cran: NPS | Projects | Ecosyste.ms: Papers

10.3389/fgene.2012.00320

NSeq: a multithreaded Java application for finding positioned nucleosomes from sequencing data
Cited by: 7
Author(s): Abhinav Nellore, Konstantin K. Bobkov, Elizabeth D. Howe, Aleksandr Pankov, Aaron A. Diaz, Jun S. Song
Software Mentions: 4
Published: over 11 years ago

10.1186/1741-7007-5-37

The DNA binding parvulin Par17 is targeted to the mitochondrial matrix by a recently evolved prepeptide uniquely present in Hominidae
Cited by: 31
Author(s): Daniel S. Kessler, Panagiotis Papatheodorou, Tina Stratmann, Elke A. Dian, Cristina Hartmann-Fatu, Joachim Rassow, Peter Bayer, Jonathan Wolf Mueller
Software Mentions: 3
Published: almost 17 years ago

10.1371/journal.pone.0032095

Probabilistic Inference for Nucleosome Positioning with MNase-Based or Sonicated Short-Read Data
Cited by: 20
Author(s): Xuekui Zhang, Gordon Robertson, Sangsoon Woo, Brad G. Hoffman, Raphaël Gottardo
Software Mentions: 3
Published: over 12 years ago

10.1093/bioinformatics/bts719

NucleoFinder: a statistical approach for the detection of nucleosome positions
Cited by: 18
Author(s): Jérémie Becker, Christopher Yau, John M. Hancock, Connor Holmes
Software Mentions: 2
Published: over 11 years ago

10.3389/fpls.2015.00440

A cupin domain-containing protein with a quercetinase activity (VdQase) regulates Verticillium dahliae's pathogenicity and contributes to counteracting host defenses
Cited by: 21
Author(s): Abdelbasset El Hadrami, Md. Rashidul Islam, Lorne R. Adam, Fouad Daayf
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pgen.1003778

Regulation of the Boundaries of Accessible Chromatin
Cited by: 16
Author(s): Xiaoran Chai, Sanjanaa Nagarajan, Kwoneel Kim, Kibaick Lee, Jung Kyoon Choi
Software Mentions: 2
Published: about 11 years ago

10.1186/1471-2164-13-630

A histone arginine methylation localizes to nucleosomes in satellite II and III DNA sequences in the human genome
Cited by: 10
Author(s): Daniel Capurso, Hao Xiong, Mark R. Segal
Software Mentions: 2
Published: almost 12 years ago

10.1186/s12859-020-03780-3

Impact of concurrency on the performance of a whole exome sequencing pipeline
Cited by: 3
Author(s): Daniele Dall’Olio, Nico Curti, Eugenio Fonzi, Claudia Sala, Daniel Remondini, Gastone Castellani, Enrico Giampieri
Software Mentions: 2
Published: over 3 years ago

10.1128/mBio.01564-17

An <i>Alphavirus</i> E2 Membrane-Proximal Domain Promotes Envelope Protein Lateral Interactions and Virus Budding
Cited by: 20
Author(s): Emily A. Byrd, Margaret Kielian
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0073227

Functional Characterization of the Human Mariner Transposon Hsmar2
Cited by: 2
Author(s): Estel Gil-Guiñón, Assumpció Bosch, David J. Lampe, José M. Lizcano, José C. Perales, Olivier Danos, Miguel Chillón
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0062287

Molecular Clone and Expression of a NAD+-Dependent Glycerol-3-Phosphate Dehydrogenase Isozyme Gene from the Halotolerant alga Dunaliella salina
Cited by: 18
Author(s): Chunzi Ma, Linghui He, YU Tu-yuan
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pgen.1005383

TFIIS-Dependent Non-coding Transcription Regulates Developmental Genome Rearrangements
Cited by: 28
Author(s): Kamila Maliszewska‐Olejniczak, Julita Gruchota, Robert Gromadka, Cyril Denby Wilkes, Olivier Arnaiz, Nathalie Mathy, Sandra Duharcourt, Mireille Bétermier, J Nowak
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pgen.1003558

H3.3-H4 Tetramer Splitting Events Feature Cell-Type Specific Enhancers
Cited by: 59
Author(s): H. W. Chang, Zhuqiang Zhang, Min Xu, Yingfeng Li, Zhen Li, Yanting Ma, Tao Cai, Bing Zhu
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pntd.0002906

Cytokine Production but Lack of Proliferation in Peripheral Blood Mononuclear Cells from Chronic Chagas' Disease Cardiomyopathy Patients in Response to T. cruzi Ribosomal P Proteins
Cited by: 32
Author(s): Silvia Andrea Longhi, Augusto Atienza, Graciela Perez Prados, Alcinette Buying, Virginia Balouz, Carlos A. Buscaglia, Radleigh Santos, Laura Mónica Tasso, Ricardo Bonato, Pablo A. Chiale, Clemencia Pinilla, Valeria Judkowski, Karina Andrea Gómez
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0086375

A New Mathematical Model for the Interpretation of Translational Research Evaluating Six CTLA-4 Polymorphisms in High-Risk Melanoma Patients Receiving Adjuvant Interferon
Cited by: 3
Author(s): Petr Pančoška, John M. Kirkwood, Spyros Bouros, Maria Spyropoulou-Vlachou, Eirini Pectasides, Dimosthenis Tsoutsos, Aristidis Polyzos, Christos Markopoulos, P. Panagiotou, Ourania Castana, Dimitrios Bafaloukos, George Fountzilas, Helen Gogas
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0177591

Plant cell wall glycosyltransferases: High-throughput recombinant expression screening and general requirements for these challenging enzymes
Cited by: 14
Author(s): Ditte Hededam Welner, David Shin, Giovani Pinton Tomaleri, Andy DeGiovanni, Alex Yi‐Lin Tsai, Huu M. Tran, Sara Fasmer Hansen, Derek T. Green, Henrik Vibe Scheller, Paul D. Adams
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0029559

Human PAPS Synthase Isoforms Are Dynamically Regulated Enzymes with Access to Nucleus and Cytoplasm
Cited by: 33
Author(s): Elisabeth Schröder, Lena Gebel, Andrey A. Eremeev, Jessica Morgner, Daniel Grum, Shirley K. Knauer, Peter Bayer, Jonathan Wolf Mueller
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0024753

MMP Mediated Degradation of Type VI Collagen Is Highly Associated with Liver Fibrosis – Identification and Validation of a Novel Biochemical Marker Assay
Cited by: 130
Author(s): Sanne Skovgård Veidal, Morten A. Karsdal, Efstathios Vassiliadis, Arkadiusz Nawrocki, Martin R. Larsen, Quoc Hai Trieu Nguyen, Per Hägglund, Yunyun Luo, Qinlong Zheng, Ben Vainer, Diana Julie Leeming
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0012250

The Protease Inhibitor Alpha-2-Macroglobuline-Like-1 Is the p170 Antigen Recognized by Paraneoplastic Pemphigus Autoantibodies in Human
Cited by: 97
Author(s): Isabelle Schepens, Fabienne Jaunin, Nadja Begré, Ursula Läderach, Katrin Marcus, Takashi Hashimoto, Bertrand Favre, Luca Borradori
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0058964

The Structure of HasB Reveals a New Class of TonB Protein Fold
Cited by: 22
Author(s): Gisele Cardoso de Amorim, Ada Prochnicka-Chalufour, Philippe Delepelaire, Julien Lefèvre, Catherine Simenel, Cécile Wandersman, Muriel Delepierre, Nadia Izadi-Pruneyre
Software Mentions: 1
Published: over 11 years ago

10.1093/database/bau013

BCL2DB: database of BCL-2 family members and BH3-only proteins
Cited by: 16
Author(s): Valentine Rech de Laval, Gilbert Deléage, Abdel Aouacheria, Christophe Combet
Software Mentions: 1
Published: over 10 years ago

10.3390/genes10050322

Cloning of pcB and pcA Gene from Gracilariopsis lemaneiformis and Expression of a Fluorescent Phycocyanin in Heterologous Host
Cited by: 5
Author(s): Deguang Sun, Xiaonan Zang, Yalin Guo, Dongfang Xiao, Xuexue Cao, Lu Zhu, Feng Zhang, Yuming Jin, Jing Shi, Zhendong Wang, Rui Li, Zhaxi Yangzong
Software Mentions: 1
Published: over 5 years ago

10.1120/jacmp.v3i1.2586

Anatomic variation of prescription points and treatment volume with fractionated high-dose rate gynecological brachytherapy
Cited by: 7
Author(s): Osman A. Elhanafy, Rupak K. Das, Bhudatt R. Paliwal, M. D. Migahed, Hanim A. Sakr, Mostafa A E M El-Leithy
Software Mentions: 1
Published: over 22 years ago

10.1120/jacmp.v2i3.2604

Comparison of two planning systems for HDR brachytherapy gynecological application
Cited by: 5
Author(s): Osman A. Elhanafy, M. D. Migahed, Hanim A. Sakr, Mostafa Ellithy, Rupak K. Das, Heath Odau, Bruce R. Thomadsen
Software Mentions: 1
Published: over 23 years ago

10.1371/journal.ppat.1002964

Plasmodium falciparum Gametocyte Development 1 (Pfgdv1) and Gametocytogenesis Early Gene Identification and Commitment to Sexual Development
Cited by: 114
Author(s): Saliha Ekşi, Belinda Joan Morahan, Yoseph Haile, Tetsuya Furuya, Hongying Jiang, Omar Ali, Huichun Xu, Kirakorn Kiattibutr, Amreena Suri, Beata Czesny, Adebowale Adeyemo, Timothy G. Myers, Jetsumon Sattabongkot, Xin‐zhuan Su, Kim C. Williamson
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.ppat.1005276

Arenavirus Glycan Shield Promotes Neutralizing Antibody Evasion and Protracted Infection
Cited by: 129
Author(s): Rami Sommerstein, Lukas Flatz, Melissa M Remy, Pauline Malinge, Giovanni Magistrelli, Nicolas Fischer, Sahin Mehmet, Andréas Bergthaler, Sébastien Igonet, Jan ter Meulen, Rigo Dorothée, Meda Paolo, Nadia Rabah, Bruno Coutard, Thomas A. Bowden, Paul Henri Lambert, Claire‐Anne Siegrist, Daniel D. Pinschewer
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.ppat.1007044

The HTLV-1 gp21 fusion peptide inhibits antigen specific T-cell activation in-vitro and in mice
Cited by: 0
Author(s): Etai Rotem, Omri Faingold, Meital Charni, Yoel A. Klug, Daniel Harari, Liraz Shmuel-Galia, Alon Nudelman, Varda Rotter, Yechiel Shai
Software Mentions: 1
Published: over 6 years ago

10.1155/2020/6530279

Keratoconus Diagnosis: Validation of a Novel Parameter Set Derived from IOP-Matched Scenario
Cited by: 0
Author(s): Dan Lin, Lei Tian, Shu Zhang, Like Wang, Ying Jin, Yongjin Zhou
Software Mentions: 1
Published: almost 4 years ago

10.1186/1471-2105-7-255

Prediction of amphipathic in-plane membrane anchors in monotopic proteins using a SVM classifier
Cited by: 123
Author(s): Nicolas Sapay, Yann Guermeur, Gilbert Deléage
Software Mentions: 1
Published: over 18 years ago

10.1186/1479-5876-10-140

Clinical evaluation of a matrix metalloproteinase-12 cleaved fragment of titin as a cardiovascular serological biomarker
Cited by: 17
Author(s): Efstathios Vassiliadis, Lars Melholt Rasmussen, I. Byrjalsen, Dorthe Vang Larsen, Rajiv Chaturvedi, Susanne Hosbond, Lotte Saabye, Axel Cosmus Pyndt Diederichsen, Federica Genovese, Kevin L. Duffin, Qinlong Zheng, Xiaoliang Chen, Diana Julie Leeming, Claus Christiansen, Morten A. Karsdal
Software Mentions: 1
Published: about 12 years ago

10.1186/1471-2105-8-S7-S5

Structure and function predictions of the Msa protein in Staphylococcus aureus
Cited by: 16
Author(s): Vijayaraj Nagarajan, Mohamed O. Elasri
Software Mentions: 1
Published: almost 17 years ago

10.1186/1471-2164-11-S4-S3

Sequence-dependent histone variant positioning signatures
Cited by: 5
Author(s): Ngoc Tu Le, Tu Bao Ho, Bich Hai Ho
Software Mentions: 1
Published: over 14 years ago

10.1186/s12882-017-0719-y

Identification of compound heterozygous patients with primary hyperoxaluria type 1: clinical evaluations and in silico investigations
Cited by: 6
Author(s): Houda Kanoun, F. Jarraya, B. Maalej, A. Lahiani, H. Mahfoudh, F. Makni, J. Hachicha, Faiza Fakhfakh
Software Mentions: 1
Published: almost 7 years ago

10.3390/biology10070603

Secondary Structure of the Novel Myosin Binding Domain WYR and Implications within Myosin Structure
Cited by: 3
Author(s): Lynda M. Menard, Neil B. Wood, Jim O. Vigoreaux
Software Mentions: 1
Published: about 3 years ago

10.1155/2019/1031839

Computational Approach for Structural Feature Determination of Grapevine NHX Antiporters
Cited by: 3
Author(s): Mariem Ayadi, Rayda Ben Ayed, Rim Mzid, Sami Aifa, Mohsen Hanana
Software Mentions: 1
Published: over 5 years ago

10.3390/ma13102217

Development of Bonded/Riveted Steel Anchorages of Prestressed CFRP Strips for Concrete Strengthening
Cited by: 11
Author(s): Bartosz Piątek, Tomasz Siwowski, J. Michałowski, S. Błażewicz
Software Mentions: 1
Published: over 4 years ago

10.1002/mbo3.846

Arginine within a specific motif near the N‐terminal of FimY is critical for the maximal production of type 1 fimbriae in <i>Salmonella enterica</i> serovar Typhimurium
Cited by: 4
Author(s): Nan‐Ling Kuan, Kuang‐Sheng Yeh
Software Mentions: 1
Published: over 5 years ago

10.3390/molecules24071235

A Resolution-Free Parallel Algorithm for Image Edge Detection within the Framework of Enzymatic Numerical P Systems
Cited by: 9
Author(s): Jianying Yuan, Dequan Guo, Gexiang Zhang, Prithwineel Paul, Ming Zhu, Qiang Yang
Software Mentions: 1
Published: over 5 years ago

10.3390/ph14070643

Dissociative Effects of Neuropeptide S Receptor Deficiency and Nasal Neuropeptide S Administration on T-Maze Discrimination and Reversal Learning
Cited by: 0
Author(s): Ahmet Oguzhan Bicakci, Pei-Ling Tsai, Evelyn Kahl, Dana Mayer, Markus Fendt
Software Mentions: 1
Published: about 3 years ago

10.1371/journal.pcbi.1000834

Learning a Weighted Sequence Model of the Nucleosome Core and Linker Yields More Accurate Predictions in Saccharomyces cerevisiae and Homo sapiens
Cited by: 20
Author(s): Sheila M. Reynolds, Jeff Bilmes, William Stafford Noble
Software Mentions: 1
Published: about 14 years ago

Projects: cran: NPS

Papers Mentioning NPS 40