Abstract：
:We have developed an approach termed '2D hybrid analysis' for building three-dimensional (3D) structures from electron microscopy (EM) images of biological molecules. The key advantage is that it is applicable to flexible molecules, which are difficult to analyze by the approach in which 3DEM maps are reconstructed. In the proposed approach, a large number of atomic models with different conformations are first built by computer simulation. Then, simulated EM images are produced from each atomic model. Finally, these images are compared with an experimental EM image to identify the best-fitting atomic model. Two kinds of models are used to simulate the EM images: the negative-stain model and the simple projection model. Although the former is more realistic, the latter permits faster computation. We applied this approach to the averaged EM images of integrin. Although many of these were reproduced well by the best-fitting atomic models, others did not closely resemble any of the simulated EM images. However, the latter group were well reproduced by averaging multiple simulated EM images originating from atomic models with rather different conformations or orientations. This indicated that our approach is capable of detecting mixtures of conformations in the averaged EM images, which should assist in their correct interpretation.
journal_name
Adv Exp Med Bioljournal_title
Advances in experimental medicine and biologyauthors
Matsumoto A,Iwasaki Kdoi
10.1007/978-981-13-2200-6_12subject
Has Abstractpub_date
2018-01-01 00:00:00pages
181-196eissn
0065-2598issn
2214-8019journal_volume
1105pub_type
杂志文章abstract：:Immunological effector cells and molecules have been shown to access intracranial tumor sites despite the existence of blood brain barrier (BBB) or immunosuppressive mechanisms associated with brain tumors. Recent progress in T-cell biology and tumor immunology made possible to develop strategies of tumor-associated a...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-1-4614-3146-6_16
更新日期：2012-01-01 00:00:00
abstract：:Multichain immune recognitionreceptors (MIRRs) represent a family of surfacereceptors expressed on different cells of the hematopoietic system and function to transduce signals leading to a variety of biologic responses. The most intriguing and distinct structural feature ofMIRR family members is that extracellular re...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-0-387-09789-3_12
更新日期：2008-01-01 00:00:00
abstract：:In closing, let me return to the somewhat irreverent question that I asked at the beginning: Apart from what we learn about fundamentally important biological processes, does male-mediated developmental toxicity make any practical difference? The answer is no, yes, and we don't know. No: The risk of serious birth defe...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-1-4419-9190-4_19
更新日期：2003-01-01 00:00:00
abstract：:The prognosis of patients with pulmonary arterial hypertension (PAH) is poor. Available therapies (Ca(++)-channel blockers, epoprostenol, bosentan) have limited efficacy or are expensive and associated with significant complications. PAH is characterized by vasoconstriction, thrombosis in-situ and vascular remodeling....
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-1-4419-8997-0_21
更新日期：2003-01-01 00:00:00
abstract：:The microbiome comprises all the genetic material within a microbiota, that represents tenfold higher than that of our cells. The microbiota it includes a wide variety of microorganisms such as bacteria, viruses, protozoans, fungi, and archaea, and this ecosystem is personalized in any body space of every individual. ...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-3-030-24100-1_10
更新日期：2019-01-01 00:00:00
abstract：:In this article, we present an overview of simulation strategies in the context of subcellular domains where calcium-dependent signaling plays an important role. The presentation follows the spatial and temporal scales involved and represented by each algorithm. As an exemplary cell type, we will mainly cite work done...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-94-007-2888-2_25
更新日期：2012-01-01 00:00:00
abstract：:Three novel trisialogangliosides of fish brain, GT3, GT2 and GT1c, have been isolated in their intact forms and their structures characterized. The discovery of these ganglioside species provides essential links for a new possible biosynthetic pathway leading to the major tetrasialoganglioside, GQ1c, of the fish brain...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4684-7844-0_5
更新日期：1980-01-01 00:00:00
abstract：:The PI3K signalling pathway is crucial to normal B cell development and response to antigen. The p1108 catalytic subunit plays an important and non-redundant role within this pathway although other catalytic isoforms may also contribute. Although CD40, TLR and cytokines all activate PI3K the BCR seems especially depen...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-0-387-79311-5_5
更新日期：2009-01-01 00:00:00
abstract：:RPPA technology has graduated from a research tool to an essential component of clinical drug discovery research and personalized medicine. Next generations of RPPA technology will be a single clinical instrument that integrates all the steps of the workflow. ...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-981-32-9755-5_1
更新日期：2019-01-01 00:00:00
abstract：:The visual system consists of various types of neurons and a single-nucleotide mutation can sometimes lead to blindness. The phototransduction pathway in the retina starts from the first-order neurons, the photoreceptor cells, and transmits the signals to second-order neurons. Finally, the output signal from third-ord...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-981-15-8763-4_37
更新日期：2021-01-01 00:00:00
abstract：:Cardiovascular disease is the number one cause of death in the U.S and results in the loss of approximately one million lives and more than 400 billion U.S. dollars for treatments every year. Recently, tissue engineered blood vessels have been studied and developed as promising replacements for treatment with autologo...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-981-13-0445-3_8
更新日期：2018-01-01 00:00:00
abstract：:We compared muscle oxygen saturation (SmO2) responses in several leg muscles and within a single muscle during ramp cycling exercise between elderly men (n = 8; age, 65 ± 3 years; ELD) and young men (n = 10; age, 23 ± 3 years; YNG). SmO2 was monitored at the distal site of the vastus lateralis (VLd), proximal site of ...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4614-7411-1_22
更新日期：2013-01-01 00:00:00
abstract：:Sleep disorders are common in patients with chronic obstructive pulmonary disease (COPD) and are associated with greater disease severity, more frequent exacerbations, greater use of emergency health care, and higher mortality. They may contribute to worsening of COPD course by reducing patients' adherence to treatmen...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/5584_2019_345
更新日期：2019-01-01 00:00:00
abstract：:T-type Ca(2+) channels are a distinct family of low voltage-activated Ca(2+) channels which serve many roles in different tissues. Several studies have implicated them, for example, in the adaptive responses to chronic hypoxia in the cardiovascular and endocrine systems. Hydrogen sulfide (H(2)S) was more recently disc...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-3-319-18440-1_40
更新日期：2015-01-01 00:00:00
abstract：:Many antimicrobial peptides are considered to kill microbes by permeabilizing cell membranes. This chapter summarizes the driving force of peptide binding to membranes; various mechanisms of lipid bilayer permeabilization including the barrel-stave, toroidal pore, and carpet models; and modes of permeabilization of ba...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-981-13-3588-4_2
更新日期：2019-01-01 00:00:00
abstract：:Thermomechanical Analysis (TMA), using the parallel-plate-rheometer mode of the DuPont 943 TMA, was used to evaluate the softening properties of frozen aqueous carbohydrate model systems. A sample (of fixed dimension) of frozen solution was placed between the parallel plates and cooled to -80 degrees C. The sample was...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4899-0664-9_11
更新日期：1991-01-01 00:00:00
abstract：:Lactoferrin promoter and the 5'-flanking region of both human and mouse were isolated from a genomic library constructed with lambda phage. A 2.0 kbp Sac I fragment of the human clone (HLF031a.30) and a 3.0 kbp Eco R I/Hinc II fragment of the mouse clone (mL14p9E) containing the lactoferrin promoter, 5'-flanking regio...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4615-2548-6_18
更新日期：1994-01-01 00:00:00
abstract：:Neuronal ceroid lipofuscinosis (NCL) is the most common group of neurogenetic storage diseases typically beginning in childhood. The juvenile form (JNCL), also known as Batten disease, is the most common form. Vision-related problems are often an early sign, appearing prior to motor and mental deficits. We have previo...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-3-319-75402-4_50
更新日期：2018-01-01 00:00:00
abstract：:Cell-free protein synthesis based on E. coli cell extracts has been described for the first time more than 50 years ago. To date, cell-free synthesis is widely used for the preparation of toxic proteins, for studies of the translation process and its regulation as well as for the incorporation of artificial or labeled...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-3-319-27216-0_6
更新日期：2016-01-01 00:00:00
abstract：:The possibility that weakly binding bridges are attached to actin in the absence of Ca2+ under physiological conditions was investigated by studying the force response of unstimulated intact muscle fibres of the frog to fast ramp stretches. The force response during the stretching period is divided into two phases: ph...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4615-2872-2_62
更新日期：1993-01-01 00:00:00
abstract：:The relationship between temperature and seasonal fluctuations in births is presented cross nationally. Previous literature which give some credence to this relationship is reviewed, but the authors caution that there is no singular reason for birth seasonality. The summary conclusion is that the evidence is inconcl...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-1-4684-5913-5_7
更新日期：1991-01-01 00:00:00
abstract：:The gastrointestinal (GI) tract consists of a remarkable series of organs that spatially and temporally coordinate the vital process of digestion to extract key nutrients required to sustain our day-to-day functions. During development, it undergoes complex and highly specialized morphogenetic events to form functiona...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-981-15-2389-2_4
更新日期：2020-01-01 00:00:00
abstract：:Muscle atrophy in aging is characterized by progressive loss of muscle mass and function. Muscle mass is determined by the balance of synthesis and degradation of protein, which are regulated by several signaling pathways such as ubiquitin-proteasome system, autophagy-lysosome systems, oxidative stress, proinflammator...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-981-13-1435-3_16
更新日期：2018-01-01 00:00:00
abstract：:The computational platform ENVIRONMENT, developed to simulate stochastically reaction systems in varying compartmentalized conditions [Mavelli and Ruiz-Mirazo: Philos Trans R Soc Lond B Biol Sci 362:1789-1802, 2007; Physical Biology 7(3): 036002, 2010], is here applied to study the dynamic properties and stability of ...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4419-7046-6_70
更新日期：2011-01-01 00:00:00
abstract：:Multiple strategies have been investigated to restore functional myocardium following injury or disease including the local administration of cytokines or chemokines, stem/progenitor cell therapy, mechanical circulatory support, pharmacologic use, and the use of inductive biomaterials. The use of xenogeneic biologic s...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-3-319-97421-7_8
更新日期：2018-01-01 00:00:00
abstract：:Intraperitoneal treatment with the enzyme inhibitor, pepstatin, of BSVS mice, guinea pigs and Lewis rats which were sensitized with guinea pig spinal cord and pertussis vaccine resulted in complete or partial suppression of paralysis dependent on the species studied and alterations of histological signs of experimenta...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章
doi：10.1007/978-1-4684-8914-9_30
更新日期：1979-01-01 00:00:00
abstract：:At this point, it may be worthwhile to list, in summary form, the important aspects of divalent cation and nucleotide binding to actin that have been reviewed here: 1) High affinity divalent cation binding to actin is very tight, with equilibrium dissociation constant KCa approximately 1 nM and KMg approximately 5 nM ...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-1-4615-2578-3_4
更新日期：1994-01-01 00:00:00
abstract：:Advancements in musculoskeletal analysis have been achieved by adopting deep learning technology in image recognition and analysis. Unlike musculoskeletal modeling based on computational anatomy, deep learning-based methods can obtain muscle information automatically. Through analysis of image features, both approache...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-3-030-33128-3_11
更新日期：2020-01-01 00:00:00
abstract：:Class XVIII myosins represent a branch of the myosin family tree characterized by the presence of large N- and C-terminal extensions flanking a generic myosin core. These myosins display the highest sequence similarity to conventional class II muscle myosins and are compatible with but not restricted to myosin-2 contr...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-3-030-38062-5_19
更新日期：2020-01-01 00:00:00
abstract：:The de novo generation of hematopoietic stem and progenitor cells (HSPC) occurs solely during embryogenesis from a population of epithelial cells called hemogenic endothelium (HE). During midgestation HE cells in multiple intra- and extraembryonic vascular beds leave the vessel wall as they transition into HSPCs in a ...
journal_title：Advances in experimental medicine and biology
pub_type： 杂志文章,评审
doi：10.1007/978-981-10-3233-2_4
更新日期：2017-01-01 00:00:00
