Judul: Pemrograman paralel pada pengoreksian DNA sequencing error menggunakan metode Spectral Alignment pada sistem memori bersama
Abstrak: DNA sequencing menggunakan next generation sequencer (NGS) menghasilkan throughput yang besar, namun fragmen-fragmen yang dihasilkan masih mengandung sequencing error. Keberadaan sequencing error dapat meningkatkan kompleksitas graf saat dilakukan proses sequence assembly. Proses error correction dapat mengatasi masalah tersebut. Namun, proses error correction pada program sekuensial membutuhkan waktu eksekusi yang tinggi. Oleh karena itu, paralelisasi dibutuhkan pada proses error correction tersebut. Metode error correction pada penelitian ini adalah metode spectral alignment. Penelitian ini mengimplementasikan proses pencarian dan pengoreksian DNA yang memiliki error secara paralel menggunakan empat thread pada prosesor multicore. Hasil penelitian ini menunjukkan bahwa teknik yang diusulkan mampu meningkatkan speedup pada proses pencarian T-string mencapai 1.98–3.56 dan efisiensi 88.92–98.85%, sedangkan speedup pada proses pengoreksian weak T-string speedup mencapai 1.99–3.74 dan efisensi 93.47–99.91% tergantung pada jumlah thread yang digunakan.
Keyword: DNA sequencing error, parallel computation, spectral alignment.

Judul: Koreksi DNA Sequencing Error dengan Metode Spectral Alignment
Abstrak: Second generation DNA sequencing technology is able to generate reads in a massive amount and in a relatively short time compared to the traditional Sanger Shotgun technology. Graph based DNA sequence assembly is used to handle these big data in assembly step. However, the graph based DNA sequence assembly is sensitive to sequencing error. This problem can be solved by performing an error correction step before or after the assembly process. In this research, a software to detect and correct sequencing error in DNA sequence data was developed by employing spectral alignment technique. This technique is implemented as a pre-processing step before the DNA sequence assembly process. DNA sequences which contain error are generated using MetaSim software. Errors in the data sequences are corrected using the software developed in this research. The results are evaluated using the Velvet assembler by comparing the complexity of the graph produced, represented by the number of nodes in the graph. The evaluation results show that the data sequences with error produce more complex graph than the corrected data sequences. It can be concluded that the correction of DNA sequencing error using spectral alignment method can simplify the complexity of graph produced by the DNA sequence assembly step
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Judul: Amfibi sebagai satwa peliharaan: Ekspor, Impor dan Perdagangan Domestik
Abstrak: Indonesia has exported amphibian as frozen frog legs (listed since 1969 under fishery product) for consumption and live amphibian (listed since 1983 under reptilian class in forestry product) for pets. There are also live amphibian trading in local level i.e in markets and malls. This research aims to identify amphibian species exported and imported by investigating document from related administration and to identify amphibian species traded in domestic market by observation at Jakarta. Research is primarily conducted by processing quota data taken from Department of Forestry Republic of Indonesia database in Jakarta. Market observation was carried out in 18 locations (3 markets and 15 malls) in Jakarta. I carried out interview with trader and export business, which related to net trading live amphibians for pets. Respondent was choosen using snowball sampling manner. Name of species is written according to Iskandar & Coljin (2000). If there is no such record in the checklist (for example species are from outside Indonesia), then the species name is written according to Frost (2004). There are 56 species from eight families of wild amphibians that have pets quota between 1998-2008. Nineteen species was traded since 1983. The highest export quota is Litoria caerulea (21,37%). Allocation of highest catching quota is for BKSDA Jayapura (20,40%) and BKSDA Papua Barat (18,96%). Four species are included in IUCN Red List categories as vulnerable, among others are Limnonectes macrodon, Meristogenys jerboa, Nyctixalus margaritifer and Rhacophorus margaritifer. The number of amphibians that have export realization are 39 species. Two species of amphibian, Leptobrachium hasseltii and Rhacophorus margaritifer are amphibian species whose been known infected by chytrid fungus in the wild. The biggest species exported is Litoria caerulea (54,34%). Between 1983-1991, the biggest import amphibian for pets from Indonesia (66,13%) is Netherlands. Number of quota was relative stable in the last eight years, where as the number of export realization is more fluctuates. Amphibian species imported and re-exported between 1983-2008 come from Africa, South Asia, Malaysian, Archipelago Oceania, North America, Central America and South America. The number of pet amphibian species traded at domestic market is less than exported. Data showed that Indonesia imports 15 amphibian species between 1983-2008, However I found different species in the market that was unrecorded in the Ministry of Forestry data, which is the Fire Belly Salamander.
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