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: repDNA
https://packages.ecosyste.ms/registries/pypi.org/packages/repDNA
a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects
2 versions
Latest release: over 9 years ago
15 downloads last month
Papers Mentioning repDNA 19
10.1186/s13321-018-0270-2
PyBioMed: a python library for various molecular representations of chemicals, proteins and DNAs and their interactionsCited by: 86
Author(s): Jie Dong, Zhi‐Jiang Yao, Lin Zhang, Feijun Luo, Qinlu Lin, Aiping Lu, Alex F. Chen, Dong‐Sheng Cao
Software Mentions: 8
Published: over 6 years ago
10.1186/s13321-016-0146-2
BioTriangle: a web-accessible platform for generating various molecular representations for chemicals, proteins, DNAs/RNAs and their interactionsCited by: 36
Author(s): Jie Dong, Zhi‐Jiang Yao, Ming Wen, Min Zhu, Ningning Wang, Hongyu Miao, Aiping Lu, Wenbin Zeng, Dong‐Sheng Cao
Software Mentions: 6
Published: over 8 years ago
10.1038/s41598-017-14945-1
iDNAProt-ES: Identification of DNA-binding Proteins Using Evolutionary and Structural FeaturesCited by: 66
Author(s): Shahana Yasmin Chowdhury, Swakkhar Shatabda, Abdollah Dehzangi
Software Mentions: 5
Published: about 7 years ago
10.1371/journal.pone.0178217
Automated prediction of emphysema visual score using homology-based quantification of low-attenuation lung regionCited by: 8
Author(s): Motohiro Nishio, Kazuaki Nakane, Takeshi Kubo, Masahiro Yakami, Yutaka Emoto, Masaki Nishio, Kaori Togashi
Software Mentions: 4
Published: over 7 years ago
10.1371/journal.pone.0167165
Effective Feature Selection for Classification of Promoter SequencesCited by: 5
Author(s): K. Kouser, P. G. Lavanya, Lalitha Rangarajan, K Acharya Kshitish
Software Mentions: 3
Published: almost 8 years ago
10.1186/s12864-020-07033-8
Accurate prediction of DNA N4-methylcytosine sites via boost-learning various types of sequence featuresCited by: 18
Author(s): Zhixun Zhao, Xiaocai Zhang, Fang Chen, Liang Fang, Jinyan Li
Software Mentions: 3
Published: about 4 years ago
10.1186/s12859-018-2535-1
Sequence-based bacterial small RNAs prediction using ensemble learning strategiesCited by: 14
Author(s): Guifeng Tang, Jingwen Shi, Wenjian Wu, Xiang Yue, Wen Zhang
Software Mentions: 2
Published: almost 6 years ago
10.1093/bib/bby028
iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sitesCited by: 151
Author(s): Jiangning Song, Yanan Wang, Fuyi Li, Tatsuya Akutsu, Neil D. Rawlings, Geoffrey I. Webb, Kuo‐Chen Chou
Software Mentions: 2
Published: over 6 years ago
10.1371/journal.pone.0187371
Selection and classification of gene expression in autism disorder: Use of a combination of statistical filters and a GBPSO-SVM algorithmCited by: 26
Author(s): Shilan S. Hameed, Rohayanti Hassan, Fahmi Fariq Muhammad
Software Mentions: 2
Published: about 7 years ago
10.1371/journal.pone.0185570
The folded k-spectrum kernel: A machine learning approach to detecting transcription factor binding sites with gapped nucleotide dependenciesCited by: 4
Author(s): Abdulkadir Elmas, Xiaodong Wang, Jacqueline M. Dresch
Software Mentions: 2
Published: about 7 years ago
10.1038/s41598-018-19491-y
A Novel Modeling in Mathematical Biology for Classification of Signal PeptidesCited by: 68
Author(s): Asma Ehsan, Khalid Mahmood, Yaser Daanial Khan, Sher Afzal Khan, Kuo‐Chen Chou
Software Mentions: 2
Published: almost 7 years ago
10.3390/genes8110326
Taxonomic Classification for Living Organisms Using Convolutional Neural NetworksCited by: 14
Author(s): Saed Khawaldeh, Usama Pervaiz, Mohammed Elsharnoby, Alaa Eddin Alchalabi, Nayel Al-Zubi
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pone.0174392
ML2Motif—Reliable extraction of discriminative sequence motifs from learning machinesCited by: 6
Author(s): Marina M.-C. Vidovic, Marius Kloft, Klaus‐Robert Müller, Nico Görnitz
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pcbi.1006616
SFPEL-LPI: Sequence-based feature projection ensemble learning for predicting LncRNA-protein interactionsCited by: 117
Author(s): Wen Zhang, Xiang Yue, Guping Tang, Wenjian Wu, Feng Huang, Xining Zhang
Software Mentions: 1
Published: almost 6 years ago
10.1038/s41598-017-08523-8
iSS-PC: Identifying Splicing Sites via Physical-Chemical Properties Using Deep Sparse Auto-EncoderCited by: 21
Author(s): Zhaochun Xu, Peng Wang, Wang-Ren Qiu, Xuan Xiao
Software Mentions: 1
Published: over 7 years ago
10.1155/2016/3981478
Identifying the Types of Ion Channel-Targeted Conotoxins by Incorporating New Properties of Residues into Pseudo Amino Acid CompositionCited by: 11
Author(s): Yun Wu, Yufei Zheng, Hua Tang
Software Mentions: 1
Published: almost 9 years ago
10.18632/oncotarget.13331
Identification of potential genes for human ischemic cardiomyopathy based on RNA-Seq dataCited by: 6
Author(s): Li Wan, Liansheng Li, Shiying Zhang, Ce Zhang, Hao Huang, Yiran Li, Erqiang Hu, Gun Deng, Shanshan Guo, Yahui Wang, Weimin Liu, Lina Chen
Software Mentions: 1
Published: about 8 years ago
10.3390/ijms18112400
UltraPse: A Universal and Extensible Software Platform for Representing Biological SequencesCited by: 15
Author(s): Pu-Feng Du, Wei Zhao, Yang-Yang Miao, Leyi Wei, Likun Wang
Software Mentions: 1
Published: about 7 years ago
10.3389/fgene.2019.01148
Projection-Based Neighborhood Non-Negative Matrix Factorization for lncRNA-Protein Interaction PredictionCited by: 15
Author(s): Yingjun Ma, Tingting He, Xingpeng Jiang
Software Mentions: 1
Published: about 5 years ago