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This paper aims to conduct an analysis of the SARS-CoV-2 genome variation was carried out by comparing the results of genome clustering using several clustering algorithms and distribution of sequence in each cluster. The clustering algorithms used are K-means, Gaussian mixture models, agglomerative hierarchical clustering, mean-shift clustering, and DBSCAN. However, the clustering algorithm has a weakness in grouping data that has very high dimensions such as genome data, so that a dimensional reduction process is needed. In this research, dimensionality reduction was carried out using principal component analysis (PCA) and autoencoder method with three models that produce 2, 10, and 50 features. The main contributions achieved were the dimensional reduction and clustering scheme of SARS-CoV-2 sequence data and the performance analysis of each experiment on each scheme and hyper parameters for each method. Based on the results of experiments conducted, PCA and DBSCAN algorithm achieve the highest silhouette score of 0.8770 with three clusters when using two features. However, dimensionality reduction using autoencoder need more iterations to converge. On the testing process with Indonesian sequence data, more than half of them enter one cluster and the rest are distributed in the other two clusters.

Covid-19 is a disease caused by a virus and has become a pandemic in many countries around the world. The disease not only affects public health, but also affects other aspects of life. People tend to write comments about things happening during the pandemic on social media, one of which is Twitter. Sentiment analysis on Twitter data is not an easy task due to the characteristics of the tweeter text which is user generated content. Therefore, in this paper, a sentiment analysis study is carried out on Twitter data using three schemes, namely the vector space model (Bag of Words and TF-IDF) with Support Vector Machine, word embedding (word2vec and Glove) with Long Short-Term Memory, and BERT (Bidirectional Encoder Representations from Transformers). Based on the conducted experiments, BERT achieved the best performance compared to the other two schemes, reaching 0.85 (weighted F1-score) and 0.83 (macro F1-score) for the classification of three sentiment classes on Kaggle competition data (Coronavirus tweets NLP – Text Classification).

This paper aims to conduct an analysis of the SARS-CoV-2 genome variation was carried out by comparing the results of genome clustering using several clustering algorithms and distribution of sequence in each cluster. The clustering algorithms used are K-means, Gaussian mixture models, agglomerative hierarchical clustering, mean-shift clustering, and DBSCAN. However, the clustering algorithm has a weakness in grouping data that has very high dimensions such as genome data, so that a dimensional reduction process is needed. In this research, dimensionality reduction was carried out using principal component analysis (PCA) and autoencoder method with three models that produce 2, 10, and 50 features. The main contributions achieved were the dimensional reduction and clustering scheme of SARS-CoV-2 sequence data and the performance analysis of each experiment on each scheme and hyper parameters for each method. Based on the results of experiments conducted, PCA and DBSCAN algorithm achieve the highest silhouette score of 0.8770 with three clusters when using two features. However, dimensionality reduction using autoencoder need more iterations to converge. On the testing process with Indonesian sequence data, more than half of them enter one cluster and the rest are distributed in the other two clusters.

Breast cancer is one of the most common diseases suffered, especially by women, in the world, and about two billion new cases of patients with breast cancer in 2018. Therefore, it is very important to detect cancer early. Early detection of cancer can be done through the analysis of DNA abnormalities from blood cell samples, where the sampling does not require surgery, non-invasive and painless, and can reduce the sampling cost. DNA abnormalities can occur due to heredity or gene mutation. This paper presents a systematic review that includes an explanation of DNA sequences, gene mutations that occur in breast cancer, and bioinformatics techniques for detecting breast cancer. From several studies that have been conducted in the medical field there are mutations in the BRCA1, BRCA2, and PALB2 genes, where mutations in these genes can cause an increased risk of breast cancer. Other gene mutations associated with cancer risk are ATM, BARD1, CDH1, CHEK2, MRE11A, NBN, TP53, PTEN, RAD50, RECQL, RINT1. In bioinformatics, breast cancer detection based on DNA sequence data is carried out in three phases namely data mapping, feature extraction, and prediction / classification. The methods that can be used are Voss mapping and its variations for data mapping, statistical feature representation approach and Wavelet analysis for feature extraction, and regression approaches, probability models, Support Vector Machines, Neural Networks and Deep Learning for classification.