pypi: alignment | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2020.01376

Mobilization of Antibiotic Resistance: Are Current Approaches for Colocalizing Resistomes and Mobilomes Useful?
Cited by: 28
Author(s): Ilya B. Slizovskiy, Kingshuk Mukherjee, Christopher Dean, Christina Boucher, Noelle Noyes
Software Mentions: 8
Published: about 4 years ago

10.1128/mSystems.00510-21

Dysbiosis of the Urinary Bladder Microbiome in Cats with Chronic Kidney Disease
Cited by: 5
Author(s): Younjung Kim, Maura Carrai, Marcus H. Y. Leung, Jaime Chin, Jun Li, Patrick K. H. Lee, Julia A. Beatty, Dirk U. Pfeiffer, Vanessa R. Barrs
Software Mentions: 7
Published: about 3 years ago

10.1186/1471-2105-9-163

OpenMS – An open-source software framework for mass spectrometry
Cited by: 565
Author(s): Marc Sturm, Andreas Bertsch, Clemens Gröpl, Andreas Hildebrandt, René Hussong, Eva Lange, Nico Pfeifer, Ole Schulz-Trieglaff, Alexandra Zerck, Knut Reinert, Oliver Kohlbacher
Software Mentions: 4
Published: over 16 years ago

10.3389/fmicb.2021.632280

Microbial Community Dynamics of Soybean (Glycine max) Is Affected by Cropping Sequence
Cited by: 8
Author(s): Ayooluwa Bolaji, Joey Wan, Christopher L. Manchur, Yvonne Lawley, Teresa R. de Kievit, W. G. Dilantha Fernando, Mark F. Belmonte
Software Mentions: 3
Published: over 3 years ago

10.7554/eLife.50845

A widely distributed metalloenzyme class enables gut microbial metabolism of host- and diet-derived catechols
Cited by: 34
Author(s): Vayu Maini Rekdal, Paola Nol Bernadino, Michael U. Luescher, Sina Kiamehr, Cuong H. Le, Jordan E. Bisanz, Peter J. Turnbaugh, Elizabeth N. Bess, Emily P. Balskus
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-019-53802-1

Oral microbiome diversity in chimpanzees from Gombe National Park
Cited by: 14
Author(s): Andrew T. Ozga, Ian C. Gilby, Rebecca Nockerts, Michael L. Wilson, Anne E. Pusey, Anne C. Stone
Software Mentions: 3
Published: almost 5 years ago

10.1186/s13742-015-0051-z

Bacterial and viral identification and differentiation by amplicon sequencing on the MinION nanopore sequencer
Cited by: 142
Author(s): Andy Kilianski, Jamie Haas, Elizabeth J Corriveau, Alvin T. Liem, Kristen L. Willis, Dana R Kadavy, C. Nicole Rosenzweig, Samuel S. Minot
Software Mentions: 2
Published: over 9 years ago

10.1186/s12916-020-01751-2

The intestinal microbiome, weight, and metabolic changes in women treated by adjuvant chemotherapy for breast and gynecological malignancies
Cited by: 18
Author(s): Atara Uzan-Yulzari, Maya Morr, Hala Tareef-Nabwani, Oren Ziv, Dafna Magid-Neriya, Ran Armoni, Efrat Muller, Anca Leibovici, Elhanan Borenstein, Yoram Louzoun, Ayelet Shai, Omry Koren
Software Mentions: 2
Published: almost 4 years ago

10.1002/fsn3.2468

Gastrointestinal transit tolerance, cell surface hydrophobicity, and functional attributes of Lactobacillus Acidophilus strains isolated from Indigenous Dahi
Cited by: 12
Author(s): Wajiha Farid, Tariq Masud, Aamir Sohail, Nazir Ahmad, Syed Muhammad Saqlan Naqvi, Sipper Khan, Amjad Ali, S. A. Khalifa, Abid Hussain, Sartaj Ali, Maryum Saghir, Azhari Siddeeg, Muhammad Faisal Manzoor
Software Mentions: 2
Published: about 3 years ago

10.1371/journal.pone.0226234

Can we use it? On the utility of de novo and reference-based assembly of Nanopore data for plant plastome sequencing
Cited by: 27
Author(s): Agnes Scheunert, Marco Dorfner, Thomas Lingl, Christoph Oberprieler
Software Mentions: 2
Published: over 4 years ago

10.1016/j.dib.2019.104016

Sequence alignments and validation of PCR primers used to detect phylogenetically diverse nrfA genes associated with dissimilatory nitrate reduction to ammonium (DNRA)
Cited by: 4
Author(s): Jordan Cannon, Robert A. Sanford, Lynn Connor, Wendy H. Yang, Joanne C. Chee‐Sanford
Software Mentions: 1
Published: about 5 years ago

10.1186/1471-230X-13-175

Abnormal fecal microbiota community and functions in patients with hepatitis B liver cirrhosis as revealed by a metagenomic approach
Cited by: 107
Author(s): Xiao Wei, Xiabei Yan, Dayang Zou, Zhan Yang, Xuesong Wang, Wei Liu, Simiao Wang, Xuelian Li, Junfeng Han, Liuyu Huang, Jing Yuan
Software Mentions: 1
Published: almost 11 years ago

10.3389/fmicb.2017.00588

Comparative Genomics and Transcriptional Analysis of Flavobacterium columnare Strain ATCC 49512
Cited by: 33
Author(s): Hasan C. Tekedar, Attila Karsi, Joseph S. Reddy, Seong Won Nho, Şafak Kalindamar, Mark L. Lawrence
Software Mentions: 1
Published: over 7 years ago

10.3389/fmicb.2019.02877

The Novel Enterococcus Phage vB_EfaS_HEf13 Has Broad Lytic Activity Against Clinical Isolates of Enterococcus faecalis
Cited by: 36
Author(s): Dong‐Wook Lee, Jino Im, Hongjun Na, Sangryeol Ryu, Cheol‐Heui Yun, Seung Hyun Han
Software Mentions: 1
Published: almost 5 years ago

10.3389/fnmol.2021.718951

Neuromodulation and Behavioral Flexibility in Larval Zebrafish: From Neurotransmitters to Circuits
Cited by: 11
Author(s): Laura Corradi, Alessandro Filosa
Software Mentions: 1
Published: about 3 years ago

10.1534/g3.115.025197

Utilizing Gene Tree Variation to Identify Candidate Effector Genes in Zymoseptoria tritici
Cited by: 23
Author(s): Megan C. McDonald, Lachlan McGinness, James K. Hane, Angela H. Williams, Andrew Milgate, Peter S. Solomon
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-021-85182-w

Sanger sequencing is no longer always necessary based on a single-center validation of 1109 NGS variants in 825 clinical exomes
Cited by: 30
Author(s): Ana Arteche‐López, Almudena Ávila-Fernández, Raquel Escutia Romero, Rosa Riveiro-Álvarez, Miguel Ángel López-Martínez, A Giménez-Pardo, Camilo Vélez-Monsalve, J. Gallego-Merlo, I García-Vara, Berta Almoguera, Ana Bustamante-Aragonés, Fiona Blanco‐Kelly, Saoud Tahsin-Swafiri, Elvira Rodríguez‐Pinilla, Pablo Mínguez, Isabel Lorda, María José Trujillo-Tiebas, Carmen Ayuso
Software Mentions: 1
Published: over 3 years ago

10.1186/1471-2148-14-4

Understanding the evolutionary structural variability and target specificity of tick salivary Kunitz peptides using next generation transcriptome data
Cited by: 25
Author(s): Alexandra Schwarz, Alejandro Cabezas-Cruz, Jan Kopecký, James J. Valdés
Software Mentions: 1
Published: over 10 years ago

10.3390/ijms18040812

Metallothionein Gene Family in the Sea Urchin Paracentrotus lividus: Gene Structure, Differential Expression and Phylogenetic Analysis
Cited by: 22
Author(s): Maria Antonietta Ragusa, Aldo Nicosia, Salvatore Costa, Angela Cuttitta, Fabrizio Gianguzza
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms19092784

Insights into the Influence of Specific Splicing Events on the Structural Organization of LRRK2
Cited by: 2
Author(s): Dimitriοs Vlachakis, Nikolaos E. Labrou, Costas S. Iliopoulos, John Hardy, Patrick A. Lewis, Hardy J. Rideout, Daniah Trabzuni
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms21176370

High-Throughput Cloning and Characterization of Emerging Adenovirus Types 70, 73, 74, and 75
Cited by: 11
Author(s): Wenli Zhang, Kemal Mese, Sebastian Schellhorn, Nora Bahlmann, Nicolas Mach, Oskar Bunz, Akshay Dhingra, Elias Hage, Marie-Édith Lafon, Harald Wodrich, Albert Heim, Anja Ehrhardt
Software Mentions: 1
Published: about 4 years ago

10.1186/1471-2164-14-434

De novo transcriptome sequencing of axolotl blastema for identification of differentially expressed genes during limb regeneration
Cited by: 61
Author(s): Cheng‐Hsun Wu, Mong-Hsun Tsai, Cheng-Seen Ho, Chien‐Yu Chen, Hsuan-Shu Lee
Software Mentions: 1
Published: about 11 years ago

10.1080/20002297.2017.1307079

Streptococcus tigurinus is frequent among gtfR-negative Streptococcus oralis isolates and in the human oral cavity, but highly virulent strains are uncommon
Cited by: 9
Author(s): Georg Conrads, Svenja Barth, Martin Möckel, Lucas Lenz, Mark van der Linden, Karsten Henne
Software Mentions: 1
Published: over 7 years ago

10.1186/s12866-016-0703-x

Biochemical and spectroscopic characterization of purified Latex Clearing Protein (Lcp) from newly isolated rubber degrading Rhodococcus rhodochrous strain RPK1 reveals novel properties of Lcp
Cited by: 44
Author(s): Sirimaporn Watcharakul, Wolf Röther, Jakob Birke, Kamontam Umsakul, Brian Hodgson, Dieter Jendrossek
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2180-10-312

S. Typhimurium sseJ gene decreases the S. Typhi cytotoxicity toward cultured epithelial cells
Cited by: 22
Author(s): Annette N. Trombert, Liliana Berrocal, Juan A. Fuentes, Gabriela Mora
Software Mentions: 1
Published: almost 14 years ago

10.3390/pathogens9070591

Concurrent Infection of Skunk Adenovirus-1, Listeria monocytogenes, and a Regionally Specific Clade of Canine Distemper Virus in One Gray Fox (Urocyon cinereoargenteus) and Concurrent Listeriosis and Canine Distemper in a Second Gray Fox
Cited by: 8
Author(s): David B. Needle, Jacqueline L Marr, Cooper J. Park, Cheryl P. Andam, Annabel G. Wise, Roger K. Maes, Rebecca P. Wilkes, Eman Anis, Inga Sidor, Dalen Agnew, Julie C. Ellis, Patrick Tate, Abigail Mathewson, Christopher S. Benton, R. J. Gibson
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pone.0106514

Marinobacter salarius sp. nov. and Marinobacter similis sp. nov., Isolated from Sea Water
Cited by: 39
Author(s): Hooi Jun Ng, Mario López‐Pérez, Hayden K. Webb, Daniela Gómez, Tomoo Sawabe, Jason Ryan, Mikhail Vyssotski, Chantal Bizet, François Malherbe, Valery V. Mikhailov, Russell J. Crawford, Elena P. Ivanova
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0096782

Sequence and Ionomic Analysis of Divergent Strains of Maize Inbred Line B73 with an Altered Growth Phenotype
Cited by: 13
Author(s): Martin Mascher, Nina Gerlach, Manfred Gahrtz, Marcel Bucher, Uwe Scholz, Thomas Dresselhaus
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0032138

A Novel Protein Kinase-Like Domain in a Selenoprotein, Widespread in the Tree of Life
Cited by: 59
Author(s): Małgorzata Dudkiewicz, Teresa Szczepińska, Marcin Grynberg, Krzysztof Pawłowski
Software Mentions: 1
Published: over 12 years ago

Ecosyste.ms: Papers

Projects: pypi: alignment

Papers Mentioning alignment 30