Judul: Ekspansi KueriAnotasiGene Ontology Menggunakan Pseudo Relevance Feedbackdan Concept Embeddings
Abstrak: Dengan berkembangnyapenelitian padaBiodiversity infomaticsdan beberapa upaya penelitian untuk mengakses dan menganalisa sumber informasi terkait molecular biology khususnya analisis gen pada format digital, diperlukan alat untuk mencari informasi yang relevan sesuai dengan kebutuhan infomasi pengguna.Gene ontologymerupakansalah satu sumber representasi pengetahuan menggunakan taksonomi dan relasi untuk analisis gen dalam domain biologi molekular. Penelitian ini mengembangkan mesin pencari pada domain gen tumbuhan yang dapat mengembalikan hasil infomasi yang relevan dari anotasi gen. Mesin pencari ini menggunakan metode kueri ekspansi berbasis konsep semantik untuk mencari anotasi yang mengandung konsep yang mirip dengan masukan pengguna. Dokumen yang dikembalikan adalah urutan berdasarkan bobot hasil indeks Apache Solr dan metode concept embeddings. Kinerja dari metode ini menghasilkan MAP sebesar 0.913 dari sepuluh teratas hasil pencarian anotasi.
Keyword: biodiversity informatics, concept-based query expansion, ekspansi kueri, Gene ontology, pseudo relevance feedback

Judul: Ukuran Kemiripan Gene Ontology Annotation Berbasis Language Model Dirichlet Similarity Menggunakan Solr
Abstrak: Informasi mengenai keanekaragaman hayati khususnya gen tumbuhan banyak ditemukan dari buku-buku terkait ataupun dari internet. Tetapi informasi ini sangatlah besar dan memiliki format yang berbeda-beda. Biodiversity Informatics dapat menutupi kekurangan ini dengan menggunakan struktur ontologi sebagai representasi pengetahuannya. Gene Ontology (GO) merupakan ontologi yang menyediakan informasi mengenai gen. Dalam penelitian ini digunakan sebuah mesin pencari Apache Solr untuk mencari data dengan skala besar seperti GO. Urutan ranking dokumen yang dikembalikan ditentukan dengan melihat kemiripan language model dengan dokumen yang telah dilakukan smoothing dengan metode Dirichlet Smoothing. Pengaruh salah satu parameter Dirichlet, panjang dokumen, terhadap estimasi peluang tidak terlalu besar. Tingkat relevansi sistem berdasarkan nilai MAP dan R-precision sudah cukup relevan. Hasil penelitian menunjukkan bahwa semakin besar panjang dokumennya maka akan semakin kecil pengaruh Dirichlet prior terhadap estimasi peluang.
Keyword: biodiversity informatics, gen tumbuhan, ontologi, temu kembali informasi

Judul: Thermal Characteristics and Dynamics of Tropical Cyclone over Western North Pacific Ocean: A Case Study of Typhoon Songda (Chedeng) 2011
Abstrak: The frequent occasion of Tropical Cyclone (TC) over Western North Pacific (WNP) Ocean lies from 10˚N to 26˚N and 121˚E to 170˚E. Sources of TC development come from warm ocean temperature where latent heat is released during condensation processes and subsequently concentrated in the boundary layer. Relative humidity at 850-700 hPa is responsible to produce the most intense storm. Meanwhile, weak vertical wind shear between 850-200 hPa is one of the dynamical factors that lead to the development of TC. Pressure level of 850-200 hPa is chosen to minimize the thermodynamic effect in the lower troposphere. Typhoon Songda (Chedeng in the Philippines) or TSC lasted from May 18th to 30th, 2011 and strengthened into powerful Super Typhoon stage between May 24th and 27th. Long curving track and the exhibition of all sequences of TC life cycle, TSC is then considered as an ideal case of TC. The objective of the study with case of TSC is to investigate the role of thermal characteristics and dynamics on TC intensity. The research is carried out by using Advanced Research of Weather Research and Forecasting model (WRF ARW model) version 3.3. Two domains are employed in the model. The first domain situate from 02˚N to 40˚N and 118˚E to 149˚E and cover spatial resolution () of 33.1 km. The second domain situate from 09˚N to 27˚N and 119˚E to 132˚E with of 11 km. Timestep of the model () is 120 seconds. The model is supported by the following physical parameterization, i.e., Yonsei University Scheme (YSU) in the boundary layer, Kain-Fritsch scheme (KF) in the cumulus, and WRF Single-Moment 3-class scheme in the microphysics. Initial meteorological condition prior to the formation of the cyclone is generated using WRF ARW standard-release model. Sensitivity of the model output is obtained from a selected single-parameter change scenarios, namely, 10 % to 20 % decrease and increase of wind shear initial data at 850-200 hPa, and by 10 % to 20 % decrease of relative humidity initial data at 850-700 hPa. The result showed that the negative correlations between wind shear and intensity are found in wind shear scenarios. Wind shears of 10 ms-1 which lead to strengthening of the wind intensity in the early period of Typhoon development are found in wind shear scenarios. The effect of wind shear changes on wind intensity is statistically significant in the 20 % wind shear scenarios. During mature stage, weak wind intensity occurred when wind shear increase as given in the WRF standard-release and the 20 % decreasing scenario. Different situation is found in the 20 % increasing scenario where wind shear tend to weak and lead to strong wind intensity at this stage. Meanwhile, the reduction of moisture supply at 850-700 hPa resulting from 20 % decreasing relative humidity play a major role in the weakening of wind intensity and reduces mechanical energy of the cycle process as much as 300 J kg-1.
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