Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: pipeline
https://packages.ecosyste.ms/registries/pypi.org/packages/pipeline
Easy shell-like pipelines, with input from a file-like object
2 versions
Latest release: almost 4 years ago
8,008 downloads last month
Papers Mentioning pipeline 175
10.1186/s12879-017-2684-2
Phylogenetic characterisation of circulating, clinical influenza isolates from Bali, Indonesia: preliminary report from the BaliMEI projectCited by: 2
Author(s): Wiku Adisasmito, Sri Budayanti, Dewi Nur Aisyah, Tiziano Gallo Cassarino, James W. Rudge, Simon J. Watson, Zisis Kozlakidis, Gavin Smith, Richard Coker
Software Mentions: 1
Published: about 7 years ago
10.1186/1471-2180-13-116
Human milk metagenome: a functional capacity analysisCited by: 162
Author(s): Tonya Ward, Sergey Hosid, Ilya Ioshikhes, Illimar Altosaar
Software Mentions: 1
Published: over 11 years ago
10.1186/s12866-017-1043-1
Whole genome sequencing analyses of Listeria monocytogenes that persisted in a milkshake machine for a year and caused illnesses in Washington StateCited by: 36
Author(s): Zhen Li, Ailyn C. Pérez-Osorio, Yu Wang, Kaye Eckmann, William A. Glover, Marc W. Allard, Eric W. Brown, Yi Chen
Software Mentions: 1
Published: over 7 years ago
10.1186/s41199-016-0004-y
Genomically personalized therapy in head and neck cancerCited by: 22
Author(s): Kyaw Lwin Aung, Lillian L. Siu
Software Mentions: 1
Published: over 8 years ago
10.1128/MRA.00029-19
Draft Genome Sequence of Bacillus lehensis M136, Isolated from the Manleluag Hyperalkaline Spring in Pangasinan, PhilippinesCited by: 0
Author(s): Aprill Punongbayan Manalang, Andrew D. Montecillo, Lorren Myriccar G. Berdos, Rose Ann Franco, Eula Francia Bosito, Noel G. Sabino, Maria Genaleen Q. Diaz, Nacita B. Lantican
Software Mentions: 1
Published: over 5 years ago
10.1128/MRA.00903-18
Complete Genome Sequence of Rhizobium sp. Strain 11515TR, Isolated from Tomato Rhizosphere in the PhilippinesCited by: 2
Author(s): Andrew D. Montecillo, Anabela Raymundo, Irene Papa, Genevieve Mae B. Aquino, Albert Remus R. Rosana
Software Mentions: 1
Published: about 6 years ago
10.1186/s40168-018-0500-x
Facultative methanotrophs are abundant at terrestrial natural gas seepsCited by: 25
Author(s): Muhammad Farhan Ul Haque, Andrew T. Crombie, Scott A. Ensminger, Cǎlin Baciu, J. Colin Murrell
Software Mentions: 1
Published: about 6 years ago
10.3390/microorganisms9091985
Whole-Genome Sequencing (WGS) of Carbapenem-Resistant K. pneumoniae Isolated in Long-Term Care Facilities in the Northern Italian RegionCited by: 15
Author(s): Alessandra Piccirilli, Sabrina Cherubini, Anna Maria Azzini, Evelina Tacconelli, Giuliana Lo Cascio, Laura Maccacaro, Alda Bazaj, Laura Naso, Gianfranco Amicosante, Mariagrazia Perilli
Software Mentions: 1
Published: about 3 years ago
10.3390/microorganisms9020416
Network Analysis Based on Unique Spectral Features Enables an Efficient Selection of Genomically Diverse Operational Isolation UnitsCited by: 4
Author(s): Charles Dumolin, Charlotte Peeters, Evelien De Canck, Nico Boon, Peter Vandamme
Software Mentions: 1
Published: over 3 years ago
10.3390/microorganisms9071360
Procaryotic Diversity and Hydrogenotrophic Methanogenesis in an Alkaline Spring (La Crouen, New Caledonia)Cited by: 5
Author(s): Marianne Quéméneur, Nan Mei, Christophe Monnin, Anne Postec, Laura Wils, Manon Joseph, Sophie Guasco, Bernard Pelletier, Gaël Erauso
Software Mentions: 1
Published: about 3 years ago
10.3390/microorganisms8091411
Microbiota of the Digestive Gland of Red Abalone (Haliotis rufescens) Is Affected by Withering SyndromeCited by: 7
Author(s): Alejandro Villasante, Natalia Catalán, Rodrigo Rojas, Karin B. Lohrmann, Jaime Romero
Software Mentions: 1
Published: about 4 years ago
10.1080/23802359.2020.1840936
The complete chloroplast genome sequence of the Alstroemeria hybrid variety ‘Hanhera’Cited by: 0
Author(s): Jong-Bo Kim, Haoran Yang, Sang‐Hee Lee, Tae-Ho Park
Software Mentions: 1
Published: almost 4 years ago
10.3390/vaccines9020085
Cancer Vaccines: Antigen Selection StrategyCited by: 24
Author(s): Yue Zhao, Alexey V. Baldin, Orkhan Isayev, Jens Werner, Andrey A. Zamyatnin, Alexandr V. Bazhin
Software Mentions: 1
Published: over 3 years ago
10.3390/pathogens3010121
Genomics-Based Exploration of Virulence Determinants and Host-Specific Adaptations of Pseudomonas syringae Strains Isolated from GrassesCited by: 14
Author(s): Alexey Dudnik, Robert Dudler
Software Mentions: 1
Published: over 10 years ago
10.7717/peerj.529
Recent genome reduction of<i>Wolbachia</i>in<i>Drosophila recens</i>targets phage WO and narrows candidates for reproductive parasitismCited by: 50
Author(s): Jason A. Metcalf, Minhee Jo, Sarah R. Bordenstein, John Jaenike, Seth R. Bordenstein
Software Mentions: 1
Published: about 10 years ago
10.14814/phy2.13881
The impact of exercise training and resveratrol supplementation on gut microbiota composition in high-fat diet fed miceCited by: 24
Author(s): Nina Brandt, Dorota Kotowska, Caroline Maag Kristensen, Jesper Olesen, Ditte Olsen Lützhøft, Jens Frey Halling, Mette Sif Hansen, Waleed Abu Al‐Soud, Lars H. Hansen, Pia Kiilerich, Henriette Pilegaard
Software Mentions: 1
Published: almost 6 years ago
10.1371/journal.pgen.1005943
Swi1Timeless Prevents Repeat Instability at Fission Yeast TelomeresCited by: 18
Author(s): Mariana C. Gadaleta, Mukund M. Das, Hideki Tanizawa, Ya Ting Chang, Ken Ichi Noma, Toru Nakamura, Eishi Noguchi
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0235498
Classification of 16S rRNA reads is improved using a niche-specific database constructed by near-full length sequencingCited by: 9
Author(s): Phillip R. Myer, T. G. McDaneld, L. A. Kuehn, Keith D. DeDonder, Michael D. Apley, Sarah F. Capik, Brian V. Lubbers, Gregory P. Harhay, Dayna M. Harhay, J. W. Keele, Madison T Henniger, Brooke A. Clemmons, Timothy P. L. Smith
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0018690
Proteomic-Based Identification of CD4-Interacting Proteins in Human Primary MacrophagesCited by: 11
Author(s): Rui André Saraiva Raposo, Benjamin Thomas, Gabriela Ridlova, William James
Software Mentions: 1
Published: over 13 years ago
10.1371/journal.pone.0043036
Molecular Characterization of Antimicrobial Peptide Genes of the Carpenter Ant Camponotus floridanusCited by: 20
Author(s): Carolin Ratzka, Frank Förster, Chunguang Liang, Maria Kupper, Thomas Dandekar, Heike Feldhaar, Roy Gross
Software Mentions: 1
Published: about 12 years ago
10.1371/journal.pone.0071480
MicroRNA-196a Is a Putative Diagnostic Biomarker and Therapeutic Target for Laryngeal CancerCited by: 71
Author(s): Koichiro Saito, Koji Inagaki, Takeyuki Kamimoto, Yoko Itō, Toshiaki Sugita, Satoko Nakajo, Akira Hirasawa, Arifumi Iwamaru, Takashi Ishikura, Hideki Hanaoka, Keisuke Okubo, Tokio Onozaki, Takeru Zama
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0193588
Superior ab initio identification, annotation and characterisation of TEs and segmental duplications from genome assembliesCited by: 23
Author(s): Lu Zeng, R. Daniel Kortschak, Joy M. Raison, Terry Bertozzi, David L. Adelson
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0188174
Whole exome sequencing for determination of tumor mutation load in liquid biopsy from advanced cancer patientsCited by: 80
Author(s): Florence Koeppel, Steven G. Blanchard, Cécile Jovelet, Bérengère Génin, Charles Marcaillou, Emmanuel Martin, Etienne Rouleau, Éric Solary, Jean‐Charles Soria, Fabrice André, Ludovic Lacroix
Software Mentions: 1
Published: almost 7 years ago
10.1371/journal.pone.0070202
Identification and Validation of Human Papillomavirus Encoded microRNAsCited by: 63
Author(s): Keping Qian, Tuuli Pietilä, Mikko Rönty, Frédéric Michon, Mikko J. Frilander, Jarmo Ritari, Jussi Tarkkanen, Lars Paulín, Petri Auvinen, Eeva Auvinen
Software Mentions: 1
Published: about 11 years ago
10.1371/journal.pone.0046596
PICARA, an Analytical Pipeline Providing Probabilistic Inference about A Priori Candidates Genes Underlying Genome-Wide Association QTL in PlantsCited by: 20
Author(s): Charles Chen, Genevieve DeClerck, Feng Tian, William Spooner, Susan R. McCouch, Edward S. Buckler
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0031149
Genome-Wide Identification, Evolutionary Expansion, and Expression Profile of Homeodomain-Leucine Zipper Gene Family in Poplar (Populus trichocarpa)Cited by: 75
Author(s): Ruibo Hu, Xiaoyuan Chi, Guohua Chai, Yingzhen Kong, He Guo, Xiaoyu Wang, Dachuan Shi, Dongyuan Zhang, Gongke Zhou
Software Mentions: 1
Published: over 12 years ago
10.1016/j.celrep.2019.05.025
Ets21c Governs Tissue Renewal, Stress Tolerance, and Aging in the Drosophila IntestineCited by: 44
Author(s): Juliane Mundorf, Colin D. Donohoe, Colin D. McClure, Tony D. Southall, Mirka Uhlířová
Software Mentions: 1
Published: over 5 years ago
10.3390/cells10051087
Imaging the Renal Microcirculation in Cell TherapyCited by: 5
Author(s): Katerina Apelt, Roel Bijkerk, Franck Lebrin, Ton J. Rabelink
Software Mentions: 1
Published: over 3 years ago
10.1093/database/bav084
ChloroMitoSSRDB 2.00: more genomes, more repeats, unifying SSRs search patterns and on-the-fly repeat detectionCited by: 21
Author(s): Gaurav Sablok, G. V. Padma Raju, Suresh B. Mudunuri, Ratna Prabha, Dhananjaya P. Singh, Vesselin Baev, Galina Yahubyan, Peter J. Ralph, Nicola La Porta
Software Mentions: 1
Published: over 9 years ago
10.1080/22221751.2018.1558960
A<i>Listeria monocytogenes</i>ST2 clone lacking chitinase ChiB from an outbreak of non-invasive gastroenteritisCited by: 19
Author(s): Sven Halbedel, Rita Prager, Sangeeta Banerji, Sylvia Kleta, Eva Trost, Gopala Nishanth, Georg Alles, Christina Hölzel, Friederike Schlesiger, Ariane Pietzka, Dirk Schlüter, Antje Flieger
Software Mentions: 1
Published: over 5 years ago
10.3389/fnagi.2017.00306
Atrophy of the Posterior Subiculum Is Associated with Memory Impairment, Tau- and Aβ Pathology in Non-demented IndividualsCited by: 28
Author(s): Olof Lindberg, Gustav Mårtensson, Erik Stomrud, Sebastian Palmqvist, Lars Olof Wahlund, Eric Westman, Oskar Hansson
Software Mentions: 1
Published: almost 7 years ago
10.3389/fbioe.2020.00663
Genomic Characterization of mcr-1-carrying Salmonella enterica Serovar 4,[5],12:i:- ST 34 Clone Isolated From Pigs in ChinaCited by: 36
Author(s): Mohammed Elbediwi, Biao Wu, Hang Pan, Zihan Jiang, Sanket Biswas, Yan Li, Min Yue
Software Mentions: 1
Published: about 4 years ago
10.3389/fgene.2019.00946
Single Nucleotide Polymorphisms in Starch Biosynthetic Genes Associated With Increased Resistant Starch Concentration in Rice MutantCited by: 21
Author(s): Selvakumar Gurunathan, Bharathi Raja Ramadoss, M. Venkataramana, S. Chandranayaka, Naveen Kumar Kalagatur, J.R. Kannan Bapu, Chakrabhavi Dhananjaya Mohan, Abdulaziz A. Alqarawi
Software Mentions: 1
Published: almost 5 years ago
10.3389/fmicb.2021.726251
Wiring Up Along Electrodes for Biofilm FormationCited by: 1
Author(s): María Belén Prados, Mariela Ines Lescano, Natalia Porzionato, Gustavo Curutchet
Software Mentions: 1
Published: about 3 years ago
10.3389/fmicb.2019.02263
Adaptive Evolution of Sphingobium hydrophobicum C1T in Electronic Waste Contaminated River SedimentCited by: 6
Author(s): Da Song, Xingjuan Chen, Meiying Xu, Rong Hai, Aifen Zhou, Renmao Tian, Joy D. Van Nostrand, Megan L. Kempher, Jun Guo, Guoping Sun, Jizhong Zhou
Software Mentions: 1
Published: almost 5 years ago
10.3389/fmicb.2017.01540
Genomic Characteristics of Bifidobacterium thermacidophilum Pig Isolates and Wild Boar Isolates Reveal the Unique Presence of a Putative Mobile Genetic Element with tetW for Pig Farm IsolatesCited by: 10
Author(s): Sayaka Tsuchida, Fumito Maruyama, Yoshitoshi Ogura, Atsushi Toyoda, Tetsuya Hayashi, Moriya Okuma, Kazunari Ushida
Software Mentions: 1
Published: about 7 years ago
10.3389/fnins.2021.702353
Exploring Peritumoral Neural Tracts by Using Neurite Orientation Dispersion and Density ImagingCited by: 2
Author(s): Shin Tai Chong, Xinrui Liu, Hung Wen Kao, Chien‐Yuan Lin, Chih-Chin Heather Hsu, Yi-Chia Kung, Kuan-Tsen Kuo, Chu-Chung Huang, Chun-Yi Zac Lo, Yunqian Li, Gang Zhao, Ching-Po Lin
Software Mentions: 1
Published: almost 3 years ago
10.3389/fonc.2018.00512
Human Herpesvirus 6 and Malignancy: A ReviewCited by: 43
Author(s): Eva Eliassen, Emily Lum, Joshua C. Pritchett, J Ongrádi, G. R. F. Krueger, John R. Crawford, Tuan L. Phan, Dharam V. Ablashi, S. David Hudnall
Software Mentions: 1
Published: almost 6 years ago
10.3389/fped.2015.00067
Clinical Impact and Cost-Effectiveness of Whole Exome Sequencing as a Diagnostic Tool: A Pediatric Center’s ExperienceCited by: 139
Author(s): C. Alexander Valencia, Ammar Husami, Jennifer Holle, Judith A. Johnson, Yaping Qian, Abhinav Mathur, Chao Wei, Subba Rao Indugula, Fanggeng Zou, Haiying Meng, Lijun Wang, Xia Li, Rachel Fisher, Tony Tan, Amber Begtrup, Kathleen Collins, Katie Wusik, Derek Neilson, T. Burrow, Elizabeth K. Schorry, Robert J. Hopkin, Mehdi Keddache, John B. Harley, Kenneth M. Kaufman, Kejian Zhang
Software Mentions: 1
Published: about 9 years ago
10.3389/fvets.2017.00184
Phenotypic and Genotypic Features of a Salmonella Heidelberg Strain Isolated in Broilers in Brazil and Their Possible Association to Antibiotics and Short-Chain Organic Acids Resistance and SusceptibilityCited by: 6
Author(s): Elizabeth Santín, R. M. Hayashi, Jéssica Caroline Staffen Wammes, R. González-Esquerra, Marcelo Falsarella Carazzolle, Caio César de Melo Freire, Paulo Sérgio Monzani, Anderson Ferreira da Cunha
Software Mentions: 1
Published: almost 7 years ago
10.3389/fvets.2020.566282
Effects of High-Fat Diet at Two Energetic Levels on Fecal Microbiota, Colonic Barrier, and Metabolic Parameters in DogsCited by: 13
Author(s): Alex Moinard, Cyrielle Payen, Khadija Ouguerram, Agnès André, Juan Hernandez, Amandine Drut, Vincent Biourge, Jan S. Suchodolski, John G. Flanagan, Patrick Nguyen, Véronique Leray
Software Mentions: 1
Published: almost 4 years ago
10.3389/fvets.2020.614513
High-Zinc Supplementation of Weaned Piglets Affects Frequencies of Virulence and Bacteriocin Associated Genes Among Intestinal Escherichia coli PopulationsCited by: 4
Author(s): V. Johanns, Lennard Epping, Torsten Semmler, Fereshteh Ghazisaeedi, Antina Lübke‐Becker, Yvonne Pfeifer, Inga Eichhorn, Roswitha Merle, Astrid Bethe, Birgit Walther, Lothar H. Wieler
Software Mentions: 1
Published: almost 4 years ago
10.1534/g3.113.008417
Dissecting Genome-Wide Association Signals for Loss-of-Function Phenotypes in Sorghum Flavonoid Pigmentation TraitsCited by: 58
Author(s): Geoffrey P. Morris, Davina H. Rhodes, Zachary Brenton, Punna Ramu, Vinayan Madhumal Thayil, Santosh Deshpande, C T Hash, Charlotte B. Acharya, Sharon E. Mitchell, Edward S. Buckler, Jianming Yu, Stephen Kresovich
Software Mentions: 1
Published: almost 11 years ago
10.1534/g3.118.200978
Genomic Analysis of <i>Pseudomonas</i> sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for BioremediationCited by: 7
Author(s): Masafumi Harada, Kohei Ito, Nobuyoshi Nakajima, Shigeki Yamamura, Masaru Tomita, Haruo Suzuki, Seigo Amachi
Software Mentions: 1
Published: over 5 years ago
10.1128/genomeA.01563-14
A17, the First Sequenced Strain of Lactococcus lactis subsp. cremoris with Potential Immunomodulatory FunctionsCited by: 2
Author(s): Chih Hsien Yang, Chien Chen Wu, Wei Shen Cheng, Ming Chuan Chung, Yao‐Chou Tsai, Chia Hui Chang
Software Mentions: 1
Published: over 9 years ago
10.1128/genomeA.01319-16
Complete Genome Sequence of the Probiotic Strain Lactobacillus salivarius LPM01Cited by: 1
Author(s): Empar Chenoll, Francisco M. Codoñer, Juan F. Martínez-Blanch, Marcelo Acevedo-Piérart, M. Loreto Ormeño, Daniel Ramón, Salvador Genovés
Software Mentions: 1
Published: over 7 years ago
10.1128/genomeA.00395-17
Draft Genome Sequence of the Salt Water Bacterium Oceanospirillum linum ATCC 11336 TCited by: 1
Author(s): Ariel M. Trachtenberg, Joshua G. Carney, Joshua D. Linnane, Bruce A. Rheaume, Natalie L. Pitts, Donald L. Mykles, Kyle S. MacLea
Software Mentions: 1
Published: over 7 years ago
10.1128/genomeA.01044-17
Draft Genome Sequence of Romboutsia maritimum sp. nov. Strain CCRI-22766 T , Isolated from Coastal Estuarine MudCited by: 1
Author(s): Andrée F. Maheux, Dominique K. Boudreau, Ève Bérubé, Maurice Boissinot, Frédéric Raymond, Stéphanie Brodeur, Jacques Corbeil, Gale Brightwell, D.M. Broda, Rabeea F. Omar, Michel G. Bergeron
Software Mentions: 1
Published: almost 7 years ago
10.1128/genomeA.01120-17
Complete Genome Sequence of the New Urolithin-Producing Bacterium Gordonibacter urolithinfaciens DSM 27213 <sup>T</sup>Cited by: 5
Author(s): Juan F. Martínez-Blanch, Daniel Ramón, David Beltrán, María Romo‐Vaquero, Rocío Garcı́a-Villalba, Juan Carlos Espı́n, Francisco A. Tomás-Barberán, Francisco M. Codoñer, María V. Selma
Software Mentions: 1
Published: almost 7 years ago
10.1186/s13059-019-1736-x
Trapping a somatic endogenous retrovirus into a germline piRNA cluster immunizes the germline against further invasionCited by: 38
Author(s): Céline Duc, Marianne Yoth, Silke Jensen, Nolwenn Mouniée, Casey M. Bergman, Chantal Vaury, Emilie Brasset
Software Mentions: 1
Published: about 5 years ago
10.1093/gigascience/gix048
Bio-Docklets: virtualization containers for single-step execution of NGS pipelinesCited by: 12
Author(s): Baekdoo Kim, Thahmina Ali, Carlos Lijeron, Enis Afgan, Konstantinos Krampis
Software Mentions: 1
Published: about 7 years ago
10.1002/hbm.25448
Optimizing differential identifiability improves connectome predictive modeling of cognitive deficits from functional connectivity in Alzheimer's diseaseCited by: 16
Author(s): Diana Otero Svaldi, Joaquín Goñi, Kausar Abbas, Enrico Amico, David G. Clark, Charanya Muralidharan, Mario Džemidžić, John D. West, Shannon L. Risacher, Andrew J. Saykin, Liana G. Apostolova
Software Mentions: 1
Published: over 3 years ago
10.1016/j.jbc.2021.101135
Aim32 is a dual-localized 2Fe-2S mitochondrial protein that functions in redox quality controlCited by: 3
Author(s): Danyun Zhang, Owen R. Dailey, Daniel J. Simon, Kamilah Roca-Datzer, Yasaman Jami‐Alahmadi, Mikayla S. Hennen, Carla M. Koehler, Deepa V. Dabir
Software Mentions: 1
Published: almost 3 years ago
10.1007/s10875-020-00834-2
Heterozygous TLR3 Mutation in Patients with Hantavirus EncephalitisCited by: 11
Author(s): Terhi Partanen, Jie Chen, Jussi Lehtonen, Outi Kuismin, Harri Rusanen, Olli Vapalahti, Antti Vaheri, Veli‐Jukka Anttila, Michaela K. Bode, Nina Hautala, Tytti Vuorinen, Virpi Glumoff, Minna Kraatari, Pirjo Åström, Janna Saarela, Heikki Kauma, Lazaro Lorenzo, Jean‐Laurent Casanova, Shen-Ying Zhang, Mikko Seppänen, Timo Hautala
Software Mentions: 1
Published: about 4 years ago
10.1128/JCM.00038-20
Genomic Surveillance Enables Suitability Assessment of <i>Salmonella</i> Gene Targets Used for Culture-Independent Diagnostic TestingCited by: 5
Author(s): Rebecca Rockett, Alicia Arnott, Qinning Wang, Peter Howard, Vitali Sintchenko
Software Mentions: 1
Published: about 4 years ago
10.1093/jxb/erv552
Water-deficiency conditions differently modulate the methylome of roots and leaves in barley (<i>Hordeum vulgare</i>L.)Cited by: 63
Author(s): Karolina Chwiałkowska, Urszula Nowakowska, Anna Mroziewicz, Iwona Szarejko, Mirosław Kwaśniewski
Software Mentions: 1
Published: over 8 years ago
10.1038/s41391-021-00324-5
Molecular medicine tumor board: whole-genome sequencing to inform on personalized medicine for a man with advanced prostate cancerCited by: 4
Author(s): Andrew J. Armstrong, Xiaotong Li, Matthew D. Tucker, Shantao Li, Xinmeng Jasmine Mu, Kenneth Eng, Andrea Sboner, Mark A. Rubin, Mark Gerstein
Software Mentions: 1
Published: over 3 years ago
10.1038/srep19032
Western diet induces a shift in microbiota composition enhancing susceptibility to Adherent-Invasive E. coli infection and intestinal inflammation.Cited by: 310
Author(s): Allison Agus, Jérémy Denizot, Jonathan Thévenot, Margarita Martínez-Medina, Sébastien Massier, Pierre Sauvanet, Annick Bernalier-Donadille, Sylvain Denis, Paul Hofman, Richard Bonnet, Elisabeth Billard, Nicolas Barnich
Software Mentions: 1
Published: over 8 years ago
10.1038/srep19399
Anti-nociceptive effect of Faecalibacterium prausnitzii in non-inflammatory IBS-like modelsCited by: 67
Author(s): Sylvie Miquel, Rebeca Martín, Amandine Lashermes, M. Gillet, Mathieu Méleine, Agathe Gelot, Alain Eschalier, Denis Ardid, Luis G. Bermúdez‐Humarán, Harry Sokol, Muriel Thomas, Vassilia Théodorou, Philippe Langella, Frédéric A. Carvalho
Software Mentions: 1
Published: over 8 years ago
10.1038/srep37309
Novel Genomic and Evolutionary Insight of WRKY Transcription Factors in Plant LineageCited by: 50
Author(s): Tapan Kumar Mohanta, Yong-Hwan Park, Hanhong Bae
Software Mentions: 1
Published: almost 8 years ago
10.1038/srep41308
Whole Genome Sequencing Identifies Novel Compound Heterozygous Lysosomal Trafficking Regulator Gene Mutations Associated with Autosomal Recessive Chediak-Higashi SyndromeCited by: 9
Author(s): Yichen Jin, Li Zhang, Senfen Wang, Feng Chen, Yang Gu, Enyu Hong, Yizhi Yu, Yongli Guo, Tieliu Shi, Zigang Xu
Software Mentions: 1
Published: over 7 years ago
10.1038/s41598-017-18217-w
Impact of the G84E variant on HOXB13 gene and protein expression in formalin-fixed, paraffin-embedded prostate tumoursCited by: 8
Author(s): Liesel M. FitzGerald, Kelsie Raspin, James R. Marthick, Matthew A. Field, RC Malley, Russell Thomson, Nicholas B. Blackburn, Annette Banks, Jac Charlesworth, Shaun Donovan, Joanne L. Dickinson
Software Mentions: 1
Published: almost 7 years ago
10.1038/s41598-018-30055-y
AIEC infection triggers modification of gut microbiota composition in genetically predisposed mice, contributing to intestinal inflammationCited by: 47
Author(s): Alexis Bretin, Cécily Lucas, Anaïs Larabi, Guillaume Dalmasso, Elisabeth Billard, Nicolas Barnich, Richard Bonnet, Hang Thi Thu Nguyen
Software Mentions: 1
Published: about 6 years ago
10.1038/s41598-020-67828-3
The apical root canal system microbial communities determined by next-generation sequencingCited by: 19
Author(s): Luciana Carla Neves de Brito, Janet Doolittle-Hall, Chun‐Teh Lee, Kevin Moss, Wilson Bambirra Júnior, Warley Luciano Fonseca Tavares, Antônio Paulino Ribeiro Sobrinho, Flavia Teles
Software Mentions: 1
Published: about 4 years ago
10.1186/s40793-016-0216-0
High quality draft genome of Nakamurella lactea type strain, a rock actinobacterium, and emended description of Nakamurella lacteaCited by: 10
Author(s): Imen Nouioui, Markus Göker, Lorena Carro, María del Carmen Montero-Calasanz, Manfred Rohde, Tanja Woyke, Nikos C. Kyrpides, Hans‐Peter Klenk
Software Mentions: 1
Published: over 7 years ago
10.1099/acmi.0.000180
The effects of feeding ferric citrate on ruminal bacteria, methanogenic archaea and methane production in growing beef steersCited by: 1
Author(s): Brooke A. Clemmons, Liesel G Schneider, Emily A Melchior, A. K. Lindholm‐Perry, Kristin E Hales, John W. Wells, H. C. Freetly, Stephanie L Hansen, Mary E. Drewnoski, Sarah J. Hartman, Phillip R. Myer
Software Mentions: 1
Published: over 3 years ago
10.3390/ijms21249746
Ecofriendly Synthesis of Silver Nanoparticles by Terrabacter humi sp. nov. and Their Antibacterial Application against Antibiotic-Resistant PathogensCited by: 26
Author(s): Shahina Akter, Sun-Young Lee, Muḥammad Zubair Ṣiddiqi, Sri Renukadevi Balusamy, Md. Ashrafudoulla, Esrat Jahan Rupa, Md. Amdadul Huq
Software Mentions: 1
Published: over 3 years ago
10.3390/ijms22179122
Delivery of Metabolically Neuroactive Probiotics to the Human GutCited by: 3
Author(s): Peter A. Bron, Marta Catalayud, Massimo Marzorati, Marco Pane, Ece Kartal, Raja Dhir, Gregor Reid
Software Mentions: 1
Published: about 3 years ago
10.1080/20002297.2018.1442986
Oral microbiota in autoimmune polyendocrine syndrome type 1Cited by: 10
Author(s): Øyvind Bruserud, Huma Siddiqui, Michaela Cuida Marthinussen, Tsute Chen, Roland Jönsson, Bergithe E. Oftedal, Ingar Olsen, Eystein S. Husebye, Anette S. B. Wolff
Software Mentions: 1
Published: over 6 years ago
10.18632/oncotarget.14146
Guidance to rational use of pharmaceuticals in gallbladder sarcomatoid carcinoma using patient-derived cancer cells and whole exome sequencingCited by: 7
Author(s): Feiling Feng, Qiang Cheng, Liang-Tung Yang, Dadong Zhang, Shun-Long Ji, Qiangzu Zhang, Yen-Hwei Lin, Fugen Li, Lei Xiong, Chen Liu, Xiaoqing Jiang
Software Mentions: 1
Published: over 7 years ago
10.18632/oncotarget.11998
Comprehensive landscape of subtype-specific coding and non-coding RNA transcripts in breast cancerCited by: 18
Author(s): Trung Nghia Vu, Setia Pramana, Stefano Calza, Chen Suo, Donghwan Lee, Yudi Pawitan
Software Mentions: 1
Published: about 8 years ago
10.18632/oncotarget.26247
Personalized identification of tumor-associated immunogenic neoepitopes in hepatocellular carcinoma in complete remission after sorafenib treatmentCited by: 6
Author(s): Sindy Vrecko, David Guenat, Patricia Mercier‐Letondal, Hugues Faucheu, Magalie Dosset, Bernard Royer, Jeanne Galaine, Romain Boidot, Stéfano Kim, Marine Jary, Olivier Adotévi, Christophe Borg, Yann Godet
Software Mentions: 1
Published: almost 6 years ago
10.1186/1750-1172-9-43
Expanding the phenotypic spectrum of ARID1B-mediated disorders and identification of altered cell-cycle dynamics due to ARID1B haploinsufficiencyCited by: 15
Author(s): Joe Chou Hung Sim, Susan White, Elizabeth Fitzpatrick, Gregory V. Wilson, Greta Gillies, Kate Pope, Hayley S. Mountford, Pernille Mathiesen Tørring, Shane McKee, Anneke T. Vulto-van Silfhout, Shalini N. Jhangiani, Donna M. Muzny, Richard J. Leventer, Martin B. Delatycki, David J. Amor, Paul J. Lockhart
Software Mentions: 1
Published: over 10 years ago
10.1186/s13023-018-0864-9
Diagnostics of rare disorders: whole-exome sequencing deciphering locus heterogeneity in telomere biology disordersCited by: 7
Author(s): Luca Trotta, Anna Norberg, Mervi Taskinen, Vivien Béziat, Sofie Degerman, Ulla Wartiovaara‐Kautto, Hannamari Välimaa, Kirsi Jahnukainen, Jean‐Laurent Casanova, Mikko Seppänen, Janna Saarela, Minna Koskenvuo, Timi Martelius
Software Mentions: 1
Published: about 6 years ago