pypi: AMD | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2019.01793

The Inducible Response of the Nematode Caenorhabditis elegans to Members of Its Natural Microbiota Across Development and Adult Life
Cited by: 22
Author(s): Wentao Yang, Carola Petersen, Barbara Pees, Johannes Zimmermann, Silvio Waschina, Philipp Dirksen, Philip Rosenstiel, Andreas Tholey, Matthias Leippe, Katja Dierking, Christoph Kaleta, Hinrich Schulenburg
Software Mentions: 9
Published: over 5 years ago

10.1038/s41598-018-38195-x

Shared cis-regulatory architecture identified across defense response genes is associated with broad-spectrum quantitative resistance in rice
Cited by: 5
Author(s): Bradley W. Tonnessen, A. M. Bossa-Castro, Ramil Mauleon, Nickolai Alexandrov, Jan E. Leach
Software Mentions: 7
Published: almost 6 years ago

10.1093/bioinformatics/btz855

Improved linking of motifs to their TFs using domain information
Cited by: 1
Author(s): Nina Baumgarten, Florian Schmidt, Marcel H. Schulz
Software Mentions: 6
Published: about 5 years ago

10.1186/1471-2164-15-982

Retinal transcriptome profiling at transcription start sites: a cap analysis of gene expression early after axonal injury
Cited by: 19
Author(s): Masayuki Yasuda, Yuji Tanaka, Koji M. Nishiguchi, Morin Ryu, S. Tsuda, Kouichi Maruyama, Toru Nakazawa
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pcbi.1005931

Predicting pathogenicity behavior in Escherichia coli population through a state dependent model and TRS profiling
Cited by: 3
Author(s): Krzysztof Bartoszek, Marta Majchrzak, Sebastian Sakowski, Anna B. Kubiak-Szeligowska, Ingemar Kaj, Paweł Parniewski
Software Mentions: 4
Published: almost 7 years ago

10.1371/journal.pntd.0008275

Prediction pipeline for discovery of regulatory motifs associated with Brugia malayi molting
Cited by: 32
Author(s): Alexandra Grote, Yichao Li, Canhui Liu, Denis Voronin, Adam Geber, Sara Lustigman, Thomas R. Unnasch, Elodie Ghedin
Software Mentions: 3
Published: over 4 years ago

10.3325/cmj.2019.60.369

Tensors all around us
Cited by: 1
Author(s): Branimir K. Hackenberger
Software Mentions: 3
Published: over 5 years ago

10.1093/database/bav050

A general concept for consistent documentation of computational analyses
Cited by: 9
Author(s): Peter Ebert, Fabian Müller, Karl Nordström, Thomas Lengauer, Marcel H. Schulz
Software Mentions: 3
Published: almost 10 years ago

10.1186/1756-8722-6-25

Structurally differentiated cis-elements that interact with PU.1 are functionally distinguishable in acute promyelocytic leukemia
Cited by: 12
Author(s): Maoxiang Qian, Ji Wen, Xuehua Zhu, Xiaohong Jia, Xian‐Wen Yang, Yanzhi Du, Kankan Wang, Ji Zhang
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.ppat.1008826

The C. elegans GATA transcription factor elt-2 mediates distinct transcriptional responses and opposite infection outcomes towards different Bacillus thuringiensis strains
Cited by: 19
Author(s): Alejandra Zárate-Potes, Wentao Yang, Barbara Pees, Rebecca Schalkowski, Philipp Segler, Bentje Andresen, Daniela Haase, Rania Nakad, Philip Rosenstiel, Guillaume Tetreau, Jacques‐Philippe Colletier, Hinrich Schulenburg, Katja Dierking
Software Mentions: 3
Published: about 4 years ago

10.1093/bioinformatics/btw167

pileup.js: a JavaScript library for interactive and in-browser visualization of genomic data
Cited by: 21
Author(s): Dan Vanderkam, Bülent Arman Aksoy, Isaac Hodes, Jaclyn Perrone, Jeff Hammerbacher
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-016-2603-8

Contrasting invertebrate immune defense behaviors caused by a single gene, the Caenorhabditis elegans neuropeptide receptor gene npr-1
Cited by: 40
Author(s): Rania Nakad, L. Basten Snoek, Wentao Yang, Sunna Ellendt, Franziska Schneider, Timm G. Mohr, Lone Rösingh, Anna Cäcilia Masche, Philip Rosenstiel, Katja Dierking, J.E. Kammenga, Hinrich Schulenburg
Software Mentions: 3
Published: over 8 years ago

10.1186/s12859-017-1917-0

Cache and energy efficient algorithms for Nussinov’s RNA Folding
Cited by: 20
Author(s): Chenhao Zhao, Sartaj Sahni
Software Mentions: 3
Published: almost 7 years ago

10.3390/s18010294

Game-Theoretical Design of an Adaptive Distributed Dissemination Protocol for VANETs
Cited by: 18
Author(s): Cristhian Iza Paredes, Ahmad Mohamad Mezher, Mónica Aguilar Igartua, Jordi Forné
Software Mentions: 2
Published: almost 7 years ago

10.1038/s41433-021-01503-3

AI-based structure-function correlation in age-related macular degeneration
Cited by: 6
Author(s): Leon von der Emde, Maximilian Pfau, Frank G. Holz, Monika Fleckenstein, Karsten Kortuem, Pearse A. Keane, Daniel L. Rubin, Steffen Schmitz-Valckenberg
Software Mentions: 2
Published: over 3 years ago

10.12688/f1000research.2-131.v2

Reliability and reproducibility of spectral and time domain optical coherence tomography images before and after correction for patients with age-related macular degeneration
Cited by: 3
Author(s): Mohammad Ali Sadiq, Aymen Rashid, Roomasa Channa, Elham Hatef, V. Diana, Quan Dong Nguyen, Yasir J. Sepah
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pcbi.1004620

NMR Methods to Study Dynamic Allostery
Cited by: 58
Author(s): Sarina Grutsch, Sven Brüschweiler, Martin Tollinger
Software Mentions: 2
Published: over 8 years ago

10.3390/plants9121751

Identification of Cis-Regulatory Sequences Controlling Pollen-Specific Expression of Hydroxyproline-Rich Glycoprotein Genes in Arabidopsis thaliana
Cited by: 3
Author(s): Yichao Li, Maxwell Mullin, Yingnan Zhang, Frank A. Drews, Lonnie R. Welch, Allan M. Showalter
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pgen.1009534

Novel EDGE encoding method enhances ability to identify genetic interactions
Cited by: 5
Author(s): Molly A. Hall, John R. Wallace, Anastasia Lucas, Yuki Bradford, Shefali S. Verma, Bertram Müller‐Myhsok, Kristin Passero, Jiayan Zhou, John McGuigan, Beibei Jiang, Sarah A. Pendergrass, Yanfei Zhang, Peggy L. Peissig, Murray H. Brilliant, Patrick Sleiman, Hákon Hákonarson, John B. Harley, Krzysztof Kiryluk, Kristel Van Steen, Jason H. Moore, Marylyn D. Ritchie
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0130887

Achieving High Resolution Timer Events in Virtualized Environment
Cited by: 5
Author(s): Błażej Adamczyk, Andrzej Chydziński
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0209218

Impacts of impaired face perception on social interactions and quality of life in age-related macular degeneration: A qualitative study and new community resources
Cited by: 36
Author(s): Jo Lane, Emilie Rohan, Faran Sabeti, Rohan W. Essex, Ted Maddess, Amy Dawel, Rachel Robbins, Nick Barnes, Xuming He, Elinor McKone
Software Mentions: 2
Published: almost 6 years ago

10.1186/1471-2105-15-165

Cache-Oblivious parallel SIMD Viterbi decoding for sequence search in HMMER
Cited by: 11
Author(s): Miguel Ferreira, Nuno Roma, Luís M. S.Russo
Software Mentions: 2
Published: over 10 years ago

10.1186/s13071-016-1953-z

Regional level risk factors associated with the occurrence of African swine fever in West and East Africa
Cited by: 10
Author(s): Zheng Huang, Frank van Langevelde, Karanina J. Honer, Marc Naguib, Willem F. de Boer
Software Mentions: 2
Published: almost 8 years ago

10.3390/ph14090856

Hypoglycemic Activity of Aqueous Extract of Latex from Hancornia speciosa Gomes: A Study in Zebrafish and In Silico
Cited by: 1
Author(s): Rosana Tomazi, Ângela Costa Figueira, Adriana Maciel Ferreira, Diego Quaresma Ferreira, Gisele Custódio de Souza, Wandson Braamcamp de Souza Pinheiro, José Rodrigues Pinheiro Neto, Geilson Alcantara da Silva, Henrique Barros de Lima, Lorane Izabel da Silva Hage‐Melim, Arlindo César Matias Pereira, José Carlos Tavares Carvalho, Sheylla Susan Moreira da Silva de Almeida
Software Mentions: 2
Published: about 3 years ago

10.3389/fnbot.2020.578675

Detecting Changes and Avoiding Catastrophic Forgetting in Dynamic Partially Observable Environments
Cited by: 0
Author(s): Jeffery Dick, Paweł Ładosz, Eseoghene Ben-Iwhiwhu, Hideyasu Shimadzu, Peter Kinnell, Praveen K. Pilly, Soheil Kolouri, Andrea Soltoggio
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0184185

TSS-Seq analysis of low pH-induced gene expression in intercalated cells in the renal collecting duct
Cited by: 4
Author(s): Izumi Yokoyama, Hideki Inoue, Yushi Nakayama, Koji Eguchi, Yukiko Yasuoka, Naomi Matsuo, Hiroshi Nonoguchi, Yutaka Kakizoe, Tomohiko Kuwabara, Masashi Mukoyama
Software Mentions: 2
Published: about 7 years ago

10.3390/s16060920

The Traffic Adaptive Data Dissemination (TrAD) Protocol for both Urban and Highway Scenarios
Cited by: 11
Author(s): Bin Tian, Kun Mean Hou, Haiying Zhou
Software Mentions: 2
Published: over 8 years ago

10.1038/srep09095

The relationship between grain boundary structure, defect mobility and grain boundary sink efficiency
Cited by: 133
Author(s): Blas P. Uberuaga, Louis J. Vernon, E. Martínez, Arthur F. Voter
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-017-02428-2

The mobility of small vacancy/helium complexes in tungsten and its impact on retention in fusion-relevant conditions
Cited by: 43
Author(s): Danny Pérez, Luis Sandoval, Sophie Blondel, Brian D. Wirth, Blas P. Uberuaga, Arthur F. Voter
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-03551-w

Predictors of chronic kidney disease in type 1 diabetes: a longitudinal study from the AMD Annals initiative
Cited by: 20
Author(s): Pamela Piscitelli, Francesca Viazzi, Paola Fioretto, Carlo Giorda, Antonio Ceriello, Stefano Genovese, Giuseppina Russo, Pietro Guida, Roberto Pontremoli, Salvatore De Cosmo
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-08501-0

Onset of static and dynamic universality among molecular models of polymers
Cited by: 14
Author(s): Kazuaki Z. Takahashi, Ryuto Nishimura, Nobuyoshi Yamato, Kenji Yasuoka, Yuichi Masubuchi
Software Mentions: 1
Published: about 7 years ago

10.3390/s120505791

Detection of (In)activity Periods in Human Body Motion Using Inertial Sensors: A Comparative Study
Cited by: 47
Author(s): Alberto Olivares, Javier Ramı́rez, Juan Manuel Górriz, Gonzalo Quintero Olivares, Miguel Damas
Software Mentions: 1
Published: over 12 years ago

10.3390/s120709181

A Unifying Review of Bioassay-Guided Fractionation, Effect-Directed Analysis and Related Techniques
Cited by: 128
Author(s): Michael G. Weller
Software Mentions: 1
Published: over 12 years ago

10.3390/s140305702

Fully Distributed Monitoring Architecture Supporting Multiple Trackees and Trackers in Indoor Mobile Asset Management Application
Cited by: 24
Author(s): Seonhyang Jeong, Hyeong Gon Jo, Soon Ju Kang
Software Mentions: 1
Published: over 10 years ago

10.1186/2193-1801-3-83

Benchmarking network for clinical and humanistic outcomes in diabetes (BENCH-D) study: protocol, tools, and population
Cited by: 25
Author(s): Antonio Nicolucci, Maria Chiara Rossi, Fabio Pellegrini, Giuseppe Lucisano, Basilio Pintaudi, Sandro Gentile, Giampiero Marra, Søren E. Skovlund, G Vespasiani
Software Mentions: 1
Published: almost 11 years ago

10.1128/mSystems.00504-19

The Generalized Matrix Decomposition Biplot and Its Application to Microbiome Data
Cited by: 6
Author(s): Yue Wang, Timothy W. Randolph, Ali Shojaie, Jing Ma
Software Mentions: 1
Published: almost 5 years ago

10.3390/ijms21249752

Associations between the Complement System and Choroidal Neovascularization in Wet Age-Related Macular Degeneration
Cited by: 10
Author(s): Emilie Grarup Jensen, Thomas Stax Jakobsen, Steffen Thiel, Anne Louise Askou, Thomas J. Corydon
Software Mentions: 1
Published: almost 4 years ago

10.2196/16922

Artificial Intelligence and Big Data in Diabetes Care: A Position Statement of the Italian Association of Medical Diabetologists
Cited by: 17
Author(s): Nicoletta Musacchio, Annalisa Giancaterini, Giacomo Guaita, Alessandro Ozzello, Maria Antonietta Pellegrini, Paola Ponzani, Giuseppina Russo, Rita Zilich, A Micheli
Software Mentions: 1
Published: over 4 years ago

10.18632/aging.203000

C/EBPα is indispensable for PML/RARα-mediated suppression of long non-coding RNA NEAT1 in acute promyelocytic leukemia cells
Cited by: 0
Author(s): Doudou Tang, Piao Hu, Dengqin Zhu, Yujiao Luo, Mingjie Chen, Guangsen Zhang, Yewei Wang
Software Mentions: 1
Published: over 3 years ago

10.18632/oncotarget.18816

Antihyperglycemic treatment in patients with type 2 diabetes in Italy: the impact of age and kidney function
Cited by: 7
Author(s): S Gentile, Pamela Piscitelli, Francesca Viazzi, Giuseppina Russo, Antonio Ceriello, Carlo Giorda, Piero Guida, Paola Fioretto, Roberto Pontremoli, Felice Strollo, Salvatore De Cosmo
Software Mentions: 1
Published: over 7 years ago

10.3390/ani9050202

A Survey of Italian Dairy Farmers’ Propensity for Precision Livestock Farming Tools
Cited by: 27
Author(s): F. Abeni, F. Petrera, Andrea Galli
Software Mentions: 1
Published: over 5 years ago

10.1186/s12882-018-1136-6

Association of kidney disease measures with risk of renal function worsening in patients with type 1 diabetes
Cited by: 2
Author(s): Antonio Mirijello, Francesca Viazzi, Paola Fioretto, Carlo Giorda, Antonio Ceriello, Giuspina T. Russo, Pietro Guida, Roberto Pontremoli, Salvatore De Cosmo
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12933-021-01251-4

Clinical profiles and quality of care of subjects with type 2 diabetes according to their cardiovascular risk: an observational, retrospective study
Cited by: 18
Author(s): Basilio Pintaudi, Alessia Scatena, G. Piscitelli, Vera Frison, Salvatore Corrao, Valeria Manicardi, Giusi Graziano, Maria Chiara Rossi, Marco Gallo, Domenico Mannino, Paolo Di Bartolo, Antonio Nicolucci
Software Mentions: 1
Published: over 3 years ago

10.21315/mjms2021.28.2.3

Honouring Wishes of Patients: An Islamic View on the Implementation of the Advance Medical Directive in Malaysia
Cited by: 0
Author(s): Mohammad Mustaqim Malek, Shaikh Mohd Saifuddeen, Noor Naemah Abdul Rahman, Aimi Nadia Mohd Yusof, Wan Roslili Abdul Majid
Software Mentions: 1
Published: over 3 years ago

10.3390/ma12162500

An Overview of Recent Standard and Accelerated Molecular Dynamics Simulations of Helium Behavior in Tungsten
Cited by: 6
Author(s): Luis Sandoval, Danny Pérez, Blas P. Uberuaga, Arthur F. Voter
Software Mentions: 1
Published: over 5 years ago

10.3897/zookeys.833.30936

Pentaneurella katterjokki Fittkau & Murray (Chironomidae, Tanypodinae): redescription and phylogenetic position
Cited by: 0
Author(s): Fabio Laurindo da Silva, Elisabeth Stur
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj-cs.359

Addressing multiple bit/symbol errors in DRAM subsystem
Cited by: 1
Author(s): Ravikiran Yeleswarapu, Arun K. Somani
Software Mentions: 1
Published: almost 4 years ago

10.1080/13880209.2017.1285945

Ameliorating effect of<i>Celastrus paniculatus</i>standardized extract and its fractions on 3-nitropropionic acid induced neuronal damage in rats: possible antioxidant mechanism
Cited by: 40
Author(s): Jai Malik, Maninder Karan, Rachna Dogra
Software Mentions: 1
Published: almost 8 years ago

10.1039/c3cp53962h

Free energy landscape of G-protein coupled receptors, explored by accelerated molecular dynamics
Cited by: 68
Author(s): Yinglong Miao, Sara E. Nichols, J. Andrew McCammon
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0143085

The Chronic Care for Wet Age Related Macular Degeneration (CHARMED) Study: A Randomized Controlled Trial
Cited by: 10
Author(s): Stefan Markun, Avraham Dishy, Stefan Neuner-Jehle, Thomas Rosemann, Anja Frei
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0122548

Smoking, Antioxidant Supplementation and Dietary Intakes among Older Adults with Age-Related Macular Degeneration over 10 Years
Cited by: 16
Author(s): Bamini Gopinath, Victoria M Flood, Annette Kifley, Gerald Liew, Paul Mitchell
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0024576

AMD, an Automated Motif Discovery Tool Using Stepwise Refinement of Gapped Consensuses
Cited by: 24
Author(s): Jiantao Shi, Wentao Yang, Mingjie Chen, Yanzhi Du, Ji Zhang, Kankan Wang
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0176058

Metabolic syndrome, serum uric acid and renal risk in patients with T2D
Cited by: 25
Author(s): Francesca Viazzi, Pamela Piscitelli, Carlo Giorda, Antonio Ceriello, Stefano Genovese, Giuseppina Russo, Pietro Guida, Paola Fioretto, Salvatore De Cosmo, Roberto Pontremoli
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0106883

Cross Dimerization of Amyloid-β and αSynuclein Proteins in Aqueous Environment: A Molecular Dynamics Simulations Study
Cited by: 25
Author(s): Jaya C. Jose, Prathit Chatterjee, Neelanjana Sengupta
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0209328

Views of ophthalmologists on the genetics of age-related macular degeneration: Results of a qualitative study
Cited by: 7
Author(s): Julika Loss, Daniel Müller, Johannes Weigl, Horst Helbig, Caroline Brandl, Iris M. Heid, Robert P. Finger, Bernhard H. F. Weber, Janina Curbach
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0220207

DIpartite: A tool for detecting bipartite motifs by considering base interdependencies
Cited by: 5
Author(s): Mohammad Vahed, Jun-ichi Ishihara, Hiroki Takahashi
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0162960

Gender-Disparities in Adults with Type 1 Diabetes: More Than a Quality of Care Issue. A Cross-Sectional Observational Study from the AMD Annals Initiative
Cited by: 29
Author(s): Valeria Manicardi, Giuseppina Russo, Angela Napoli, Elisabetta Torlone, Patrizia Li Volsi, Carlo Giorda, Nicoletta Musacchio, Antonio Nicolucci, C Suraci, Giuseppe Lucisano, Maria Chiara Rossi
Software Mentions: 1
Published: about 8 years ago

10.3389/fchem.2019.00540

Accelerated Molecular Dynamics Simulation for Helical Proteins Folding in Explicit Water
Cited by: 50
Author(s): Lili Duan, Xiao‐Na Guo, Yalong Cong, Guoqiang Feng, Yuchen Li, John Z. H. Zhang
Software Mentions: 1
Published: over 5 years ago

10.3389/fnins.2021.663062

Simulating Macular Degeneration to Investigate Activities of Daily Living: A Systematic Review
Cited by: 7
Author(s): Anne Macnamara, Celia Chen, Victor R. Schinazi, Dimitrios Saredakis, Tobias Loetscher
Software Mentions: 1
Published: over 3 years ago

10.3389/fonc.2020.01597

Planning With Patient-Specific Rectal Sub-Region Constraints Decreases Probability of Toxicity in Prostate Cancer Radiotherapy
Cited by: 4
Author(s): C. Lafond, A. Barateau, J. N’Guessan, N. Périchon, N. Delaby, Antoine Simon, Pascal Haigron, Eleni Mylona, Oscar Acosta, R. de Crevoisier
Software Mentions: 1
Published: about 4 years ago

10.1186/s13059-015-0836-5

Mineotaur: a tool for high-content microscopy screen sharing and visual analytics
Cited by: 11
Author(s): Bálint Antal, Anatole Chessel, Rafael E. Carazo-Salas
Software Mentions: 1
Published: almost 9 years ago

10.1186/1744-8603-10-58

Cost, outcomes, treatment pathways and challenges for diabetes care in Italy
Cited by: 17
Author(s): Federico Grimaccia, Panos Kanavos
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12955-017-0613-0

The complex interplay between clinical and person-centered diabetes outcomes in the two genders
Cited by: 18
Author(s): Maria Chiara Rossi, Giuseppe Lucisano, Basilio Pintaudi, Angela Bulotta, Sandro Gentile, Marco Scardapane, Søren E. Skovlund, G Vespasiani, Antonio Nicolucci
Software Mentions: 1
Published: almost 8 years ago

10.1155/2016/2931985

The Burden of NAFLD and Its Characteristics in a Nationwide Population with Type 2 Diabetes
Cited by: 64
Author(s): Gabriele Forlani, Carlo Giorda, Roberta Manti, Natalia Mazzella, Salvatore De Cosmo, Maria Chiara Rossi, Antonio Nicolucci, Paolo Di Bartolo, Antonio Ceriello, Pietro Guida
Software Mentions: 1
Published: almost 9 years ago

10.1155/2018/7153087

Five-Year Predictors of Insulin Initiation in People with Type 2 Diabetes under Real-Life Conditions
Cited by: 15
Author(s): Sandro Gentile, Felice Strollo, Francesca Viazzi, Giuseppina T. Russo, Pamela Piscitelli, Antonio Ceriello, Carlo Giorda, Piero Guida, Paola Fioretto, Roberto Pontremoli, Salvatore De Cosmo
Software Mentions: 1
Published: about 6 years ago

10.3390/polym12020382

Performance of Coarse Graining in Estimating Polymer Properties: Comparison with the Atomistic Model
Cited by: 7
Author(s): Ryota Miwatani, Kazuaki Z. Takahashi, Noriyoshi Arai
Software Mentions: 1
Published: almost 5 years ago

Projects: pypi: AMD

Papers Mentioning AMD 66