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

10.1186/s12864-019-5890-z
Differentially expressed mRNAs, proteins and miRNAs associated to energy metabolism in skeletal muscle of beef cattle identified for low and high residual feed intake
Cited by: 21
Author(s): Elisa B. Carvalho, Mateus Pies Gionbelli, Rafael Torres de Souza Rodrigues, Sarah Figueiredo Martins Bonilha, C. J. Newbold, Simone Eliza Facioni Guimarães, Walmir Silva, Lucas Lima Verardo, Fabyano F. Silva, Edênio Detmann, Márcio de Souza Duarte
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2164-15-280
Proteomic comparison of Ralstonia solanacearum strains reveals temperature dependent virulence factors
Cited by: 28
Author(s): Ana Maria Bocsanczy, U. Achenbach, Arianna Mangravita-Novo, Marjorie Chow, David J. Norman
Software Mentions: 1
Published: over 10 years ago
10.1186/s12864-017-4403-1
Insights into teleost sex determination from the Seriola dorsalis genome assembly
Cited by: 36
Author(s): Catherine Purcell, Arun S. Seetharam, Owyn E. Snodgrass, Sofía Ortega‐García, John R. Hyde, Andrew J. Severin
Software Mentions: 1
Published: almost 7 years ago
10.1186/1471-2164-13-614
Anopheles salivary gland proteomes from major malaria vectors
Cited by: 23
Author(s): Albin Fontaine, Thierry Fusaı̈, Sébastien Briolant, Sylvain Buffet, Claude Villard, Emilie Baudelet, Matthieu Pophillat, Samuel Granjeaud, Christophe Rogier, Lionel Almeras
Software Mentions: 1
Published: about 12 years ago
10.1186/1471-2164-14-764
The broccoli (Brassica oleracea) phloem tissue proteome
Cited by: 19
Author(s): James A. Anstead, Steven D. Hartson, Gary A. Thompson
Software Mentions: 1
Published: almost 12 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: almost 4 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 8 years ago
10.1186/1471-2164-15-839
iTRAQ-proteomics and bioinformatics analyses of mammary tissue from cows with clinical mastitis due to natural infection with Staphylococci aureus
Cited by: 54
Author(s): Jinming Huang, Guanghong Luo, Zijing Zhang, Xiuge Wang, Zhihua Ju, Chao Qi, Yan Zhang, Changfa Wang, Rongling Li, Jianbin Li, Wanzhong Yin, Yinxue Xu, Sonia J. Moisá, Juan J. Loor, Jun Zhong
Software Mentions: 1
Published: almost 11 years ago
10.1186/s12864-019-5836-5
Analysis of the equine “cumulome” reveals major metabolic aberrations after maturation in vitro
Cited by: 19
Author(s): Jasmin Walter, Fabian Huwiler, Claudia Fortes, Jonas Grossmann, Bernd Roschitzki, Jingyu Hu, Hanspeter Naegeli, Endre Laczkó, Ulrich Bleul
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2164-15-366
Dramatic expansion of the black widow toxin arsenal uncovered by multi-tissue transcriptomics and venom proteomics
Cited by: 74
Author(s): Robert A. Haney, Nadia A. Ayoub, Thomas H. Clarke, Cheryl Y. Hayashi, Jessica E. Garb
Software Mentions: 1
Published: over 10 years ago
10.1186/s12864-020-07066-z
Proteome of larval metamorphosis induced by epinephrine in the Fujian oyster Crassostrea angulata
Cited by: 11
Author(s): Guilan Di, Xiaohuo Xiao, Ming Him Tong, Xinhua Chen, Li Li, Meng Huang, Long Zhou, Caihuan Ke
Software Mentions: 1
Published: about 4 years ago
10.1186/s12864-021-07858-x
Selection of functional EPHB2 genotypes from ENU mutated grass carp treated with GCRV
Cited by: 1
Author(s): Meher un Nissa, Zhuangzhuang Jiang, Guo‐Dong Zheng, Shu‐Ming Zou
Software Mentions: 1
Published: over 3 years ago
10.1186/1471-2164-12-194
Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomes
Cited by: 14
Author(s): Niina Haiminen, F. Alex Feltus, Laxmi Parida
Software Mentions: 1
Published: over 13 years ago
10.1186/s12864-016-3472-x
The extracellular proteome of two Bifidobacterium species reveals different adaptation strategies to low iron conditions
Cited by: 10
Author(s): Pamela Vazquez-Gutierrez, Marc J. A. Stevens, Peter Gehrig, Simon Barkow-Oesterreicher, Christophe Lacroix, Christophe Chassard
Software Mentions: 1
Published: almost 8 years ago
10.1186/1471-2164-15-1058
Patterns of gene expression associated with recovery and injury in heat-stressed rats
Cited by: 29
Author(s): Jonathan D. Stallings, Danielle L. Ippolito, V. Rakesh, Christine E. Baer, William E. Dennis, Bryan G. Helwig, David A. Jackson, Lisa R. Leon, John A. Lewis, Jaques Reifman
Software Mentions: 1
Published: almost 11 years ago
10.1186/1471-2164-11-685
Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels
Cited by: 77
Author(s): Andreas O. Helbig, Sara Rosati, Pim W W M Pijnappel, Bas van Breukelen, Marc Timmers, Shabaz Mohammed, Monique Slijper, Albert J. R. Heck
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12864-016-2456-1
Translatomics combined with transcriptomics and proteomics reveals novel functional, recently evolved orphan genes in Escherichia coli O157:H7 (EHEC)
Cited by: 31
Author(s): Klaus Neuhaus, Richard Landstorfer, Lea Fellner, Svenja Simon, Andrea Schafferhans, Tatyana Goldberg, Harald Marx, Olga N. Ozoline, Burkhard Rost, Bernhard Küster, Daniel A. Keim, Siegfried Scherer
Software Mentions: 1
Published: over 8 years ago
10.1186/s12865-016-0154-z
Cryptic protein-protein interaction motifs in the cytoplasmic domain of MHCI proteins
Cited by: 4
Author(s): Karla K. Frietze, Adlai Pappy, Jack W. Melson, Emily E. O’Driscoll, Carolyn M. Tyler, David H. Perlman, Lisa M. Boulanger
Software Mentions: 1
Published: over 8 years ago
10.1186/s12865-017-0221-0
Mercury alters endogenous phosphorylation profiles of SYK in murine B cells
Cited by: 6
Author(s): Joseph A. Caruso, Nicholas J. Carruthers, Namhee Shin, Randall F. Gill, Paul M. Stemmer, Allen J. Rosenspire
Software Mentions: 1
Published: over 7 years ago
10.1186/s12916-018-1136-1
An exploratory study examining how nano-liquid chromatography–mass spectrometry and phosphoproteomics can differentiate patients with advanced fibrosis and higher percentage collagen in non-alcoholic fatty liver disease
Cited by: 7
Author(s): Zobair M. Younossi, Azza Karrar, Mariaelena Pierobon, Aybike Birerdinc, Maria Stepanova, Dinan Abdelatif, Zahra Younoszai, Thomas L. Jeffers, Sean Felix, Kianoush Jeiran, Alex Hodge, Weidong Zhou, Fanny Monge, Lakshmi Alaparthi, Vikas Chandhoke, Zachary Goodman, Emanuel F. Petricoin
Software Mentions: 1
Published: about 6 years ago
10.1186/s12920-019-0576-6
Population structure and transmission modes of indigenous typhoid in Taiwan
Cited by: 5
Author(s): Kaiyu Wang, De-Jen Lee, Shian-Sen Shie, Chih-Jung Chen
Software Mentions: 1
Published: about 5 years ago
10.1186/s12920-018-0382-6
Differentially expressed proteins in positive versus negative HNSCC lymph nodes
Cited by: 6
Author(s): Alessandra Vidotto, Giovana Mussi Polachini, Marina de Paula-Silva, Sônia Maria Oliani, Tiago Henrique, Rossana Verónica Mendoza López, Patrı́cia Maluf Cury, Fábio Daumas Nunes, J.F Gois-filho, Marcos Brasilino de Carvalho, Andréia Machado Leopoldino, Eloíza H. Tajara
Software Mentions: 1
Published: about 6 years ago
10.1186/s12866-020-02065-2
Differential production and secretion of potentially toxigenic extracellular proteins from hypervirulent Aeromonas hydrophila under biofilm and planktonic culture
Cited by: 13
Author(s): Priscilla C. Barger, Mark R. Liles, Benjamin H. Beck, Joseph C. Newton
Software Mentions: 1
Published: almost 4 years ago
10.1186/1471-2180-11-245
Biofilm and planktonic pneumococci demonstrate disparate immunoreactivity to human convalescent sera
Cited by: 28
Author(s): Carlos J. Sánchez, Brady J. Hurtgen, Anel Lizcano, Pooja Shivshankar, Garry T. Cole, Carlos J. Orihuela
Software Mentions: 1
Published: about 13 years ago
10.1186/1471-2180-14-70
The CJIE1 prophage of Campylobacter jejuni affects protein expression in growth media with and without bile salts
Cited by: 16
Author(s): Clifford G. Clark, Patrick Chong, Stuart McCorrister, Philippe Simon, Matthew Walker, David M. Lee, Kimberly Nguy, Keding Cheng, Matthew W. Gilmour, Garrett Westmacott
Software Mentions: 1
Published: almost 11 years ago
10.1186/s12866-020-01964-8
The role of the msaABCR operon in implant-associated chronic osteomyelitis in Staphylococcus aureus USA300 LAC
Cited by: 9
Author(s): Gyan S. Sahukhal, Michelle Tucci, Hamed Benghuzzi, Gerri Wilson, Mohamed O. Elasri
Software Mentions: 1
Published: about 4 years ago
10.1186/1471-2180-14-164
The oxygen-independent metabolism of cyclic monoterpenes in Castellaniella defragrans 65Phen
Cited by: 18
Author(s): Jan Petasch, Eva-Maria Disch, Stephanie Markert, Dörte Becher, Thomas Schweder, Bruno Hüttel, Richard Reinhardt, Jens Harder
Software Mentions: 1
Published: over 10 years ago
10.1186/s12866-016-0889-y
Identification of Mycobacterium avium subsp. hominissuis secreted proteins using an in vitro system mimicking the phagosomal environment
Cited by: 8
Author(s): Jessica J. J. Chinison, Lia Danelishvili, Rashmi Gupta, Sasha J. Rose, Lmar Babrak
Software Mentions: 1
Published: about 8 years ago
10.1186/1471-2180-14-48
The Escherichia coli O157:H7 bovine rumen fluid proteome reflects adaptive bacterial responses
Cited by: 9
Author(s): Indira T. Kudva, Thad B. Stanton, John D. Lippolis
Software Mentions: 1
Published: almost 11 years ago
10.1186/s12866-015-0549-7
Deciphering the mode of action of a mutant Allium sativum Leaf Agglutinin (mASAL), a potent antifungal protein on Rhizoctonia solani
Cited by: 18
Author(s): Prithwi Ghosh, Amit Roy, Daniel Heß, Anupama Ghosh, Sampa Das
Software Mentions: 1
Published: about 9 years ago
10.1186/1471-2180-11-232
A historical and proteomic analysis of botulinum neurotoxin type/G
Cited by: 17
Author(s): Rebecca R. Terilli, Hércules Moura, Adrian R. Woolfitt, Jon C. Rees, David Schieltz, John R. Barr
Software Mentions: 1
Published: about 13 years ago
10.1186/1471-2180-10-162
Proteomic expression profiling of Haemophilus influenzae grown in pooled human sputum from adults with chronic obstructive pulmonary disease reveal antioxidant and stress responses
Cited by: 36
Author(s): Jun Qu, Alan J. Lesse, Aimee L. Brauer, Jin-Ru Cao, Steven R. Gill, Timothy F. Murphy
Software Mentions: 1
Published: over 14 years ago
10.1186/s12860-021-00352-y
STAU2 protein level is controlled by caspases and the CHK1 pathway and regulates cell cycle progression in the non-transformed hTERT-RPE1 cells
Cited by: 1
Author(s): Lionel Condé, Yulemi Gónzalez Quesada, Florence Bonnet-Magnaval, Rémy Beaujois, Luc DesGroseillers
Software Mentions: 1
Published: over 3 years ago
10.1186/s12882-021-02246-9
Light chain deposition disease involving kidney and liver in a patient with IgD myeloma
Cited by: 4
Author(s): Takafumi Tsushima, Tomo Suzuki, Toshiki Terao, Daisuke Miura, Kentaro Narita, Masami Takeuchi, Akira Shimuzu, Kosei Matsue
Software Mentions: 1
Published: almost 4 years ago
10.1186/s12882-018-1139-3
Analysis of the differential urinary protein profile in IgA nephropathy patients of Uygur ethnicity
Cited by: 12
Author(s): Zhengguang Guo, Zhao Wang, Lu Chen, Shufen Yang, Hui Sun, Reziw, Yu Guo, Wei Sun, Hua Yue
Software Mentions: 1
Published: almost 6 years ago
10.1186/1471-2202-14-135
Parkin depletion delays motor decline dose-dependently without overtly affecting neuropathology in α-synuclein transgenic mice
Cited by: 6
Author(s): Margot Fournier, Amandine Le Roux, Jean-Luc Garrigue, Marie‐Paule Muriel, Paul Blanche, Hilal A. Lashuel, John P. Anderson, Robin Barbour, Jiping Huang, Sophie Tezenas du Montcel, Alexis Brice, Olga Corti
Software Mentions: 1
Published: about 11 years ago
10.1186/1471-2202-11-120
Isolation of detergent resistant microdomains from cultured neurons: detergent dependent alterations in protein composition
Cited by: 24
Author(s): Richard A. Williamson, Andrew J. Thompson, Mika Abu, Abdul Hye, Alessia Usardi, Steven Lynham, Brian H. Anderton, Diane P. Hanger
Software Mentions: 1
Published: about 14 years ago
10.1186/1471-2415-13-48
Detection of autoantibodies against heat shock proteins and collapsin response mediator proteins in autoimmune retinopathy
Cited by: 21
Author(s): Grażyna Adamus, Robert A. Bonnah, Lori Brown, Larry L. David
Software Mentions: 1
Published: about 11 years ago
10.1186/s12886-018-0941-9
Quantitative proteomic analysis of aqueous humor from patients with drusen and reticular pseudodrusen in age-related macular degeneration
Cited by: 22
Author(s): Je Hyun Baek, Daehan Lim, Kyu Hyung Park, Jae Byoung Chae, Hyoik Jang, Jonghyun Lee, Hyewon Chung
Software Mentions: 1
Published: about 6 years ago
10.1186/s12870-018-1506-z
Towards reducing the immunogenic potential of wheat flour: omega gliadins encoded by the D genome of hexaploid wheat may also harbor epitopes for the serious food allergy WDEIA
Cited by: 19
Author(s): Susan B. Altenbach, Han-Chang Chang, Annamaria Simon-Buss, You-Ran Jang, Sandra Denery-Papini, Florence Pineau, Yong Gu, Naxin Huo, Sung-Hun Lim, Kang Chen, Jong-Yeol Lee
Software Mentions: 1
Published: about 6 years ago
10.1186/s12870-015-0649-4
Transgene silencing of sucrose synthase in alfalfa (Medicago sativa L.) stem vascular tissue suggests a role for invertase in cell wall cellulose synthesis
Cited by: 16
Author(s): Deborah A. Samac, Bruna Bucciarelli, Stephen R. Miller, Sheng-Hsin Yang, Jamie A. O’Rourke, Sanghyun Shin, Carroll P. Vance
Software Mentions: 1
Published: almost 9 years ago
10.1186/1471-2229-10-7
Analysis of expressed sequence tags from a single wheat cultivar facilitates interpretation of tandem mass spectrometry data and discrimination of gamma gliadin proteins that may play different functional roles in flour
Cited by: 39
Author(s): Susan B. Altenbach, William H. Vensel, Frances M. DuPont
Software Mentions: 1
Published: almost 15 years ago
10.1186/s12870-014-0324-1
The OsSec18 complex interacts with P0(P1-P2)2 to regulate vacuolar morphology in rice endosperm cell
Cited by: 6
Author(s): Yunfang Sun, Tingting Ning, Zhenwei Liu, Jianlei Pang, Daiming Jiang, Zhang Guo, Gaoyuan Song, Daichang Yang
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2229-10-144
Increasing the amylose content of durum wheat through silencing of the SBEIIagenes
Cited by: 139
Author(s): Francesco Sestili, Michela Janni, Angela Doherty, Ermelinda Botticella, R. D’Ovidio, Stefania Masci, Huw Jones, D. Lafiandra
Software Mentions: 1
Published: over 14 years ago
10.1186/1471-2229-12-69
Development of high amylose wheat through TILLING
Cited by: 187
Author(s): Ann J. Slade, Cate McGuire, Dayna Loeffler, Jessica Mullenberg, Wayne S. Skinner, Gia Fazio, Aaron Holm, Kali M Brandt, Michael N. Steine, John F Goodstal, Vic Knauf
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2229-11-85
RBCS1 expression in coffee: Coffea orthologs, Coffea arabica homeologs, and expression variability between genotypes and under drought stress
Cited by: 40
Author(s): Pierre Marraccini, Luciana Pereira Freire, Gabriel Sérgio Costa Alves, Natália Gomes Vieira, Felipe Vinecky, Sonia Elbelt, Humberto J.O. Ramos, Christophe Montagnon, Luiz Gonzaga Esteves Vieira, Thierry Leroy, David Pot, Vânia Aparecida Silva, Gustavo Costa Rodrigues, Alan Carvalho Andrade
Software Mentions: 1
Published: almost 14 years ago
10.1186/1471-2229-14-64
An asparagine residue at the N-terminus affects the maturation process of low molecular weight glutenin subunits of wheat endosperm
Cited by: 14
Author(s): Eleonora Egidi, Francesco Sestili, Michela Janni, R. D’Ovidio, D. Lafiandra, Aldo Ceriotti, William H. Vensel, Donald D. Kasarda, Stefania Masci
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2466-14-110
Comprehensive multiplexed protein quantitation delineates eosinophilic and neutrophilic experimental asthma
Cited by: 8
Author(s): Maria Bergquist, Sofia Jonasson, Josephine Hjoberg, Göran Hedenstierna, Joerg Hanrieder
Software Mentions: 1
Published: over 10 years ago
10.1186/1756-0500-6-55
Purification of native HBHA from Mycobacterium avium subsp. paratuberculosis
Cited by: 9
Author(s): Louise Lefrançois, Christelle Bodier, Sophie Lecher, Florence Gilbert, Thierry Cochard, Grégoire Harichaux, Valérie Labas, Ana Paula Teixeira-Gomes, Dominique Raze, Camille Locht, Franck Biet
Software Mentions: 1
Published: almost 12 years ago
10.1186/1756-0500-4-242
The spectrum of low molecular weight alpha-amylase/protease inhibitor genes expressed in the US bread wheat cultivar Butte 86
Cited by: 77
Author(s): Susan B. Altenbach, William H. Vensel, Frances M. DuPont
Software Mentions: 1
Published: over 13 years ago
10.1186/1756-0500-6-232
Changes in male rat urinary protein profile during puberty: a pilot study
Cited by: 14
Author(s): Ariane Vettorazzi, Robin Wait, Judit Nagy, J Ignacio Monreal, Peter G. Mantle
Software Mentions: 1
Published: over 11 years ago
10.1186/s13104-019-4749-3
Contaminating reactivity of a monoclonal CCAAT/Enhancer Binding Protein β antibody in differentiating myoblasts
Cited by: 1
Author(s): Hamood AlSudais, Nadine Wiper‐Bergeron
Software Mentions: 1
Published: about 5 years ago
10.1186/s13104-018-3750-6
Time-course mass spectrometry data of adipose mesenchymal stem cells acquiring chondrogenic phenotype
Cited by: 3
Author(s): Jeffrey R. Janus, Stephen G. Voss, Benjamin J. Madden, M. Cristine Charlesworth, Michael S. Oldenburg, Dale C. Ekbom, Serban San‐Marina
Software Mentions: 1
Published: about 6 years ago
10.1186/1752-0509-6-50
A systems biology approach reveals common metastatic pathways in osteosarcoma
Cited by: 46
Author(s): Ricardo J. Flores, Yiting Li, Alexander Yu, Jianhe Shen, Pulivarthi H. Rao, Serrine S. Lau, Marina Vannucci, Ching C. Lau, Tsz-Kwong Man
Software Mentions: 1
Published: over 12 years ago
10.1186/s12894-020-00751-x
Proteomic analysis of bladder biopsies from interstitial cystitis/bladder pain syndrome patients with and without Hunner’s lesions reveals differences in expression of inflammatory and structural proteins
Cited by: 6
Author(s): Elijah Ward, Sarah N. Bartolone, Michael B. Chancellor, Kenneth M. Peters, Laura E. Lamb
Software Mentions: 1
Published: about 4 years ago
10.1186/1746-6148-9-141
Characterization of recombinant human and bovine thyroid-stimulating hormone preparations by mass spectrometry and determination of their endotoxin content
Cited by: 2
Author(s): Sandra Schaefer, Paul O. Hassa, Nadja S Sieber-Ruckstuhl, P Marion, Claudia E Reusch, Bernd Roschitzki, Felicitas S Boretti
Software Mentions: 1
Published: over 11 years ago
10.1186/1746-6148-8-179
Plasma proteomics shows an elevation of the anti-inflammatory protein APOA-IV in chronic equine laminitis
Cited by: 13
Author(s): Samantha M. Steelman, Bhanu P. Chowdhary
Software Mentions: 1
Published: almost 13 years ago
10.1186/1746-6148-9-116
Comparative analysis of the surface exposed proteome of two canine osteosarcoma cell lines and normal canine osteoblasts
Cited by: 8
Author(s): Milan Milovancev, Ian Hilgart-Martiszus, Michael J. McNamara, Cheri P. Goodall, Bernard Séguin, Shay Bracha, Samanthi Wickramasekara
Software Mentions: 1
Published: almost 12 years ago
10.1007/s00395-019-0715-4
Fibroblast polarization over the myocardial infarction time continuum shifts roles from inflammation to angiogenesis
Cited by: 105
Author(s): Alan J. Mouton, Yonggang Ma, O. J. Gonzalez, Michael J. Daseke, Elizabeth R. Flynn, Tom C. Freeman, Michael R. Garrett, Kristine Y. DeLeon‐Pennell, Merry L. Lindsey
Software Mentions: 1
Published: almost 6 years ago
10.21769/BioProtoc.3258
Cross-linking, Immunoprecipitation and Proteomic Analysis to Identify Interacting Proteins in Cultured Cells
Cited by: 9
Author(s): Hao Wang, Meiling He, Belinda Willard, Qingyu Wu
Software Mentions: 1
Published: almost 6 years ago
10.1016/j.bbrep.2016.09.003
Mapping ubiquitination sites of S. cerevisiae Mcm10
Cited by: 3
Author(s): Tianji Zhang, Brandy L. Fultz, Sapna Das-Bradoo, Anja‐Katrin Bielinsky
Software Mentions: 1
Published: almost 8 years ago
10.1042/BCJ20190944
A complex comprising C15ORF41 and Codanin-1: the products of two genes mutated in congenital dyserythropoietic anaemia type I (CDA-I)
Cited by: 8
Author(s): Maithili Shroff, Axel Knebel, Rachel Toth, John Rouse
Software Mentions: 1
Published: over 4 years ago
10.1042/BCJ20160387
Gsk3β and Tomm20 are substrates of the SCFFbxo7/PARK15 ubiquitin ligase associated with Parkinson's disease
Cited by: 36
Author(s): Felipe Roberti Teixeira, Suzanne J. Randle, Sapana R. Patel, T.E.T. Mevissen, Grasilda Zenkeviciutė, Tie Koide, David Komander, Heike Laman
Software Mentions: 1
Published: about 8 years ago
10.1042/BCJ20160686
Comparative proteomic assessment of matrisome enrichment methodologies
Cited by: 35
Author(s): Lukáš Krásný, Angela Paul, Patty T. Wai, Beatrice A. Howard, Rachael Natrajan, Paul H. Huang
Software Mentions: 1
Published: about 8 years ago
10.3390/bioengineering8080116
Modulation of Synthetic Tracheal Grafts with Extracellular Matrix Coatings
Cited by: 5
Author(s): Lumei Liu, Sayali Dharmadhikari, Robert A. Pouliot, Michael M. Li, Peter M Minneci, Zheng-Hong Tan, Kimberly M. Shontz, Jed Johnson, Susan D. Reynolds, Christopher K. Breuer, Daniel J. Weiss, Tendy Chiang
Software Mentions: 1
Published: over 3 years ago
10.1242/bio.040311
Acid Sphingomyelinase regulates the localization and trafficking of palmitoylated proteins
Cited by: 4
Author(s): Xiahui Xiong, Chia-Fang Lee, Wenjing Li, Jiekai Yu, Linyu Zhu, Yong-Soon Kim, Hui Zhang, Hong Sun
Software Mentions: 1
Published: almost 6 years ago
10.1242/bio.021162
Identification of a novel putative interaction partner of the nucleoporin ALADIN
Cited by: 16
Author(s): Ramona Jühlen, Dana Landgraf, Angela Huebner, Katrin Koehler
Software Mentions: 1
Published: about 8 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: over 5 years ago
10.1155/2019/4165735
Quantitative Proteomic Analyses of a Pathogenic Strain and Its Highly Passaged Attenuated Strain of<i>Mycoplasma hyopneumoniae</i>
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: over 5 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: almost 10 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: almost 8 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: almost 11 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: almost 4 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: over 3 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: 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 11 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: over 4 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 4 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 6 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: almost 9 years ago
10.1042/BSR20203544
Comparative analysis of extracellular proteomes reveals putative effectors of the boxwood blight pathogens, <i>Calonectria henricotiae</i> and <i>C. pseudonaviculata</i>
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 3 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: almost 5 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: about 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: over 8 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: about 14 years ago
10.1186/s13068-016-0525-y
Exploring glycoside hydrolases and accessory proteins from wood decay fungi to enhance sugarcane bagasse saccharification
Cited by: 37
Author(s): Fernanda Valadares, Thiago Augusto Gonçalves, Dayelle S. P. O. Gonçalves, Fernando Segato, Elisson Romanel, Adriane M. F. Milagres, Fábio M. Squina, André Ferraz
Software Mentions: 1
Published: over 8 years ago
10.1186/s13068-016-0518-x
Decoding the complete arsenal for cellulose and hemicellulose deconstruction in the highly efficient cellulose decomposer Paenibacillus O199
Cited by: 55
Author(s): Rubén López-Mondejar, Daniela Zühlke, Tomáš Větrovský, Dörte Becher, Katharina Riedel, Petr Baldrián
Software Mentions: 1
Published: over 8 years ago
10.1186/1754-6834-5-52
A time course analysis of the extracellular proteome of Aspergillus nidulans growing on sorghum stover
Cited by: 64
Author(s): Sayali Saykhedkar, Anamika Ray, Patricia Ayoubi-Canaan, Steven D. Hartson, Rolf A. Prade, Andrew J. Mort
Software Mentions: 1
Published: over 12 years ago
10.1186/s13068-016-0476-3
Penicillium echinulatum secretome analysis reveals the fungi potential for degradation of lignocellulosic biomass
Cited by: 57
Author(s): Willian Daniel Hahn Schneider, Thiago Augusto Gonçalves, Cristiane Uchima, Matthew Brian Couger, Rolf A. Prade, Fábio M. Squina, Aldo José Pinheiro Dillon, Marli Camassola
Software Mentions: 1
Published: over 8 years ago
10.1186/1754-6834-5-54
Thermoascus aurantiacus is a promising source of enzymes for biomass deconstruction under thermophilic conditions
Cited by: 79
Author(s): Shara McClendon, Tanveer S. Batth, Young-Mo Kim, Paul D. Adams, Blake A. Simmons, Steven W. Singer
Software Mentions: 1
Published: over 12 years ago
10.1186/s13068-021-01945-7
Multi-omics analysis provides insights into lignocellulosic biomass degradation by Laetiporus sulphureus ATCC 52600
Cited by: 10
Author(s): Fernanda Lopes de Figueiredo, Ana Carolina Piva de Oliveira, César Rafael Fanchini Terrasan, Thiago Augusto Gonçalves, Jaqueline Aline Gerhardt, Geizecler Tomazetto, Gabriela Félix Persinoti, Marcelo Ventura Rubio, Jennifer Andrea Tamayo Peña, Michelle Fernandes Araújo, Maria Augusta de Carvalho Silvello, Telma Teixeira Franco, Sarita Cândida Rabelo, Rosana Goldbeck, Fábio M. Squina, André Damásio
Software Mentions: 1
Published: over 3 years ago
10.1038/bcj.2015.39
A novel antibody–drug conjugate targeting SAIL for the treatment of hematologic malignancies
Cited by: 15
Author(s): S Y Kim, J.M.J. Theunissen, J Balibalos, Sindy Liao-Chan, Michael Babcock, Tiffany Wong, Belinda Cairns, Deyarina González, Edward Htun van der Horst, Michel Perez, Zoia Levashova, Lawrence Chinn, Joseph A. D’Alessio, Mark R. Flory, Abel Bermudez, David Y. Jackson, Edward Ha, Jorge Monteon, Maureen Bruhns, G Chen, T-S Migone
Software Mentions: 1
Published: over 9 years ago
10.1016/j.bonr.2019.100238
Early urine proteome changes in an implanted bone cancer rat model
Cited by: 9
Author(s): Ting Wang, Lujun Li, Weiwei Qin, Youhe Gao
Software Mentions: 1
Published: over 4 years ago
10.3390/brainsci8090167
The Healing Effect of Human Milk Fat Globule-EGF Factor 8 Protein (MFG-E8) in A Rat Model of Parkinson’s Disease
Cited by: 7
Author(s): Yoshiki Nakashima, Chika Miyagi-Shiohira, Hirofumi Noguchi, Takeshi Ômasa
Software Mentions: 1
Published: about 6 years ago
10.1186/s13058-020-01363-x
Extracellular vesicles from young women’s breast cancer patients drive increased invasion of non-malignant cells via the Focal Adhesion Kinase pathway: a proteomic approach
Cited by: 21
Author(s): Kimberly R. Jordan, Jill Hall, Troy Schedin, Michelle Borakove, Jenny J. Xian, Monika Dzieciątkowska, Traci R. Lyons, Pepper Schedin, Kirk C. Hansen, Virginia F. Borges
Software Mentions: 1
Published: almost 4 years ago
10.1186/s13058-019-1228-7
Inhibition of the histone demethylase, KDM5B, directly induces re-expression of tumor suppressor protein HEXIM1 in cancer cells
Cited by: 16
Author(s): Monica M. Montano, I‐Ju Yeh, Yinghua Chen, Chris Hernandez, Janna Kiselar, María de la Fuente, Adriane M. Lawes, Marvin T. Nieman, Philip D. Kiser, James W. Jacobberger, Agata A. Exner, Matthew C. Lawes
Software Mentions: 1
Published: almost 5 years ago
10.1186/s13058-020-01373-9
Shotgun proteomics coupled to nanoparticle-based biomarker enrichment reveals a novel panel of extracellular matrix proteins as candidate serum protein biomarkers for early-stage breast cancer detection
Cited by: 10
Author(s): Claudia Fredolini, Khyatiben V. Pathak, Luisa Paris, Kristina Chapple, Kristine Tsantilas, Matthew Rosenow, Tony Tegeler, Krystine Garcia-Mansfield, Davide Tamburro, Weidong Zhou, Paul Russo, Samuele Massarut, Francesco Facchiano, Claudio Belluco, Ruggero De Maria, Enrico Garaci, Lance A. Liotta, Emanuel F. Petricoin, Patrick Pirrotte
Software Mentions: 1
Published: almost 4 years ago
10.1186/s13058-016-0697-1
Activation of IGF1R/p110β/AKT/mTOR confers resistance to α-specific PI3K inhibition
Cited by: 61
Author(s): Cédric Leroy, Pedro Marques Ramos, Karen Cornille, Débora Bonenfant, Christine Fritsch, Hans Voshol, Mohamed Bentires‐Alj
Software Mentions: 1
Published: over 8 years ago
10.1186/bcr3207
17beta-hydroxysteroid dehydrogenase type 1 modulates breast cancer protein profile and impacts cell migration
Cited by: 27
Author(s): Juliette A. Aka, Mouna Zerradi, François Houle, Jacques Huot, Sheng‐Xiang Lin
Software Mentions: 1
Published: over 12 years ago
10.1186/s13058-016-0741-1
CUB domain-containing protein 1 and the epidermal growth factor receptor cooperate to induce cell detachment
Cited by: 26
Author(s): Mary E. Law, Renan B. Ferreira, Bradley J. Davis, Paul J. Higgins, Jae-Sung Kim, Ronald K. Castellano, Sixue Chen, Hendrik Luesch, Brian K. Law
Software Mentions: 1
Published: over 8 years ago