, Daniel W. Wilkey, Susan Coventry, Jessica Hata, Brad H. Rovin, John B. Harley, Bahram Namjou‐Khales, Kenneth R. McLeish, David Powell
Software Mentions: 1
Published: almost 4 years ago