scholarly journals GENCODE 2021

2020 ◽  
Vol 49 (D1) ◽  
pp. D916-D923
Author(s):  
Adam Frankish ◽  
Mark Diekhans ◽  
Irwin Jungreis ◽  
Julien Lagarde ◽  
Jane E Loveland ◽  
...  
Keyword(s):  
Reference Genome ◽  
Ucsc Genome Browser ◽  
Primary Data ◽  
Protein Coding ◽  
Bioinformatic Tools ◽  
Automated Annotation ◽  
First Pass ◽  
Mouse Reference Genome ◽  
Human And Mouse

Abstract The GENCODE project annotates human and mouse genes and transcripts supported by experimental data with high accuracy, providing a foundational resource that supports genome biology and clinical genomics. GENCODE annotation processes make use of primary data and bioinformatic tools and analysis generated both within the consortium and externally to support the creation of transcript structures and the determination of their function. Here, we present improvements to our annotation infrastructure, bioinformatics tools, and analysis, and the advances they support in the annotation of the human and mouse genomes including: the completion of first pass manual annotation for the mouse reference genome; targeted improvements to the annotation of genes associated with SARS-CoV-2 infection; collaborative projects to achieve convergence across reference annotation databases for the annotation of human and mouse protein-coding genes; and the first GENCODE manually supervised automated annotation of lncRNAs. Our annotation is accessible via Ensembl, the UCSC Genome Browser and https://www.gencodegenes.org.

scholarly journals Pseudogenes in the mouse lineage: transcriptional activity and strain-specific history

2018 ◽  
Author(s):  
Cristina Sisu ◽  
Paul Muir ◽  
Adam Frankish ◽  
Ian Fiddes ◽  
Mark Diekhans ◽  
...  
Keyword(s):  
Evolutionary History ◽  
Age Distribution ◽  
Automatic Annotation ◽  
Strain Specificity ◽  
Protein Coding ◽  
Manual Curation ◽  
Genome Wide ◽  
Processed Pseudogenes ◽  
Mouse Reference Genome ◽  
Human And Mouse

Pseudogenes are ideal markers of genome remodeling. In turn, the mouse is an ideal platform for studying them, particularly with the availability of developmental transcriptional data and the sequencing of 18 strains. Here, we present a comprehensive genome-wide annotation of the pseudogenes in the mouse reference genome and associated strains. We compiled this by combining manual curation of over 10,000 pseudogenes with results from automatic annotation pipelines. Also, by comparing the human and mouse, we annotated 165 unitary pseudogenes in mouse, and 303 unitaries in human. We make all our annotation available through mouse.pseudogene.org. The overall mouse pseudogene repertoire (in the reference and strains) is similar to human in terms of overall size, biotype distribution (~80% processed/~20% duplicated) and top family composition (with many GAPDH and ribosomal pseudogenes). However, notable differences arise in the pseudogene age distribution, with multiple retro-transpositional bursts in mouse evolutionary history and only one in human. Furthermore, in each strain about a fifth of the pseudogenes are unique, reflecting strain-specific functions and evolution. Additionally, we find that ~15% of the pseudogenes are transcribed, a fraction similar to that for human, and that pseudogene transcription exhibits greater tissue and strain specificity compared to protein-coding genes. Finally, we show that highly transcribed parent genes tend to give rise to processed pseudogenes.

PERANAN INSPEKTORAT KABUPATENSUMENEP DALAM MENCEGAH DAN MENDETEKSI FRAUD DI DINAS PENDIDIKAN SUMENEP

2015 ◽  
Vol 5 (1) ◽  
Author(s):  
Astri Furqani ◽  
Hafidhah .
Keyword(s):  
Local Government ◽  
Qualitative Study ◽  
Asset Management ◽  
Sampling Technique ◽  
Research Data ◽  
Qualitative Approach ◽  
Primary Data ◽  
The Government

In this era, a lot of activities that can not be separated from the practice of cheating or fraud , no exception In the government . Inspektorat Sumenep is the leading institution of internal Local Government in preventing and detecting fraud in the Local Government appropiate Perbup Sumenep No. 29 of 2008 . Dinas Pendidikan Sumenep need attention on the issue . This is due to Dinas Pendidikan Sumenep an agency with the largest number of assets and managing large budgets . These conditions led to the formulation of the problem is How Inspektorat Sumenep role in preventing and detecting fraud in Dinas Pendidikan Sumenep. This study used a qualitative approach in which the focus of this study is Inspektorat role in preventing and detecting fraud at Dinas Pendidikan Sumenep . Primary data obtained by direct interviews with the parties directly related to the determination of the source of research data in a qualitative study using nonprobability sampling . The sampling technique used was purposive sampling . The conclusion of this study, role of the Inspektorat Sumenep in the prevention of fraud in Dinas Pendidikan Sumenep still not maximal . This is due to Inspektorat Sumenep not supervise from the planning / budgeting and not optimal in overseeing and assisting the implementation of the SPIP as an instrument of fraud prevention in Dinas Pendidikan Sumenep . The role of Inspektorat Sumenep in the detection of fraud in Dinas Pendidikan Sumenep done by conducting an audit of financial and asset management in each financial year.Keywords: fraud, government, inspektorat.

PROFITABILITY ANALYSIS OF TERUBUK FARMING (SACCHARUM EDULE HASSKARL) IN SUBDISTRICT TOSA DISTRICT OF EAST TIDORE OF TIDORE ISLAND

2018 ◽  
Author(s):  
Suwandi S. Sangadji
Keyword(s):  
Data Collection ◽  
Research Method ◽  
Quantitative Method ◽  
Secondary Data ◽  
Primary Data ◽  
Profitability Analysis ◽  
Sample Method ◽  
Document Review ◽  
Revenue Production

The purpose of this researchment is to ascertain how wide the farming of species Saccharun Edule Hasskarl (terubuk) in sub district Tosa, district of East Tidore of Tidore Island through the indicator of the value revenue, production and selling prices so that the farmers will achieve The Break Event Point (BEP). The research method was used a quantitative method with the number of samples of 30 people. The determination of the sample method is using the census method or involving all members of the population into a sample of researchment. The secondary data collection was done by using library literature in the form of document review and relevant references to research object while primary data collection was done by using questionnaire. The data is using equation R /C Ratio, BEP Revenue, BEP Price, and BEP Production. Therefore from the results of the researchment it can be explained that the two of the thirty farmers come through the break event point, while the other twenty-eight farmers declared having a business that worth to be develop or experiencing profit, because the R/C ratio is above 1.0 with average profit reach Rp. 989.000, - per production / farmer.

Determination of the Number of Conserved Chromosomal Segments Between Species

Genetics ◽  
2001 ◽  
Vol 157 (3) ◽  
pp. 1387-1395 ◽  
Author(s):  
Sudhir Kumar ◽  
Sudhindra R Gadagkar ◽  
Alan Filipski ◽  
Xun Gu
Keyword(s):  
Statistical Approach ◽  
Common Ancestor ◽  
Chromosomal Rearrangements ◽  
Structural Similarity ◽  
The Other ◽  
Segment Length ◽  
Human Genomes ◽  
Genomic Divergence ◽  
Human And Mouse

AbstractGenomic divergence between species can be quantified in terms of the number of chromosomal rearrangements that have occurred in the respective genomes following their divergence from a common ancestor. These rearrangements disrupt the structural similarity between genomes, with each rearrangement producing additional, albeit shorter, conserved segments. Here we propose a simple statistical approach on the basis of the distribution of the number of markers in contiguous sets of autosomal markers (CSAMs) to estimate the number of conserved segments. CSAM identification requires information on the relative locations of orthologous markers in one genome and only the chromosome number on which each marker resides in the other genome. We propose a simple mathematical model that can account for the effect of the nonuniformity of the breakpoints and markers on the observed distribution of the number of markers in different conserved segments. Computer simulations show that the number of CSAMs increases linearly with the number of chromosomal rearrangements under a variety of conditions. Using the CSAM approach, the estimate of the number of conserved segments between human and mouse genomes is 529 ± 84, with a mean conserved segment length of 2.8 cM. This length is <40% of that currently accepted for human and mouse genomes. This means that the mouse and human genomes have diverged at a rate of ∼1.15 rearrangements per million years. By contrast, mouse and rat are diverging at a rate of only ∼0.74 rearrangements per million years.

PENGARUH BUDAYA KERJA, KEPEMIMPINAN, DISIPLIN KERJA DAN KOMPENSASI TERHADAP KINERJA KARYAWAN PT. KAI DAOP 5 PURWOKERTO

2017 ◽  
Vol 3 (1) ◽  
pp. 87-100
Author(s):  
Karsono , ◽  
Denok Kurniasih ◽  
Dyah Retna Puspita
Keyword(s):  
Regression Analysis ◽  
Data Analysis ◽  
Sample Size ◽  
Multiple Regression Analysis ◽  
Compensation Effect ◽  
Employee Performance ◽  
Primary Data ◽  
Work Culture ◽  
Study Population

Abstract: Employee performance is very important for an organization to achieve its goals. This study aims to analyze the influence of work culture, on employee performance, leadership on employee performance, work discipline on employee performance, compensation on employee performance and work culture, leadership, work discipline, compensation on employee performance at PT. KAI Daop 5 Purwokerto. The study population is all employees of PT. KAI Daop 5 Purwokerto as many as 623 employees. Determination of sample size with Slovin formula obtained by 86 respondents. The data used is the primary data obtained from the questionnaires distributed to respondents.Tehnik data analysis used is a quantitative approach. The data of the research were analyzed using multiple regression analysis. The results showed that: Work culture affect the performance of employees means that if the work culture increases then the performance of employees will increase. Leadership affects the performance of employees means that if the existing leadership is conducive to work then the performance of employees will increase, work discipline does not affect the performance of employees means employees who discipline work high and employees who work discipline less have the same performance height, Compensation effect on the performance of meaning if the compensation increases then employee performance will increase, work culture, leadership, work discipline and compensation together affect the employee's performance, meaning that if work culture, leadership, work discipline and compensation together increase the employee performance will increase. Keywords: Working Culture, Leadership, Work Discipline, Compensation, Employee Performance. Abstrak: Kinerja pegawai merupakan hal yang sangat penting bagi organisasi untuk mencapai tujuannya. Penelitian ini bertujuan untuk menganalisis pengaruh budaya kerja, terhadap kinerja pegawai, kepemimpinan terhadap kinerja pegawai, disiplin kerja terhadap kinerja pegawai, kompensasi terhadap kinerja pegawai dan budaya kerja, kepemimpinan, disiplin kerja, kompensasi terhadap kinerja pegawai di PT. KAI Daop 5 Purwokerto. Populasi penelitian adalah semua karyawan PT. KAI Daop 5 Purwokerto sebanyak 623 orang karyawan. Penentuan ukuran sampel dengan rumus Slovin diperoleh sampel sebanyak 86 responden. Data yang digunakan adalah data primer yang diperoleh dari kuisioner yang dibagikan kepada responden.Tehnik analisis data yang digunakan adalah pendekatan kuantitatif. Data hasil penelitian dianalisis menggunakan analisis regresi berganda. Hasil penelitian menunjukkan bahwa: Budaya kerja berpengaruh terhadap kinerja pegawai artinya apabila budaya kerja meningkat maka kinerja karyawan akan meningkat. Kepemimpinan berpengaruh terhadap kinerja pegawai artinya apabila kepemimpinan yang ada sangat kondusif untuk bekerja maka kinerja karyawan akan meningkat, Disiplin kerja tidak berpengaruh terhadap kinerja pegawai artinya pegawai yang disiplin kerjanya tinggi dan pegawai yang disiplin kerjanya kurang memiliki kinerja yang sama tingginya, Kompensasi berpengaruh terhadap kinerja artinya apabila kompensasi meningkat maka kinerja karyawan akan meningkat, Budaya kerja, kepemimpinan, disiplin kerja dan kompensasi secara bersama-sama berpengaruh terhadap kinerja pegawai, artinya apabila budaya kerja, kepemimpinan, disiplin kerja dan kompensasi  secara bersama-sama mengalami peningkatan maka kinerja karyawan akan meningkat. Kata Kunci:  Budaya Kerja, Kepemimpinan, Disiplin Kerja, Kompensasi, Kinerja   Pegawai.

Complete Mitochondrial Genome Sequence Analysis and Phylogenetic Location Determination of Hydropsyche Fryeri (Insecta: Trichoptera)

2021 ◽  
Author(s):  
Yimin Li ◽  
Honglin Qin ◽  
Xifa Zhong ◽  
Jingcai Huang ◽  
Yujun Wang ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Genome Sequence ◽  
Complete Mitochondrial Genome ◽  
Phylogenetic Tree Analysis ◽  
Protein Coding ◽  
Mitochondrial Genome Sequence ◽  
Complete Mitochondrial Genome Sequence ◽  
Location Determination ◽  
The Family

Abstract Hydropsyche fryeri belongs to the Trichopteridae family and builds nests in clean and unpolluted streams using stones. It also can be used as an indicator of water quality. Here, we describe the complete mitochondrial genome sequence of Hydropsyche fryeri. The mitochondrial genome is 15,676 bp long and contains 13 protein-coding genes, 22 tRNAs, 2 rRNAs and an AT-rich control region. Phylogenetic tree analysis shows that Hydropsyche fryeri is more closely related to the family Hydroptera than other Trichoptera.

Determination of formability considering wrinkling defect in first-pass conventional spinning with linear roller path

2019 ◽  
Vol 265 ◽  
pp. 44-55 ◽  
Author(s):  
S.W. Chen ◽  
P.F. Gao ◽  
M. Zhan ◽  
F. Ma ◽  
H.R. Zhang ◽  
...  
Keyword(s):  
Roller Path ◽  
First Pass ◽  
Conventional Spinning

Quantitative Determination of Absorption and First-Pass Metabolism of Apicidin, a Potent Histone Deacetylase Inhibitor

2014 ◽  
Vol 42 (6) ◽  
pp. 974-982 ◽  
Author(s):  
Beom Soo Shin ◽  
Sun Dong Yoo ◽  
Tae Hwan Kim ◽  
Jurgen B. Bulitta ◽  
Cornelia B. Landersdorfer ◽  
...  
Keyword(s):  
Quantitative Determination ◽  
Histone Deacetylase ◽  
Histone Deacetylase Inhibitor ◽  
Deacetylase Inhibitor ◽  
First Pass Metabolism ◽  
First Pass ◽  
Pass Metabolism

scholarly journals The Influence Of International Brand Image Toward Guest's Decision To Stay At The Four Star Hotel In Lampung

2021 ◽  
Vol 4 (1) ◽  
pp. 38
Author(s):  
Dina Mayasari Soewoyo ◽  
Handono W Widodo
Keyword(s):  
Brand Image ◽  
Linear Regression Analysis ◽  
Software Tool ◽  
Primary Data ◽  
Coefficient Of Determination ◽  
Analysis Technique ◽  
Independent Variable ◽  
Decision To Stay ◽  
Decisions To Stay

<div class="WordSection1"><p>This survey research using the quantitative method was carried out during the Covid-19 pandemic, from May to August 2020 at the 4-star hotel in Lampung Province, Indonesia. The purpose of this study was to determine the influence of the independent variable, namely the image of the international hotel brand toward the dependent variable of guests' decisions to stay at the hotel. Primary data of the study were obtained from the results of distributing questionnaires which were carried out directly to 60 guests who were staying, as research samples and measured using a Likert scale of 1 - 4. Apart from distributing questionnaires, research data collection was also gained through observation, documentation, and literature review. All data collected were then grouped, reduced, tabulated and processed, analyzed descriptively, and statistically, in accordance with the context of the problem being studied using the SPSS 22.0 software tool.</p><p>Based on the simple linear regression analysis technique T-test (partial), R test and R square test, it was found that the value of T count (9,048) was greater than the T table (1,671), with a significance value of 0 or below the significance limit of 0.05. Both variables have a correlation coefficient of 0.765 and a coefficient of determination of 0.585. So it can be concluded that the international hotel brand image has a strong, positive, and significant influence on guest decisions to stay at the 4-star hotel in Lampung, with an effect of 58.5% while the rest, namely 41.5%, is influenced by other variables not examined in this study.</p></div><br clear="all" /><p><em> </em></p>

scholarly journals PENGARUH PELATIHAN DAN MOTIVASI TERHADAP KINERJA KARYAWAN PADA HEAD OFFICE PADA PT PAM LYONNASE JAYA (PALYJA)

Epigram ◽  
2018 ◽  
Vol 14 (2) ◽  
Author(s):  
Anggi Fathya Anindita ◽  
Tuty Herawati ◽  
Wahyudi Utomo
Keyword(s):  
Regression Analysis ◽  
Strong Influence ◽  
Test Validity ◽  
Secondary Data ◽  
Primary Data ◽  
Coefficient Of Determination ◽  
Reliability Test ◽  
Head Office ◽  
Training Motivation

Abstract Influence of training and motivation on performance of employees at PT PAM Lyonnase Jaya (PALYJA). 2017. This research aims to find out how the influences between the training and motivation on performance of employees. Data collection using the questionnaire given to the respondents to obtain primary data and secondary data to obtain an libraries. While the method of data analysis using the test validity dan reliability, test the assumptionsof classical, test hypotheses, multiple linier regression analysis, analysis of the coefficient of determination of the significance of the T-test, and a test of the significance of f. Result of the research indicate that training has a strong influence on performance of employees and motivation have influence of 66,8% on performance of employees and the remaining 33,2% are influenced by other factors.Keywords: Training, Motivation, Employee Performance.AbstrakPengaruh Pelatihan dan Motivasi terhadap Kinerja Karyawan Pada head office PT PAM Lyonnase Jaya (PALYJA). 2017. Penelitian ini bertujuan untuk mengetahui seberapa pengaruh antara pelatihan dan motivasi terhadap kinerja karyawan. Pengumpulan data menggunakan kuesioner yang diberikan kepada responden untuk memperoleh data primer dan studi kepustakaan untuk memperolah data sekunder. Sedangkan metode analisis data menggunakan uji validitas dan reliabilitas, uji asumsi klasik, uji hipotesis, analisis regresi linier berganda, analisis koefisien determinasi, uji signifikansi T dan uji signifikansi F. Hasil penelitian menunjukan bahwa pelatihan memiliki pengaruh yang kuat terhadap kinerja karyawan dan motivasi memiliki pengaruh sebesar 66,8% terhadap kinerja karyawan dan sisanya 33,2% dipengaruhi oleh faktor lain.Kata Kunci: Pelatihan, Motivasi, Kinerja Karyawan

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