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All Journal IAES International Journal of Artificial Intelligence (IJ-AI) IJCCS (Indonesian Journal of Computing and Cybernetics Systems) TEKNIK INFORMATIKA JURNAL SISTEM INFORMASI BISNIS Bulletin of Electrical Engineering and Informatics POSITIF Journal of Tropical Biodiversity and Biotechnology KLIK (Kumpulan jurnaL Ilmu Komputer) (e-Journal) JOIV : International Journal on Informatics Visualization Jurnal Komputasi Jurnal SOLMA Jurnal Teknoinfo Jurnal Tekno Kompak Indonesian Journal of Electrical Engineering and Computer Science Jurnal Pengabdian Kepada Masyarakat (JPKM) Tabikpun Journal of Applied Data Sciences Journal of Multidisciplinary Applied Natural Science Buguh: Jurnal Pengabdian Kepada Masyarakat Jurnal Pepadun AMMA : Jurnal Pengabdian Masyarakat Integra: Journal of Integrated Mathematics and Computer Science Journal of Digital Market and Digital Currency
Admi Syarif
Jurusan Ilmu Komputer, Fakultas Matematika Dan Ilmu Pengetahuan Alam, Universitas Lampung
Agriculture, Biological Sciences & Forestry Humanities Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Control & Systems Engineering Decision Sciences, Operations Research & Management Economics, Econometrics & Finance Education Electrical & Electronics Engineering Energy Engineering Environmental Science Health Professions Immunology & microbiology Languange, Linguistic, Communication & Media Law, Crime, Criminology & Criminal Justice Materials Science & Nanotechnology Mathematics Nursing Physics Social Sciences Other

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Journal : Integra: Journal of Integrated Mathematics and Computer Science

 1 
Application of Random Forest Method Classification for Glycosylation in Lysine Protein Sequences Fitriyana, Silfia; Syarif, Admi; Rossyking, Favorisen; Faisal, Mohammad Reza
Integra: Journal of Integrated Mathematics and Computer Science Vol. 1 No. 2 (2024): July
Publisher : Magister Program of Mathematics, Universitas Lampung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.26554/integrajimcs.20241218

Abstract

Grouping glycosylated lysine proteins into groups according to the type of glycosylation seen in the lysine protein sequence is known as glycosylation in the lysine protein sequence. In this work, the sensitivity, specificity, accuracy, and Matthew’s correlation coefficient (MCC) of the random forest approach for classifying the glycosylation of lysine protein sequences were examined. With 214 positive and 406 negative data, the lysine protein dataset derived from benchmark data contains 620 total proteins with a protein length of 15 sequences. 90% of the dataset is used for training, while 10% is used for testing. Using the R package BioSeqClass version 1.44.0, feature extraction employed protein descriptors, specifically AA Index, CTD, and PseAAC, with a total of 60 features. The Random Forest classification algorithm was used to reprocess the results with Mtry values of 4, 8, and 16. The number of trees (ntree) was randomly set to 250, 500, 750, and 1000. The best results were achieved with a dataset split of 90% training data and 10% test data, using Mtry of 42 and 1000 trees, resulting in 89.97% sensitivity, 92.79% specificity, 80.76% MCC, and 90.42% accuracy. These results demonstrate that the combination of feature extraction and the Random Forest algorithm is effective in classifying lysine proteins.
Co-Authors Agus Rahardi, Agus Agus Wantoro Agus Wantoro Akmal Junaidi Ami Zuraida Andrian, Rico Anggi Puspitasari Anggun N. Azizah Ani Kurniawati Aqshal Dwi Setiawan Arafia Isnayu Akaf Ari Ardianto Arie Setya Putra Aristoteles, Aristoteles Asmanto, Budi Ayu Nadila Ayu Sangging, Putu Ristyaning Bambang Hermanto Dedy Miswar Deswita Sari Dimas A. Dhafa Dwi Sakethi Erika Fadia Salsabila Fatimah Fahurian Favorisen R. Lumbanraja Fazri, Yudistira Febi Eka Febriansyah Fitriyana, Silfia Ghraito Arip Heni Sulistiani Heningtyas, Yunda Iva Mutiara Indah Kendari, Putri Khairun Nisa Krisna Rendi Awalludin Kurnia Muludi Kurnia Muludi M Said Hasibuan M. Juandhika Rizky Machudor Yusman Mahfut Maya Asterita Mohammad Surya Akbar Muhammad Irfan Ardiansyah Muhammad Jamaludin Muhammad Reza Faisal, Muhammad Reza Muhammad Rizki Nabila Z. Muhammad Ni K. Aprilliani Nisa Berawi, Khairun Noverina Rahmaniyanti Novita Dwilestari Nur Indriani Prabowo, Rizky Prabowo, Rizky Putri Ayu Penita Qory Aprilarita Raden Mohamad Herdian Bhakti Rahmat Safe'i Raras Silviana Redy Susanto, Erliyan Rossyking, Favorisen Salsabila, Diana Shofi, Imam Marzuki Shofiana, Dewi Asiah Sintiya Paramitha Sri Ratna Sulistiyanti Sri Wahyuningsih Sri Wahyuningsih Sugaluh Yulianti Sumaryo Gitosaputro Susiyanti, Endah Sutyarso Sutyarso Syachrul Priyo Wibowo TANJUNG, AKBAR RISMAWAN Timotius Pascha Tristiyanto Tundjung Tripeni Handayani Warsito Warsito Wulansari, Ossy Endah Dwi Yarmaidi Yarmaidi Yoannisa Egeustin Yodhi Yuniarthe Yokie Rahman Yulia K. Wardani Yuliyanto, Kurniawan Dwi Zahra, Rizka Aulia