pypi: custom | Projects | Ecosyste.ms: Papers

10.1371/journal.pgen.1009735

Chromoanagenesis from radiation-induced genome damage in Populus
Cited by: 8
Author(s): Weier Guo, Luca Comai, Isabelle Henry
Software Mentions: 3
Published: about 3 years ago

10.7717/peerj.3819

Human agency beliefs influence behaviour during virtual social interactions
Cited by: 24
Author(s): Nathan Caruana, Dean Spirou, Jon Brock
Software Mentions: 3
Published: about 7 years ago

De Novo Regulatory Motif Discovery Identifies Significant Motifs in Promoters of Five Classes of Plant Dehydrin Genes
Cited by: 22
Author(s): Yevgen Zolotarov, Martina V. Strömvik
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0244110

Motion fluency effects on object preference is limited to learned context
Cited by: 0
Author(s): Jonathan Flavell, Bryony McKean
Software Mentions: 3
Published: almost 4 years ago

10.1093/gigascience/giz069

Box, stalked, and upside-down? Draft genomes from diverse jellyfish (Cnidaria, Acraspeda) lineages: Alatina alata (Cubozoa), Calvadosia cruxmelitensis (Staurozoa), and Cassiopea xamachana (Scyphozoa)
Cited by: 36
Author(s): Aki Ohdera, Cheryl Lewis Ames, Rebecca B. Dikow, Ehsan Kayal, Marta Chiodin, Ben Busby, Sean La, Stacy Pirro, Allen G. Collins, Mónica Medina, Joseph F. Ryan
Software Mentions: 3
Published: over 5 years ago

10.3390/jcm8091291

Identification of a Shared Microbiomic and Metabolomic Profile in Systemic Autoimmune Diseases
Cited by: 32
Author(s): Chiara Bellocchi, Álvaro Fernández-Ochoa, Gaia Montanelli, Barbara Vigone, Alessandro Santaniello, Rosa Quirantes-Piné, Isabel Borrás-Linares, Maria Gerosa, Carolina Artusi, Roberta Gualtierotti, Antonio Segura-Carrettero, Marta E. Alarcón‐Riquelme, Lorenzo Beretta
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0236126

Impact of processing method on donated human breast milk microRNA content
Cited by: 24
Author(s): Urszula Smyczyńska, Marcin A. Bartłomiejczyk, Marcin Stańczak, Paweł Sztromwasser, Aleksandra Wesołowska, Olga Barbarska, Emilia Pawlikowska, Wojciech Fendler
Software Mentions: 3
Published: over 4 years ago

10.1186/s12864-017-3574-0

The Echinococcus canadensis (G7) genome: a key knowledge of parasitic platyhelminth human diseases
Cited by: 33
Author(s): Lucas Luciano Maldonado, Juliana de Assis, Flávio Marcos Gomes Araújo, Anna C. M. Salim, Natalia Macchiaroli, Marcela Alejandra Cucher, Federico Camicia, Adolfo Fox, Mara Cecília Rosenzvit, Guilherme Oliveira, Laura Kamenetzky
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.pgen.1006976

Northeast African genomic variation shaped by the continuity of indigenous groups and Eurasian migrations
Cited by: 43
Author(s): Nina Hollfelder, Carina M. Schlebusch, Torsten Günther, Hiba Babiker, Hisham Y. Hassan, Mattias Jakobsson
Software Mentions: 3
Published: about 7 years ago

10.1093/gbe/evw291

Variation in the intensity of selection on codon bias over time causes contrasting patterns of base composition evolution in Drosophila
Cited by: 26
Author(s): Benjamin C. Jackson, José Luis Campos, Penelope R. Haddrill, Brian Charlesworth, Kai Zeng
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0147229

Haplotype-Phased Synthetic Long Reads from Short-Read Sequencing
Cited by: 30
Author(s): James A. Stapleton, Jeongwoon Kim, John Hamilton, Ming Wu, Luiz Irber, Rohan Maddamsetti, Bryan Briney, Linsey Newton, Dennis R. Burton, C. Titus Brown, Christina Chan, C. Robin Buell, Timothy A. Whitehead
Software Mentions: 3
Published: almost 9 years ago

10.1186/s12879-019-4566-2

Genomic epidemiology supports multiple introductions and cryptic transmission of Zika virus in Colombia
Cited by: 12
Author(s): Allison Black, Louise H. Moncla, Katherine Laiton‐Donato, Barney Potter, Lissethe Pardo, Angélica Rico, Catalina Tovar, Diana Patricia Rojas, Ira M. Longini, M. Elizabeth Halloran, Dioselina Peláez-Carvajal, Juan David Ramírez, Marcela Mercado-Reyes, Trevor Bedford
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0036456

Determining the Repertoire of Immunodominant Proteins via Whole-Genome Amplification of Intracellular Pathogens
Cited by: 12
Author(s): Michael J. Dark, Anna Lundgren, Anthony F. Barbet
Software Mentions: 3
Published: over 12 years ago

10.1093/gbe/evz053

Sex-Biased Gene Expression and Dosage Compensation on theArtemia franciscanaZ-Chromosome
Cited by: 22
Author(s): Ann Kathrin Huylmans, Melissa A. Toups, Ariana Macon, William J Gammerdinger, Beatriz Vicoso
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-016-3009-3

Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
Cited by: 79
Author(s): Siyuan Zhan, Yao Dong, Wei Zhao, Jiazhong Guo, Tao Zhong, Linjie Wang, Li Li, Hongping Zhang
Software Mentions: 3
Published: over 8 years ago

10.3390/v11050481

Attenuation of Bluetongue Virus (BTV) in an in ovo Model Is Related to the Changes of Viral Genetic Diversity of Cell-Culture Passaged BTV
Cited by: 4
Author(s): Fabian Z. X. Lean, Matthew J. Neave, John R. White, Jean Payne, Teresa Eastwood, Jemma Bergfeld, Antonio Di Rubbo, Vittoria Stevens, Kelly R. Davies, Joanne M. Devlin, David T. Williams, John Bingham
Software Mentions: 3
Published: over 5 years ago

10.1186/s13059-021-02449-1

Oncogene Concatenated Enriched Amplicon Nanopore Sequencing for rapid, accurate, and affordable somatic mutation detection
Cited by: 12
Author(s): Deepak Thirunavukarasu, Lauren Y. Cheng, Ping Song, Sherry X. Chen, Mitesh J. Borad, Lawrence N. Kwong, Phillip James, Daniel J. Turner, David Y. Zhang
Software Mentions: 3
Published: about 3 years ago

10.1186/1471-2105-15-90

Consistency of metagenomic assignment programs in simulated and real data
Cited by: 18
Author(s): Koldo Garcia-Etxebarria, Marc García-Garcerá, Francesc Calafell
Software Mentions: 3
Published: over 10 years ago

10.3390/cancers11101410

An IKK/NF-κB Activation/p53 Deletion Sequence Drives Liver Carcinogenesis and Tumor Differentiation
Cited by: 3
Author(s): Michael Svinarenko, Sarah‐Fee Katz, Umesh Tharehalli, Medhanie Mulaw, Harald J. Maier, Yoshiaki Sunami, Sarah Fischer, Yuexin Chen, Sabine Heurich, Lena Erkert, Andrea Tannapfel, Thomas Wirth, Reinhold Schirmbeck, Thomas Seufferlein, André Lechel
Software Mentions: 3
Published: about 5 years ago

10.1186/1471-2164-14-670

An evaluation of the PacBio RS platform for sequencing and de novo assembly of a chloroplast genome
Cited by: 135
Author(s): Marco Ferrarini, Marco Moretto, J. A. Ward, Nada Šurbanovski, Vladimir D. Stevanović, L. Giongo, Roberto Viola, Duccio Cavalieri, Riccardo Velasco, Alessandro Cestaro, Daniel J. Sargent
Software Mentions: 3
Published: about 11 years ago

10.15252/msb.20167323

A living vector field reveals constraints on galactose network induction in yeast
Cited by: 13
Author(s): Sarah R. Stockwell, Scott A. Rifkin
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12864-018-4807-6

Genome-wide analysis of long non-coding RNAs affecting roots development at an early stage in the rice response to cadmium stress
Cited by: 56
Author(s): Liang Chen, Shilai Shi, Ninfei Jiang, Hira Khanzada, Ziming Wu, Zhu C, Xiaosong Peng, Jie Xu, Yujin Chen, Qi Yu, Xu He, Junru Fu, Xiaorong Chen, Lifang Hu, Liang Ouyang, Xiaotang Sun, Haohua He, Jianmin Bian
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-016-2376-0

Discovery and profiling of small RNAs responsive to stress conditions in the plant pathogen Pectobacterium atrosepticum
Cited by: 19
Author(s): Stanford Kwenda, Vladimir Gorshkov, Aiyagari Ramesh, Sanushka Naidoo, Enrico Rubagotti, Paul R. J. Birch, Lucy N. Moleleki
Software Mentions: 3
Published: almost 9 years ago

10.1016/j.ajhg.2014.07.005

Identification and Validation of Genetic Variants that Influence Transcription Factor and Cell Signaling Protein Levels
Cited by: 46
Author(s): Ronald J. Hause, Amy L. Stark, Nirav Antao, Lidija K. Gorsic, Suyoun Chung, Christopher D. Brown, Shan S. Wong, Daniel Gill, Jamie L. Myers, Lida Anita To, Kevin P. White, M. Eileen Dolan, Richard B. Jones
Software Mentions: 3
Published: over 10 years ago

10.1128/JCM.01945-16

The EpiQuant Framework for Computing Epidemiological Concordance of Microbial Subtyping Data
Cited by: 2
Author(s): Benjamin M. Hetman, Steven K. Mutschall, James E. Thomas, Victor P. J. Gannon, Clifford G. Clark, Frank Pollari, Eduardo N. Taboada
Software Mentions: 3
Published: over 7 years ago

10.15252/msb.20177908

A framework for exhaustively mapping functional missense variants
Cited by: 130
Author(s): Jochen Weile, Song Sun, Atina G. Coté, Jennifer J. Knapp, Marta Verby, Joseph Mellor, Yingzhou Wu, Carles Pons, Cassandra Wong, Natascha van Lieshout, Fan Yang, Murat Taşan, Guihong Tan, Shan Yang, Douglas M. Fowler, Robert L. Nussbaum, Jesse D Bloom, Marc Vidal, David E. Hill, Patrick Aloy, Frederick P. Roth
Software Mentions: 3
Published: almost 7 years ago

10.15252/msb.20177754

<scp>RNA</scp> polymerase <scp>II</scp> primes Polycomb‐repressed developmental genes throughout terminal neuronal differentiation
Cited by: 39
Author(s): Carmelo Ferrai, Elena Torlai Triglia, Jessica R. Risner-Janiczek, Tiago Rito, Owen J. L. Rackham, Inês de Santiago, Alexander Kukalev, Mario Nicodemi, Altuna Akalin, Meng Li, Mark A. Ungless, Ana Pombo
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0204629

Deciphering intra-species bacterial diversity of meat and seafood spoilage microbiota using gyrB amplicon sequencing: A comparative analysis with 16S rDNA V3-V4 amplicon sequencing
Cited by: 64
Author(s): Simon Poirier, Olivier Rué, R. Peguilhan, Gwendoline Coeuret, Monique Zagorec, Marie‐Christine Champomier‐Vergès, Valentin Loux, Stéphane Chaillou
Software Mentions: 3
Published: about 6 years ago

10.15252/msb.20167461

Genetic circuit characterization and debugging using <scp>RNA</scp> ‐seq
Cited by: 74
Author(s): Thomas E. Gorochowski, Amin Espah Borujeni, Yong‐Jin Park, Alec A. K. Nielsen, Jing Zhang, Bryan S. Der, D. Benjamin Gordon, Christopher A. Voigt
Software Mentions: 3
Published: about 7 years ago

10.1186/s13059-014-0551-7

Transcriptome-wide modulation of splicing by the exon junction complex
Cited by: 75
Author(s): Zhen Wang, Valentine Murigneux, Hervé Le Hir
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.pone.0229326

Comparison of sequencing methods and data processing pipelines for whole genome sequencing and minority single nucleotide variant (mSNV) analysis during an influenza A/H5N8 outbreak
Cited by: 1
Author(s): Marjolein J Poen, Anne Pohlmann, Clara Amid, Theo M. Bestebroer, Sharon M Brookes, Ian H. Brown, Helen Everett, Claudia M. E. Schapendonk, Rachel D Scheuer, Saskia L. Smits, Martin Beer, Ron A. M. Fouchier, Richard J. Ellis
Software Mentions: 3
Published: almost 5 years ago

10.1186/s12864-019-6117-z

Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
Cited by: 5
Author(s): Bryan W. Penning, Tânia Misuzu Shiga, John F. Klimek, Philip J. SanMiguel, Jacob Shreve, Jyothi Thimmapuram, Robert Sykes, Mark F. Davis, Maureen C. McCann, Nicholas C. Carpita
Software Mentions: 3
Published: about 5 years ago

10.1186/1471-2164-13-726

Development of high-throughput SNP-based genotyping in Acacia auriculiformis x A. mangium hybrids using short-read transcriptome data
Cited by: 13
Author(s): Melissa M L Wong, Charles H. Cannon, R Wickneswari V Ratnam
Software Mentions: 3
Published: almost 12 years ago

10.3390/genes11070787

Evidence for Dosage Compensation in Coccinia grandis, a Plant with a Highly Heteromorphic XY System
Cited by: 11
Author(s): Cécile Fruchard, Hélène Badouin, David Latrasse, Ravi Suresh Devani, Aline Muyle, Bénédicte Rhoné, Susanne S. Renner, Anjan K. Banerjee, Abdelhafid Bendahmane, Gabriel Marais
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0222323

Upper versus lower airway microbiome and metagenome in children with cystic fibrosis and their correlation with lung inflammation
Cited by: 16
Author(s): Mariana E. Kirst, Dawn Baker, Eric Li, Mutasim Abu-Hasan, Gary P. Wang
Software Mentions: 3
Published: about 5 years ago

10.1371/journal.pone.0054664

Whole Genome Gene Expression Analysis Reveals Casiopeína-Induced Apoptosis Pathways
Cited by: 31
Author(s): Alejandra Idan Valencia-Cruz, Laura Uribe-Figueroa, Rodrigo Galindo‐Murillo, Karol Baca-López, Anllely Grizett Gutiérrez, Adriana Vázquez-Aguirre, Lena Ruíz-Azuara, Enrique Hernández‐Lemus, Carmen Mejía
Software Mentions: 3
Published: almost 12 years ago

10.1534/g3.120.401124

Escherichia coli with a Tunable Point Mutation Rate for Evolution Experiments
Cited by: 3
Author(s): Nicholas Sherer, Thomas E. Kuhlman
Software Mentions: 3
Published: over 4 years ago

10.3390/genes8110310

Gut Microbiome and Putative Resistome of Inca and Italian Nobility Mummies
Cited by: 18
Author(s): Tasha M. Santiago-Rodríguez, Gino Fornaciari, Stefania Luciani, Gary A. Toranzos, Isolina Marota, Valentina Giuffra, Raúl J. Cano
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-019-5894-8

Integrated analysis of long non-coding RNA and mRNA expression in different colored skin of koi carp
Cited by: 35
Author(s): Ming Luo, Lanmei Wang, Hao Yin, Wenbin Zhu, Jianjun Fu, Zaijie Dong
Software Mentions: 3
Published: over 5 years ago

10.1534/g3.117.300318

Pas de deux: An Intricate Dance of Anther Smut and Its Host
Cited by: 5
Author(s): Su San Toh, Zehua Chen, Eric C. Rouchka, David J. Schultz, Christina A. Cuomo, Michael H. Perlin
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12864-020-06801-w

The effect of variant interference on de novo assembly for viral deep sequencing
Cited by: 4
Author(s): Christina J. Castro, Rachel L. Marine, Edward Ramos, Terry Fei Fan Ng
Software Mentions: 3
Published: over 4 years ago

10.3389/fgene.2018.00356

Identification of Hyper-Methylated Tumor Suppressor Genes-Based Diagnostic Panel for Esophageal Squamous Cell Carcinoma (ESCC) in a Chinese Han Population
Cited by: 21
Author(s): Chenji Wang, Weilin Pu, Dongdong Zhao, Yinghui Zhou, Ting Lu, Sidi Chen, Zhenglei He, Xulong Feng, Ying Wang, Caihua Li, Shilin Li, Li Jin, Shicheng Guo, Jiucun Wang, Minghua Wang
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pone.0177742

Using NextRAD sequencing to infer movement of herbivores among host plants
Cited by: 18
Author(s): Zhen F. Fu, Brendan Epstein, Joanna L. Kelley, Qi Zheng, Alan O. Bergland, Carmen I. Castillo Carrillo, Andrew S. Jensen, Jennifer Dahan, Alexander V. Karasev, William E. Snyder
Software Mentions: 3
Published: over 7 years ago

10.1534/g3.119.400972

Network Analysis of Linkage Disequilibrium Reveals Genome Architecture in Chum Salmon
Cited by: 21
Author(s): Garrett J. McKinney, Megan V. McPhee, Carita E. Pascal, James E. Seeb, Lisa W. Seeb
Software Mentions: 3
Published: over 4 years ago

10.3389/fimmu.2019.01295

miRNAs Involved in M1/M2 Hyperpolarization Are Clustered and Coordinately Expressed in Alcoholic Hepatitis
Cited by: 18
Author(s): Adam Kim, Paramananda Saikia, Laura E. Nagy
Software Mentions: 3
Published: over 5 years ago

10.3389/fimmu.2021.643189

Plasticity of the Immune System in Children Following Treatment Interruption in HIV-1 Infection
Cited by: 2
Author(s): Katrine Schou Sandgaard, Ben Margetts, Teresa Attenborough, Triantafylia Gkouleli, Stuart Adams, Mette Holm, Diana Gibb, Deena L. Gibbons, Carlo Giaquinto, Anita De Rossi, Alasdair Bamford, Paolo Palma, Benny Chain, Athina Soragia Gkazi, Nigel Klein
Software Mentions: 3
Published: over 3 years ago

10.1111/aos.14463

Changes in oxygen saturation and the retinal nerve fibre layer in patients with optic neuritis associated with multiple sclerosis in a 6‐month follow‐up
Cited by: 4
Author(s): Tereza Svrčinová, Pavel Hok, Irena Šínová, Tomáš Dorňák, Michal Král, Petra Hübnerová, Jan Mareš, Petr Kaňovský, Martin Šín
Software Mentions: 3
Published: over 4 years ago

10.1186/s12864-016-2488-6

Genome-wide polymorphism and signatures of selection in the symbiotic sea anemone Aiptasia
Cited by: 24
Author(s): Emily S. Bellis, Dana K. Howe, Dee R. Denver
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0083504

RNA Sequencing of the Exercise Transcriptome in Equine Athletes
Cited by: 43
Author(s): Stefano Capomaccio, Nicola Vitulo, Andrea Verini-Supplizi, Gianni Barcaccia, Alessandro Albiero, Michela D’Angelo, Davide Campagna, Giorgio Valle, Michela Felicetti, Maurizio Silvestrelli, Katia Cappelli
Software Mentions: 3
Published: almost 11 years ago

10.1002/ece3.633

Lake Malawi cichlid evolution along a benthic/limnetic axis
Cited by: 69
Author(s): C. Darrin Hulsey, Richard J. Roberts, Y.-H. E. Loh, Maxwell Friedrich Rupp, J. Todd Streelman
Software Mentions: 3
Published: over 11 years ago

10.1186/1471-2164-15-597

Identification and characterization of three chemosensory receptor families in the cotton bollworm Helicoverpa armigera
Cited by: 73
Author(s): Nai-Yong Liu, Wei Xü, Alexie Papanicolaou, Shuang-Lin Dong, Alisha Anderson
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0149531

Divergence Times and Phylogenetic Patterns of Sebacinales, a Highly Diverse and Widespread Fungal Lineage
Cited by: 34
Author(s): Sigisfredo Garnica, Kai Riess, Max Emil Schön, Franz Oberwinkler, Sabrina Setaro
Software Mentions: 3
Published: over 8 years ago

10.1186/1471-2105-9-527

Compo: composite motif discovery using discrete models
Cited by: 11
Author(s): Geir Kjetil Sandve, Osman Abul, Finn Drabløs
Software Mentions: 3
Published: almost 16 years ago

10.1371/journal.pone.0191241

A portable prototype magnetometer to differentiate ischemic and non-ischemic heart disease in patients with chest pain
Cited by: 8
Author(s): Shima Ghasemi-Roudsari, Abbas Al-Shimary, Benjamin T. H. Varcoe, Rowena Byrom, Lorraine Kearney, Mark T. Kearney
Software Mentions: 3
Published: almost 7 years ago

10.1534/g3.117.043471

Patterns of Genetic Structure and Linkage Disequilibrium in a Large Collection of Pea Germplasm
Cited by: 34
Author(s): Mathieu Siol, Françoise Jacquin, Marianne Chabert-Martinello, Petr Smýkal, Marie‐Christine Le Paslier, Grégoire Aubert, Judith Burstin
Software Mentions: 3
Published: over 7 years ago

10.1186/s13059-015-0749-3

Regulation of constitutive and alternative mRNA splicing across the human transcriptome by PRPF8 is determined by 5′ splice site strength
Cited by: 77
Author(s): Vihandha O. Wickramasinghe, Mar Gonzàlez-Porta, David Perera, Arthur R. Bartolozzi, Christopher R. Sibley, Martina Hallegger, Jernej Ule, John C. Marioni, Ashok R. Venkitaraman
Software Mentions: 3
Published: about 9 years ago

10.1093/molbev/msz113

Fitness Landscape of the Fission Yeast Genome
Cited by: 12
Author(s): Leanne Grech, Daniel C. Jeffares, Christoph Sadée, María Rodríguez-López, Danny A. Bitton, Mimoza Hoti, Carolina Biagosch, Dimitra Aravani, Maarten Speekenbrink, Christopher J. R. Illingworth, Philipp H. Schiffer, Alison L. Pidoux, Pin Tong, Juan Jiménez, Robin C. Allshire, Henry L. Levin, Jürg Bähler
Software Mentions: 2
Published: over 5 years ago

10.1093/molbev/msu085

Genome-Wide Disruption of Gene Expression in Allopolyploids but Not Hybrids of Rice Subspecies
Cited by: 72
Author(s): Chunming Xu, Yan Bai, Xiuyun Lin, Na Zhao, Lanjuan Hu, Zhiyun Gong, Jonathan F. Wendel, Liu B
Software Mentions: 2
Published: over 10 years ago

10.1093/molbev/msw018

Purifying Selection on Exonic Splice Enhancers in Intronless Genes
Cited by: 20
Author(s): Rosina Savisaar, Laurence D. Hurst
Software Mentions: 2
Published: almost 9 years ago

10.3389/fnsys.2014.00004

Back to front: cerebellar connections and interactions with the prefrontal cortex
Cited by: 117
Author(s): Thomas C. Watson, Nadine Becker, Richard Apps, Matthew W. Jones
Software Mentions: 2
Published: almost 11 years ago

10.1093/molbev/msu320

Patterns of Linkage Disequilibrium and Long Range Hitchhiking in Evolving ExperimentalDrosophila melanogasterPopulations
Cited by: 76
Author(s): Susanne U. Franssen, Viola Nolte, Raymond Tobler, Christian Schlötterer
Software Mentions: 2
Published: about 10 years ago

10.3389/fpls.2013.00362

Facile mutant identification via a single parental backcross method and application of whole genome sequencing based mapping pipelines
Cited by: 30
Author(s): Robert S. Allen, Kenlee Nakasugi, Rachel L. Doran, Anthony A. Millar, Peter M. Waterhouse
Software Mentions: 2
Published: almost 12 years ago

10.1093/molbev/mst221

A Guide for the Design of Evolve and Resequencing Studies
Cited by: 137
Author(s): Robert Kofler, Christian Schlötterer
Software Mentions: 2
Published: about 11 years ago

10.1534/g3.115.024349

The Effects of Both Recent and Long-Term Selection and Genetic Drift Are Readily Evident in North American Barley Breeding Populations
Cited by: 20
Author(s): Ana M. Poets, Mohsen Mohammadi, Kiran Seth, Hongyun Wang, Thomas J. Y. Kono, Zhou Fang, Gary J. Muehlbauer, Kevin P. Smith, Peter L. Morrell
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0112732

A Morphospace for Reef Fishes: Elongation Is the Dominant Axis of Body Shape Evolution
Cited by: 122
Author(s): Thomas Claverie, Peter C. Wainwright
Software Mentions: 2
Published: about 10 years ago

10.3389/fpls.2017.02081

microRNAs and Their Targets in Apple (Malus domestica cv. “Fuji”) Involved in Response to Infection of Pathogen Valsa mali
Cited by: 13
Author(s): Feng Hu, Ming Xu, Zheng Xiang, Tongyi Zhu, Xiaoning Gao, Lili Huang
Software Mentions: 2
Published: almost 7 years ago

10.3389/fpls.2018.00893

Comparative Aerial and Ground Based High Throughput Phenotyping for the Genetic Dissection of NDVI as a Proxy for Drought Adaptive Traits in Durum Wheat
Cited by: 101
Author(s): Giuseppe Emanuele Condorelli, Marco Maccaferri, Maria Newcomb, Pedro Andrade-Sánchez, Jeffrey W. White, Andrew N. French, Giuseppe Notarbartolo di Sciara, Roxanne Ward, Roberto Tuberosa
Software Mentions: 2
Published: over 6 years ago

10.3389/fpls.2017.00654

Grapevine Grafting: Scion Transcript Profiling and Defense-Related Metabolites Induced by Rootstocks
Cited by: 65
Author(s): Walter Chitarra, Irene Perrone, C. Avanzato, Andrea Minio, Deborah Santini, G. Gilardi, Ilenia Siciliano, M. L. Gullino, Massimo Delledonne, F. Mannini, Giorgio Gambino
Software Mentions: 2
Published: over 7 years ago

10.3389/fpls.2016.00525

Population Genomic Analysis Reveals Differential Evolutionary Histories and Patterns of Diversity across Subgenomes and Subpopulations of Brassica napus L.
Cited by: 24
Author(s): Élodie Gazave, Erica E. Tassone, Daniel C. Ilut, Megan Wingerson, Erwin Datema, H. Witsenboer, James B. Davis, David Grant, John M. Dyer, Matthew A. Jenks, J. Brown, Michael A. Gore
Software Mentions: 2
Published: over 8 years ago

10.1186/s12864-017-3578-9

Screening and evaluating of long noncoding RNAs in the puberty of goats
Cited by: 43
Author(s): Xiaoxiao Gao, Jing Ye, Chen Yang, Kaifa Zhang, Xiumei Li, Lei Luo, Jianping Ding, Yunsheng Li, Cao H, Yinghui Ling, Xiaorong Zhang, Ya Liu, Fugui Fang, Yunhai Zhang
Software Mentions: 2
Published: almost 8 years ago

10.3389/fphar.2018.01427

Mid-Latency Auditory Evoked Potentials Differentially Predict Sedation and Drug Level Under Opioid and Hypnotic Agents
Cited by: 7
Author(s): Gernot G. Supp, Focko L. Higgen, Joerg F. Hipp, Andreas K. Engel, Markus Siegel
Software Mentions: 2
Published: almost 6 years ago

10.3390/microorganisms9091979

Fifty Generations of Amitosis: Tracing Asymmetric Allele Segregation in Polyploid Cells with Single-Cell DNA Sequencing
Cited by: 4
Author(s): Valerio Vitali, Rebecca Rothering, Francesco Catania
Software Mentions: 2
Published: about 3 years ago

10.3389/fpls.2013.00456

Transcriptome analysis of poplar rust telia reveals overwintering adaptation and tightly coordinated karyogamy and meiosis processes
Cited by: 27
Author(s): Stéphane Hacquard, Christine Delaruelle, Pascal Frey, Émilie Tisserant, Annegret Kohler, Sébastien Duplessis
Software Mentions: 2
Published: almost 12 years ago

10.1534/g3.116.030486

Head Transcriptomes of Two Closely Related Species of Fruit Flies of theAnastrepha fraterculusGroup Reveals Divergent Genes in Species with Extensive Gene Flow
Cited by: 14
Author(s): Victor Borges Rezende, Carlos Congrains, André Luís A. Lima, Emeline Boni Campanini, Aline Minali Nakamura, Janaína Lima de Oliveira, Samira Chahad‐Ehlers, Iderval Sobrinho, Reinaldo Alves de Brito
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0238402

Automatic unsupervised respiratory analysis of infant respiratory inductance plethysmography signals
Cited by: 7
Author(s): Carlos A. Robles-Rubio, Robert E. Kearney, Gianluca Bertolizio, Karen Brown
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0159258

De Novo Assembly and Developmental Transcriptome Analysis of the Small White Butterfly Pieris rapae
Cited by: 23
Author(s): Lixing Qi, Qi Fang, Lei Zhao, Hao Xia, Yuxun Zhou, Junhua Xiao, Kai Li, Gōngyín Yè
Software Mentions: 2
Published: over 8 years ago

10.1186/s12863-015-0222-z

Quantitative high resolution melting: two methods to determine SNP allele frequencies from pooled samples
Cited by: 15
Author(s): Roxana L Capper, Young Koo Jin, Petra Lundgren, Lesa M. Peplow, Mikhail V. Matz, Madeleine J. H. van Oppen
Software Mentions: 2
Published: over 9 years ago

10.3389/fnins.2019.01407

Temporal Profile of Brain Gene Expression After Prey Catching Conditioning in an Anuran Amphibian
Cited by: 3
Author(s): Vern Lewis, Frédéric Laberge, Andreas Heyland
Software Mentions: 2
Published: almost 5 years ago

10.3389/fncir.2016.00032

Feed-Forward Propagation of Temporal and Rate Information between Cortical Populations during Coherent Activation in Engineered In Vitro Networks
Cited by: 24
Author(s): Thomas B. DeMarse, Longfa Pan, Sankaraleengam Alagapan, Gregory J. Brewer, Bruce C. Wheeler
Software Mentions: 2
Published: over 8 years ago

10.3389/fninf.2021.596443

A Quick and Easy Way to Estimate Entropy and Mutual Information for Neuroscience
Cited by: 10
Author(s): Mickaël Zbili, Sylvain Rama
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0150908

Population Structure and Antimicrobial Resistance Profiles of Streptococcus suis Serotype 2 Sequence Type 25 Strains
Cited by: 30
Author(s): Taryn Athey, Sarah Teatero, Daisuke Takamatsu, Jessica Wasserscheid, Ken Dewar, Marcelo Gottschalk, Nahuel Fittipaldi
Software Mentions: 2
Published: over 8 years ago

10.1186/s40478-020-00952-3

DNA methylation profiling demonstrates superior diagnostic classification to RNA-sequencing in a case of metastatic meningioma
Cited by: 10
Author(s): Harish N. Vasudevan, Maria R H Castro, Julieann C. Lee, Javier Villanueva-Meyer, Nancy Ann Oberheim Bush, Michael W. McDermott, David A. Solomon, Arie Perry, Stephen T. Magill
Software Mentions: 2
Published: over 4 years ago

10.3389/fnins.2018.00351

Partially Overlapping Brain Networks for Singing and Cello Playing
Cited by: 27
Author(s): Melanie Segado, Avrum Hollinger, Joseph Thibodeau, Virginia B. Penhune, Robert J. Zatorre
Software Mentions: 2
Published: over 6 years ago

10.3389/fmolb.2020.00179

A Workflow for Protein Structure Determination From Thin Crystal Lamella by Micro-Electron Diffraction
Cited by: 20
Author(s): Emma V. Beale, David Waterman, Corey W. Hecksel, Jason M. van Rooyen, James B. Gilchrist, James M. Parkhurst, Felix de Haas, Bart Buijsse, Gwyndaf Evans, Peijun Zhang
Software Mentions: 2
Published: over 4 years ago

10.1186/s40168-017-0229-y

Optimization of DNA extraction for advancing coral microbiota investigations
Cited by: 33
Author(s): Laura Weber, Emelia DeForce, Amy Apprill
Software Mentions: 2
Published: almost 8 years ago

10.1186/s12864-020-06981-5

Transcriptomic analyses of Aedes aegypti cultured cells and ex vivo midguts in response to an excess or deficiency of heme: a quest for transcriptionally-regulated heme transporters
Cited by: 12
Author(s): Heather Eggleston, Zach N. Adelman
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0144572

Supervised Machine Learning for Classification of the Electrophysiological Effects of Chronotropic Drugs on Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes
Cited by: 25
Author(s): Christopher M. Heylman, Rupsa Datta, Agua Sobrino, Steven C. George, Enrico Gratton
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12864-019-5859-y

Small, but surprisingly repetitive genomes: transposon expansion and not polyploidy has driven a doubling in genome size in a metazoan species complex
Cited by: 36
Author(s): Julie Blommaert, Simone Riß, Bette Hecox-Lea, David Welch, Claus‐Peter Stelzer
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-019-5680-7

Evolution and comparative genomics of the most common Trichoderma species
Cited by: 150
Author(s): Christian P. Kubicek, Andrei Stecca Steindorff, Komal Chenthamara, Gelsomina Manganiello, Bernard Henrissat, Jian Zhang, Feng Cai, Alexey G. Kopchinskiy, Eva M. Kubicek, Alan Kuo, Riccardo Baroncelli, Sabrina Sarrocco, Eliane Ferreira Noronha, Giovanni Vannacci, Igor V. Grigoriev, Irina S. Druzhinina
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0033319

A Computational Mechanism for Unified Gain and Timing Control in the Cerebellum
Cited by: 56
Author(s): Tadashi Yamazaki, Soichi Nagao
Software Mentions: 2
Published: over 12 years ago

10.1186/s12863-016-0455-5

Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources
Cited by: 13
Author(s): Ana S. B. Rodrigues, Sara E. Silva, Francisco Pina‐Martins, João Loureiro, Mariana Castro, Karim Gharbi, Kevin P. Johnson, Christopher H. Dietrich, Paulo A. V. Borges, J. A. Quartau, Chris D. Jiggins, Octávio S. Paulo, Sofia G. Seabra
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0122928

GeneSippr: A Rapid Whole-Genome Approach for the Identification and Characterization of Foodborne Pathogens such as Priority Shiga Toxigenic Escherichia coli
Cited by: 27
Author(s): Dominic Lambert, Catherine D. Carrillo, Adam Koziol, Paul Manninger, Burton W. Blais
Software Mentions: 2
Published: over 9 years ago

10.1099/mgen.0.000177

Expanding an expanded genome: long-read sequencing of Trypanosoma cruzi
Cited by: 87
Author(s): Luisa Berná, Matías Rodriguez, María Laura Chiribao, Adriana Parodi-Talice, Sebastián Pita, Gastón Rijo, Fernando Álvarez-Valín, Carlos Robello
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2017.01852

Transfer and Persistence of a Multi-Drug Resistance Plasmid in situ of the Infant Gut Microbiota in the Absence of Antibiotic Treatment
Cited by: 59
Author(s): Heidi Gumpert, Jessica Z. Kubicek-Sutherland, Andreas Porse, Nahid Karami, Christian Munck, Marius Linkevičius, Ingegerd Adlerberth, Agnes E. Wold, Dan I. Andersson, Morten Otto Alexander Sommer
Software Mentions: 2
Published: about 7 years ago

10.1111/1751-7915.12735

Exploring bacterial interspecific interactions for discovery of novel antimicrobial compounds
Cited by: 47
Author(s): Olaf Tyc, Victor C. L. de Jager, Marlies van den Berg, Saskia Gerards, Thierry Janssens, Niels Zaagman, Marco Kai, Aleš Svatoš, Hans Zweers, C.A. Hordijk, Harrie Besselink, Wietse de Boer, Paolina Garbeva
Software Mentions: 2
Published: over 7 years ago

10.1111/acel.12785

Extracellular <scp>RNA</scp> profiles with human age
Cited by: 23
Author(s): Douglas F. Dluzen, Nicole Noren Hooten, Supriyo De, William H. Wood, Yongqing Zhang, Kevin G. Becker, Alan B. Zonderman, Toshiko Tanaka, Luigi Ferrucci, Michele K. Evans
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0122074

Comparative Genomic Analysis of Two Novel Sporadic Shiga Toxin-Producing Escherichia coli O104:H4 Strains Isolated 2011 in Germany
Cited by: 12
Author(s): Erhard Tietze, Piotr Wojtek Dabrowski, Rita Prager, Aleksandar Radonić, Angelika Fruth, Philipp Auraß, Andreas Nitsche, Martin Mielke, Antje Flieger
Software Mentions: 2
Published: over 9 years ago

10.3389/fmicb.2016.01546

Photosynthetic Versatility in the Genome of Geitlerinema sp. PCC 9228 (Formerly Oscillatoria limnetica ‘Solar Lake’), a Model Anoxygenic Photosynthetic Cyanobacterium
Cited by: 27
Author(s): Sharon L. Grim, Gregory J. Dick
Software Mentions: 2
Published: about 8 years ago

10.3389/fmicb.2019.01011

Regional and Microenvironmental Scale Characterization of the Zostera muelleri Seagrass Microbiome
Cited by: 45
Author(s): Valentina Hurtado-McCormick, Tim Kahlke, Katherina Petrou, Thomas C. Jeffries, Peter J. Ralph, Justin R. Seymour
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2021.606820

Interpreting Sequence Variation in PDAC-Predisposing Genes Using a Multi-Tier Annotation Approach Performed at the Gene, Patient, and Cohort Level
Cited by: 3
Author(s): Michael T. Zimmermann, Angela Mathison, Tim Stodola, Douglas B. Evans, Jenica Abrudan, Wendy Demos, Michael Tschannen, Mohammed Aldakkak, Jennifer L. Geurts, Gwen Lomberk, Susan Tsai, Raúl Urrutia
Software Mentions: 2
Published: over 3 years ago

Projects: pypi: custom

Papers Mentioning custom 1,363