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: bioconductor: SIM
https://packages.ecosyste.ms/registries/bioconductor.org/packages/SIM
Integrated Analysis on two human genomic datasets
1 version
Latest release: about 1 year ago
27,894 downloads total
Papers Mentioning SIM 554
10.1016/j.vaccine.2020.09.007
The data used to build the models: Pertussis morbidity and mortality burden considering various Brazilian data sourcesCited by: 3
Author(s): Ângela Maria Bagattini, Gabriela Moreira Policena, Ruth Minamisava, Ana Lúcia Andrade, Sérgio de Andrade Nishioka, Anushua Sinha, Louise B. Russell, Cristiana M. Toscano
Software Mentions: 1
Published: almost 4 years ago
10.1186/1743-422X-8-385
The matrix (M) protein of newcastle disease virus binds to human bax through its BH3 domainCited by: 34
Author(s): Aidin Molouki, Yi‐Te Hsu, Fatemeh Jahanshiri, Saifollah Abdullah, Rozita Rosli, Khatijah Yusoff
Software Mentions: 1
Published: over 13 years ago
10.3390/v11040372
Identification of RUVBL1 and RUVBL2 as Novel Cellular Interactors of the Ebola Virus NucleoproteinCited by: 17
Author(s): M. Jane Morwitzer, Sarah R. Tritsch, Lisa H. Cazares, Michael D. Ward, Jonathan E. Nuss, Sina Bavari, St. Patrick Reid
Software Mentions: 1
Published: over 5 years ago
10.3390/v13020233
Application of Super-Resolution and Advanced Quantitative Microscopy to the Spatio-Temporal Analysis of Influenza Virus ReplicationCited by: 8
Author(s): Emma Touizer, Christian Sieben, Ricardo Henriques, Mark Marsh, Romain F. Laine
Software Mentions: 1
Published: almost 4 years ago
10.3897/zookeys.245.3416
Catalogue of Geadephaga (Coleoptera: Adephaga) of America, north of MexicoCited by: 140
Author(s): Yves Bousquet
Software Mentions: 1
Published: almost 12 years ago
10.1155/2020/2497386
Saturdays-in-Motion: Education and Empowerment through an Interdisciplinary Team Approach for Parkinson’s Disease in Cali-ColombiaCited by: 0
Author(s): Beatriz Muñoz, Valentina Quintana-Peña, María González, Jaime Valderrama, Yor Jaggy Castaño-Pino, Domiciano Rincón, Andrés Navarro Cadavid, Jorge Orozco
Software Mentions: 1
Published: over 4 years ago
10.7717/peerj.11442
First body of evidence suggesting a role of a tankyrase-binding motif (TBM) of vinculin (VCL) in epithelial cellsCited by: 3
Author(s): Salomé Vilchez Larrea, Wanda M. Valsecchi, Silvia Hebe Fernandez Villamil, Laura Lafon-Hughes
Software Mentions: 1
Published: over 3 years ago
10.3390/ph14090846
Preparation of Solid Dispersions of Simvastatin and Soluplus Using a Single-Step Organic Solvent-Free Supercritical Fluid Process for the Drug Solubility and Dissolution Rate EnhancementCited by: 18
Author(s): Uttom Nandi, Adejumoke Lara Ajiboye, Pritash Patel, Dennis Douroumis, Vivek Trivedi
Software Mentions: 1
Published: about 3 years ago
10.3390/pharmaceutics13020138
Fabrication and Appraisal of Simvastatin via Tailored Niosomal Nanovesicles for Transdermal Delivery Enhancement: In Vitro and In Vivo AssessmentCited by: 25
Author(s): Heba F. Salem, Rasha M Kharshoum, Heba A Abou-Taleb, Hanan O. Farouk, Randa Mohammed Zaki
Software Mentions: 1
Published: almost 4 years ago
10.1098/rstb.2016.0281
SUMO, a small, but powerful, regulator of double-strand break repairCited by: 58
Author(s): Alexander J Garvin, Joanna R. Morris
Software Mentions: 1
Published: about 7 years ago
10.1111/tpj.15202
Developing a rapid and highly efficient cowpea regeneration, transformation and genome editing system using embryonic axis explantsCited by: 31
Author(s): Ping Che, Shujun Chang, Marissa Simon, Zhifen Zhang, Ahmed Shaharyar, Jesse Ourada, Dennis O’Neill, Mijael Torres‐Mendoza, Yinping Guo, Kathleen Monfero Marasigan, Jean‐Philippe Vielle‐Calzada, Peggy Ozias‐Akins, Marc C. Albertsen, Todd J. Jones
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pbio.0060063
Loss of Egg Yolk Genes in Mammals and the Origin of Lactation and PlacentationCited by: 117
Author(s): David Brawand, Walter Wahli, Henrik Kaessmann
Software Mentions: 1
Published: over 16 years ago
10.1371/journal.pbio.1001389
3D-SIM Super Resolution Microscopy Reveals a Bead-Like Arrangement for FtsZ and the Division Machinery: Implications for Triggering CytokinesisCited by: 190
Author(s): Michael P. Strauss, Andrew T. F. Liew, Lynne Turnbull, Cynthia B. Whitchurch, Leigh G. Monahan, Elizabeth J. Harry
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pcbi.1001002
Environments that Induce Synthetic Microbial EcosystemsCited by: 272
Author(s): Niels Klitgord, Daniel Segrè
Software Mentions: 1
Published: about 14 years ago
10.1371/journal.pcbi.0010053
SNPdetector: A Software Tool for Sensitive and Accurate SNP DetectionCited by: 119
Author(s): Jinghui Zhang, David A. Wheeler, Imtiaz Yakub, Sharon Wei, Raman Sood, William Rowe, Paul P. Liu, Richard A. Gibbs, Kenneth H. Buetow
Software Mentions: 1
Published: about 19 years ago
10.1371/journal.pgen.1008161
The E3 ubiquitin ligase Sina regulates the assembly and disassembly of the synaptonemal complex in Drosophila femalesCited by: 12
Author(s): Stacie E. Hughes, Elizabeth A Hemenway, Fei Guo, Kexi Yi, Zulin Yu, R. Scott Hawley
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pgen.1006661
Analysis of large versus small dogs reveals three genes on the canine X chromosome associated with body weight, muscling and back fat thicknessCited by: 44
Author(s): Jocelyn Plassais, Maud Rimbault, Falina J. Williams, Brian W. Davis, Jeffrey J. Schoenebeck, Elaine A. Ostrander
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pgen.1004254
Worldwide Patterns of Ancestry, Divergence, and Admixture in Domesticated CattleCited by: 349
Author(s): Jared E. Decker, Stephanie McKay, Megan M Rolf, Jae Woo Kim, Antonio Molina Alcalá, Tad S. Sonstegard, Olivier Hanotte, Anders Götherström, Christopher M. Seabury, Lisa Praharani, Masroor Ellahi Babar, Luciana Correia de Almeida Regitano, Mehmet Ali Yıldız, Michael P. Heaton, Wan Sheng Liu, C. Z. Lei, James M. Reecy, Muhammad Saif-ur-Rehman, Robert D. Schnabel, Jeremy F. Taylor
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pgen.1005150
DNA Damage Response and Spindle Assembly Checkpoint Function throughout the Cell Cycle to Ensure Genomic IntegrityCited by: 48
Author(s): Katherine S. Lawrence, Thinh Chau, JoAnne Engebrecht
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pgen.1003614
FGF Signalling Regulates Chromatin Organisation during Neural Differentiation via Mechanisms that Can Be Uncoupled from TranscriptionCited by: 50
Author(s): Nishal S. Patel, Muriel Rhinn, Claudia I. Semprich, Pamela A. Halley, Pascal Dollé, Wendy A. Bickmore, Kate G. Storey
Software Mentions: 1
Published: over 11 years ago
10.1371/journal.pgen.1002243
DNA Methylation and Histone Modifications Regulate De Novo Shoot Regeneration in Arabidopsis by Modulating WUSCHEL Expression and Auxin SignalingCited by: 188
Author(s): Li Wei, Hui Liu, Zhi Juan Cheng, Ying Su, Hua Han, Yan Zhang, Xian Sheng Zhang
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pgen.1005372
Arabidopsis PCH2 Mediates Meiotic Chromosome Remodeling and Maturation of CrossoversCited by: 90
Author(s): Christophe Lambing, Kim Osman, Komsun Nuntasoontorn, Allan West, James D. Higgins, Gregory P. Copenhaver, Jianhua Yang, Susan J. Armstrong, Karl Mechtler, Elisabeth Roitinger, F. Chris H. Franklin
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pgen.1002790
Interplay between Synaptonemal Complex, Homologous Recombination, and Centromeres during Mammalian MeiosisCited by: 100
Author(s): Huanyu Qiao, Jefferson K. Chen, April Reynolds, Christer Höög, Michael R. Paddy, Neil Hunter
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pmed.1001692
Monitoring and Evaluating Progress towards Universal Health Coverage in BrazilCited by: 51
Author(s): Maurício L. Barreto, Davide Rasella, Daiane Borges Machado, Rosana Aquino, D. Lima, Leila Posenato García, Alexandra Crispim Boing, Jackson Santos, Juan José Cortez Escalante, Estela Maria Motta Lima Leão de Aquino, Cláudia Travassos
Software Mentions: 1
Published: about 10 years ago
10.1371/journal.pmed.1001083
Improved Response to Disasters and Outbreaks by Tracking Population Movements with Mobile Phone Network Data: A Post-Earthquake Geospatial Study in HaitiCited by: 499
Author(s): Linus Bengtsson, Xin Lu, Anna Thorson, Richard Garfield, Johan von Schreeb
Software Mentions: 1
Published: about 13 years ago
10.1371/journal.pntd.0005542
Mortality among blood donors seropositive and seronegative for Chagas disease (1996–2000) in São Paulo, Brazil: A death certificate linkage studyCited by: 22
Author(s): Ligia Capuani, Ana Luiza Bierrenbach, Airlane Pereira Alencar, Alfredo Mendrone, João Eduardo Ferreira, Brian Custer, Antônio Luiz Pinho Ribeiro, Éster Cerdeira Sabino
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pntd.0004662
Diseases Neglected by the Media in Espírito Santo, Brazil in 2011–2012Cited by: 11
Author(s): Aline Guio Cavaca, Tatiana Breder Emerich, Paulo Roberto Vasconcellos-Silva, Edson Theodoro dos Santos Neto, Adauto Emmerich Oliveira
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pntd.0007569
Mortality by cryptococcosis in Brazil from 2000 to 2012: A descriptive epidemiological studyCited by: 24
Author(s): Emmanuel Alves Soares, Márcia dos Santos Lazéra, Bodo Wanke, Marcelle de Lima Ferreira, Raquel Vasconcellos Carvalhaes de Oliveira, Adeno Gonçalves Oliveira, Ziadir Francisco Coutinho
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pntd.0006697
Burden of leishmaniasis in Brazil and federated units, 1990-2016: Findings from Global Burden of Disease Study 2016Cited by: 48
Author(s): Juliana Maria Trindade Bezerra, Valdelaine Etelvina Miranda de Araújo, David Soeiro Barbosa, Francisco Rogerlândio Martins-Melo, Guilherme Loureiro Werneck, Mariângela Carneiro
Software Mentions: 1
Published: about 6 years ago
10.1371/journal.pone.0087809
Desmosome Assembly and Disassembly Are Membrane Raft-DependentCited by: 65
Author(s): Sara N. Stahley, Masataka Saito, Víctor Faúndez, Michael Koval, Alexa L. Mattheyses, Andrew P. Kowalczyk
Software Mentions: 1
Published: almost 11 years ago
10.1371/journal.pone.0098795
Dissociative Part-Dependent Resting-State Activity in Dissociative Identity Disorder: A Controlled fMRI Perfusion StudyCited by: 59
Author(s): Yolanda R. Schlumpf, Antje A. T. S. Reinders, Ellert R. S. Nijenhuis, Roger Luechinger, Matthias J.P. van Osch, Lutz Jäncke
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0146388
A Novel GBM Saliency Detection Model Using Multi-Channel MRICited by: 41
Author(s): Subhashis Banerjee, Sushmita Mitra, B. Uma Shankar, Yuzo Hayashi
Software Mentions: 1
Published: almost 9 years ago
10.1371/journal.pone.0228052
Superstructure formation by RodZ hexamers of Shigella sonnei maintains the rod shape of bacilliCited by: 1
Author(s): Jiro Mitobe, Fumiko Nishiumi, Itaru Yanagihara, Shouji Yamamoto, Makoto Ohnishi
Software Mentions: 1
Published: almost 5 years ago
10.1371/journal.pone.0149210
Identification QTLs Controlling Genes for Se Uptake in Lentil SeedsCited by: 43
Author(s): Duygu Ateş, Tuğçe Sever, Seçil Aldemir, Bülent Yağmur, Hülya Yılmaz Temel, Hilal Betül Kaya, Ahmad Alsaleh, Abdullah Kahraman, Hakan Özkan, Albert Vandenberg, Bahattin Tanyolaç
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0120892
Double-Exposure Optical Sectioning Structured Illumination Microscopy Based on Hilbert Transform ReconstructionCited by: 27
Author(s): Xing Zhou, Ming Lei, Dan Dan, Baoli Yao, Jia Qian, Shaohui Yan, Yue Yang, Junwei Min, Tong Peng, Tong Ye, Guangde Chen
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0242452
Probabilistic Optically-Selective Single-molecule Imaging Based Localization Encoded (POSSIBLE) microscopy for ultra-superresolution imagingCited by: 8
Author(s): Partha Pratim Mondal
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0214050
Validating linkage of multiple population-based administrative databases in BrazilCited by: 3
Author(s): Enny S. Paixão, Oona M. R. Campbell, Laura C. Rodrigues, Maria Glória Teixeira, Maria da Conceição Nascimento Costa, Elizabeth B Brickley, Katie Harron
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0165398
Molecular Study of the Amazonian Macabea Cattle HistoryCited by: 8
Author(s): Julio Vargas, Vincenzo Landi, Amparo Martínez Martínez, Mayra Gómez, M. E. Camacho, Luz A Álvarez, Lenin Aguirre, Juan Vicente Delgado
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pone.0100373
High Resolution Imaging Study of Interactions between the 37 kDa/67 kDa Laminin Receptor and APP, Beta-Secretase and Gamma-Secretase in Alzheimer's DiseaseCited by: 22
Author(s): Katarina Jovanović, Ben Loos, Bianca Da Costa Dias, Clement Penny, Stefan Weiß
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0218359
Social, demographic, health care and co-morbidity predictors of tuberculosis mortality in Amazonas, Brazil: a multiple cause of death approachCited by: 2
Author(s): Vanderson de Souza Sampaio, Maria Gabriela de Almeida Rodrigues, Leila Cristina Ferreira da Silva, Daniel Barros de Castro, Patrícia Carvalho da Silva Balieiro, Ana Alzira Cabrinha, Antônio José Leal Costa
Software Mentions: 1
Published: almost 5 years ago
10.1371/journal.pone.0025022
HF-EPR, Raman, UV/VIS Light Spectroscopic, and DFT Studies of the Ribonucleotide Reductase R2 Tyrosyl Radical from Epstein-Barr VirusCited by: 21
Author(s): Ane B. Tomter, Giorgio Zoppellaro, F. Schmitzberger, Niels Lyhne Andersen, Anne‐Laure Barra, Henrik Engman, P. Nordlund, K. Kristoffer Andersson
Software Mentions: 1
Published: about 13 years ago
10.1371/journal.pone.0079679
N-Cadherin Relocalizes from the Periphery to the Center of the Synapse after Transient Synaptic Stimulation in Hippocampal NeuronsCited by: 19
Author(s): Patricia T. Yam, Zachary Pincus, Gagan D. Gupta, Mikhail Bashkurov, Frédéric Charron, Laurence Pelletier, David Colman
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0132495
Oncogenic Role of miR-15a-3p in 13q Amplicon-Driven Colorectal Adenoma-to-Carcinoma ProgressionCited by: 21
Author(s): Florence L. M. de Groen, Lisette M. Timmer, Renée X. de Menezes, Begoña Diosdado, Erik Hooijberg, Gerrit A. Meijer, Renske D.M. Steenbergen, Beatriz Carvalho
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0188778
Cortical actin nodes: Their dynamics and recruitment of podosomal proteins as revealed by super-resolution and single-molecule microscopyCited by: 9
Author(s): Yuki Shirai, Taka A. Tsunoyama, Nao Hiramoto-Yamaki, K Hirosawa, Akihiro Shibata, Ken‐ichi Kondo, Atsushi Tsurumune, Fumiyoshi Ishidate, Akihiro Kusumi, Takeshi Fujiwara
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0254437
QTL mapping of seedling tolerance to exposure to low temperature in the maize IBM RIL populationCited by: 12
Author(s): Raeann Goering, S. Larsen, Jia W. Tan, James Whelan, Irina Makarevitch
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0032984
Convergent Evidence from Mouse and Human Studies Suggests the Involvement of Zinc Finger Protein 326 Gene in Antidepressant Treatment ResponseCited by: 14
Author(s): Ying‐Jay Liou, Chien-Hsiun Chen, Chih-Ya Cheng, Shiow‐Yi Chen, Tai‐Jui Chen, Younger W.‐Y. Yu, Fang-Shin Nian, Shih‐Jen Tsai, Chien Tai Hong
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0192985
Mother to child transmission of HIV in Brazil: Data from the "Birth in Brazil study", a national hospital-based studyCited by: 14
Author(s): Rosa Maria Soares Madeira Domingues, Valéria Saraceni, María do Carmo Leal
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0123393
Modulation of Recombinant Antigenic Constructs Containing Multi-Epitopes towards Effective Reduction of Atherosclerotic Lesion in B6;129S-Ldlrtm1HerApobtm2Sgy/J MiceCited by: 2
Author(s): Min Xia, Daxin Chen, Valéria Endrész, Ildikó Lantos, Andrea Szabó, Vijay V. Kakkar, Xinjie Lu
Software Mentions: 1
Published: over 9 years ago
10.1371/journal.pone.0231534
Formalizing the use case model: A model-based approachCited by: 3
Author(s): Qamar Zaman, Aamer Nadeem, Muddassar Azam Sindhu
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0090214
B Chromosomes of Aegilops speltoides Are Enriched in Organelle Genome-Derived SequencesCited by: 30
Author(s): Alevtina Ruban, Jörg Fuchs, André Marques, Veit Schubert, A. A. Soloviev, Olga Raskina, Е. Д. Бадаева, Andreas Houben
Software Mentions: 1
Published: over 10 years ago
10.1371/journal.pone.0050696
Signaling Dependent and Independent Mechanisms in Pemphigus Vulgaris Blister FormationCited by: 83
Author(s): Masataka Saito, Sara N. Stahley, Christopher Y. Caughman, Xuming Mao, Dana K. Tucker, Aimee Payne, Masayuki Amagai, Andrew P. Kowalczyk
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0164042
Pdlim7 Regulates Arf6-Dependent Actin Dynamics and Is Required for Platelet-Mediated Thrombosis in MiceCited by: 20
Author(s): Alexander Urban, Erin O. Quick, Kaylie P. Miller, Jennifer Krcmery, Hans Georg Simon
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pone.0210215
Segmental inner macular layer analysis with spectral-domain optical coherence tomography for early detection of normal tension glaucomaCited by: 3
Author(s): Jih-Pin Lin, Pei‐Wen Lin, Ing‐Chou Lai, Jen-Chia Tsai
Software Mentions: 1
Published: almost 6 years ago