pypi: chimera | Projects | Ecosyste.ms: Papers

10.1186/s12859-020-03922-7

annoFuse: an R Package to annotate, prioritize, and interactively explore putative oncogenic RNA fusions
Cited by: 3
Author(s): Krutika S. Gaonkar, Fédérico Marini, Komal S. Rathi, Payal Jain, Yuankun Zhu, Nicholas A. Chimicles, Miguel Brown, Ammar S. Naqvi, Bo Zhang, Phillip B. Storm, John M. Maris, Pichai Raman, Adam Resnick, Konstantin Strauch, Jaclyn N. Taroni, Jo Lynne Rokita
Software Mentions: 13
Published: about 4 years ago

10.1111/1751-7915.13313

Long-term investigation of microbial community composition and transcription patterns in a biogas plant undergoing ammonia crisis
Cited by: 16
Author(s): Martin Fischer, Simon Güllert, Sarah Refai, Sven Künzel, Uwe Deppenmeier, Wolfgang R. Streit, Ruth A. Schmitz
Software Mentions: 5
Published: about 6 years ago

10.3390/ijms22062846

Predicting Potential Endocrine Disrupting Chemicals Binding to Estrogen Receptor α (ERα) Using a Pipeline Combining Structure-Based and Ligand-Based in Silico Methods
Cited by: 5
Author(s): Asma Sellami, Matthieu Montès, Nathalie Lagarde
Software Mentions: 5
Published: almost 4 years ago

10.3389/fmicb.2015.00779

Forest-to-pasture conversion increases the diversity of the phylum Verrucomicrobia in Amazon rainforest soils
Cited by: 31
Author(s): Kshitij Ranjan, Fabiana S. Paula, Rebecca C. Mueller, Ederson da Conceição Jesus, Karina Cenciani, Brendan J. M. Bohannan, Klaus Nüsslein, Jorge L. M. Rodrigues
Software Mentions: 4
Published: over 9 years ago

10.1002/mbo3.967

Effect of Streptomyces probiotics on the gut microbiota of Litopenaeus vannamei challenged with Vibrio parahaemolyticus
Cited by: 21
Author(s): José Manuel Mazón‐Suástegui, Joan Salas‐Leiva, Ricardo Medina-Marrero, Ricardo Medina-García, Milagro García‐Bernal
Software Mentions: 4
Published: about 5 years ago

10.1186/s42523-021-00112-5

Functional enrichment of gut microbiome by early supplementation of Bacillus based probiotic in cage free hens: a field study
Cited by: 6
Author(s): Samiullah Khan, Kapil K. Chousalkar
Software Mentions: 3
Published: over 3 years ago

10.1371/journal.pone.0039422

Structural Changes in Isometrically Contracting Insect Flight Muscle Trapped following a Mechanical Perturbation
Cited by: 12
Author(s): Shenping Wu, Jun Li, Mary C. Reedy, Robert J. Edwards, R. T. Tregear, Hanspeter Winkler, Clara Franzini‐Armstrong, Hiroyuki Sasaki, Carmen Lucaveche, Yale E. Goldman, Michael K. Reedy, Kenneth A. Taylor
Software Mentions: 2
Published: over 12 years ago

10.6026/97320630013380

Insights from the protein-protein interaction network analysis of Mycobacterium tuberculosis toxinantitoxin systems
Cited by: 11
Author(s): Zoozeal Thakur, Renu Dharra, Vandana Saini, Ajit Kumar, Promod K Mehta
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0033235

Toolbox for Non-Intrusive Structural and Functional Analysis of Recombinant VLP Based Vaccines: A Case Study with Hepatitis B Vaccine
Cited by: 45
Author(s): Anke M. Mulder, Bridget Carragher, Victoria Towne, Meng Yuan, Yang Wang, Lance Dieter, Clinton S. Potter, Michael W. Washabaugh, Robert D. Sitrin, Qinjian Zhao
Software Mentions: 2
Published: over 12 years ago

10.1186/1475-2875-8-88

WISDOM-II: Screening against multiple targets implicated in malaria using computational grid infrastructures
Cited by: 36
Author(s): Vinod Kasam, Jean Salzemann, Marli Botha, Ana Dacosta, Gianluca Degliesposti, Raúl Isea, Doman Kim, Astrid Maaß, Colin Kenyon, Giulio Rastelli, Martin Hofmann‐Apitius, Vincent Breton
Software Mentions: 2
Published: over 15 years ago

10.6026/97320630013339

A QSAR model of Olanzapine derivatives as potential inhibitors for 5-HT2A Receptor
Cited by: 3
Author(s): Pooja Mitra, Aishwarya Rastogi, Mayank Rajpoot, Ajay Kumar, Vivek Srivastava
Software Mentions: 2
Published: about 7 years ago

10.1111/febs.15136

Redox characterisation of Erv1, a key component for protein import and folding in yeast mitochondria
Cited by: 4
Author(s): Efrain Ceh Pavia, Xiaofan Tang, Yawen Liu, Derren J. Heyes, Bing Zhao, Xiao Ping, Hui Lu
Software Mentions: 2
Published: about 5 years ago

10.22099/mbrc.2020.36522.1483

In silico analyzing the molecular interactions of plant-derived inhibitors against E6AP, p53, and c-Myc binding sites of HPV type 16 E6 oncoprotein.
Cited by: 10
Author(s): Farzan Nabati, Mohammad Moradi, Hassan Mohabatkar
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.43229

Structural basis of Ca2+-dependent activation and lipid transport by a TMEM16 scramblase
Cited by: 81
Author(s): Maria Falzone, Jan Rheinberger, B.C. Lee, Thasin Peyear, Linda Sasset, Ashleigh M. Raczkowski, Edward T. Eng, Annarita Di Lorenzo, Olaf S. Andersen, Crina M. Nimigean, Alessio Accardi
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms16059354

A Moonlighting Human Protein Is Involved in Mitochondrial Import of tRNA
Cited by: 19
Author(s): Maria V. Baleva, Gowher Ali, Piotr Kamenski, Ivan Tarassov, Nina Entelis, Benoı̂t Masquida
Software Mentions: 2
Published: over 9 years ago

10.3390/ijms21010298

Targeting the 16S rRNA Gene for Bacterial Identification in Complex Mixed Samples: Comparative Evaluation of Second (Illumina) and Third (Oxford Nanopore Technologies) Generation Sequencing Technologies
Cited by: 100
Author(s): Raf Winand, Bert Bogaerts, Stefan Hoffman, Loïc Lefevre, Maud Delvoye, Julien Van Braekel, Qiang Fu, Nancy Roosens, Sigrid C. J. De Keersmaecker, Kevin Vanneste
Software Mentions: 2
Published: almost 5 years ago

10.1186/s13071-016-1842-5

Identification of internalin-A-like virulent proteins in Leishmania donovani
Cited by: 4
Author(s): Ishita Mukherjee, Abhijit Chakraborty, Saikat Chakrabarti
Software Mentions: 2
Published: about 8 years ago

10.3390/molecules25225334

Searching Hit Potential Antimicrobials in Natural Compounds Space against Biofilm Formation
Cited by: 5
Author(s): Roberto Pestana-Nobles, Jorge A. Leyva-Rojas, Juvenal Yosa
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-017-04748-9

Virtual Screening, pharmacophore development and structure based similarity search to identify inhibitors against IdeR, a transcription factor of Mycobacterium tuberculosis
Cited by: 36
Author(s): Akshay Rohilla, Garima Khare, Anil K. Tyagi
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-19860-7

Social status shapes the bacterial and fungal gut communities of the honey bee
Cited by: 57
Author(s): Ji-Hyun Yun, Myeong Ho Jung, Pil Soo Kim, Jin-Woo Bae
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41598-020-63874-z

Novel Variations in Native Ethiopian Goat breeds PRNP Gene and Their Potential Effect on Prion Protein Stability
Cited by: 10
Author(s): Eden Yitna Teferedegn, Yalçın Yaman, Cemal Ün
Software Mentions: 1
Published: over 4 years ago

10.1038/s41598-021-82009-6

Discovery of potential inhibitors against New Delhi metallo-β-lactamase-1 from natural compounds: in silico-based methods
Cited by: 19
Author(s): Azhar Salari-Jazi, Karim Mahnam, Parisa Sadeghi, Mohammad Sadegh Damavandi, Jamshid Faghri
Software Mentions: 1
Published: almost 4 years ago

10.1155/2012/782019

Effect of Rabbit Epididymal Antimicrobial Peptide, REHbβP, on LPS-Induced Proinflammatory Cytokine Responses in Human Vaginal Cells In Vitro
Cited by: 0
Author(s): K. J. Reddy, D. Sukanya, Mandar Patgaonkar, C. Selvaakumar
Software Mentions: 1
Published: almost 13 years ago

10.7554/eLife.05115

Architecture and dynamics of the autophagic phosphatidylinositol 3-kinase complex
Cited by: 130
Author(s): Sulochanadevi Baskaran, Lars A. Carlson, Goran Stjepanović, L. C. T. Young, Dojin Kim, Patricia Grob, Robin E. Stanley, Eva Nogales, James H. Hurley
Software Mentions: 1
Published: about 10 years ago

10.1186/s13048-021-00872-3

Targeting novel coronavirus SARS-CoV-2 spike protein with phytoconstituents of Momordica charantia
Cited by: 6
Author(s): Santosh Kumar Singh, Shailesh Singh, Rajesh Singh
Software Mentions: 1
Published: about 3 years ago

10.1186/s12885-016-3038-y

Cryptotanshinone activates AMPK-TSC2 axis leading to inhibition of mTORC1 signaling in cancer cells
Cited by: 22
Author(s): Wenxing Chen, Yan-Hong Pan, Siliang Wang, Yuping Liu, Guang‐Ying Chen, Liang Zhou, Wenting Ni, Aiyun Wang, Yin Lu
Software Mentions: 1
Published: almost 8 years ago

10.3390/biom10040624

Structural Insight into the Mechanism of N-Linked Glycosylation by Oligosaccharyltransferase
Cited by: 36
Author(s): Smita Mohanty, Bharat Chaudhary, David Zoetewey
Software Mentions: 1
Published: over 4 years ago

10.3390/md15040114

Prospecting Biotechnologically-Relevant Monooxygenases from Cold Sediment Metagenomes: An In Silico Approach
Cited by: 13
Author(s): Matías A. Musumeci, Mariana Lozada, Daniela V. Rial, Walter P. Mac Cormack, Janet Jansson, Sara Sjöling, JoLynn Carroll, Hebe M. Dionisi
Software Mentions: 1
Published: over 7 years ago

10.3390/mi11010087

Methacrylate Coatings for Titanium Surfaces to Optimize Biocompatibility
Cited by: 5
Author(s): Argus Sun, Nureddin Ashammakhi, Mehmet R. Dokmeci
Software Mentions: 1
Published: almost 5 years ago

10.3390/molecules181215600

In Vitro Evaluation of Novel Inhibitors against the NS2B-NS3 Protease of Dengue Fever Virus Type 4
Cited by: 15
Author(s): Thi Thanh Hanh Nguyen, Sun Lee, Hsi-Kai Wang, Hsin-Yen Chen, Ying‐Ta Wu, S. C. Lin, Do-Won Kim, Doman Kim
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0017230

Elimination of Endogenous Toxin, Creatinine from Blood Plasma Depends on Albumin Conformation: Site Specific Uremic Toxicity & Impaired Drug Binding
Cited by: 101
Author(s): A. K. Varshney, Mohd Rehan, Naidu Subbarao, Gulam Rabbani, Rizwan Hasan Khan
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0026186

Stereo-Selectivity of Human Serum Albumin to Enantiomeric and Isoelectronic Pollutants Dissected by Spectroscopy, Calorimetry and Bioinformatics
Cited by: 128
Author(s): Ejaz Ahmad, Gulam Rabbani, Nida Zaidi, Saurabh Singh, Mohd Rehan, Maryam Khan, Shah Kamranur Rahman, Zainuddin Quadri, Mohammad Shadab, Mohammad Ashraf, Naidu Subbarao, Rajiv Bhat, Rizwan Hasan Khan
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0022441

Identification of Inhibitors against Mycobacterium tuberculosis Thiamin Phosphate Synthase, an Important Target for the Development of Anti-TB Drugs
Cited by: 22
Author(s): Garima Khare, Ritika Kar, Anil K. Tyagi
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0067699

Comparison of DNA Extraction Methods in Analysis of Salivary Bacterial Communities
Cited by: 72
Author(s): Vladimir Lazarević, Nadia Gaïa, Myriam Girard, Patrice François, Jacques Schrenzel
Software Mentions: 1
Published: over 11 years ago

10.1016/j.dib.2018.04.023

In silico data analyses of the hotspot mutations of CHM gene in choroideremia disease
Cited by: 3
Author(s): Saber Imani, Iqra Ijaz, Marzieh Dehghan Shasaltaneh, Shangyi Fu, Jingliang Cheng, Junjiang Fu
Software Mentions: 1
Published: over 6 years ago

10.3389/frai.2021.630955

Conformational Changes of the Receptor Binding Domain of SARS-CoV-2 Spike Protein and Prediction of a B-Cell Antigenic Epitope Using Structural Data
Cited by: 12
Author(s): Sangeeta Khare, Marli S.P. Azevedo, Pravin Parajuli, Kuppan Gokulan
Software Mentions: 1
Published: over 3 years ago

10.3389/fimmu.2020.592622

Key Components of Inflammasome and Pyroptosis Pathways Are Deficient in Canines and Felines, Possibly Affecting Their Response to SARS-CoV-2 Infection
Cited by: 10
Author(s): Hongyuan Cui, Leiliang Zhang
Software Mentions: 1
Published: almost 4 years ago

10.3389/fmicb.2017.01074

Thyme Oil Reduces Biofilm Formation and Impairs Virulence of Xanthomonas oryzae
Cited by: 30
Author(s): Akanksha Singh, Rupali Gupta, Sudeep Tandon, Rakesh Pandey
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2020.567317

G-Quadruplexes Are Present in Human Coronaviruses Including SARS-CoV-2
Cited by: 39
Author(s): Hongyuan Cui, Leiliang Zhang
Software Mentions: 1
Published: about 4 years ago

10.3389/fphar.2020.00735

Hydrophobic Drug/Toxin Binding Sites in Voltage-Dependent K+ and Na+ Channels
Cited by: 11
Author(s): Kenny M. Van Theemsche, Dieter V. Van de Sande, Dirk J. Snyders, Alain J. Labro
Software Mentions: 1
Published: over 4 years ago

10.3389/fphar.2021.717757

An Analysis Based on Molecular Docking and Molecular Dynamics Simulation Study of Bromelain as Anti-SARS-CoV-2 Variants
Cited by: 23
Author(s): Trina Ekawati Tallei, Fatimawali Fatimawali, Afriza Yelnetty, Rinaldi Idroes, Diah Kusumawaty, Talha Bin Emran, Talha Z. Yesiloglu, Wolfgang Sippl, Shafi Mahmud, Taha Alqahtani, Ali Alqahtani, Saeed Ahmed Asiri, Mohammed Rahmatullah, Rownak Jahan, Md. Arif Khan, İ̇smail Çelik
Software Mentions: 1
Published: over 3 years ago

10.3389/fphar.2020.00322

Antiproliferative Effects of Roylea cinerea (D. Don) Baillon Leaves in Immortalized L6 Rat Skeletal Muscle Cell Line: Role of Reactive Oxygen Species Mediated Pathway
Cited by: 3
Author(s): Astha Bhatia, Harpal S. Buttar, Rohit Arora, Balbir Singh, Amritpal Singh, Sarabjit Kaur, Saroj Arora
Software Mentions: 1
Published: almost 5 years ago

Projects: pypi: chimera

Papers Mentioning chimera 42