Ecosyste.ms: Papers

10.12688/wellcomeopenres.14306.1

CoverView: a sequence quality evaluation tool for next generation sequencing data
Cited by: 7
Author(s): Márton Münz, Shazia Mahamdallie, Shawn Yost, Andrew Rimmer, Emma Poyastro-Pearson, Ann Strydom, Sheila Seal, Elise Ruark, Nazneen Rahman
Software Mentions: 8
Published: over 6 years ago

10.1371/journal.pone.0132798

Partial Hepatectomy Induced Long Noncoding RNA Inhibits Hepatocyte Proliferation during Liver Regeneration
Cited by: 20
Author(s): Lulu Huang, Sagar S. Damle, Sheri Booten, Priyam Singh, Mahyar Sabripour, Jeff Hsu, Minji Jo, Melanie Katz, Andy Watt, Christopher E. Hart, Susan M. Freier, Brett P. Monia, Shuling Guo
Software Mentions: 6
Published: about 9 years ago

10.1186/s12859-016-1440-8

TTCA: an R package for the identification of differentially expressed genes in time course microarray data
Cited by: 15
Author(s): Marco Albrecht, Damian Stichel, Bettina Müller, Ruth Merkle, Carsten Sticht, Norbert Gretz, Ursula Klingmüller, Kai Breuhahn, Franziska Matthäus
Software Mentions: 5
Published: over 7 years ago

10.1242/jcs.183103

Chromatibody, a novel non-invasive molecular tool to explore and manipulate chromatin in living cells
Cited by: 32
Author(s): Denis Jullien, Julien Vignard, Yoann Fedor, Nicolas Béry, Aurélien Olichon, Michèle Crozatier, Marie Erard, Hervé Cassard, Bernard Ducommun, Bernard Salles, Gladys Mirey
Software Mentions: 3
Published: over 8 years ago

10.1038/s41598-018-32925-x

Oleoylethanolamide treatment affects gut microbiota composition and the expression of intestinal cytokines in Peyer’s patches of mice
Cited by: 35
Author(s): Monica Di Paola, Elena Bonechi, Gustavo Provensi, Alessia Costa, Gerard Clarke, Clara Ballerini, Carlotta De Filippo, Maria Beatrice Passani
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-021-86466-x

Preliminary functional analysis of the subgingival microbiota of cats with periodontitis and feline chronic gingivostomatitis
Cited by: 7
Author(s): Marjory Xavier Rodrigues, Nadine Fiani, R.C. Bicalho, Santiago Peralta
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pntd.0008366

An interactive database for the investigation of high-density peptide microarray guided interaction patterns and antivenom cross-reactivity
Cited by: 10
Author(s): Kamille Elvstrøm Krause, Timothy Jenkins, Carina Skaarup, Mikael Engmark, Nicholas R. Casewell, Stuart Ainsworth, Bruno Lomonte, Julián Fernández, José Marı́a Gutiérrez, Ole Lund, Andreas Hougaard Laustsen
Software Mentions: 3
Published: about 4 years ago

10.1111/jcmm.13547

Humanization of fibroblast growth factor 1 single‐chain antibody and validation for its antitumorigenic efficacy in breast cancer and glioma cells
Cited by: 11
Author(s): Xiaomin He, Shuyuan Du, Shiqian Gao, Jing‐Ying Chen, Ran‐Juan Cao, Zhenkai Xing, Alia Rizvi Syeda Kazim, Huali Yu, Qing‐Chuan Zheng, Xinen Zhu
Software Mentions: 2
Published: over 6 years ago

10.2196/jmir.3137

The Use and Significance of a Research Networking System
Cited by: 13
Author(s): Maninder Kahlon, Leslie Yuan, John Daigre, Eric Meeks, Katie Nelson, Cynthia Piontkowski, Katja Reuter, Rachael Sak, Brian Turner, Griffin M Weber, Chatterjee Anirvan
Software Mentions: 2
Published: over 10 years ago

10.1186/1471-2105-15-333

Network-based analysis of comorbidities risk during an infection: SARS and HIV case studies
Cited by: 88
Author(s): Mohammad Ali Moni, Píetro Lió
Software Mentions: 2
Published: almost 10 years ago

10.1038/srep11702

Homology modeling of DFG-in FMS-like tyrosine kinase 3 (FLT3) and structure-based virtual screening for inhibitor identification
Cited by: 63
Author(s): Yi Yu Ke, Vivek Kumar Singh, Mohane Selvaraj Coumar, Yung Chang Hsu, Wen Chieh Wang, Jen Shin Song, Chun Hwa Chen, Wen Hsing Lin, Szu Huei Wu, Ju Wei Hsu, Chuan Shih, Hsing Pang Hsieh
Software Mentions: 1
Published: about 9 years ago

10.1038/srep29895

Engineering Factor Xa Inhibitor with Multiple Platelet-Binding Sites Facilitates its Platelet Targeting
Cited by: 4
Author(s): Yuyan Zhu, Ruyi Li, Yuan Lin, Mengyang Shui, Xiaoyan Liu, Huan Chen
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-017-02091-7

Design and evaluation of EphrinA1 mutants with cerebral protective effect
Cited by: 7
Author(s): Yuyan Zhu, Yuanqing Gao, Danping Zheng, Mengyang Shui, Kuai Yu, Xiaoyan Liu, Yuan Lin, Li Su, Wenxing Yang
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-019-54791-x

Computational STAT3 activity inference reveals its roles in the pancreatic tumor microenvironment
Cited by: 6
Author(s): Evelien Schaafsma, Yiwei Yuan, Yanding Zhao, Chao Cheng
Software Mentions: 1
Published: almost 5 years ago

10.1186/1742-4682-10-26

Is it possible to stabilize a thermophilic protein further using sequences and structures of mesophilic proteins: a theoretical case study concerning DgAS
Cited by: 2
Author(s): Ming Liu, Hongqiu He, Jiguo Su
Software Mentions: 1
Published: over 11 years ago

10.1186/1742-4682-11-27

Herpes B virus gD interaction with its human receptor - an in silico analysis approach
Cited by: 4
Author(s): Lingke Li, Zheng-Liang Qiu, Yan Li, Feng Liang, Huahu Ye, Yongqin Cai, Wanfeng Guo, Yan Li, Junjie Yue
Software Mentions: 1
Published: over 10 years ago

10.1186/1476-072X-5-49

Cited by: 101
Author(s): Brad Bell, Richard Hoskins, Linda Williams Pickle, Daniel Wartenberg
Software Mentions: 1
Published: over 18 years ago

10.3390/ijerph15112533

Knowledge Management for Fostering Biostatistical Collaboration within a Research Network: The RTRN Case Study
Cited by: 1
Author(s): Jae Eun Lee, Jung Hye Sung, Daniel F. Sarpong, Jimmy T. Efird, Paul B. Tchounwou, Elizabeth Ofili, Keith C. Norris
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms20102568

Molecular Docking and Molecular Dynamics (MD) Simulation of Human Anti-Complement Factor H (CFH) Antibody Ab42 and CFH Polypeptide
Cited by: 23
Author(s): Bing Yang, Shujian Lin, Jianlin Ren, Tong Liu, Yueming Wang, Chengming Li, Wenwen Xu, Ying He, Wenwei Zheng, Zhao Jian, Xiaohui Yuan, Hua‐Xin Liao
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2105-12-S14-S5

Integrative analysis workflow for the structural and functional classification of C-type lectins
Cited by: 17
Author(s): Geoffrey Koh, Ariana Low, Daren Poh, Yujian Yao, Say Kong Ng, Voon‐Kean Wong, Vincent Vagenende, Kong-Peng Lam, Dong-Yup Lee
Software Mentions: 1
Published: almost 13 years ago

10.2196/jmir.3444

Finding Collaborators: Toward Interactive Discovery Tools for Research Network Systems
Cited by: 3
Author(s): Charles Borromeo, Titus Schleyer, Michael J. Becich, Harry Hochheiser
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2105-9-S1-S14

Modelling the structures of G protein-coupled receptors aided by three-dimensional validation
Cited by: 10
Author(s): Siavoush Dastmalchi, W. Bret Church, Mitchell Morris
Software Mentions: 1
Published: over 16 years ago

10.1186/s12896-016-0286-5

Characterization of an L-arabinose isomerase from Bacillus coagulans NL01 and its application for D-tagatose production
Cited by: 31
Author(s): Wending Mei, Lu Wang, Ying Zang, Zhaojuan Zheng, Jia Ouyang
Software Mentions: 1
Published: about 8 years ago

10.3897/BDJ.9.e65023

The Atlas of Living Australia: History, current state and future directions
Cited by: 17
Author(s): Lee Belbin, Elycia Wallis, Donald Hobern, André Zerger
Software Mentions: 1
Published: over 3 years ago

10.1186/1475-2859-9-43

Molecular cloning and biochemical characterization of a novel erythrose reductase from Candida magnoliae JH110
Cited by: 33
Author(s): Dae-Hee Lee, Yeji Lee, Yeon‐Woo Ryu, Jin‐Ho Seo
Software Mentions: 1
Published: over 14 years ago

10.1038/cr.2018.15

Tamoxifen enhances stemness and promotes metastasis of ERα36+ breast cancer by upregulating ALDH1A1 in cancer cells
Cited by: 95
Author(s): Qiang Wang, Jun Jiang, Guoguang Ying, Xiao Qing Xie, Xia Zhang, Wei Xu, Xuemin Zhang, Erwei Song, Hong Bu, Yi Ping, Yao Xiao, Bin Wang, Shilei Xu, Ze Xuan Yan, Yoshiaki Tai, Baoquan Hu, Xiaowei Qi, Yan Xia Wang, Zhi Cheng He, Yan Wang, Ji Ming Wang, Yinghui Cui, Feng Chen, Kun Meng, Zhaoyi Wang, Xiu Wu Bian
Software Mentions: 1
Published: over 6 years ago

10.1186/s13072-019-0293-6

Crosstalk between chromatin structure, cohesin activity and transcription
Cited by: 17
Author(s): Douglas Maya-Miles, Eloísa Andújar, Mónica Pérez-Alegre, Marina Murillo-Pineda, Marta Barrientos-Moreno, María J. Cabello-Lobato, Elena Gómez-Marín, Macarena Morillo-Huesca, Félix Prado
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2021.642383

Schistosomiasis Drug Discovery in the Era of Automation and Artificial Intelligence
Cited by: 11
Author(s): José Teófilo Moreira-Filho, Arthur C. Silva, Rafael Ferreira Dantas, Bárbara Figueira Gomes, Lauro R Souza Neto, J. Brandão-Neto, Raymond J. Owens, Nicholas Furnham, Bruno Junior Neves, Floriano Paes Silva, Carolina Horta Andrade
Software Mentions: 1
Published: over 3 years ago

10.3389/fpsyt.2019.00927

Development of a Psychological Intervention to Address Anxiety During Pregnancy in a Low-Income Country
Cited by: 30
Author(s): Najia Atif, Huma Nazir, Shamsa Zafar, Rizwana Chaudhri, Maria Atiq, Luke C. Mullany, Armaan A. Rowther, Abid Malik, Pamela J. Surkan, Atıf Rahman
Software Mentions: 1
Published: over 4 years ago

10.4103/0972-0707.66719

Comparative evaluation of surface characteristics of dentinal walls with and without using plastic finishing file
Cited by: 7
Author(s): Smita Singh, Neeraj Nigam
Software Mentions: 1
Published: over 14 years ago