基于序列特征的环状RNA识别

环状RNA是新发现的一类具有重要生物学功能的RNA。现有的环状RNA识别工具依赖高通量测序数据,因数据本身和识别方式的弊端而普遍存在准确性不足、不同方法间重复性低以及假阳性率/假阴性率高等缺点。为了解决该问题,我们搭建模型来实现不依赖于测序数据而根据序列的内在特征的环状RNA从头预测。本文选取了包括剪接位点上下游内含子的长度、A-to-I密度和Alu重复序列等100个与RNA成环相关的序列特征,建立了机器学习模型,并识别了人类基因组中的环状RNA,比较了两种机器学习方法随机森林法(RF)和支持向量机(SVM)的分类效果。结果表明,所选序列特征能有效地鉴别RNA能否成环,同时,不同序列特征对模型的分类预测能力的贡献也不同。相比于SVM方法,RF分类的效果更好。     

两种过滤特征基因选择算法的有效性研究

对基因表达谱进行特征基因选择不仅能改善疾病分类方法的效能,而且为寻找与疾病相关的特征基因提供新的途径．通过比较用调整p值的t检验、非参数评分两种特征基因选择算法后和未进行选择时支持向量机(SVM)分类器的分类性能、支持向量(SV)的吻合度、错分样本ID的吻合度和对样本均匀翻倍后的稳定性．结果发现：特征选择后线性、核函数为二阶多项式和径向基的SVM分类性能明显提高;特征选择前后的SV及错分样本ID的吻合度均较高;SVM的稳定性较好．由此得出结论：这两种特征选择算法具有一定的有效性．     

Molecular classification of cancer types from microarray data using the combination of genetic algorithms and support vector machines

Simultaneous multiclass classification of tumor types is essential for future clinical implementations of microarray-based cancer diagnosis. In this study, we have combined genetic algorithms (GAs) and all paired support vector machines (SVMs) for multiclass cancer identification. The predictive features have been selected through iterative SVMs/GAs, and recursive feature elimination post-processing steps, leading to a very compact cancer-related predictive gene set. Leave-one-out cross-validations yielded accuracies of 87.93% for the eight-class and 85.19% for the fourteen-class cancer classifications, outperforming the results derived from previously published methods.     

Hydraulic conductivities of competing root systems of Grevillea robustaand maize in agroforestry

Models of water uptake in mixed stands of vegetation commonly assume that water is partitioned among competing root systems in proportion to relative root length densities. Such an approach assumes implicitly that roots of different species have equivalent hydraulic properties. This was tested for root systems of Grevillea robustaA. Cunn. and maize (Zea maysL.) at a semi-arid site in Kenya. The hydraulic conductances for roots of both species were measured in situat the scale of the whole root or root system using a high pressure flow meter (HPFM). Hydraulic conductivities (_r) were expressed per unit root length. Root lengths were estimated for maize plants by soil coring and for G. robustausing a fractal branching model calibrated against soil coring. Mean _r was 1.88×10^–7 ±0.28×10^–7kg s^–1 MPa^–1 m^–1 for G. robustaand 1.25×10^–7 ±0.13×10^–7kg s^–1 MPa^–1 m^–1 for maize. Values of _r were not significantly different (P<0.05), suggesting that the assumption of hydraulic equivalence for root systems of the two species may be valid, at least when hydrostatic gradients are the major driving force for water uptake. Differences in conductivities between these species could arise, however, because of variation in the hydraulic properties of roots not accounted for here, for example because of root age, phenology or responses to the soil environment.     

沙棘共生固氮根瘤及其内生弗兰克氏菌

用透射电镜研究了中国沙棘（Ｈｉｐｐｏｐｈａｅ ｒｈａｍｎｏｙｄｅｓ Ｌ．）根瘤的超微结构。它的侵梁细胞位于皮层中部,非侵染细胞与之间排列,富含多酚和淀粉粒。在根瘤的发育过程中,具有以下特征：（１）早期侵染细胞中具有核仁联合体;（２）由内生菌丝趋核生长而形成的核膜内陷处,有许多核孔出现;（３）在中期侵染细胞的内生菌丝和泡囊的荚膜附近,有成束的微管存在;（４）在４、５月瘤样的维管束细胞、非侵染细胞及早     

浙江天台山甜槠群落研究

以分布在浙江省天台山的甜储群落为对象,分析了群落的特征和性质。甜储群落中,甜储的优势突出,呈单优势群落。群落垂直结构复杂,可分为乔木层、灌木层、草本层,亦有一定数量的层间植物。乔木层的物种多样性指数偏低,这与特定生境所形成的单优势群落有关。各样地间的植物种类具有较高的相似性,群落内种类组成相对一致。群落内优势种群甜储、木荷的年龄结构属稳定型或增长型,它们在各样地的分布格局均呈集群分布。     

不同临床病理特征的乳腺非特殊型浸润性癌分子亚型分析

目的:探讨不同临床病理特征的乳腺非特殊型浸润性癌的分子亚型分布特点。方法:回顾性分析309例乳腺非特殊型浸润性癌患者的临床资料,根据患者年龄、绝经情况、组织学分级和淋巴结转移情况分组,每组再根据免疫组化雌激素受体(ER)、孕激素受体(PR)、人类表皮生长因子受体2(HER-2)结果分为4种不同的分子亚型,分析各组中不同分子亚型的分布特点。结果:309例乳腺非特殊型浸润性癌中Lumina A型为137例(44.3%),Lumina B型为64例(20.7%),HER-2/neu型为63例(20.4%),basal cell-like型为45例(14.6%)。不同年龄段、绝经与否、不同组织学分级和淋巴结转移情况患者的分子亚型差异均具有统计学意义(P0.05)。结论:非特殊型浸润性癌的分子亚型以Luminal A型为主,其中异型性高,转移广泛的basal cell-like型的年龄分布呈现年轻化趋势。     

Haplorchis taichui as a Possible Etiologic Agent of Irritable Bowel Syndrome-Like Symptoms

The aim of this study is to clarify the clinical features of Haplorchis taichui infection in humans in Nan Province, Thailand, and to correlate the clinical features with irritable bowel syndrome (IBS)-like symptoms. In this study area, only H. taichui, but neither other minute intestinal flukes nor small liver flukes were endemic. The degree of infection was determined by fecal egg counts and also by collecting adult worms after deworming. The signs and symptoms of individual patients together with their hematological and biochemical laboratory data were gathered to evaluate the relationship between the clinical features and the severity of infection. Special emphasis was made to elucidate the possible similarities of the clinical features of H. taichui infection and IBS-like symptoms. The results showed useful clinical information and the significant (> 50%) proportion of haplorchiasis patients complained of abdominal pain, lassitude, and flatulence, which were the important diagnostic symptoms of IBS. This study has reported a possible link between H. taichui and IBS, and H. taichui might probably play a role in the etiology of these IBS-like symptoms.     

山西濒危植物翅果油树植冠的构型分析

应用分形理论及方法,从分枝格局和冠幅扩展2个方面对山西翼城和乡宁的35株翅果油树(Elaeagnus mollis Diels)个体的植冠构型进行统计分析。结果表明,幼树和成树的总体分枝率和逐步分枝率有显著变化;一级枝的平均枝长和枝径有显著差异,但枝和叶的方位角及叶倾角差异不明显。不同发育阶段个体的冠幅变化较大,幼树冠幅的分形维数(2.0026)小于成树(2.2694)。翅果油树在不同生长发育阶段对生境变化有不同的构型策略。