Extracting the stepping dynamics of molecular motors in living cells from trajectories of single particles.

Abstract:

:Molecular motors are responsible of transporting a wide variety of cargos in the cytoplasm. Current efforts are oriented to characterize the biophysical properties of motors in cells with the aim of elucidating the mechanisms of these nanomachines in the complex cellular environment. In this study, we present an algorithm designed to extract motor step sizes and dwell times between steps from trajectories of motors or cargoes driven by motors in cells. The algorithm is based on finding patterns in the trajectory compatible with the behavior expected for a motor step, i.e., a region of confined motion followed by a jump in the position to another region of confined motion with similar characteristics to the previous one. We show that this algorithm allows the analysis of 2D trajectories even if they present complex motion patterns such as active transport interspersed with diffusion and does not require the assumption of a given step size or dwell period. The confidence on the step detection can be easily obtained and allows the evaluation of the confidence of the dwell and step size distributions. To illustrate the possible applications of this algorithm, we analyzed trajectories of myosin-V driven organelles in living cells.

journal_name

Cell Biochem Biophys

authors

Bruno A,Bruno L,Levi V

doi

10.1007/s12013-012-9397-3

subject

Has Abstract

pub_date

2013-01-01 00:00:00

pages

1-11

issue

1

eissn

1085-9195

issn

1559-0283

journal_volume

65

pub_type

杂志文章
  • Construction and Application of a Refined Hospital Management Chain.

    abstract::Gaining large scale success was quite common in the later period of industrialization for hospitals in China. Today, Chinese hospital management face such problems as service inefficiency, high human resources cost, and low rate of capital use. This study analyzes the refined management chain of the Wuxi No. 2 People'...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-014-0395-5

    authors: Yi L,Hao A,Hu M,Huang P,Yuan H,Xing M

    更新日期:2015-05-01 00:00:00

  • Comparison of the Outcomes of Two Operational Methods Used for the Fixation of Calcaneal Fracture.

    abstract::This study was aimed to compare the outcomes of two operational methods used for the fixation of calcaneal fracture, the open reduction using a plate and the minimally invasive cannulated screw fixations. Thus, we attempted to find out as to which of these fixation regimens was therapeutically superior by assessing im...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章,随机对照试验

    doi:10.1007/s12013-014-0436-0

    authors: Wang Q,Li X,Sun Y,Yan L,Xiong C,Wang J

    更新日期:2015-05-01 00:00:00

  • Azithromycin attenuates fibroblast growth factors induced vascular endothelial growth factor via p38(MAPK) signaling in human airway smooth muscle cells.

    abstract::The airways in asthma and COPD are characterized by an increase in airway smooth muscle (ASM) mass and bronchial vascular changes associated with increased expression of pro-angiogenic growth factors, such as fibroblast growth factors (FGF-1 and FGF-2) and vascular endothelial growth factor (VEGF). We investigated the...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-011-9331-0

    authors: Willems-Widyastuti A,Vanaudenaerde BM,Vos R,Dilisen E,Verleden SE,De Vleeschauwer SI,Vaneylen A,Mooi WJ,de Boer WI,Sharma HS,Verleden GM

    更新日期:2013-11-01 00:00:00

  • Slow inactivation in voltage-gated sodium channels: molecular substrates and contributions to channelopathies.

    abstract::Slow inactivation in voltage-gated sodium channels is a biophysical process that governs the availability of sodium channels over extended periods of time. Slow inactivation, therefore, plays an important role in controlling membrane excitability, firing properties, and spike frequency adaptation. Defective slow inact...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章,评审

    doi:10.1385/CBB:35:2:171

    authors: Vilin YY,Ruben PC

    更新日期:2001-01-01 00:00:00

  • Implementation of a fast-track clinical pathway decreases postoperative length of stay and hospital charges for liver resection.

    abstract::A fast-track clinical pathway is designed to streamline patient care delivery and maximize cost effectiveness. It has decreased postoperative length of stay (LOS) and hospital charges for many surgical procedures. However, data on clinical pathways after liver surgery are sparse. This study examined whether use of a f...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-011-9203-7

    authors: Lin DX,Li X,Ye QW,Lin F,Li LL,Zhang QY

    更新日期:2011-11-01 00:00:00

  • Spectral CT imaging in patients with Budd-Chiari syndrome: investigation of image quality.

    abstract::To assess the image quality of monochromatic imaging from spectral CT in patients with Budd-Chiari syndrome (BCS), fifty patients with BCS underwent spectral CT to generate conventional 140 kVp polychromatic images (group A) and monochromatic images, with energy levels from 40 to 80, 40 + 70, and 50 + 70 keV fusion im...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-014-0021-6

    authors: Su L,Dong J,Sun Q,Liu J,Lv P,Hu L,Yan L,Gao J

    更新日期:2014-11-01 00:00:00

  • Glycogen debranching enzyme 6 (AGL), enolase 1 (ENOSF1), ectonucleotide pyrophosphatase 2 (ENPP2_1), glutathione S-transferase 3 (GSTM3_3) and mannosidase (MAN2B2) metabolism computational network analysis between chimpanzee and human left cerebrum.

    abstract::We identified significantly higher expression of the genes glycogen debranching enzyme 6 (AGL), enolase 1 (ENOSF1), ectonucleotide pyrophosphatase 2 (ENPP2_1), glutathione S-transferase 3 (GSTM3_3) and mannosidase (MAN2B2) from human left cerebrums versus chimpanzees. Yet the distinct low- and high-expression AGL, ENO...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-011-9232-2

    authors: Sun L,Wang L,Jiang M,Huang J,Lin H

    更新日期:2011-12-01 00:00:00

  • Identification of unknown homeopathic remedies by delayed luminescence.

    abstract::A quality control method of highly diluted and potentized homeopathic remedies is important for curing patients applying homeopathic therapy. Lenger detected photons in highly potentized homeopathic remedies by delayed luminescence. The photons of Argentum metallicum 100MK and Cantharis 100MK magnetically bound to the...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-013-9712-7

    authors: Lenger K,Bajpai RP,Spielmann M

    更新日期:2014-03-01 00:00:00

  • Measuring activity in the ubiquitin-proteasome system: from large scale discoveries to single cells analysis.

    abstract::The ubiquitin-proteasome system (UPS) is the primary pathway responsible for the recognition and degradation of misfolded, damaged, or tightly regulated proteins in addition to performing essential roles in DNA repair, cell cycle regulation, cell migration, and the immune response. While traditional biochemical techni...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章,评审

    doi:10.1007/s12013-013-9621-9

    authors: Melvin AT,Woss GS,Park JH,Waters ML,Allbritton NL

    更新日期:2013-09-01 00:00:00

  • Highly Conserved Arg Residue of ERFNIN Motif of Pro-Domain is Important for pH-Induced Zymogen Activation Process in Cysteine Cathepsins K and L.

    abstract::Pro-domain of a cysteine cathepsin contains a highly conserved Ex2Rx2Fx2Nx3Ix3N (ERFNIN) motif. The zymogen structure of cathepsins revealed that the Arg(R) residue of the motif is a central residue of a salt-bridge/H-bond network, stabilizing the scaffold of the pro-domain. Importance of the arginine is also demonstr...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-017-0838-x

    authors: Aich P,Biswas S

    更新日期:2018-06-01 00:00:00

  • Clinical application of a dendritic cell vaccine raised against heat-shocked glioblastoma.

    abstract::Establishment of a detection platform for glioblastoma-dendritic cell (DC) vaccine preparation and to determine the efficacy of the vaccine in a clinical trial. Autologous glioblastoma-DC vaccine was prepared from a glioblast specimen procured from surgical resection. The specimen was used to enrich the vaccine with p...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-011-9265-6

    authors: Jie X,Hua L,Jiang W,Feng F,Feng G,Hua Z

    更新日期:2012-01-01 00:00:00

  • Influence of Regional Difference in Bone Mineral Density on Hip Fracture Site in Elderly Females by Finite Element Analysis.

    abstract::Hip fracture is a kind of osteoporotic fractures in elderly patients. Its important monitoring indicator is to measure bone mineral density (BMD) using DXA. The stress characteristics and material distribution in different parts of the bones can be well simulated by three-dimensional finite element analysis. Our previ...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-015-0650-4

    authors: Lin ZL,Li PF,Pang ZH,Zheng XH,Huang F,Xu HH,Li QL

    更新日期:2015-11-01 00:00:00

  • Resveratrol induces pro-oxidant effects and time-dependent resistance to cytotoxicity in activated hepatic stellate cells.

    abstract::Resveratrol (RSV) is known for its antioxidant properties; however, this compound has been proposed to have cytotoxic and pro-oxidant effects depending on its concentration and time of exposure. We previously reported the cell cycle arrest effect of low doses of RSV in GRX cells, an activated hepatic stellate cell mod...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-013-9703-8

    authors: Martins LA,Coelho BP,Behr G,Pettenuzzo LF,Souza IC,Moreira JC,Borojevic R,Gottfried C,Guma FC

    更新日期:2014-03-01 00:00:00

  • Studies on the expression patterns of class I PI3K catalytic subunits and its prognostic significance in colorectal cancer.

    abstract::The phosphatidylinositol 3-kinase/AKT (PI3K/AKT) pathway plays a critical role in human cancer. We determined the expression patterns of class I PI3K catalytic subunits and evaluated their importance in the development or progression of colorectal cancer (CRC). For this purpose, expression of class I PI3K isoforms was...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-011-9257-6

    authors: Cui B,Tao J,Yang Y

    更新日期:2012-01-01 00:00:00

  • Genetic evaluation of peroxisomal and cytosolic acetoacetyl-CoA thiolase isozymes in n-alkane-assimilating diploid yeast, Candida tropicalis.

    abstract::The n-alkane-assimilating diploid yeast, Candida tropicalis, possesses two acetoacetyl-CoA thiolase (Thiolase I) isozymes encoded by one allele: peroxisomal and cytosolic Thiolase Is encoded by both CT-T1A and CT-T1B. To clarify the function of peroxisomal and cytosolic Thiolase Is, the site-directed mutation leading ...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1385/cbb:32:1-3:285

    authors: Ueda M,Kanayama N,Tanaka A

    更新日期:2000-01-01 00:00:00

  • Topoisomerase IIalpha mediates E2F-1-induced chemosensitivity and is a target for p53-mediated transcriptional repression.

    abstract::Mutations of the retinoblastoma tumor suppressor, pRb, or its cyclin-cyclin-dependent kinase (CDK) regulatory kinases or CDK inhibitors, allows unrestrained E2F activity, leading to unregulated cell cycle progression. However, overexpression of E2F-1 also sensitizes cells to apoptosis, suggesting that targeting this p...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1385/CBB:33:2:199

    authors: Nip J,Hiebert SW

    更新日期:2000-01-01 00:00:00

  • Mechanical induction of BMP-7 in osteocyte blocks glucocorticoid-induced apoptosis through PI3K/AKT/GSK3β pathway.

    abstract::Mechanical loading is known to promote osteocyte survival, whereas glucocorticoid treatment results in osteocyte apoptosis. Here, we report that BMP-7, which was secreted by osteocyte in response to mechanical loading, exerts anti-apoptotic effect against dexamethasone-induced apoptosis of osteocytes. We further show ...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-013-9543-6

    authors: Wang Z,Guo J

    更新日期:2013-11-01 00:00:00

  • Non-steroidal anti-inflammatory drugs and hypertension.

    abstract::Non-steroidal anti-inflammatory drugs (NSAIDs) are frequently used to alleviate pain of the patients who suffer from inflammatory conditions like rheumatoid arthritis, osteoarthritis, and other painful conditions like gout. This class of drugs works by blocking cyclooxgenases which in turn block the prostaglandin prod...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章,评审

    doi:10.1007/s12013-013-9791-5

    authors: Zheng L,Du X

    更新日期:2014-06-01 00:00:00

  • Identifying the Interaction of Vancomycin With Novel pH-Responsive Lipids as Antibacterial Biomaterials Via Accelerated Molecular Dynamics and Binding Free Energy Calculations.

    abstract::Nano-drug delivery systems have proven to be an efficient formulation tool to overcome the challenges with current antibiotics therapy and resistance. A series of pH-responsive lipid molecules were designed and synthesized for future liposomal formulation as a nano-drug delivery system for vancomycin at the infection ...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-017-0786-5

    authors: Ahmed S,Vepuri SB,Jadhav M,Kalhapure RS,Govender T

    更新日期:2018-06-01 00:00:00

  • Biorheological action of Ascaris lumbricoides larvae on human erythrocytes.

    abstract::Previous studies have shown that A. lumbricoides extracts capture sialic acid (SA) from human red blood cells (RBC). The aim of this work was to study hemorheological alterations in vitro caused by parasite larvae. The biorheological action of three larva concentrates of first and second larval stage on group O erythr...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-012-9425-3

    authors: de León PP,Del Balzo G,Riquelme B

    更新日期:2013-03-01 00:00:00

  • Transarterial Chemoembolization of Giant Liver Haemangioma: A Multi-center Study with 836 Cases.

    abstract::The purpose of the study is to evaluate the effectiveness and safety of transarterial chemoembolization (TACE) with pingyangmycin-lipiodol emulsion for the treatment of symptomatic giant hepatic haemangioma. Four hospitals (The Second Hospital of Shandong University, Qilu Hospital of Shandong University, Shandong Prov...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章,多中心研究

    doi:10.1007/s12013-015-0680-y

    authors: Li Y,Jia Y,Li S,Wang W,Wang Z,Wang Y,Liu B,Wang W,Chang H,Li Z

    更新日期:2015-11-01 00:00:00

  • Hemodiafiltration combined with resin-mediated absorption as a therapy for hyperlipidemic acute pancreatitis.

    abstract::The aim of this study is to investigate whether hemodiafiltration combined with resin-mediated absorption is a better therapy for hyperlipidemic acute pancreatitis. Patients (n = 67) with acute pancreatitis treated in ICU from January 2009 to December 2012 were included in this study. Seven of these 67 cases were diag...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-014-9855-1

    authors: Li MQ,Shi ZX,Xu JY,Lu B,Li JQ,Xu YJ,Wang XM,Li SM,Mo X

    更新日期:2014-07-01 00:00:00

  • Expression and functional significance of ezrin in human brain astrocytoma.

    abstract::Ezrin is overexpressed in a variety of neoplastic cells and is involved in the later stages of tumor progression and metastasis. The present study investigated the expression and functional significance of ezrin in human brain astrocytoma. Ezrin expression was examined in specimens from healthy human brains (10 autops...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-013-9653-1

    authors: Mao J,Yuan XR,Xu SS,Jiang XC,Zhao XT

    更新日期:2013-01-01 00:00:00

  • The effect of stromal cell-derived factor 1 in the migration of neural stem cells.

    abstract::Neural stem cells (NSCs) have widely been used in the treatment of human neurological disorders as cell therapy via intracerebral or intraventricular infusion. However, the migration mechanism required for NSCs homing and recruitment remains to be elucidated. Recently, SDF-1/CXCR4 axis was shown to be responsible for ...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-014-0103-5

    authors: Xue L,Wang J,Wang W,Yang Z,Hu Z,Hu M,Ding P

    更新日期:2014-12-01 00:00:00

  • Deciphering Biophysical Modulation in Ovarian Cancer Cells.

    abstract::It has been long known that the oncogenic extracellular environment plays an indispensable role in developing and nurturing cancer cell progression and in resistance to standard treatments. However, by how much the biophysical components of tumour extracellular environment contribute to these processes is uncertain. I...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-020-00964-9

    authors: Sarwar M,Sykes PH,Chitcholtan K,Evans JJ

    更新日期:2021-01-12 00:00:00

  • Association with leptin gene C.-2548 G>A polymorphism, serum leptin levels, and body mass index in Turkish obese patients.

    abstract::Leptin is a protein hormone which plays a critical role in the regulation of both body-weight through reducing food intake and stimulating energy expenditure. Several polymorphisms in leptin gene (LEP), which encodes for leptin, have been described. However, its association with obesity is still controversial. Therefo...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-012-9427-1

    authors: Sahin DS,Tumer C,Demir C,Celik MM,Celik M,Ucar E,Gunesacar R

    更新日期:2013-03-01 00:00:00

  • Introducing a New Model of Sweet Taste Receptor, a Class C G-protein Coupled Receptor (C GPCR).

    abstract::The structure of sweet taste receptor (STR), a heterodimer of class C G-protein coupled receptors comprising T1R2 and T1R3 molecules, is still undetermined. In this study, a new enhanced model of the receptor is introduced based on the most recent templates. The improvement, stability, and reliability of the model are...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-019-00872-7

    authors: Kashani-Amin E,Sakhteman A,Larijani B,Ebrahim-Habibi A

    更新日期:2019-09-01 00:00:00

  • Regulation of the NPT gene by a naturally occurring antisense transcript.

    abstract::The epithelial Na/Pi cotransporter (NaPi-II) is instrumental in maintaining phosphate (Pi) homeostasis in vertebrates. Hormones and metabolic factors (PTH, Pi availability) that acutely influence renal Pi excretion have been demonstrated to target NaPi-II expression. Upon stimulation, newly synthesized transporter mol...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章,评审

    doi:10.1385/CBB:36:2-3:241

    authors: Werner A,Preston-Fayers K,Dehmelt L,Nalbant P

    更新日期:2002-01-01 00:00:00

  • Experiences of microsurgical reconstruction for variant hepatic artery in living donor liver transplantation.

    abstract::There is an emergent need for improving the microsurgical technique of variant arterial anastomosis to reduce the often seen surgery-related complications. We describe in this article our experience in improving this technique, in 73 living donor liver grafts (64 right lobes, 9 left lobes) in patients with end-stage l...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-012-9421-7

    authors: Liang Y,Ye S,Shi X,Ji W,Duan W,Luo Y,Dong J

    更新日期:2013-03-01 00:00:00

  • Comparison of Gene Expression Profile Between Tumor Tissue and Adjacent Non-tumor Tissue in Patients with Gastric Gastrointestinal Stromal Tumor (GIST).

    abstract::Gastrointestinal stromal tumors (GISTs) are defined as spindle cell and/or epithelioid tumors originated from interstitial Cajal cells or precursors in the digestive tract. This study was conducted to identify genes differing in expression between the gastric tumors and the adjacent non-cancerous mucosas in patients w...

    journal_title:Cell biochemistry and biophysics

    pub_type: 杂志文章

    doi:10.1007/s12013-014-0504-5

    authors: Kou Y,Zhao Y,Bao C,Wang Q

    更新日期:2015-06-01 00:00:00