bluuebunny/crossref_metadata_2025_split huggingface dataset:
Balancing signals in the intestinal niche
Authors: van Neerven Sanne M , Vermeulen Louis 
Published: February 2017

During intestinal regeneration, opposing gradients of Wnt and BMP signaling ensure successful differentiation along the crypt/villus axis. In this issue of The EMBO Journal, Horiguchi et al () show how intestinal subepithelial myofibroblasts can influence cell fate decisions in the regenerating intestine via autocrine secretion of angiopoietin‐like protein 2 (ANGPTL2).
Transcription factor family‐specific DNA shape readout revealed by quantitative specificity models
Authors: Yang Lin , Orenstein Yaron , Jolma Arttu , Yin Yimeng , Taipale Jussi , Shamir Ron , Rohs Remo 
Published: February 2017

AbstractTranscription factors (TFs) achieve DNA‐binding specificity through contacts with functional groups of bases (base readout) and readout of structural properties of the double helix (shape readout). Currently, it remains unclear whether DNA shape readout is utilized by only a few selected TF families, or whether this mechanism is used extensively by most TF families. We resequenced data from previously published HT‐SELEX experiments, the most extensive mammalian TF–DNA binding data available to date. Using these data, we demonstrated the contributions of DNA shape readout across diverse TF families and its importance in core motif‐flanking regions. Statistical machine‐learning models combined with feature‐selection techniques helped to reveal the nucleotide position‐dependent DNA shape readout in TF‐binding sites and the TF family‐specific position dependence. Based on these results, we proposed novel DNA shape logos to visualize the DNA shape preferences of TFs. Overall, this work suggests a way of obtaining mechanistic insights into TF–DNA binding without relying on experimentally solved all‐atom structures.
SEBARANLONGITUDINAL FITOPLANKTONDI SUNGAIMARO, KABUPATENMERAUKE, PROVINSI PAPUA
Authors: Astuti Lismining Pujiyani , Sugianti Yayuk 
Published: February 2017

Sungai Maro merupakan salah satu sungai besar di Kabupaten Merauke, berfungsi sebagai habitat ikan hias yang bernilai ekonomis penting yaitu ikan arwana (Scleropages jardinii) dan kakap batu (Datnioide aquadraticus). Wilayah sekitar sungai merupakan rawa-rawa yang merupakan habitat ikan arwana terutama di wilayah tengah sampai hulu sungai. Fitoplankton merupakan produser dan pakan alami beberapa jenis ikan di SungaiMaro. Tujuan penelitian ini untuk mengetahui sebaran longitudinal fitoplankton yang ada di SungaiMaro, Kabupaten Merauke. Penelitian ini dilakukan dengan survei dan pengambilan contoh dilakukan pada bulan Desember 2007 di lima stasiun pengamatan pada lokasi pemijahan ikan arwana di ruas Sungai Maro. Parameter yang dianalisis adalah komposisijenis dan kelimpahan fitoplankton. Hasil pengamatan di lima stasiun pengamatan, ditemukan lima kelas fitoplankton yang terdiri atas kelas Chlorophyceae (14 genus), Cyanophyceae (satu genus), Bacillariophyceae (tujuh genus), Dinophyceae (dua genus), dan Euglenaphyceae (satu genus), dengan kelimpahan fitoplankton berkisar 49.294- 66.396 ind./L. Persentase fitoplankton tertinggi dari ruas atas sampai bawah adalah Staurastrum dominan dari Stasiun Barkey danWeloyah, Synedra di Stasiun Mouwer dan Toray, Ulothrix di Stasiun Kaliwanggo. Sedangkan urutan keberadaan kelas fitoplankton dari ruas atas sampai bawah di SungaiMaro adalah Chlorophyceae di StasiunBarkey, Weloyah, dan Mouwer, kemudian Bacillariophyceae di Stasiun Toray dan Chlorophyceae di Stasiun Kaliwanggo. Maro River is one of big river inMerauke Regency and serve as ornamental fish habitat of arowana (Sleropages jardinii) and Datnioides aquadraticus that economically has high value. Around of this river are wetland area that is arwana habitat mainly at middle and upper river. Phytoplankton is natural feed producer for several fishes species at Maro River. Aim of this paper was to know longitudinal distribution of phytoplankton atMaro River. The research was conducted by survey method and sampling was conducted in December 2007 at 5 sampling stations on arwana fish spawning sites located at Maro River. The parameters were analyzed include composition and abundance of phytoplankton. Result showed that at five sampling stations were found 5 classes of phytoplankton which consists of the class Chlorophyceae (14 genera), Cyanophyceae (1 genera), Bacillariophyceae (7 genera), Dinophyceae (2 genera), and Euglenaphyceae (1 genera) with the abundance of phytoplankton ranges from 49,294- 66,396 ind./L. The highest percentage of phytoplankton in each station was found from upper to lower segment was Staurastrum found at Barkey and Weloyah Synedra at Mouwer and Toray, Ulothrix at Kaliwanggo. While the presence of phytoplankton class was found from upper to lower on Maro River was Chlorophyceae at Barkey, Weloyah, andMouwer, Bacillariophyceae at Toray and Chlorophyceae at Kaliwanggo.
KARAKTERISTIKHABITATDANBIOLOGI IKANMUJAER (Oreochromismossambicus) DI DANAURANAU, SUMATERASELATAN
Authors: Samuel Samuel , Subagja Subagja 
Published: February 2017

Penelitian tentang karakteristik habitat dan biologi ikan mujaer (Oreochromis mossambicus) telah dilakukan di Danau Ranau pada bulan September dan Oktober 2009. Hasil penelitian terhadap beberapa parameter kualitas air pada lima stasiun penelitian, menunjukkan bahwa sifat fisika, kimia, dan biologi perairan ideal untuk mendukung kehidupan dan perkembangbiakkan ikan. Danau Ranau dapat digolongkan sebagai perairan subur dengan tingkatan meso eutrofik dan tingkat pencemaran air dalam kategori tidak tercemar sampai tercemar ringan. Ikan mujaer mempunyai sifat pertumbuhan isometrik di mana kecepatan pertumbuhan panjang sebanding dengan kecepatan pertumbuhan bobot dan termasuk jenis ikan omnivor.Analisis aspek reproduksi ikan menunjukkan pemijahan lebih dari satu kali dalam setahun dengan musim pemijahan terjadi pada bulan Oktober sampai Desember. Ukuranpertama kali matang gonad untuk ikan betina berkisar antara 19,14-19,66 cm panjang total dan terjadi pada bulan September dan Oktober. Research on habitat and biological characteristics of java tilapia (Oreochromis mossambicus) have been carried out in the Ranau Lake in September and October 2009. The result investigations of several water quality parameters at 5 research stations, showed that the physical, chemical properties, and biology of waters were still ideal for supporting life and fish breeding. Ranau Lake can be classified as productive waters by the level of meso eutrophic and water pollution levels in uncontaminated category until lightly polluted. Java tilapia fish had the nature of isometric growth in which growth velocity was proportional to the length and weight growth rate and included the type of omnivor fish. Analysis of the reproductive aspects showed that the spawning fish was more than once a year with the spawning season occured in October until December. The first gonado maturity size of female fish ranged between 19.14-19.66 cm total length and occured in September and October.
KEPADATAN STOK, SEBARAN PANJANG, DANHUBUNGANPANJANGBOBOT KERANGSIMPING(Amusium pleuronectes) DI PERAIRANTEGALDAN SEKITARNYA
Authors: Ernawati Tri , Sumiono Bambang , Wedjatmiko Wedjatmiko 
Published: February 2017

Kerang simping (Amusium pleuronectes) yang secara taksonomis termasuk famili Pectinidae adalah salah satujenis kerang ekonomis penting di Laut Jawa. Tujuan dari penelitian ini adalah untukmendapatkan data dan informasimengenai kepadatan stok, sebaran panjang, dan hubungan panjang bobot kerang simping. Data yang dianalisis merupakan sebagian dari hasil penelitian dengan Kapal Riset Sardinella pada tahun 2008 dan 2009. Pengambilan contoh dilakukan denganmenggunakan trawl dengan pendekatanmetode sapuan area (swept area methode). Analisis hubungan panjang bobot digunakan rumus Effendie (2002). Jumlah stasiun pengamatan 13 dengan kedalaman berkisar antara 10-40 m. Dugaan kelimpahan stok masing-masing 142,4 kg/km2 (tahun 2008) dan 22,6 kg/km2 (tahun 2009). Terdapat perbedaan distribusi laju tangkap di setiap kedalaman. Laju tangkap tertinggi terdapat pada kedalaman antara 21-30 m, yaitu 32,57 kg/jam (tahun 2008) dan 3,6 kg/jam(tahun 2009). Laju tangkap terendah 9,5 kg/jampada kedalaman 31-40m(tahun 2008) dan 0,36 kg/jampada kedalaman 11-20m(tahun 2009). Dari sebaranfrekuensi panjang teridentifikasi bahwa contoh kerang simping terdiri atas satu kelompok umur yang kuat (strong cohort) dengan modus ukuran panjang cangkang 54 mm. Berdasarkan atas sebaran persen frekuensi kumulatif 50% diperoleh ukuran pertama kali tertangkap (Lc) dari kerang simping 52mm.Melalui analisis hubungan panjang bobot kerang diperoleh nilai b yang isometrik, artinya pertambahan panjang cangkang sebanding dengan pertambahan bobotnya. Asia moon scallop (Amusium pleuronectes) that taxonomically belong to the family Pectinidae. The spesies is one of the economically important resources in the Java Sea. The research is aimed to get data and informations about stock density, length frequency, and length weight relation of asia moon scallop. Data analyzed were part of the R/V Sardinela cruise results carried out in 2008-2009. Sampling was doing by trawl net with swept area methods. The stations were 13 in number with depth between 10-40 m. The estimated stock density of the scallop were 142.4 kgs/km2 (2008) dan 22.6 kgs/km2 (2009), respectivelly. The highest catch rate was 32.57 kgs/hour (2008) and 3.6 kgs/hour (2009) in depth of 21-30 m. The lowest catch rate was 9.5 kgs/hour in depth of 31-40 m (2008) and 0.36 kgs/hour in depth 11-20 m (2009). From the overall length frequency distribution it is likely that the population of the asia moon scallop consisted of one strong cohort, with the modus of 54 mm. From the cumulative percent frequencies distribution it was also observed that 50%of the distribution can be assummed as equal to the length of first capture, Lc= 52 mm. Length weight analysis indicated that b isometry.
SEBARANPLANKTONDAN LARVAIKAN DI PERAIRANKEPULAUANRAJA AMPAT:KAJIANMETODEHIDROAKUSTIKDANSURVEIKONVENSIONAL
Authors: Priatna Asep , Sadhotomo Bambang 
Published: February 2017

Penelitian bertujuan untukmempelajari keberadaan plankton dan larva ikan berdasarkan atasmetode hidroakustik serta kaitannya dengan hasil pengambilan contoh. Penelitian ini telah dilaksanakan pada bulan Juni 2008 di perairan Raja Ampat. Estimasi kepadatan dan migrasi diurnal plankton dan larva ikan menggunakan perangkat akustik split beam echosounder Simrad EY60 dengan frekuensi 120 kHz. Data dianalisis secara deskriptif, disajikan dalam bentuk grafik. Hasil pengamatan menunjukkan bahwa pada musim timur, estimasi kepadatan plankton dan larva ikan di Teluk Kabui relatif lebih tinggi dibandingkan dengan kepadatan plankton dan larva di perairan sebelah barat Pulau Waigeo dan Pulau Batanta. Pengamatan dengan metode hidroakustik dapat memperlihatkan pola migrasi vertikal harian plankton dan larva ikan. Pengetahuan mengenai karakteristik plankton dan larva ikan dapat menentukan teknik pengambilan contoh yang tepat terhadap organisme tersebut. Knowledge about plankton and larvae characteristics is very importance to determine sampling technique for sea organism. The aim of the research was to study the existence of plankton and fish larvae based on acoustic method. The survey conducted on June 2008 in the Raja Ampat waters. Simrad EY60 split beam echosounder with frequency of 120 kHz was used for acquisitioning the acoustic data. Those data analyzed descriptively, and the results presented in histogram. During southeast monsoon, the estimation of plankton and fish larvae densities in Kabui Bay was relatively higher than in the west part of Waigeo waters and around Batanta Island. The daily vertical migration of plankton and fish larvae was showed by acoustic detection.
Aspirin Is Associated with Improved Survival in Severely Thrombocytopenic Cancer Patients with Acute Myocardial Infarction
Authors: Feher Attila , Kampaktsis Polydoros N. , Parameswaran Rekha , Stein Eytan M. , Steingart Richard , Gupta Dipti 
Published: February 2017

Abstract

Background
Patients with hematologic malignancies are at risk for severe thrombocytopenia (sTP). The risk and benefit of aspirin are not known in thrombocytopenic cancer patients experiencing acute myocardial infarction (AMI).

Materials and Methods
Medical records of patients with hematologic malignancies diagnosed with AMI at Memorial Sloan Kettering Cancer Center during 2005–2014 were reviewed. sTP was defined as a platelet count &lt;50,000 cells per µL within 7 days of AMI.

Results
Of 118 patients with hematologic malignancies who had AMI, 58 (49%) had sTP. Twenty-five patients (43%) with sTP received aspirin as a treatment for AMI. Compared with patients without sTP with AMI, patients with sTP with AMI were less likely to receive aspirin (83% vs. 43%; p = .0001) and thienopyridine treatment (27% vs. 3%; p = .0005). During median follow-up of 3.7 years after AMI, survival was lower in patients with sTP than in those with no sTP (23% vs. 50% at 1 year; log rank p = .003). Patients with sTP who received aspirin for AMI had improved survival compared with those who did not (92% vs. 70% at 7 days, 72% vs. 33% at 30 days, and 32% vs. 13% at 1 year; log rank p = .008). In multivariate regression models, aspirin use was associated with improved 30-day survival both in the overall patient cohort and in sTP patients. No fatal bleeding events occurred. Major bleeding was not associated with sTP or aspirin use.

Conclusion
Treatment of AMI with aspirin in patients with hematologic malignancies and sTP is associated with improved survival without increase in major bleeding.
Quantitative Evaluation of Key Geological Controls on Regional Eagle Ford Shale Production Using Spatial Statistics
Authors: Tian Yao , Ayers Walter B. , Sang Huiyan , McCain William D. , Ehlig-Economides Christine 
Published: February 2017

Abstract
Recent progress has increased our understanding of key controls on the productivity of shale reservoirs. The quantitative relations between regional Eagle Ford Shale production trends and geologic parameters were investigated to clarify which geologic parameters exercise dominant control on well production rates.
Previously, qualitative correlations for the Eagle Ford Shale were demonstrated among depth, thickness, total organic carbon (TOC), distribution of limestone beds, and average bed thickness with regional production. Eagle Ford production wells are horizontal, but it was necessary to use vertical wells that penetrated the Eagle Ford to map reservoir properties. No wells in the data base had both production and geological parameters, thus geological parameters could not be directly related to individual well production. Therefore, spatial interpolation methods based on kriging and Markov Chain Monte Carlo (MCMC) sampling algorithms were utilized to integrate data sets and predict geological properties at production well locations. The spatial Gaussian Process regression modeling was conducted to investigate the primary controls on production.
Results suggest that the 6-month cumulative production from the Eagle Ford Shale, in barrels-of-oil equivalent (BOE), increases consistently with (a) depth, (b) Eagle Ford thickness (up to 180-ft thickness), and (c) with TOC (up to 7%). Also, when the number of limestone beds exceeds 12, production increases with the number of limestone beds. The corresponding significance code indicates that the parameters most significant to production are TOC and depth (which relates to pressure).
Concepts and models developed in this study may assist operators in making critical Eagle Ford Shale development decisions and should be transferable to other shale plays
Fracturing Fluid Distribution in Shale Gas Reservoirs Due to Fracture Closure, Proppant Distribution and Gravity Segregation
Authors: Liu Yongzan , Leung Juliana Y. , Chalaturnyk Rick , Virues Claudio J.J. 
Published: February 2017

Abstract
Many stimulated shale gas wells experience surprisingly low fracturing fluid recoveries. Fracture closure, gravity segregation, fracture tortuosity, proppant distribution, and shut-in (soaking) time have been widely postulated to be the contributing factors. This study examines the impacts of these factors on fracturing fluid distribution using flow and geomechanical simulations. The results are analyzed to understand the circumstances under which fluid recovery might be beneficial or detrimental to well performance.
A series of 3D numerical models are constructed based on petrophysical parameters, fluid properties and operational constraints representative of Horn River shale gas reservoir. Hydraulic fracture is modeled explicitly in the computational domain. Complex partially-propped fracture geometry is computed using numerical constitutive models. The physical process of fracture closure during shut-in and production periods is modeled by adjusting the fracture volume and fracture conductivity dynamically. Non-Darcy behavior due to high gas velocity in fracture and matrix desorption are considered. The coupled effect of multi-phase flow, gravity and geomechanics is simulated to examine the mechanisms responsible for the low fracturing fluid recovery and the ensuing fluid distribution away from the wellbore. Water uptake into the matrix is influenced by forced and spontaneous imbibition due to the large pressure differential across the matrix-fracture interface and matrix capillarity. Additional water is displaced into the matrix as pressure depletes and fracture closes. Gravity segregation may lead to water accumulating near the bottom of a vertical planar fracture, but fracture tortuosity could limit the segregation and promote a more uniform fluid distribution. The influence of proppant distribution is far more complex: results of the geomechanical simulation confirm the formation of a residual opening above of the proppant pack in a partially-propped fracture. Despite gas production is often hampered by non-uniform proppant distribution, the residual opening offers a highly conductive flow path for gas, which is much more mobile than the water-based fracturing fluid; this further aggravates the phenomenon of gravity segregation. Extended shut-in time may enhance the initial gas rate, but lower late-time production is observed.
Analysis of the residual opening of a partially-propped fracture and its implications on production performance is novel. The results highlight the interactions between different mechanisms on fracturing fluid distribution in 3D. A few practical insights pertinent to the optimal operation strategy are explained.
PENGEMBANGAN MEDIA PEMBELAJARAN KIMIA BERBASIS ANDROID UNTUK MENINGKATKAN MOTIVASI BELAJAR DAN PRESTASI KOGNITIF PESERTA DIDIK SMA
Authors: Lubis Isma Ramadhani , Ikhsan Jaslin 
Published: February 2017

Penelitian ini bertujuan untuk mengembangkan media pembelajaran kimia berbasis android dan mengetahui karakteristik, kualitas dan efektifitas dari media pembelajaran berbasis android. Jenis penelitian ini merupakan penelitian dan pengembangan. Penilaian produk dilakukan oleh ahli media, ahli materi, pendidik kimia, peer reviewers dan uji coba peserta didik. Data penelitian dikumpulkan melalui angket penilaian media, angket motivasi dan tes, kemudian dianalisis dengan Manova. Hasil dari penelitian ini adalah: (1) media pembelajaran kimia berbasis android memiliki karakteristik, yaitu visualisasi menarik, praktis dan fleksibel serta evaluasi soal yang variatif, (2) media pembelajaran kimia berbasis android dinilai layak digunakan dalam pembelajaran, ditinjau dari aspek materi, aspek media dan hasil uji coba peserta didik, serta (3) terdapat peningkatan yang signifikan antara motivasi belajar dan prestasi kognitif peserta didik yang mengikuti pembelajaran menggunakan media pembelajaran kimia berbasis android dengan pembelajaran konvensional. Hasil penelitian ini menunjukkan bahwa media pembelajaran kimia berbasis android layak dan efektif digunakan dalam pembelajaran kimia. Kata Kunci: pengembangan, media pembelajaran kimia berbasis android, motivasi, prestasi kognitif. DEVELOPING ANDROID-BASED CHEMISTRY INSTRUCTIONAL MEDIA TO IMPROVE THE LEARNING MOTIVATION AND COGNITIVE ACHIEVEMENT OF SMA STUDENTS Abstract The aims of this study are: to develop android-based chemistry instructional media and to reveal the characteristic, the quality, and the effectiveness of android-based chemistry instructional media. This research was research and development. The product assessment was conducted by a media expert, a material expert, chemistry teachers peer reviewers and students. The data collecting technique was done by using media evaluation questionnaires, motivation questionnaire and test, then it was analysed by Manova. The results of the study show that: (1) the android-based chemistry instructional media has characteristic such as interesting visualisation, practical and flexible and vary of evaluation test, (2) the developed android-based chemistry instructional media is appropriate for teaching, in terms of material evaluation aspect, media evaluation aspect, and based on the results of students’ tryout, and (3) there is a significant differences in the improvement of learning motivation and cognitive achievement of students between learning using android-based chemistry instructional media and conventional learning. The result showed that the android-based chemistry instructional media was appropritly and effectively used for teaching. Keywords: development, android-based chemistry instructional media, motivation, cognitive achievement
CARDIOPROTECTIVE EFFICACY OF TAURINE ON LIPID-METABOLISM OF ISOPROTERENOL-INDUCED MYOCARDIAL INFARCTION
Authors: Abdel-reheim Eman Salah 
Published: February 2017

<p><strong>Objective: </strong>The present study aimed to evaluate the effect of pre-treatment with taurine on rats in which MI had been induced using isoproterenol (ISO).</p><p><strong>Methods: </strong>Rats were randomly allocated into three groups<strong>;</strong> the 1st group is the normal control (C) one, the 2nd is the isoproterenol cardiotoxic (ISO) one and the 3rd group is the taurine pretreated (T-ISO) one.<strong></strong></p><p><strong>Results: </strong>The activities of the cardiac biomarker enzymes, AST, LDH, CK and CK-MB were elevated in the ISO-treated group. The membrane-bound Na<sup>+</sup>-K<sup>+ </sup>and Ca<sup>2+ </sup>ATPase enzyme activities were decreased in the ISO-treated group. The lipid profile either in sera or cardiac tissues was increased in ISO-treated rats except for HDL-cholesterol and phospholipids. The cholesterol ester synthetase (CES) activity was elevated, while lecithin: Cholesterol acyltransferase (LCAT) and lipoprotein lipase (LPL) activities were decreased in the myocardial infarcted rats. In addition, the high level of the troponins I and T was an indication of cardiac necrosis. Pre-treatment with Taurine, however, ameliorated all of these changes, in addition to its effect in improving the oxidation process, as measured by lipid peroxidation and the antioxidant enzymes, superoxide dismutase and peroxidase enzymes.<strong> </strong></p><p><strong>Conclusion: </strong>Taurine showed amelioration effects on the changes in lipid profile, oxidative stress and myocardial infarction biomarkers and therefore, can be protected against cardiotoxicity.</p>