pypi: builder | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2020.572931

Hydrocarbon-Degrading Bacteria Alcanivorax and Marinobacter Associated With Microalgae Pavlova lutheri and Nannochloropsis oculata
Cited by: 30
Author(s): Tatyana Chernikova, Rafael Bargiela, Stepan V. Toshchakov, Vignesh Shivaraman, Evgenii A. Lunev, Michail M. Yakimov, David N. Thomas, Peter N. Golyshin
Software Mentions: 7
Published: about 4 years ago

10.1111/pbi.12852

The transcriptome, extracellular proteome and active secretome of agroinfiltrated<i>Nicotiana benthamiana</i>uncover a large, diverse protease repertoire
Cited by: 52
Author(s): Friederike Grosse‐Holz, Steven L. Kelly, Svenja Blaskowski, Farnusch Kaschani, Markus Kaiser, Renier A. L. van der Hoorn
Software Mentions: 5
Published: almost 7 years ago

10.2196/18607

A Chatbot for Perinatal Women’s and Partners’ Obstetric and Mental Health Care: Development and Usability Evaluation Study
Cited by: 25
Author(s): Kyungmi Chung, Hee Young Cho, Jin Y. Park
Software Mentions: 5
Published: almost 4 years ago

10.1128/mBio.01442-21

Cocultivation of Anaerobic Fungi with Rumen Bacteria Establishes an Antagonistic Relationship
Cited by: 9
Author(s): Candice L. Swift, Katherine Louie, Benjamin P. Bowen, Casey A. Hooker, Kevin Solomon, Vasanth Singan, Chris Daum, Christa Pennacchio, Kerrie Barry, V. Shutthanandan, James E. Evans, Igor V. Grigoriev, Trent Northen, Michelle O’Malley
Software Mentions: 5
Published: over 3 years ago

10.1186/1471-2407-9-396

An informatics supported web-based data annotation and query tool to expedite translational research for head and neck malignancies
Cited by: 12
Author(s): Waqas Amin, Hyunseok P. Kang, Ann Marie Egloff, Harpreet Singh, Kerry Trent, Jennifer Ridge-Hetrick, Raja R. Seethala, Jennifer R. Grandis, Anil V. Parwani
Software Mentions: 4
Published: about 15 years ago

10.1186/s41182-017-0057-6

Surveillance efforts after mass drug administration to validate elimination of lymphatic filariasis as a public health problem in Vanuatu
Cited by: 10
Author(s): Fasihah Taleo, George Taleo, Patricia M. Graves, Sung Hye Kim, Masayo Ozaki, Hayley Joseph, Brian Chu, Alex Pavluck, Aya Yajima, Wayne Melrose, Kazuyo Ichimori, Corinne Capuano
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-020-64034-z

Comparative Analyses of the Conformational Dynamics Between the Soluble and Membrane-Bound Cytokine Receptors
Cited by: 7
Author(s): Chao‐Yie Yang
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pbio.3001026

Expansion of RiPP biosynthetic space through integration of pan-genomics and machine learning uncovers a novel class of lanthipeptides
Cited by: 66
Author(s): Alexander Kloosterman, Peter Cimermančič, E. A. Aboutabl, Congcong Du, Michalis Hadjithomas, Mohamed S. Donia, Michael A. Fischbach, Gilles P. van Wezel, Marnix H. Medema
Software Mentions: 3
Published: almost 4 years ago

10.1186/1751-0473-8-23

Combining de novo and reference-guided assembly with scaffold_builder
Cited by: 54
Author(s): Genivaldo Gueiros Z. Silva, Bas E. Dutilh, T. David Matthews, Keri Elkins, Robert Schmieder, Elizabeth A. Dinsdale, Robert A. Edwards
Software Mentions: 3
Published: about 11 years ago

10.1186/s12983-017-0238-5

Differences in neurochemical profiles of two gadid species under ocean warming and acidification
Cited by: 18
Author(s): Matthias Schmidt, Heidrun Sigrid Windisch, Kai‐Uwe Ludwichowski, Sean Lando Levin Seegert, Hans‐Otto Pörtner, Daniela Storch, Christian Bock
Software Mentions: 3
Published: about 7 years ago

10.1186/1471-2229-11-104

MeRy-B: a web knowledgebase for the storage, visualization, analysis and annotation of plant NMR metabolomic profiles
Cited by: 54
Author(s): Hélène Ferry‐Dumazet, Laurent Gil, Catherine Deborde, Annick Moing, Stéphane Bernillon, Dominique Rolin, Macha Nikolski, Antoine de Daruvar, Daniel Jacob
Software Mentions: 2
Published: over 13 years ago

10.7554/eLife.28020

A novel central nervous system-penetrating protease inhibitor overcomes human immunodeficiency virus 1 resistance with unprecedented aM to pM potency
Cited by: 39
Author(s): Manabu Aoki, Hironori Hayashi, Kalapala Venkateswara Rao, Debananda Das, Nobuyo Higashi-Kuwata, Haydar Bulut, Hiromi Aoki-Ogata, Yuki Takamatsu, Ravikiran S. Yedidi, David A. Davis, Shin Hattori, Noriko Nishida, Kazuya Hasegawa, Nobutoki Takamune, Prasanth R. Nyalapatla, Heather L. Osswald, Hirofumi Jono, Hideyuki Saya, Robert Yarchoan, Shogo Misumi, Arun K. Ghosh, Hiroaki Mitsuya
Software Mentions: 2
Published: about 7 years ago

10.1002/bies.201600062

Coiled‐coils: The long and short of it
Cited by: 214
Author(s): Linda Truebestein, Thomas A. Leonard
Software Mentions: 2
Published: over 8 years ago

10.1128/AAC.00123-20

Structure and Molecular Recognition Mechanism of IMP-13 Metallo-β-Lactamase
Cited by: 8
Author(s): Charlotte A Softley, Krzysztof Żak, Mark J. Bostock, Roberto Fino, Richard Xu Zhou, Marta Kolonko, Ramona Mejdi-Nitiu, Hannelore Meyer, Michael Sattler, Grzegorz M. Popowicz
Software Mentions: 2
Published: over 4 years ago

10.3389/fchem.2020.00400

Novel ssDNA Ligand Against Ovarian Cancer Biomarker CA125 With Promising Diagnostic Potential
Cited by: 5
Author(s): P. Tripathi, Manisha Sachan, Seema Nara
Software Mentions: 2
Published: over 4 years ago

10.1186/1471-2253-14-41

Retrospective derivation and validation of a search algorithm to identify extubation failure in the intensive care unit
Cited by: 11
Author(s): Muhammad Adeel Rishi, Rahul Kashyap, Gregory Wilson, Sara E. Hocker
Software Mentions: 2
Published: over 10 years ago

10.1186/s12864-021-07927-1

A graphical, interactive and GPU-enabled workflow to process long-read sequencing data
Cited by: 2
Author(s): Shishir Reddy, Ling Hong Hung, Olga Sala‐Torra, Jerald P. Radich, Cecilia C.S. Yeung, Ka Yee Yeung
Software Mentions: 2
Published: over 3 years ago

10.3390/v13030496

Detection and Genome Sequencing of SARS-CoV-2 in a Domestic Cat with Respiratory Signs in Switzerland
Cited by: 51
Author(s): Julia Klaus, Marina L. Meli, Barbara Willi, Sarah Nadeau, Christian Beisel, Tanja Stadler, Eth SARS-CoV Sequencing Team, Herman Egberink, Shan Zhao, Hans Lutz, Barbara Riond, Nina Rösinger, Hanspeter Stalder, Sandra Renzullo, Regina Hofmann‐Lehmann
Software Mentions: 2
Published: over 3 years ago

10.1186/s13321-014-0051-5

Stereoselective virtual screening of the ZINC database using atom pair 3D-fingerprints
Cited by: 48
Author(s): Mahendra Awale, Xian Jin, Jean‐Louis Reymond
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41598-019-55795-3

Comparative Genomics of 86 Whole-Genome Sequences in the Six Species of the Elizabethkingia Genus Reveals Intraspecific and Interspecific Divergence
Cited by: 11
Author(s): Chih-Yu Liang, Chih-Hui Yang, Chung-Hsu Lai, Yi-Han Huang, Jiun-Nong Lin
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-020-79590-7

Next generation methodology for updating HA vaccines against emerging human seasonal influenza A(H3N2) viruses
Cited by: 20
Author(s): James D. Allen, Ted M. Ross
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12864-016-3208-y

De novo assembly and analysis of changes in the protein-coding transcriptome of the freshwater shrimp Paratya australiensis (Decapoda: Atyidae) in response to acid sulfate drainage water
Cited by: 11
Author(s): Peter A. Bain, Adrienne Gregg, Anu Kumar
Software Mentions: 2
Published: about 8 years ago

10.3390/cancers13153847

Identification of Cancer Hub Gene Signatures Associated with Immune-Suppressive Tumor Microenvironment and Ovatodiolide as a Potential Cancer Immunotherapeutic Agent
Cited by: 23
Author(s): Jiahong Chen, Alexander T.H. Wu, Bashir Lawal, David T.W. Tzeng, Jih‐Chin Lee, Ching–Liang Ho, Tsu‐Yi Chao
Software Mentions: 2
Published: over 3 years ago

10.1186/1471-2407-6-120

An informatics model for tissue banks – Lessons learned from the Cooperative Prostate Cancer Tissue Resource
Cited by: 50
Author(s): Ashokkumar A. Patel, John R. Gilbertson, Anil V. Parwani, Rajiv Dhir, Milton W. Datta, Rajnish A. Gupta, Jules J. Berman, Jonathan Melamed, Andre Kajdacsy‐Balla, Jan M. Orenstein, Michael J. Becich
Software Mentions: 2
Published: over 18 years ago

10.2196/24308

Smartphone-Based Interventions for Physical Activity Promotion: Scoping Review of the Evidence Over the Last 10 Years
Cited by: 46
Author(s): Alex Domin, Donna Spruijt‐Metz, Daniel Theisen, Yacine Ouzzahra, Claus Vögele
Software Mentions: 2
Published: over 3 years ago

10.3390/nu7064016

Development of a UK Online 24-h Dietary Assessment Tool: myfood24
Cited by: 127
Author(s): Michelle C. Carter, Salwa A. Albar, Michelle Morris, Umme Z. Mulla, Neil Hancock, Charlotte Evans, Nisreen A Alwan, Darren C. Greenwood, Laura J. Hardie, Gary Frost, Petra A. Wark, Janet Cade
Software Mentions: 1
Published: over 9 years ago

10.1093/aobpla/plz041

Biochemical and physiological flexibility accompanies reduced cellulose biosynthesis in Brachypodium cesa1S830N
Cited by: 2
Author(s): Chad Brabham, Abhishek Singh, Jozsef Stork, Ying Rong, Indrajit Kumar, Kazuhiro Kikuchi, Yaroslava G. Yingling, Thomas P. Brutnell, Jocelyn K. C. Rose, Seth DeBolt
Software Mentions: 1
Published: over 5 years ago

10.1186/s12896-021-00698-3

Recombinant laccase rPOXA 1B real-time, accelerated and molecular dynamics stability study
Cited by: 8
Author(s): Leidy D. Ardila-Leal, Pedro A. Monterey-Gutiérrez, Raúl A. Poutou-Piñales, Balkys Quevedo-Hidalgo, Johan F. Galindo, Aura M. Pedroza-Rodríguez
Software Mentions: 1
Published: over 3 years ago

10.1186/s12906-020-03030-2

In vivo analgesic, anti-inflammatory, and sedative activity and a molecular docking study of dinaphthodiospyrol G isolated from Diospyros lotus
Cited by: 7
Author(s): Abdur Rauf, Tareq Abu-Izneid, Fahad A. Alhumaydhi, Naveed Muhammad, Abdullah S. M. Aljohani, Saima Naz, Sami Bawazeer, Abdul Wadood, Mohammad S. Mubarak
Software Mentions: 1
Published: over 4 years ago

10.1186/1472-6793-6-1

The inflammatory and normal transcriptome of mouse bladder detrusor and mucosa
Cited by: 20
Author(s): Marcia R. Saban, Helen L. Hellmich, Mary Turner, Ngoc Bich Nguyen, Rajanikanth Vadigepalli, David W. Dyer, Robert E. Hurst, Michael Centola, Ricardo Saban
Software Mentions: 1
Published: almost 19 years ago

10.1002/mbo3.628

<i>Streptococcus</i>endopeptidases promote HPV infection in vitro
Cited by: 10
Author(s): Sylvia I. Pavlova, Reid V. Wilkening, Michael J. Federle, Yu Lu, Joel L. Schwartz, Tao Lin
Software Mentions: 1
Published: over 6 years ago

10.3390/microorganisms7090314

Olea europaea L. Root Endophyte Bacillus velezensis OEE1 Counteracts Oomycete and Fungal Harmful Pathogens and Harbours a Large Repertoire of Secreted and Volatile Metabolites and Beneficial Functional Genes
Cited by: 46
Author(s): Manel Cheffi, Ali Chenari Bouket, Faizah N. Alenezi, Lenka Luptákova, Marta Bełka, Armelle Vallat, Mostafa E. Rateb, Slim Tounsi, Mohamed Ali Triki, Lassaâd Belbahri
Software Mentions: 1
Published: over 5 years ago

10.3390/v12050548

The Interplay between HIV-1 Gag Binding to the Plasma Membrane and Env Incorporation
Cited by: 18
Author(s): Murphy Ra, Jamil S. Saad
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0211756

DNA aptamers for the recognition of HMGB1 from Plasmodium falciparum
Cited by: 13
Author(s): Diego F. Joseph, Jose A. Nakamoto, Oscar Andree Garcia Ruiz, Katherin Peñaranda, Ana Elena Sanchez-Castro, Pablo Soriano Castillo, Pohl Milón
Software Mentions: 1
Published: over 5 years ago

10.1186/1752-153X-7-164

Molecular docking simulation studies on potent butyrylcholinesterase inhibitors obtained from microbial transformation of dihydrotestosterone
Cited by: 8
Author(s): Saima Zafar, M. Iqbal Choudhary, Kourosh Dalvandi, Uzma Mahmood, Zaheer Ul-Haq
Software Mentions: 1
Published: about 11 years ago

10.1186/s13020-021-00512-4

Neurobehavioral alternations of the female offspring born to polycystic ovary syndrome model rats administered by Chinese herbal medicine
Cited by: 6
Author(s): Xian Zhang, Leiming You, Xiaohui Zhang, Fangfang Wang, Yi Wang, Jue Zhou, Chang Liu, Fan Qu
Software Mentions: 1
Published: about 3 years ago

10.1002/ccr3.2064

Restoring visual capacity after stroke using an intense office‐based vision therapy program: Three case reports
Cited by: 1
Author(s): Ingrid Axelsson, Anders Holmblad, Jan Johansson
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.dib.2020.105597

Dataset of operating conditions to Isolate Cellulose Nanocrystalline from Sugarcane Bagasse and Pinewood Sawdust as Possible Material to Fabricate Polymer Electrolyte Membranes
Cited by: 1
Author(s): A. Macías-Almazán, Jorge Aurelio Lois-Correa, M.A. Domínguez‐Crespo, A.B. López‐Oyama, A.M. Torres‐Huerta, S.B. Brachetti-Sibaja, A.E. Rodríguez-Salazar
Software Mentions: 1
Published: over 4 years ago

10.1016/j.dib.2016.07.043

Data for molecular dynamics simulations of B-type cytochrome c oxidase with the Amber force field
Cited by: 10
Author(s): Longhua Yang, Åge A. Skjevik, Wen-Ge Han Du, Louis Noodleman, Ross C. Walker, Andreas W. Götz
Software Mentions: 1
Published: over 8 years ago

10.3389/fchem.2018.00014

Combination of Virtual Screening Protocol by in Silico toward the Discovery of Novel 4-Hydroxyphenylpyruvate Dioxygenase Inhibitors
Cited by: 29
Author(s): Ying Fu, Yajuan Sun, Ke‐Han Yi, Mingqiang Li, Hai-Feng Cao, Jiazhong Li, Fei Ye
Software Mentions: 1
Published: almost 7 years ago

10.3389/fmicb.2014.00803

Comparative genomic analysis of clinical and environmental Vibrio vulnificus isolates revealed biotype 3 evolutionary relationships
Cited by: 12
Author(s): Yael Koton, Michal Gordon, Vered Chalifa‐Caspi, Naiel Bisharat
Software Mentions: 1
Published: almost 10 years ago

10.1186/1748-717X-8-268

Meta-analysis of incidence of early lung toxicity in 3-dimensional conformal irradiation of breast carcinomas
Cited by: 46
Author(s): Gaurav Kumar, Arul Earnest, Leong Sing Wong
Software Mentions: 1
Published: about 11 years ago

10.1038/srep25412

Rigid proteins and softening of biological membranes—with application to HIV-induced cell membrane softening
Cited by: 32
Author(s): Himani Agrawal, Matthew Zelisko, Liping Liu, Pradeep Sharma
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-021-93255-z

Untargeted metabolomics approach to discriminate mistletoe commercial products
Cited by: 10
Author(s): Cécile Vanhaverbeke, David Touboul, Nicolas Elie, Martine Prévost, Cécile Cm Meunier, Sylvie Michelland, Valérie Cunin, Lifang Ma, David Vermijlen, Cédric Delporte, Stéphanie Pochet, Audrey Alg Le Gouellec, Michel Sève, Pierre Van Antwerpen, Florence Souard
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-021-94602-w

S494 O-glycosylation site on the SARS-CoV-2 RBD affects the virus affinity to ACE2 and its infectivity; a molecular dynamics study
Cited by: 16
Author(s): Shadi Rahnama, Maryam Azimzadeh Irani, Mehriar Amininasab, Mohammad Reza Ejtehadi
Software Mentions: 1
Published: over 3 years ago

10.1128/mBio.03046-19

Repurposed Drugs That Block the Gonococcus-Complement Receptor 3 Interaction Can Prevent and Cure Gonococcal Infection of Primary Human Cervical Epithelial Cells
Cited by: 18
Author(s): Jessica Poole, Christopher J. Day, Thomas Haselhorst, Freda E.-C. Jen, Victor J. Torres, Jennifer Edwards, Michael P. Jennings
Software Mentions: 1
Published: over 4 years ago

10.2196/12510

The Integration of Interlinkages Between Nature and Human Health in Primary Health Care: Protocol for a Scoping Review
Cited by: 3
Author(s): Laura Lauwers, Hilde Bastiaens, Roy Remmen, Hans Keune
Software Mentions: 1
Published: almost 6 years ago

10.18632/oncotarget.7690

Increased IL-6 secretion by aged human mesenchymal stromal cells disrupts hematopoietic stem and progenitor cells' homeostasis
Cited by: 57
Author(s): Kelsey O’Hagan-Wong, Stéphanie Nadeau, Audrey Carrier-Leclerc, Felipe Apablaza, Reggie C. Hamdy, Dominique Shum‐Tim, Francis Rodier, Inés Colmegna
Software Mentions: 1
Published: almost 9 years ago

10.1098/rsob.200400

Determination of the membrane topology of PORCN, an O-acyl transferase that modifies Wnt signalling proteins
Cited by: 10
Author(s): Lisa M. Galli, Marc O. Anderson, J. Gabriel Fraley, Luis Uriel Sanchez, Raymund Bueno, David Hernández, Eva U. Maddox, Vishwanath R. Lingappa, Laura W. Burrus
Software Mentions: 1
Published: over 3 years ago

Projects: pypi: builder

Papers Mentioning builder 49