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| 1 | SPORTS1.0: A Tool for Annotating and Profiling Non-coding RNAs Optimized for rRNA-and tRNA-derived Small RNAs显示文摘High-throughput RNA-seq has revolutionized the process of small RNA(sRNA) discovery, leading to a rapid expansion of s RNA categories. In addition to the previously wellcharacterized sRNAs such as micro RNAs(mi RNAs), piwi-interacting RNAs(piRNAs), and small nucleolar RNA(sno RNAs), recent emerging studies have spotlighted on t RNA-derived s RNAs(tsRNAs) and rRNA-derived s RNAs(rs RNAs) as new categories of s RNAs that bear versatile functions. Since existing software and pipelines for sRNA annotation are mostly focused on analyzing mi RNAs or pi RNAs, here we developed the sRNA annotation pipeline optimized for rRNA-and tRNA-derived sRNAs(SPORTS1.0). SPORTS1.0 is optimized for analyzing ts RNAs and rsRNAs from sRNA-seq data, in addition to its capacity to annotate canonical sRNAs such as mi RNAs and pi RNAs. Moreover, SPORTS1.0 can predict potential RNA modification sites based on nucleotide mismatches within sRNAs. SPORTS1.0 is precompiled to annotate s RNAs for a wide range of 68 species across bacteria, yeast, plant, and animal kingdoms, while additional species for analyses could be readily expanded upon end users' input. For demonstration, by analyzing sRNA datasets using SPORTS1.0, we reveal that distinct signatures are present in tsRNAs and rsRNAs from different mouse cell types. We also find that compared to other s RNA species, tsRNAs bear the highest mismatch rate, which is consistent with their highly modified nature. SPORTS1.0 is an opensource software and can be publically accessed at http://gffzz188fe103f8f1460as9xqv5x5u6bcp6oqq.ffgz.tsg.suse.edu.cn/junchaoshi/sports1.0. | Junchao Shi Eun-A Ko Kenton M.Sanders Qi Chen Tong Zhou | 2018 | Genomics, Proteomics & Bioinformatics2018，16，2： | 6 |
| 2 | Locomotor analysis identifies early compensatory changes during disease progression and subgroup classification in a mouse model of amyotrophic lateral sclerosis显示文摘Amyotrophic lateral sclerosis is a motoneuron degenerative disease that is challenging to diagnose and presents with considerable variability in survival.Early identification and enhanced understanding of symptomatic patterns could aid in diagnosis and provide an avenue for monitoring disease progression.Use of the m SOD1 G93 A mouse model provides control of the confounding environmental factors and genetic heterogeneity seen in amyotrophic lateral sclerosis patients,while investigating underlying disease-induced changes.In the present study,we performed a longitudinal behavioral assessment paradigm and identified an early hindlimb symptom,resembling the common gait abnormality foot drop,along with an accompanying forelimb compensatory mechanism in the m SOD1 G93 A mouse.Following these initial changes,m SOD1 mice displayed a temporary hindlimb compensatory mechanism resembling an exaggerated steppage gait.As the disease progressed,these compensatory mechanisms were not sufficient to sustain fundamental locomotor parameters and more severe deficits appeared.We next applied these initial findings to investigate the inherent variability in B6 SJL m SOD1 G93 A survival.We identified four behavioral variables that,when combined in a cluster analysis,identified two subpopulations with different disease progression rates:a fast progression group and a slow progression group.This behavioral assessment paradigm,with its analytical approaches,provides a method for monitoring disease progression and detecting m SOD1 subgroups with different disease severities.This affords researchers an opportunity to search for genetic modifiers or other factors that likely enhance or slow disease progression.Such factors are possible therapeutic targets with the potential to slow disease progression and provide insight into the underlying pathology and disease mechanisms. | Melissa M.Haulcomb Rena M.Meadows Whitney M.Miller Kathryn P.Mc Millan Me Kenzie J.Hilsmeyer Xuefu Wang Wesley T.Beaulieu Stephanie L.Dickinson Todd J.Brown Virginia M.Sanders Kathryn J.Jones | 2017 | Neural Regeneration Research2017，12，10： | 3 |
| 3 | A functional role for the ‘fibroblast‐like cells’ in gastrointestinal smooth muscles显示文摘 | MasaakiKurahashi HaifengZheng LauraDwyer Sean M.Ward SangDon Koh Kenton M.Sanders | 2011 | The Journal of Physiology2011，，3： | 2 |
| 4 | Spontaneous electrical rhythmicity in cultured interstitial cells of Cajal from the murine small intestine显示文摘 | Sang DonKoh Kenton M.Sanders Sean M.Ward | 2004 | The Journal of Physiology2004，，1： | 2 |
| 5 | Adenosine 5′‐diphosphate‐ribose is a neural regulator in primate and murine large intestine along with β‐NAD<sup>+</sup>显示文摘 | LeonieDurnin Sung JinHwang Sean M.Ward Kenton M.Sanders Violeta N.Mutafova‐Yambolieva | 2012 | The Journal of Physiology2012，，8： | 1 |
| 6 | Effects of female steroid hormones on A‐type K<sup>+</sup> currents in murine colon显示文摘 | Elizabeth A. H.Beckett ConorMcCloskey NeilO'Kane Kenton M.Sanders SangDon Koh | 2006 | The Journal of Physiology2006，，2： | 1 |
| 7 | Regulation of smooth muscle excitation and contraction显示文摘 | K. M.Sanders | 2008 | Neurogastroenterology & Motility2008，，： | 1 |
| 8 | Interstitial cells of Cajal at the clinical and scientific interface显示文摘 | Kenton M.Sanders | 2006 | The Journal of Physiology2006，，3： | 1 |
| 9 | 在布隆迪系统性痰涂片复染有助于痰检质量控制显示文摘背景:布隆迪的常规结核病控制服务。目标:判定在质量复核前进行系统痰涂片复染的必要性。设计:双盲法复核周边地区常规检查的痰涂片,比较复染前后检查结果的不一致性。结果:如果不复染,852份原阴性的涂片及 189份原阳性的涂片中复核后被判定为错误者,即假阴性和假阳性各有10份(1.2%)及59份(31.2%)。复染后 34份(4.1%)为假阴性,13份(6.9%)为假阳性,两者均有显著性改变。复染前阳性涂片的定级通常认为太高,而复染后发现42份中有41份定级太低。结论:虽然布隆迪气候温暖,在复核前需要复染全部涂片的重要性未被认识,普遍存在的问题是假阴性而不是假阳性。从无复染的结果推论,需重新严格评价冷染色法的标准程序而不是涂片的复染问题。在国家结核病规划实施中(NTP)为了控制导致错误结果的可能原因,在复核前复染全部涂片可能是需要的。在现场规划中应避免采用冷染色法,因为其操作常受到一些不良因素的影响。 | T.Buzingo M.Sanders J-P.Masabo S.Nyandwi A.Van Deun 马玙 | 2003 | 国际结核病与肺部疾病杂志2003，，3： | 1 |
| 10 | Kit mutants and gastrointestinal physiology显示文摘 | Kenton M.Sanders Sean M.Ward | 2006 | The Journal of Physiology2006，，1： | 1 |
| 11 | Interstitial cells of Cajal in the deep muscular plexus mediate enteric motor neurotransmission in the mouse small intestine显示文摘 | Sean M.Ward Gerald J.McLaren Kenton M.Sanders | 2006 | The Journal of Physiology2006，，1： | 1 |
| 12 | Loss of interstitial cells of Cajal and development of electrical dysfunction in murine small bowel obstruction显示文摘 | In‐YoubChang Nichola J.Glasgow IchiroTakayama KazuhideHoriguchi Kenton M.Sanders Sean M.Ward | 2004 | The Journal of Physiology2004，，2： | 1 |
| 13 | Propagation of slow waves requires IP<sub>3</sub> receptors and mitochondrial Ca<sup>2+</sup> uptake in canine colonic muscles显示文摘 | Sean M.Ward Salah A.Baker AndrewFaoite Kenton M.Sanders | 2004 | The Journal of Physiology2004，，1： | 1 |
| 14 | Pre-and post-lexical loci of contextual effects on word recognition显示文摘 | Seidenberg M.S G.S.Waters M.Sanders P.Langer | | 0，，： | 1 |
| 15 | Interstitial cells of Cajal generate electrical slow waves in the murine stomach显示文摘 | Tamás?rd?g Sean M.Ward Kenton M.Sanders | 2004 | The Journal of Physiology2004，，1： | 1 |
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