pypi: cutadapt | Projects | Ecosyste.ms: Papers

10.3390/ani10020176

Characterization of the Rumen Microbiota and Volatile Fatty Acid Profiles of Weaned Goat Kids under Shrub-Grassland Grazing and Indoor Feeding
Cited by: 13
Author(s): Jiazhong Guo, Pengfei Li, Shuai Liu, Benchun Miao, Bo Zeng, Yahui Jiang, Li Li, Linjie Wang, Yu Chen, Hongping Zhang
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0199010

MeDIP combined with in-solution targeted enrichment followed by NGS: Inter-individual methylation variability of fetal-specific biomarkers and their implementation in a proof of concept study for NIPT
Cited by: 7
Author(s): Anna Keravnou, Marios Ioannides, Charalambos Loizides, Kyriakos Tsangaras, Achilleas Achilleos, Petros Mina, Elena Kypri, Michael D. Hadjidaniel, Maria Neofytou, Skevi Kyriacou, Carolina Sismani, George Koumbaris, Philippos C. Patsalis
Software Mentions: 1
Published: over 6 years ago

10.1038/s41396-020-0688-1

Parallel reductive genome evolution in Desulfovibrio ectosymbionts independently acquired by Trichonympha protists in the termite gut
Cited by: 9
Author(s): Mariko Takeuchi, Hiroya Kuwahara, Takumi Murakami, Kuniyuki Takahashi, Rei Kajitani, Atsushi Toyoda, Takehiko Itoh, Moriya Ohkuma, Yuichi Hongoh
Software Mentions: 1
Published: over 4 years ago

10.1007/s10549-020-05836-7

Identification of candidate mediators of chemoresponse in breast cancer through therapy-driven selection of somatic variants
Cited by: 11
Author(s): Waleed S. Al Amri, Diana E. Baxter, Andrew M. Hanby, Lucy F. Stead, Eldo T. Verghese, James L. Thorne, Tom Hughes
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pbio.2000779

Alteration of protein function by a silent polymorphism linked to tRNA abundance
Cited by: 97
Author(s): Sebastian Kirchner, Zhiwei Cai, Robert Rauscher, Nicolai Kastelic, Melanie Anding, Andreas Czech, Bertrand Kleizen, Lynda S. Ostedgaard, Ineke Braakman, David N. Sheppard, Zoya Ignatova
Software Mentions: 1
Published: over 7 years ago

10.3389/fpls.2015.01144

The Phenotypic and Genetic Underpinnings of Flower Size in Polemoniaceae
Cited by: 19
Author(s): Jacob B. Landis, Rebecca D. O'Toole, Kayla L. Ventura, Matthew A. Gitzendanner, David G Oppenheimer, Douglas E. Soltis, Pamela S. Soltis
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0235853

An efficient ORF selection system for DNA fragment libraries based on split beta-lactamase complementation
Cited by: 0
Author(s): Vaishali Verma, Gopal Joshi, Amita Gupta, Vijay Chaudhary
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pbio.3000969

Pseudomonas aeruginosa cleaves the decoding center of Caenorhabditis elegans ribosomes
Cited by: 8
Author(s): Alejandro Vasquez-Rifo, Emiliano P. Ricci, Victor R. Ambros
Software Mentions: 1
Published: almost 4 years ago

10.1186/s12864-017-4159-7

dCATCH-Seq: improved sequencing of large continuous genomic targets with double-hybridization
Cited by: 4
Author(s): Yan Feng Zhang, Jun Song, Kenneth Day, Devin Absher
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0113698

Unusual Ratio between Free Thyroxine and Free Triiodothyronine in a Long-Lived Mole-Rat Species with Bimodal Ageing
Cited by: 22
Author(s): Yoshiyuki Henning, Christiane Vole, Sabine Begall, Martin Bens, Martina Broecker-Preuß, Arne Sahm, Karol Szafranski, Hynek Burda, Philip Dammann
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0134310

The Identification of Circulating MiRNA in Bovine Serum and Their Potential as Novel Biomarkers of Early Mycobacterium avium subsp paratuberculosis Infection
Cited by: 47
Author(s): DJ Farrell, Ronan G. Shaughnessy, Louise Britton, David E. MacHugh, Bryan Markey, Stephen V. Gordon
Software Mentions: 1
Published: over 9 years ago

10.1128/mBio.00972-21

Expression of the Ebola Virus VP24 Protein Compromises the Integrity of the Nuclear Envelope and Induces a Laminopathy-Like Cellular Phenotype
Cited by: 5
Author(s): Santiago Vidal, María Teresa Sánchez-Aparicio, Rocio Castro Seoane, Ahmed El Motiam, Emily V Nelson, Yanis Hichem Bouzaher, Maite Baz-Martínez, Isabel García-Dorival, Susana Gonzalo, Enrique Vázquez, Anxo Vidal, César Muñoz‐Fontela, Adolfo Garcı́a-Sastre, Carmen Rivas
Software Mentions: 1
Published: about 3 years ago

10.1098/rspb.2017.2654

Multi-omics analysis of thermal stress response in a zooxanthellate cnidarian reveals the importance of associating with thermotolerant symbionts
Cited by: 56
Author(s): Maha J. Cziesielski, Yi Jin Liew, Guoxin Cui, Sebastian Schmidt‐Roach, Sara Campana, Claudius Marondedze, Manuel Aranda
Software Mentions: 1
Published: over 6 years ago

10.1128/mSphere.00615-17

Heterogeneous Antimicrobial Susceptibility Characteristics in Pseudomonas aeruginosa Isolates from Cystic Fibrosis Patients
Cited by: 16
Author(s): Xuan Qin, Chuan Zhou, Danielle M. Zerr, Amanda Adler, Amin Addetia, Shuo Yuan, Alexander L. Greninger
Software Mentions: 1
Published: over 6 years ago

10.1098/rspb.2018.0214

Resolving the phylogenetic position of Darwin's extinct ground sloth ( Mylodon darwinii ) using mitogenomic and nuclear exon data
Cited by: 15
Author(s): Frédéric Delsuc, Melanie Kuch, Gillian C. Gibb, Jonathan J. Hughes, Paul Szpak, John Southon, Jacob Enk, Ana T. Duggan, Hendrik N. Poinar
Software Mentions: 1
Published: over 6 years ago

10.1186/s13058-017-0929-z

Evaluating the breast cancer predisposition role of rare variants in genes associated with low-penetrance breast cancer risk SNPs
Cited by: 21
Author(s): Na Li, Simone M. Rowley, Ella R. Thompson, Simone McInerny, Lisa Devereux, Kaushalya Amarasinghe, Magnus Zethoven, Richard Lupat, David Goode, Jason Li, Alison H. Trainer, Kylie L. Gorringe, Paul James, Ian Campbell
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41396-018-0157-2

Temporal dynamics of microbiota before and after host death
Cited by: 19
Author(s): David Preiswerk, Jean‐Claude Walser, Dieter Ebert
Software Mentions: 1
Published: over 6 years ago

10.3389/fvets.2020.584724

When the Sum of the Parts Tells You More Than the Whole: The Advantage of Using Metagenomics to Characterize Bartonella spp. Infections in Norway Rats (Rattus norvegicus) and Their Fleas
Cited by: 7
Author(s): Chelsea G. Himsworth, Kaylee A. Byers, Champika Fernando, Laura Speerin, Michael J. Lee, Janet E. Hill
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pone.0118339

RNA-Seq Analysis of the Response of the Halophyte, Mesembryanthemum crystallinum (Ice Plant) to High Salinity
Cited by: 54
Author(s): Hironaka Tsukagoshi, Takamasa Suzuki, Kyoji Nishikawa, Sakae Agarie, Sumie Ishiguro, Tetsuya Higashiyama
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0174886

Revising mtDNA haplotypes of the ancient Hungarian conquerors with next generation sequencing
Cited by: 29
Author(s): Endre Neparáczki, Klaudia Kocsy, Gábor Endre Tóth, Zoltán Maróti, Tibor Kalmár, Péter Bihari, István Nagy, György Paragh, Erika Molnár, István Raskó, Tibor Török
Software Mentions: 1
Published: over 7 years ago

10.1534/g3.117.300467

Targeted Long-Read Sequencing of a Locus Under Long-Term Balancing Selection inCapsella
Cited by: 8
Author(s): Jörg A. Bachmann, Andrew Tedder, Benjamin Laenen, Kim A. Steige, Tanja Slotte
Software Mentions: 1
Published: over 6 years ago

10.1186/s12885-020-07005-x

R269C variant of ESR1: high prevalence and differential function in a subset of pancreatic cancers
Cited by: 10
Author(s): Tomer Boldes, Keren Merenbakh-Lamin, Shani Journo, Eliya Shachar, Doron Lipson, Adva Yeheskel, Metsada Pasmanik‐Chor, Tami Rubinek, Ido Wolf
Software Mentions: 1
Published: over 4 years ago

10.1186/s40529-017-0191-9

A termite symbiotic mushroom maximizing sexual activity at growing tips of vegetative hyphae
Cited by: 5
Author(s): Huei Mei Hsieh, Mei Chu Chung, Pao Yang Chen, Fei Man Hsu, Wen‐Wei Liao, Ai Ning Sung, Chun-Ru Lin, Rachel Wang, Yu Hsin Kao, Mei Jane Fang, Chi Yung Lai, Chieh-Chen Huang, Jyh Ching Chou, Wen Neng Chou, Bill C.H. Chang, Yu Ming Ju
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0211497

Vgsc-interacting proteins are genetically associated with pyrethroid resistance in Aedes aegypti
Cited by: 13
Author(s): Corey L. Campbell, Karla Saavedra-Rodríguez, Tristan D. Kubik, Audrey Lenhart, Saúl Lozano-Fuentes, William C. Black
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13068-018-1278-6

Effect of pH and temperature on microbial community structure and carboxylic acid yield during the acidogenic digestion of duckweed
Cited by: 24
Author(s): Özgül Calicioglu, Michael J. Shreve, Tom L. Richard, Rachel A. Brennan
Software Mentions: 1
Published: about 6 years ago

10.1128/mSphere.00090-18

Beaver Fever: Whole-Genome Characterization of Waterborne Outbreak and Sporadic Isolates To Study the Zoonotic Transmission of Giardiasis
Cited by: 31
Author(s): Clement K. M. Tsui, Ruth R. Miller, Miguel Uyaguari, Patrick Tang, Cédric Chauve, William W. L. Hsiao, Judith L. Isaac-Renton, Natalie Prystajecky
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0158565

The De Novo Transcriptome and Its Functional Annotation in the Seed Beetle Callosobruchus maculatus
Cited by: 39
Author(s): Ahmed Sayadi, Elina Immonen, Helen Bayram, Göran Arnqvist
Software Mentions: 1
Published: over 8 years ago

10.3390/plants10010144

Genotype-by-Sequencing Analysis of Mutations and Recombination in Pepper Progeny of Gamma-Irradiated Gametophytes
Cited by: 5
Author(s): Yeong Deuk Jo, Hoyoul Kang, Hong‐Il Choi, Jin Baek Kim
Software Mentions: 1
Published: almost 4 years ago

10.1128/mSphere.00311-18

Investigation of the Plasma Virome from Cases of Unexplained Febrile Illness in Tanzania from 2013 to 2014: a Comparative Analysis between Unbiased and VirCapSeq-VERT High-Throughput Sequencing Approaches
Cited by: 16
Author(s): Simon H. Williams, Samuel Cordey, Nishit Bhuva, Florian Laubscher, Mary-Anne Hartley, Noémie Boillat‐Blanco, Zainab Mbarack, Josephine Samaka, Tarsis Mlaganile, Komal Jain, Valérie D’Acremont, Laurent Kaiser, W. Ian Lipkin
Software Mentions: 1
Published: about 6 years ago

10.3390/plants9080951

Transcriptome Response of Metallicolous and a Non-Metallicolous Ecotypes of Noccaea goesingensis to Nickel Excess
Cited by: 2
Author(s): Agnieszka Domka, Piotr Rozpądek, Rafał Ważny, Roman J. Jędrzejczyk, Magdalena Hubalewska-Mazgaj, Cristina Gonnelli, Jubina Benny, Federico Martinelli, Markus Puschenreiter, Katarzyna Turnau
Software Mentions: 1
Published: over 4 years ago

10.1038/s41598-020-71562-1

Kinship analysis on single cells after whole genome amplification
Cited by: 6
Author(s): Jana Weymaere, Ann-Sophie Vander Plaetsen, Laurentijn Tilleman, Olivier Tytgat, Kaat Rubben, Sofie Geeraert, Dieter Deforce, Filip Van Nieuwerburgh
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pone.0095340

Effects of Silver Nitrate and Silver Nanoparticles on a Planktonic Community: General Trends after Short-Term Exposure
Cited by: 54
Author(s): Jens Boenigk, Daniela Beißer, Sonja Zimmermann, Christina Böck, Jurij Jakobi, Daniel Grabner, Lars Großmann, Sven Rahmann, Stephan Barcikowski, Bernd Sures
Software Mentions: 1
Published: over 10 years ago

10.3390/genes10050356

Temporal Dynamics of DNA Methylation Patterns in Response to Rearing Juvenile Steelhead (Oncorhynchus mykiss) in a Hatchery versus Simulated Stream Environment
Cited by: 30
Author(s): Mackenzie R. Gavery, Krista M. Nichols, Barry A. Berejikian, Christopher P. Tatara, Giles Goetz, J. F. Dickey, Donald M. Van Doornik, Penny Swanson
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-72242-w

Metagenome analysis using serum extracellular vesicles identified distinct microbiota in asthmatics
Cited by: 16
Author(s): Ji‐Hyang Lee, Jun-Pyo Choi, Jinho Yang, Ha-Kyeong Won, Chan Sun Park, Woo-Jung Song, Hyouk‐Soo Kwon, Tae‐Bum Kim, Eui Chong Kim, Hae‐Sim Park, You Sook Cho
Software Mentions: 1
Published: about 4 years ago

10.1038/s41598-020-73501-6

Host-symbiont coevolution, cryptic structure, and bleaching susceptibility, in a coral species complex (Scleractinia; Poritidae)
Cited by: 27
Author(s): Zac H. Forsman, Raphael Ritson‐Williams, Kaho H. Tisthammer, Ingrid S. Knapp, Robert J. Toonen
Software Mentions: 1
Published: about 4 years ago

10.3390/genes11050488

A Functional Network of Novel Barley MicroRNAs and Their Targets in Response to Drought
Cited by: 5
Author(s): Aleksandra Smoczyńska, Andrzej Pacak, Przemysław Nuc, Aleksandra Świda-Barteczka, Katarzyna Kruszka, Wojciech M. Karłowski, Artur Jarmołowski, Zofia Szweykowska-Kulińska
Software Mentions: 1
Published: over 4 years ago

10.1038/s41598-020-74163-0

Deep amoA amplicon sequencing reveals community partitioning within ammonia-oxidizing bacteria in the environmentally dynamic estuary of the River Elbe
Cited by: 1
Author(s): Mateusz Malinowski, Mashal Alawi, Ines Krohn, S. Emil Ruff, Daniela Indenbirken, Matthias Karrasch, Rolf Lüschow, Wolfgang R. Streit, Günter Timmermann, Andreas Pommerening‐Röser
Software Mentions: 1
Published: about 4 years ago

10.1038/s41598-020-75069-7

Genome-wide identification of AP2/ERF transcription factor-encoding genes in California poppy (Eschscholzia californica) and their expression profiles in response to methyl jasmonate
Cited by: 16
Author(s): Yasuyuki Yamada, S. Nishida, Nobukazu Shitan, Fumihiko Sato
Software Mentions: 1
Published: about 4 years ago

10.1186/s12859-016-1108-4

tarSVM: Improving the accuracy of variant calls derived from microfluidic PCR-based targeted next generation sequencing using a support vector machine
Cited by: 1
Author(s): Christopher E. Gillies, Edgar A. Otto, Virginia Vega-Warner, Catherine Robertson, Simone Sanna‐Cherchi, Ali G. Gharavi, Brandon L. Crawford, Rajendra Bhimma, Cheryl A. Winkler, Hyun Min Kang, Matthew G. Sampson
Software Mentions: 1
Published: over 8 years ago

10.1186/s40478-020-01000-w

A comprehensive DNA panel next generation sequencing approach supporting diagnostics and therapy prediction in neurooncology
Cited by: 11
Author(s): Julia Lorenz, Tanja Rothhammer-Hampl, Saida Zoubaa, Elisabeth Bumes, Tobias Pukrop, Oliver Kölbl, Selim Corbacioglu, Nils Ole Schmidt, Martin Proescholdt, Peter Hau, Markus J. Riemenschneider
Software Mentions: 1
Published: over 4 years ago

10.1042/BSR20170768

MicroRNA sequence analysis identifies microRNAs associated with peri-implantitis in dogs
Cited by: 20
Author(s): Xiaolin Wu, Xipeng Chen, Wenxiang Mi, Tingting Wu, Qinhua Gu, Hui Huang
Software Mentions: 1
Published: about 7 years ago

10.3390/genes12081216

Mitogenome Phylogeny Including Data from Additional Subspecies Provides New Insights into the Historical Biogeography of the Eurasian lynx Lynx lynx
Cited by: 11
Author(s): Deniz Mengüllüoğlu, Hüseyin Ambarlı, Axel Barlow, Johanna L. A. Paijmans, Ali Onur Sayar, Hasan Emir, İrfan Kandemi̇r, Heribert Hofer, Jörns Fickel, Daniel W. Förster
Software Mentions: 1
Published: over 3 years ago

10.1038/s41598-020-75801-3

Single-cell RNA profiling links ncRNAs to spatiotemporal gene expression during C. elegans embryogenesis
Cited by: 2
Author(s): Yan Sun, Qichao Yu, Lei Li, Zhanlong Mei, Biaofeng Zhou, Shang Liu, Tao Pan, Liang Wu, Ying Lei, Longqi Liu, Radoje Drmanac, Kun Ma, Shiping Liu
Software Mentions: 1
Published: about 4 years ago

10.1186/s13007-019-0534-5

Large scale genome skimming from herbarium material for accurate plant identification and phylogenomics
Cited by: 65
Author(s): Paul Nevill, Xue Zhong, Julian Tonti-Filippini, Margaret Byrne, Michael Hislop, Kevin R. Thiele, Stephen van Leeuwen, Laura M. Boykin, Ian Small
Software Mentions: 1
Published: almost 5 years ago

10.3390/biomedicines6020041

Transcriptome Analysis of Acute Phase Liver Graft Injury in Liver Transplantation
Cited by: 5
Author(s): Nikki P. Lee, Haiyang Wu, Kevin Tak‐Pan Ng, Ruibang Luo, Tak Wah Lam, Chung‐Mau Lo, Kwan Man
Software Mentions: 1
Published: over 6 years ago

10.7717/peerj.5490

Comparative analysis of whole flower transcriptomes in the Zingiberales
Cited by: 5
Author(s): Ana Maria Rocha de Almeida, Alma Piñeyro‐Nelson, Roxana Yockteng, Chelsea D. Specht
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-020-73885-5

Bovine hepatic miRNAome profiling and differential miRNA expression analyses between beef steers with divergent feed efficiency phenotypes
Cited by: 9
Author(s): Robert Mukiibi, Dayle Johnston, Michael Vinsky, Carolyn Fitzsimmons, Paul Stothard, Sinéad M. Waters, Changxi Li
Software Mentions: 1
Published: about 4 years ago

10.1128/genomeA.00182-14

Draft Genome Sequence of Bacillus subtilis QH-1, a Chromium-Reducing Bacterial Strain Isolated in Qinghai Province, China
Cited by: 1
Author(s): Liang Feng, Teng Ma, Junwen Zhang, Fen Xu, Lei Shi
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0143000

454 Pyrosequencing of Olive (Olea europaea L.) Transcriptome in Response to Salinity
Cited by: 22
Author(s): Christos Bazakos, Maria Manioudaki, Elena Sarropoulou, Spano Thodhoraq, Panagiotis Kalaitzis
Software Mentions: 1
Published: about 9 years ago

10.1128/genomeA.00861-14

Draft Genome Sequence of Lactobacillus oryzae Strain SG293 T
Cited by: 1
Author(s): Yasuhiro Tanizawa, Takatomo Fujisawa, Takako Mochizuki, Eli Kaminuma, Yasukazu Nakamura, Masanori Tohno
Software Mentions: 1
Published: about 10 years ago

10.1128/genomeA.00612-15

Draft Genome Sequence of Mycobacterium obuense Strain UC1, Isolated from Patient Sputum
Cited by: 5
Author(s): Alexander L. Greninger, Gail Cunningham, Elaine Hsu, Joanna M. Yu, Charles Y. Chiu, Steve Miller
Software Mentions: 1
Published: over 9 years ago

10.1128/genomeA.00630-15

Draft Genome Sequence of Mycobacterium arupense Strain GUC1
Cited by: 0
Author(s): Alexander L. Greninger, Gail Cunningham, Joanna M. Yu, Elaine Hsu, Charles Y. Chiu, Steve Miller
Software Mentions: 1
Published: over 9 years ago

10.1128/genomeA.00930-15

Draft Genome Sequence of Mycobacterium heckeshornense Strain RLE
Cited by: 1
Author(s): Alexander L. Greninger, Gail Cunningham, Charles Y. Chiu, Steve Miller
Software Mentions: 1
Published: about 9 years ago

10.1128/genomeA.00965-15

Complete Genome Sequences of Two Bordetella hinzii Strains Isolated from Humans
Cited by: 5
Author(s): Michael R. Weigand, Shankar Changayil, Yasvanth Kulasekarapandian, M. Lucia Tondella
Software Mentions: 1
Published: about 9 years ago

10.1128/genomeA.01039-15

Genome Sequence of a Novel Iflavirus from mRNA Sequencing of the Pupa of Bombyx mori Inoculated with Cordyceps militaris
Cited by: 9
Author(s): Tomohiro Suzuki, Yoshino Takeshima, Toshiyuki Mikamoto, Jun-David Saeki, Tatsuya Kato, Enoch Y. Park, Hirokazu Kawagishi, Hideo Dohra
Software Mentions: 1
Published: about 9 years ago

10.1128/genomeA.01334-15

Draft Genome Sequence of the Moderately Heat-Tolerant Lactococcus lactis subsp. lactis bv. diacetylactis Strain GL2 from Algerian Dromedary Milk
Cited by: 1
Author(s): Noujoud Gabed, Meifang Yang, Mohamed Bey Baba Hamed, Habiba Drici, Roy Gross, Thomas Dandekar, Chunguang Liang
Software Mentions: 1
Published: almost 9 years ago

10.1128/genomeA.01625-15

Genome Sequence of Pectobacterium carotovorum Phage PPWS1, Isolated from Japanese Horseradish [ Eutrema japonicum (Miq.) Koidz] Showing Soft-Rot Symptoms
Cited by: 11
Author(s): Haruyuki Hirata, Misako Kashihara, Tokumasa Horiike, Tomohiro Suzuki, Hideo Dohra, Osamu Netsu, Shinji Tsuyumu
Software Mentions: 1
Published: over 8 years ago

10.1128/genomeA.00772-16

Complete Genome Sequence of Highly Virulent Porcine Reproductive and Respiratory Syndrome Virus Variants That Recently Emerged in the United States
Cited by: 6
Author(s): Aspen M. Workman, Timothy P. L. Smith, Fernando A. Osorio, Hiep L.X. Vu
Software Mentions: 1
Published: about 8 years ago

10.1128/genomeA.01094-16

Draft Genome Sequence of Yarrowia lipolytica Strain A-101 Isolated from Polluted Soil in Poland
Cited by: 17
Author(s): Hugo Devillers, François Brunel, Xymena Połomska, Véronique Sarilar, Zbigniew Lazar, Małgorzata Robak, Cécile Neuvéglise
Software Mentions: 1
Published: about 8 years ago

10.1128/genomeA.01277-16

First Draft Genome Sequences of Neisseria sp. Strain 83E34 and Neisseria sp. Strain 74A18 , Previously Identified as CDC Eugonic Fermenter 4b Species
Cited by: 1
Author(s): Alexander L. Greninger, Jessica Streithorst, Charles Y. Chiu, Steve Miller
Software Mentions: 1
Published: almost 8 years ago

10.1128/genomeA.00924-17

Draft Genome Sequence of the Type Strain Sphingopyxis witflariensis DSM 14551
Cited by: 5
Author(s): Michał A. Kaminski, Ewa M. Furmanczyk, Andrzej Dziembowski, Adam Sobczak, Leszek Lipiński
Software Mentions: 1
Published: about 7 years ago

10.1128/genomeA.00929-17

Conservation and Recombination in the Genome Sequence of Haemophilus influenzae Type f WAPHL1
Cited by: 0
Author(s): Allen C. Bateman, Ailyn C. Pérez-Osorio, Zhen Li, Michael Tran, Alexander L. Greninger
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0149756

Multiplex PCR and Next Generation Sequencing for the Non-Invasive Detection of Bladder Cancer
Cited by: 67
Author(s): Douglas G. Ward, Laura Baxter, Naheema S. Gordon, Sascha Ott, Richard S. Savage, Andrew D Beggs, Jonathan James, Jennifer Lickiss, Shaun Green, Yvonne Wallis, Wenbin Wei, Nicholas D. James, Maurice P. Zeegers, Kar Keung Cheng, Glenn M. Mathews, Prashant Patel, Michael Griffiths, Richard T. Bryan
Software Mentions: 1
Published: over 8 years ago

10.7717/peerj.7894

Manure application increased denitrifying gene abundance in a drip-irrigated cotton field
Cited by: 14
Author(s): Mingyuan Yin, Xiaopeng Gao, Mario Tenuta, Wenjun Kuang, Dongwei GUI, Fanjiang Zeng
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-020-77639-1

Secreted sphingomyelins modulate low mammary cancer incidence observed in certain mammals
Cited by: 7
Author(s): Melissa M. Ledet, Rebecca M. Harman, Jiwei Fan, Emily Schmitt-Matzen, M. Elena Díaz-Rubio, Sheng Zhang, Gerlinde R. Van de Walle
Software Mentions: 1
Published: almost 4 years ago

10.1186/s40659-017-0111-1

Alpinia oxyphylla Miq. extract changes miRNA expression profiles in db-/db- mouse kidney
Cited by: 14
Author(s): Guankui Du, Mochao Xiao, Xuezi Zhang, Ming Wen, Chao Pang, Shangfei Jiang, Sang Sheng-gang, Yiqiang Xie
Software Mentions: 1
Published: over 7 years ago

10.1186/s13062-019-0255-8

Differentially expressed tRFs in CD5 positive relapsed & refractory diffuse large B cell lymphoma and the bioinformatic analysis for their potential clinical use
Cited by: 12
Author(s): Qingyuan Qu, Ying Li, Xiaosheng Fang, Lingyan Zhang, Chao Xue, Xueling Ge, Xin Wang, Yujie Jiang
Software Mentions: 1
Published: almost 5 years ago

10.1186/1745-6150-9-3

The human platelet: strong transcriptome correlations among individuals associate weakly with the platelet proteome
Cited by: 76
Author(s): Eric Londin, Eleftheria Hatzimichael, Phillipe Loher, Leonard C. Edelstein, Chad A. Shaw, Kathleen Delgrosso, Paolo Fortina, Paul F. Bray, Steven E. McKenzie, Isidore Rigoutsos
Software Mentions: 1
Published: almost 11 years ago

10.1128/AEM.01768-20

Antibacterial and Antivirulence Activity of Manuka Honey against Genetically Diverse Staphylococcus pseudintermedius Strains
Cited by: 7
Author(s): Helen Brown, Georgie Metters, Matthew D. Hitchings, Thomas S. Wilkinson, Luís G O de Sousa, Jenna Cooper, Harry Dance, Robert J. Atterbury, Rowena Jenkins
Software Mentions: 1
Published: about 4 years ago

10.1038/s41419-020-2500-6

Histone deacetylase 1 and 2 drive differentiation and fusion of progenitor cells in human placental trophoblasts
Cited by: 28
Author(s): Gargi Jaju Bhattad, Mariyan Jeyarajah, Megan McGill, Vanessa Dumeaux, Hiroaki Okae, Takahiro Arima, Patrick Lajoie, Nathalie G. Bérubé, Stephen J. Renaud
Software Mentions: 1
Published: over 4 years ago

10.1186/s13059-017-1232-0

EpiTEome: Simultaneous detection of transposable element insertion sites and their DNA methylation levels
Cited by: 18
Author(s): Josquin Daron, R. Keith Slotkin
Software Mentions: 1
Published: over 7 years ago

10.1186/s13007-019-0433-9

A high-throughput amplicon-based method for estimating outcrossing rates
Cited by: 1
Author(s): Friederike Jantzen, Natalia Wozniak, Christian Kappel, Adrien Sicard, Michael Lenhard
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-58659-3

Resistance to change: AMR gene dynamics on a commercial pig farm with high antimicrobial usage
Cited by: 32
Author(s): Jolinda Pollock, Adrian Muwonge, Michael R. Hutchings, Geoffrey Mainda, Barend M. deC. Bronsvoort, David L. Gally, Alexander Corbishley
Software Mentions: 1
Published: almost 5 years ago

10.1111/evo.13150

The ultimate and proximate mechanisms driving the evolution of long tails in forest deer mice
Cited by: 22
Author(s): Evan P. Kingsley, Krzysztof M. Kozak, Susanne Pfeifer, Dou‐Shuan Yang, Hopi E. Hoekstra
Software Mentions: 1
Published: almost 8 years ago

10.1038/s12276-020-0458-1

Association between the sinus microbiota with eosinophilic inflammation and prognosis in chronic rhinosinusitis with nasal polyps
Cited by: 14
Author(s): Ji Heui Kim, Sung Hee Kim, Ji Youn Lim, Doyeon Kim, In Seong Jeong, Dong Kyu Lee, Yong Ju Jang
Software Mentions: 1
Published: over 4 years ago

10.1038/s12276-020-00487-6

Association between the microbiomes of tonsil and saliva samples isolated from pediatric patients subjected to tonsillectomy for the treatment of tonsillar hyperplasia
Cited by: 7
Author(s): Da Hyeon Choi, Ji Won Park, Ju Kwang Choi, Kyeong Eun Lee, Won Hee Lee, Jinho Yang, Ju‐Yeon Lee, Yoon Jeong Park, Chahyun Oh, Ho-Ryun Won, Bon Seok Koo, Jae Won Chang, Yoon Shin Park
Software Mentions: 1
Published: about 4 years ago

10.1038/s12276-020-0469-y

Fecal microbial transplantation and a high fiber diet attenuates emphysema development by suppressing inflammation and apoptosis
Cited by: 39
Author(s): Yoon Ok Jang, Se Hee Lee, Jong Jin Choi, Do Hyun Kim, Je-Min Choi, Min Jong Kang, Yeon Mok Oh, Young Jun Park, Yoo Seob Shin, Sei Won Lee
Software Mentions: 1
Published: over 4 years ago

10.1038/s12276-020-0470-5

Analysis of the human breast milk microbiome and bacterial extracellular vesicles in healthy mothers
Cited by: 35
Author(s): Su Yeong Kim, Dae Yong Yi
Software Mentions: 1
Published: over 4 years ago

10.3389/fnagi.2020.511562

Gut Microbiome Signatures Are Biomarkers for Cognitive Impairment in Patients With Ischemic Stroke
Cited by: 47
Author(s): Yi Liu, Tianyu Gong, Junmei Zhang, Qilu Gu, Xinxin Gao, Xiongpeng Weng, Jiaming Liu, Jing Sun
Software Mentions: 1
Published: about 4 years ago

10.3389/fnbeh.2017.00089

Evidence for Ancestral Programming of Resilience in a Two-Hit Stress Model
Cited by: 18
Author(s): Jamshid Faraji, Nabiollah Soltanpour, Mirela Ambeskovic, Fabíola Cristina Ribeiro Zucchi, Pierre Beaumier, Igor Kovalchuk, Gerlinde A. S. Metz
Software Mentions: 1
Published: over 7 years ago

10.3389/fcell.2020.00430

Disease Activity-Associated Alteration of mRNA m5 C Methylation in CD4+ T Cells of Systemic Lupus Erythematosus
Cited by: 42
Author(s): Gangqiang Guo, Huijing Wang, Xinyu Shi, Lele Ye, Kejing Yan, Zhiyuan Chen, Huidi Zhang, Zi‐Bing Jin, Xiangyang Xue
Software Mentions: 1
Published: over 4 years ago

10.3389/fcell.2020.591629

Transcriptome-Wide m6A Methylation in Skin Lesions From Patients With Psoriasis Vulgaris
Cited by: 21
Author(s): Yanan Wang, Hongzhong Jin
Software Mentions: 1
Published: about 4 years ago

10.3389/fcell.2021.645704

Mouse Retinal Organoid Growth and Maintenance in Longer-Term Culture
Cited by: 12
Author(s): Manuela Völkner, Thomas Kurth, Jana Schor, Lynn J. A. Ebner, Lara Bardtke, Cagri Kavak, Jörg Hackermüller, Mike O. Karl
Software Mentions: 1
Published: over 3 years ago

10.3389/fcell.2020.553728

Geniposide Alleviates Oxidative Stress of Mice With Depression-Like Behaviors by Upregulating Six3os1
Cited by: 18
Author(s): Tianyu Zou, Kazuo Sugimoto, Jielin Zhang, Yongxiu Liu, Yiming Zhang, Hao Liang, Yifeng Jiang, Jing Wang, Guoxiang Duan, Cheng Mei
Software Mentions: 1
Published: about 4 years ago

10.3389/fcell.2021.623394

Mutations in RNA Methyltransferase Gene NSUN5 Confer High Risk of Outflow Tract Malformation
Cited by: 5
Author(s): Yifeng Wang, Tao Jiang, Jiani Xu, Yayun Gu, Yan Zhou, Yuan Lin, Yifei Wu, Wei Li, Cheng Wang, Bin Shen, Xuming Mo, Xiaowei Wang, Bin Zhou, Chenyue Ding, Zhibin Hu
Software Mentions: 1
Published: over 3 years ago

10.3389/fcimb.2021.670935

Trehalose-Induced Remodelling of the Human Microbiota Affects Clostridioides difficile Infection Outcome in an In Vitro Colonic Model: A Pilot Study
Cited by: 17
Author(s): Anthony M. Buckley, Ines B Moura, Norie Arai, William Spittal, Emma Clark, Yoshihiro Nishida, Hannah Harris, Karen L. de Mesy Bentley, Georgina Davis, Dapeng Wang, Suparna Mitra, Takanobu Higashiyama, Mark H. Wilcox
Software Mentions: 1
Published: over 3 years ago

10.3389/fcimb.2021.628887

Functional Mapping of AGO-Associated Zika Virus-Derived Small Interfering RNAs in Neural Stem Cells
Cited by: 11
Author(s): Jianxiong Zeng, Zhifei Luo, Shupeng Dong, Xing Xie, Xinyan Liang, Youzhen Yan, Qiming Liang, Zhen Zhao
Software Mentions: 1
Published: over 3 years ago

10.3389/fcimb.2017.00321

Diversity of Cervical Microbiota in Asymptomatic Chlamydia trachomatis Genital Infection: A Pilot Study
Cited by: 34
Author(s): Simone Filardo, Marisa Di Pietro, Maria Grazia Porpora, Nadia Recine, Alessio Farcomeni, Maria Agnese Latino, Rosa Sessa
Software Mentions: 1
Published: over 7 years ago

10.3389/fcimb.2020.575613

Within-Host Diversity of SARS-CoV-2 in COVID-19 Patients With Variable Disease Severities
Cited by: 63
Author(s): Hebah A. Al-Khatib, Fatiha Benslimane, Israa Elbashir, Peter Coyle, Muna Al Maslamani, Abdullatif Al‐Khal, Asmaa A. Al Thani, Hadi M. Yassine
Software Mentions: 1
Published: about 4 years ago

10.3389/fcimb.2021.709681

Aerobactin Seems To Be a Promising Marker Compared With Unstable RmpA2 for the Identification of Hypervirulent Carbapenem-Resistant Klebsiella pneumoniae: In Silico and In Vitro Evidence
Cited by: 24
Author(s): Chaitra Shankar, Soumya Basu, Binesh Lal, Sathiya Shanmugam, Karthick Vasudevan, Purva Mathur, Sudha Ramaiah, Anand Anbarasu, Balaji Veeraraghavan
Software Mentions: 1
Published: about 3 years ago

10.3389/fendo.2020.00273

Analysis of Pigment-Dispersing Factor Neuropeptides and Their Receptor in a Velvet Worm
Cited by: 3
Author(s): Christine Martin, Lars Hering, Niklas Metzendorf, Sarah Hormann, Sonja Kasten, Sonja Fuhrmann, Achim Werckenthin, Friedrich W. Herberg, Monika Stengl, Georg Mayer
Software Mentions: 1
Published: over 4 years ago

10.3389/fgene.2021.641526

Dissecting the Roles of LncRNAs in the Development of Periventricular White Matter Damage
Cited by: 1
Author(s): Xinyu Wang, Heng Liu, Xiaoli Liao, Lixing Qiao, Lihua Zhu, She–Ching Wu, Yan Zhou, Yi Zhang, Bangbang Li, Lili Lin, Jingjing Ma, Qianying Gu, Jia-Ping Shu
Software Mentions: 1
Published: over 3 years ago

10.3389/fgene.2019.00074

Whole Exome Sequencing Identifies a Novel Predisposing Gene, MAPKAP1, for Familial Mixed Mood Disorder
Cited by: 4
Author(s): Chunxia Yang, Suping Li, X Jack, Yang Li, Aixia Zhang, Ning Sun, Yanfang Wang, Yong Xu, Kerang Zhang
Software Mentions: 1
Published: almost 6 years ago

10.3389/fgene.2020.612951

Transcriptome Analysis of lncRNA–mRNA Interactions in Chronic Atrophic Gastritis
Cited by: 5
Author(s): Chia-Han Yang, Jingpeng Jin, Liqiang Wang, Xiaobin Jin, Lei Yang, Bin Zhang
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2021.628841

The Alteration of M6A-Tagged Transcript Profiles in the Retina of Rats After Traumatic Optic Neuropathy
Cited by: 5
Author(s): Xiaolin Qu, Kaixin Zhu, Zhenxing Li, Danfeng Zhang, Lingling Hou
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2020.591434

Clinical Utility of Exome Sequencing and Reinterpreting Genetic Test Results in Children and Adults With Epilepsy
Cited by: 8
Author(s): Yongli Jiang, Changgeng Song, Yuanyuan Wang, Jingjing Zhao, Fang Yang, Qiong Gao, Xiuxiu Leng, Yu-lin Man, Wen Jiang
Software Mentions: 1
Published: almost 4 years ago

10.3389/fgene.2014.00005

Assessment of insert sizes and adapter content in fastq data from NexteraXT libraries
Cited by: 18
Author(s): Frances Turner
Software Mentions: 1
Published: almost 11 years ago

10.3389/fgene.2014.00130

AlienTrimmer removes adapter oligonucleotides with high sensitivity in short-insert paired-end reads. Commentary on Turner (2014) Assessment of insert sizes and adapter content in FASTQ data from NexteraXT libraries
Cited by: 29
Author(s): Alexis Criscuolo, Sylvain Brisse
Software Mentions: 1
Published: over 10 years ago

10.3389/fimmu.2018.01331

miR-181a-5p Regulates TNF-α and miR-21a-5p Influences Gualynate-Binding Protein 5 and IL-10 Expression in Macrophages Affecting Host Control of Brucella abortus Infection
Cited by: 24
Author(s): Patrícia Paiva Corsetti, Leonardo Augusto de Almeida, André Nicolau Aquime Gonçalves, Marco Túlio R. Gomes, Erika S. Guimarães, João Trindade Marques, Sérgio C. Oliveira
Software Mentions: 1
Published: over 6 years ago

10.3389/fimmu.2017.01084

Shrimp miR-10a Is Co-opted by White Spot Syndrome Virus to Increase Viral Gene Expression and Viral Replication
Cited by: 13
Author(s): Jong Shin Huang, Shih-Ting Kang, I-Tung Chen, Li-Kwan Chang, Shih-Shun Lin, Guang Hsiung Kou, Chin‐Chou Chu, Chu Fang Lo
Software Mentions: 1
Published: about 7 years ago

Projects: pypi: cutadapt

Papers Mentioning cutadapt 1,562