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: cran: CCP
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/CCP
Significance Tests for Canonical Correlation Analysis (CCA)
3 versions
Latest release: over 2 years ago
2 dependent packages
932 downloads last month
Papers Mentioning CCP 49
10.1002/pro.3299
Automating tasks in protein structure determination with the clipper python moduleCited by: 6
Author(s): Stuart McNicholas, Tristan I. Croll, Tom Burnley, Colin M. Palmer, Soon Wen Hoh, Huw T. Jenkins, E.J. Dodson, Kevin Cowtan, Jon Agirre
Software Mentions: 10
Published: almost 7 years ago
10.1107/S2059798318004576
<i>KAMO</i>: towards automated data processing for microcrystalsCited by: 174
Author(s): Keitaro Yamashita, Kunio Hirata, Masaki Yamamoto
Software Mentions: 8
Published: over 6 years ago
10.1107/S2059798317016035
<i>CCP</i>4<i>i</i>2: the new graphical user interface to the<i>CCP</i>4 program suiteCited by: 353
Author(s): Liz Potterton, Jon Agirre, Charles Ballard, Kevin Cowtan, E.J. Dodson, Phil Evans, Huw T. Jenkins, Ronan Keegan, Eugene Krissinel, Kyle Stevenson, А. А. Лебедев, Stuart McNicholas, Robert A. Nicholls, M.E.M. Noble, Navraj S. Pannu, Christian Roth, George M. Sheldrick, Pavol Skubák, J.P. Turkenburg, Ville Uski, Frank von Delft, David Waterman, K.S. Wilson, Martyn Winn, Marcin Wojdyr
Software Mentions: 8
Published: over 6 years ago
10.3390/genes12081240
Genomic Variation Shaped by Environmental and Geographical Factors in Prairie Cordgrass Natural Populations Collected across Its Native Range in the USACited by: 0
Author(s): Jia Guo, Patrick J. Brown, A. Lane Rayburn, Carolyn J. Butts-Wilmsmeyer, Arvid Boe, DoKyoung Lee
Software Mentions: 6
Published: about 3 years ago
10.1038/s41598-020-67016-3
Recursive Consensus Clustering for novel subtype discovery from transcriptome dataCited by: 5
Author(s): Pranali Sonpatki, Nameeta Shah
Software Mentions: 6
Published: about 4 years ago
10.1107/S0907444911007281
Presenting your structures: the<i>CCP</i>4<i>mg</i>molecular-graphics softwareCited by: 1,079
Author(s): Stuart McNicholas, E. A. Potterton, K.S. Wilson, M.E.M. Noble
Software Mentions: 5
Published: over 13 years ago
10.1107/S0907444910045749
Overview of the<i>CCP</i>4 suite and current developmentsCited by: 10,663
Author(s): Martyn Winn, Charles Ballard, Kevin Cowtan, E.J. Dodson, Paul Emsley, Phil Evans, Ronan Keegan, Eugene Krissinel, Andrew G. W. Leslie, Airlie J. McCoy, Stuart McNicholas, Garib N. Murshudov, Navraj S. Pannu, E. A. Potterton, Harold R. Powell, Randy J. Read, A.A. Vagin, K.S. Wilson
Software Mentions: 5
Published: over 13 years ago
10.1107/S2059798318003455
Recent developments in<i>MrBUMP</i>: better search-model preparation, graphical interaction with search models, and solution improvement and assessmentCited by: 34
Author(s): Ronan Keegan, Stuart McNicholas, Jens M. H. Thomas, Adam J Simpkin, Felix Šimkovic, Ville Uski, Charles Ballard, Martyn Winn, K.S. Wilson, Daniel J. Rigden
Software Mentions: 5
Published: over 6 years ago
10.1107/S2059798316020143
Ligand fitting with<i>CCP</i>4Cited by: 17
Author(s): Robert A. Nicholls
Software Mentions: 4
Published: over 7 years ago
10.1371/journal.pone.0068322
Reduced Incidence of Prevotella and Other Fermenters in Intestinal Microflora of Autistic ChildrenCited by: 660
Author(s): Dae Wook Kang, Jin Gyoon Park, Zehra Esra Ilhan, Garrick Wallstrom, Joshua LaBaer, James B. Adams, Rosa Krajmalnik‐Brown
Software Mentions: 4
Published: about 11 years ago
10.1107/S2059798316020234
The<i>XChemExplorer</i>graphical workflow tool for routine or large-scale protein–ligand structure determinationCited by: 68
Author(s): T. Krojer, R. Talon, Nicholas M. Pearce, P. Collins, A. Douangamath, J. Brandão-Neto, A. Dias, Brian D. Marsden, Frank von Delft
Software Mentions: 4
Published: over 7 years ago
10.1107/S2059798317017582
<i>ARCIMBOLDO</i>on coiled coilsCited by: 39
Author(s): Iracema Caballero, Massimo Sammito, Claudia Millán, А. А. Лебедев, Nicolas Soler, Isabel Usón
Software Mentions: 4
Published: over 6 years ago
10.1107/S1399004714016241
Conformation-independent structural comparison of macromolecules with<i>ProSMART</i>Cited by: 150
Author(s): Robert A. Nicholls, Marcus Fischer, Stuart McNicholas, Garib N. Murshudov
Software Mentions: 3
Published: about 10 years ago
10.1107/S160057671601517X
Atomistic modelling of scattering data in the Collaborative Computational Project for Small Angle Scattering (CCP-SAS)Cited by: 66
Author(s): Stephen J. Perkins, David W. Wright, Hailiang Zhang, Emre Brookes, Jianhan Chen, Thomas C. Irving, Susan Krueger, David J. Barlow, Karen J. Edler, David J. Scott, Nicholas J. Terrill, Stephen M. King, Paul Butler, Joseph E. Curtis
Software Mentions: 3
Published: almost 8 years ago
10.1107/S2059798321001753
Modelling covalent linkages in <i>CCP</i>4Cited by: 8
Author(s): Robert A. Nicholls, Robbie P. Joosten, Fei Long, Marcin Wojdyr, А. А. Лебедев, Eugene Krissinel, Lucrezia Catapano, Marcus Fischer, Paul Emsley, Garib N. Murshudov
Software Mentions: 3
Published: over 3 years ago
10.18632/aging.103251
Construction of immune-related and prognostic lncRNA clusters and identification of their immune and genomic alterations characteristics in lung adenocarcinoma samplesCited by: 10
Author(s): Jia Li, Chenyue Zhang, Chenxing Zhang, Haiyong Wang
Software Mentions: 3
Published: over 4 years ago
10.1107/S090744491003982X
An introduction to data reduction: space-group determination, scaling and intensity statisticsCited by: 1,194
Author(s): Philip R. Evans
Software Mentions: 3
Published: over 13 years ago
10.1107/S0907444911007530
Evaluating the solution from<i>MrBUMP</i>and<i>BALBES</i>Cited by: 20
Author(s): Ronan Keegan, Fei Long, Vincent J. Fazio, Martyn Winn, Garib N. Murshudov, A.A. Vagin
Software Mentions: 2
Published: over 13 years ago
10.1107/S1399004714026777
In pursuit of an accurate spatial and temporal model of biomolecules at the atomistic level: a perspective on computer simulationCited by: 10
Author(s): Alan Gray, Oliver G. Harlen, Sarah A. Harris, Syma Khalid, Yuk Ming Leung, Richard Lonsdale, Adrian J. Mulholland, Arwen R. Pearson, Daniel J. Read, Robin A. Richardson
Software Mentions: 2
Published: over 9 years ago
10.1107/S090744491200251X
<i>JLigand</i>: a graphical tool for the <i>CCP</i>4 template-restraint libraryCited by: 353
Author(s): А. А. Лебедев, Paul G. Young, Michail N. Isupov, Olga V. Moroz, A.A. Vagin, Garib N. Murshudov
Software Mentions: 2
Published: over 12 years ago
10.1107/S2059798320009080
Predicting protein model correctness in <i>Coot</i> using machine learningCited by: 17
Author(s): Paul S. Bond, K.S. Wilson, Kevin Cowtan
Software Mentions: 2
Published: about 4 years ago
10.1107/S2059798317000067
<i>AceDRG</i>: a stereochemical description generator for ligandsCited by: 228
Author(s): Fei Long, Robert A. Nicholls, Paul Emsley, Saulius Graǽulis, Andrius Merkys, Antanas Vaitkus, Garib N. Murshudov
Software Mentions: 2
Published: over 7 years ago
10.1107/S2059798320000467
A practical overview of molecular replacement: <i>Clostridioides difficile</i> PilA1, a difficult case studyCited by: 3
Author(s): Adam Crawshaw, Arnaud Baslé, Paula S. Salgado
Software Mentions: 2
Published: over 4 years ago
10.1186/1471-2105-12-481
U-Compare bio-event meta-service: compatible BioNLP event extraction servicesCited by: 15
Author(s): Yoshinobu Kano, Jari Björne, Filip Ginter, Tapio Salakoski, Ekaterina Buyko, Udo Hahn, K. Bretonnel Cohen, Karin Verspoor, Christophe Roeder, Lawrence Hunter, Halil Kilicoglu, Sabine Bergler, Sofie Van Landeghem, Thomas Van Parys, Yves Van de Peer, Miwa Misawa, Sophia Ananiadou, Mariana Neves, Alberto Pascual-Montano, Arzucan Özgür, Dragomir Radev, Sebastian Riedel, Rune Sætre, Hong‐Woo Chun, Jin-Dong Kim, Sampo Pyysalo, Tomoko Ohta, Jun’ichi Tsujii
Software Mentions: 2
Published: almost 13 years ago
10.1016/j.patter.2021.100290
Looking through glass: Knowledge discovery from materials science literature using natural language processingCited by: 21
Author(s): Vineeth Venugopal, Sourav Sahoo, Mohd Zaki, Manish Agarwal, Nitya Nand Gosvami, N. M. Anoop Krishnan
Software Mentions: 2
Published: about 3 years ago
10.1371/journal.pone.0240196
On the connection between real-world circumstances and online player behaviour: The case of EVE OnlineCited by: 5
Author(s): Andres M. Belaza, Jan Ryckebusch, Koen Schoors, Luis E. C. Rocha, Benjamin Vandermarliere
Software Mentions: 2
Published: almost 4 years ago
10.1093/database/baw029
CCProf: exploring conformational change profile of proteinsCited by: 6
Author(s): Chih Ching Chang, Chai Wei Chou, Darby Tien Hao Chang
Software Mentions: 2
Published: over 8 years ago
10.3389/fpls.2018.00067
Decrease in the Photosynthetic Performance of Temperate Grassland Species Does Not Lead to a Decline in the Gross Primary Production of the EcosystemCited by: 10
Author(s): Anthony Digrado, Louis Gourlez de la Motte, Aurélie Bachy, Ahsan Mozaffar, Niels Schoon, Filippo Bussotti, Crist Amelynck, Anne-Catherine Dalcq, Marie‐Laure Fauconnier, Marc Aubinet, Bernard Heinesch, Patrick du Jardin, Pierre Delaplace
Software Mentions: 2
Published: over 6 years ago
10.1186/s41065-017-0034-4
A comparative genomics approach revealed evolutionary dynamics of microsatellite imperfection and conservation in genus GossypiumCited by: 3
Author(s): Muhammad Mahmood Ahmed, Chao Shen, Anam Qadir Khan, Muhammad Atif Wahid, Muhammad Shaban, Zhongxu Lin
Software Mentions: 2
Published: over 7 years ago
10.1186/1747-5333-3-1
An open-source framework for large-scale, flexible evaluation of biomedical text mining systemsCited by: 40
Author(s): William A. Baumgartner, K. Bretonnel Cohen, Lawrence Hunter
Software Mentions: 2
Published: over 16 years ago
10.1186/s13321-018-0271-1
A confidence predictor for logD using conformal regression and a support-vector machineCited by: 31
Author(s): Maris Lapins, Staffan Arvidsson, Samuel Lampa, Arvid Berg, Wesley Schaal, Jonathan Alvarsson, Ola Spjuth
Software Mentions: 2
Published: over 6 years ago
10.3390/s90100281
A Localized Coverage Preserving Protocol for Wireless Sensor NetworksCited by: 25
Author(s): Yuheng Liu, Jiexin Pu, Shuo Zhang, Yunlu Liu, Xiong Zhang
Software Mentions: 2
Published: over 15 years ago
10.3390/s140304672
A Novel Topology Control Approach to Maintain the Node Degree in Dynamic Wireless Sensor NetworksCited by: 19
Author(s): Yuanjiang Huang, José-Fernán Martínez-Ortega, Vicente Hernández Díaz, J. Rafael Sendra
Software Mentions: 2
Published: over 10 years ago
10.3390/s17122945
Pre-Scheduled and Self Organized Sleep-Scheduling Algorithms for Efficient K-Coverage in Wireless Sensor NetworksCited by: 10
Author(s): Prasan Kumar Sahoo, Hiren Kumar Thakkar, I‐Shyan Hwang
Software Mentions: 2
Published: almost 7 years ago
10.1107/S2059798318000979
Overview of refinement procedures within<i>REFMAC</i>5: utilizing data from different sourcesCited by: 171
Author(s): Oleg Kovalevskiy, Robert A. Nicholls, Fei Long, Azzurra Carlon, Garib N. Murshudov
Software Mentions: 1
Published: over 6 years ago
10.3389/fvets.2021.670419
Control and Eradication Programs for Six Cattle Diseases in the NetherlandsCited by: 3
Author(s): I.M.G.A. Santman-Berends, M.H. Mars, M.F. Weber, Linda van Duijn, H.W. Frederik Waldeck, Marit M. Biesheuvel, K. M. J. A. van den Brink, T. Dijkstra, Jaka Jakob Hodnik, Sam Strain, Ad de Roo, Anouk Veldhuis, G. van Schaik
Software Mentions: 1
Published: about 3 years ago
10.1186/s12864-017-3500-5
A program to compute the soft Robinson–Foulds distance between phylogenetic networksCited by: 9
Author(s): Bingxin Lu, Louxin Zhang, Hon Wai Leong
Software Mentions: 1
Published: over 7 years ago
10.1186/1478-4505-9-18
Collaborating with consumer and community representatives in health and medical research in Australia: results from an evaluationCited by: 17
Author(s): Jan Payne, Heather D’Antoine, Anne McKenzie, Nadine Henley, Anne Bartu, Elizabeth J Elliott, Carol Bower
Software Mentions: 1
Published: over 13 years ago
10.1107/S1399004714013868
Direct phase selection of initial phases from single-wavelength anomalous dispersion (SAD) for the improvement of electron density and<i>ab initio</i>structure determinationCited by: 5
Author(s): Chung De Chen, Yen‐Chieh Huang, Hsin-Lin Chiang, Yin-Cheng Hsieh, Hong‐Hsiang Guan, Phimonphan Chuankhayan, Chun‐Jung Chen
Software Mentions: 1
Published: about 10 years ago
10.1186/2055-7124-18-10
Effects of direct current electric-field using ITO plate on breast cancer cell migrationCited by: 7
Author(s): Min Sung Kim, Mi Hee Lee, Byeong Ju Kwon, Hyunwoong Seo, Min Ah Koo, Kyung Eun You, Dohyun Kim, Jong Chul Park
Software Mentions: 1
Published: about 10 years ago
10.1186/2055-7124-18-7
Stimulated migration and penetration of vascular endothelial cells into poly (L-lactic acid) scaffolds under flow conditionsCited by: 15
Author(s): Min Ah Koo, Jae Kyeong Kang, Mi Hee Lee, Hyunwoong Seo, Byeong Ju Kwon, Kyung Eun You, Min Sung Kim, Dohyun Kim, Jong Chul Park
Software Mentions: 1
Published: over 10 years ago
10.1002/lno.10232
Hydrology controls dissolved organic matter export and composition in an Alpine stream and its hyporheic zoneCited by: 95
Author(s): Christina Fasching, Amber J. Ulseth, Jakob Schelker, Gertraud Steniczka, Tom J. Battin
Software Mentions: 1
Published: almost 9 years ago
10.1186/1471-2105-7-233
PDA: Pooled DNA analyzerCited by: 17
Author(s): Hsin-Chou Yang, Chia-Ching Pan, Chin-Yu Lin, Cathy S.J. Fann
Software Mentions: 1
Published: over 18 years ago
10.1186/s12889-021-11047-6
Determinants for the implementation of person-centered tools for workers with chronic health conditions: a mixed-method study using the Tailored Implementation for Chronic Diseases checklistCited by: 3
Author(s): Nina Zipfel, Bedra Horreh, Carel Hulshof, Arnela Suman, Angela G. E. M. de Boer, Sylvia J. van der Burg-Vermeulen
Software Mentions: 1
Published: over 3 years ago
10.1038/s41598-021-91615-3
Development of a time-series shotgun metagenomics database for monitoring microbial communities at the Pacific coast of JapanCited by: 4
Author(s): Kazutoshi Yoshitake, Gaku Kimura, Tomoko Sakami, Tsuyoshi Watanabe, Yukiko Taniuchi, Shigeho Kakehi, Akira Kuwata, Haruyo Yamaguchi, Takafumi Kataoka, Masanobu Kawachi, Kazuho Ikeo, Engkong Tan, Yoji Igarashi, Masafumi Ohtsubo, Shugo Watabe, Yutaka Suzuki, Shuichi Asakawa, Sonoko Ishino, Kosuke Tashiro, Yuji Ishino, Takanori Kobayashi, Katsuhiko Mineta, Takashi Gojobori
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0154133
Pilot Study of a Next-Generation Sequencing-Based Targeted Anticancer Therapy in Refractory Solid Tumors at a Korean InstitutionCited by: 11
Author(s): Hyung Soon Park, Sun Min Lim, Sora Kim, Sang Woo Kim, Hye Ryun Kim, Kyu Bum Kwack, Min Goo Lee, Joo Hang Kim, Yong Wha Moon
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0021247
To Clone or Not To Clone: Method Analysis for Retrieving Consensus Sequences In Ancient DNA SamplesCited by: 43
Author(s): Misa Winters, Jodi Lynn Barta, Cara Monroe, Brian M. Kemp
Software Mentions: 1
Published: about 13 years ago
10.1155/2020/6524919
A Complex Chained P System Based on Evolutionary Mechanism for Image SegmentationCited by: 4
Author(s): Xiyu Liu, Lin Wang, Jianhua Qu, Ning Wang
Software Mentions: 1
Published: about 4 years ago
10.2196/21939
Leveraging a Cloud-Based Critical Care Registry for COVID-19 Pandemic Surveillance and Research in Low- and Middle-Income CountriesCited by: 16
Author(s): Madiha Hashmi, Abi Beane, Srinivas Murthy, Arjen M. Dondorp, Rashan Haniffa
Software Mentions: 1
Published: almost 4 years ago