pypi: blast | Projects | Ecosyste.ms: Papers

10.1186/1471-2350-7-18

Breakpoint Associated with a novel 2.3 Mb deletion in the VCFS region of 22q11 and the role of Alu (SINE) in recurring microdeletions
Cited by: 24
Author(s): Raihan K. Uddin, Yang Zhang, Victoria Mok Siu, Yao Shan Fan, Richard O’Reilly, Jay Rao, Shiva M. Singh
Software Mentions: 3
Published: over 20 years ago

10.1186/s12864-018-4675-0

Comparative omics and feeding manipulations in chicken indicate a shift of the endocrine role of visceral fat towards reproduction
Cited by: 31
Author(s): Susanne Bornelöv, Eyal Seroussi, Sara Yosefi, Sharon Benjamini, Shoval Miyara, M. Ruzal, Manfred Grabherr, Nima Rafati, Anna Maja Molin, Ken Pendavis, Shane C. Burgess, Leif Andersson, Miriam Friedman‐Einat
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.pone.0125964

Genome-Wide Distribution, Organisation and Functional Characterization of Disease Resistance and Defence Response Genes across Rice Species
Cited by: 34
Author(s): S. P. Singh, Suresh Chand, Nagendra Singh, Tilak Raj Sharma
Software Mentions: 3
Published: over 11 years ago

10.3389/fmicb.2020.555795

Environmental Parameters and Substrate Type Drive Microeukaryotic Community Structure During Short-Term Experimental Colonization in Subtropical Eutrophic Freshwaters
Cited by: 7
Author(s): Changyu Zhu, David Bass, Yutao Wang, Zhuo Shen, Weibo Song, Zhenzhen Yi
Software Mentions: 3
Published: almost 6 years ago

10.1111/1755-0998.12240

Rapid and accurate taxonomic classification of insect (class Insecta) cytochrome c oxidase subunit 1 (<scp>COI</scp>) <scp>DNA</scp> barcode sequences using a naïve Bayesian classifier
Cited by: 48
Author(s): Teresita M. Porter, Joel F. Gibson, Shadi Shokralla, Donald J. Baird, G. Brian Golding, Mehrdad Hajibabaei
Software Mentions: 3
Published: over 12 years ago

10.1186/1471-2164-13-31

Sequencing and comparative genomic analysis of 1227 Felis catus cDNA sequences enriched for developmental, clinical and nutritional phenotypes
Cited by: 8
Author(s): Kristopher J. L. Irizarry, S. B. Malladi, Xiangming Gao, Katherine Mitsouras, Lynda Melendez, Patricia A Burris, Jeffrey A. Brockman, Samer Al-Murrani
Software Mentions: 3
Published: over 14 years ago

10.1186/s12864-020-6522-3

Tuberomics: a molecular profiling for the adaption of edible fungi (Tuber magnatum Pico) to different natural environments
Cited by: 13
Author(s): Federico Vita, Beatrice Giuntoli, Edoardo Bertolini, Cosimo Taiti, Elettra Marone, Chiara D’Ambrosio, Emanuela Trovato, Danilo Sciarrone, Mariosimone Zoccali, Raffaella Balestrini, Andrea Scaloni, Luigi Mondello, Stefano Mancuso, Massimo Alessio, Amedeo Alpi
Software Mentions: 3
Published: over 6 years ago

10.1111/mec.15168

Dynamic virulence‐related regions of the plant pathogenic fungus Verticillium dahliae display enhanced sequence conservation
Cited by: 34
Author(s): Jasper R L Depotter, Xiaoqian Shi-Kunne, Hélène Missonnier, Tingli Liu, Luigi Faino, Grardy C. M. van den Berg, Thomas A. Wood, Baolong Zhang, Alban Jacques, Michael Seidl, B.P.H.J. Thomma
Software Mentions: 3
Published: about 7 years ago

10.3389/fmicb.2018.01272

Comparison of Database Search Methods for the Detection of Legionella pneumophila in Water Samples Using Metagenomic Analysis
Cited by: 8
Author(s): Jednipit Borthong, Ryosuke Omori, Chihiro Sugimoto, Orasa Suthienkul, Ryo Nakao, Kimihito Ito
Software Mentions: 3
Published: about 8 years ago

10.3389/fmicb.2021.642587

Inorganic Chemical Fertilizer Application to Wheat Reduces the Abundance of Putative Plant Growth-Promoting Rhizobacteria
Cited by: 18
Author(s): Tessa E. Reid, Vanessa Nessner Kavamura, Maïder Abadie, Adriana Torres-Ballesteros, Mark Pawlett, Ian M. Clark, J. Arthur Harris, Tim H. Mauchline
Software Mentions: 3
Published: over 5 years ago

10.1111/mec.14459

The effects of pastoral intensification on the feeding interactions of generalist predators in streams
Cited by: 6
Author(s): Caitlin E. Pearson, William Oliver Christian Symondson, Elizabeth L. Clare, Stephen James Ormerod, Esther Iparraguirre Bolaños, Ian P. Vaughan
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-015-2142-8

Gene expression analysis at the onset of sex differentiation in turbot (Scophthalmus maximus)
Cited by: 35
Author(s): Diego Robledo, Laia Ribas, Rosa Cal, Laura Sánchez, Francesc Piferrer, Paulino Martı́nez, Ana Viñas
Software Mentions: 3
Published: almost 11 years ago

10.1128/mSystems.00187-18

New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract
Cited by: 302
Author(s): Isabel F. Escapa, Tsute Chen, Yanmei Huang, Prasad Gajare, Floyd E. Dewhirst, Katherine P. Lemon
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12864-015-1870-0

Gonadal transcriptomics elucidate patterns of adaptive evolution within marine rockfishes (Sebastes)
Cited by: 8
Author(s): Joseph Heras, Kelly McClintock, Shinichi Sunagawa, Andres Aguilar
Software Mentions: 3
Published: about 11 years ago

10.1371/journal.pone.0043652

Pitfalls of Establishing DNA Barcoding Systems in Protists: The Cryptophyceae as a Test Case
Cited by: 26
Author(s): Kerstin Hoef‐Emden
Software Mentions: 3
Published: about 14 years ago

10.1186/1471-2164-11-S1-S14

Bioinformatic search of plant microtubule-and cell cycle related serine-threonine protein kinases
Cited by: 21
Author(s): П. А. Карпов, Е. С. Надеждина, А. І. Yemets, V. G. Matusov, A. Yu. Nyporko, Nadezhda Yu Shashina, Ya. B. Blume
Software Mentions: 3
Published: over 16 years ago

10.3390/microorganisms8101621

Deciphering the Infectious Process of Colletotrichum lupini in Lupin through Transcriptomic and Proteomic Analysis
Cited by: 16
Author(s): Guillaume Dubrulle, Adeline Picot, Stéphanie Madec, Matthieu Le Corre, Audrey Pawtowski, Riccardo Baroncelli, Michel Zivy, Thierry Balliau, Gaétan Le Floch, Flora Pensec
Software Mentions: 3
Published: almost 6 years ago

10.1186/1471-2164-11-592

Development and validation of a flax (Linum usitatissimum L.) gene expression oligo microarray
Cited by: 55
Author(s): Stéphane Fénart, Yves-Placide Assoumou Ndong, Jorge Duarte, Nathalie Rivière, Jeroen Wilmer, Olivier Van Wuytswinkel, Anca Lucau, Emmanuelle Cariou, Godfrey Neutelings, Laurent Gutierrez, Brigitte Chabbert, Xavier Guillot, Reynald Tavernier, Simon Hawkins, Brigitte Thomasset
Software Mentions: 3
Published: almost 16 years ago

10.3390/toxins10120503

Discovery of Novel Conotoxin Candidates Using Machine Learning
Cited by: 18
Author(s): Qing Li, Maren Watkins, Samuel D. Robinson, Helena Safavi-Hemami, Mark Yandell
Software Mentions: 3
Published: almost 8 years ago

10.1155/2016/6261490

Validation of Housekeeping Genes to Study Human Gingival Stem Cells and TheirIn VitroOsteogenic Differentiation Using Real-Time RT-qPCR
Cited by: 14
Author(s): Ihsène Taïhi, Ali Nassif, Tsouria Berbar, Juliane Isaac, Ariane Berdal, Bruno Gogly, Benjamin Fournier
Software Mentions: 3
Published: over 10 years ago

10.1186/1471-2164-13-517

Genome-wide metabolic (re-) annotation of Kluyveromyces lactis
Cited by: 16
Author(s): Óscar Dias, Andreas Gombert, Eugénio C. Ferreira, Isabel Rocha
Software Mentions: 3
Published: almost 14 years ago

10.1155/2018/5692840

Noncoding RNA Transcripts during Differentiation of Induced Pluripotent Stem Cells into Hepatocytes
Cited by: 5
Author(s): Aniela Skrzypczyk, Stephanie Kehr, Ilona Krystel, Stephan H. Bernhart, Shibashish Giri, Augustinus Bader, Peter F. Stadler
Software Mentions: 3
Published: about 8 years ago

10.1038/s41598-020-65724-4

Simultaneous identification of animal-derived components in meats using high-throughput sequencing in combination with a custom-built mitochondrial genome database
Cited by: 6
Author(s): Yinan Zhang, Qinfeng Qu, RAO Mingzhen, Zhang Nana, Yu Zhao, Fei Tao
Software Mentions: 3
Published: over 6 years ago

10.3390/microorganisms7100444

A Diverse Repertoire of Exopolysaccharide Biosynthesis Gene Clusters in Lactobacillus Revealed by Comparative Analysis in 106 Sequenced Genomes
Cited by: 40
Author(s): Dipti Deo, Dimple Davray, Ram Kulkarni
Software Mentions: 3
Published: almost 7 years ago

10.1186/1471-2164-12-99

De novo characterization of the gametophyte transcriptome in bracken fern, Pteridium aquilinum
Cited by: 106
Author(s): Joshua P. Der, Michael S. Barker, Norman J. Wickett, Claude W. dePamphilis, Paul G. Wolf
Software Mentions: 3
Published: over 15 years ago

10.1038/s41598-019-42686-w

Enhanced early-life nutrition upregulates cholesterol biosynthetic gene expression and Sertoli cell maturation in testes of pre-pubertal Holstein bulls
Cited by: 12
Author(s): Chinju Johnson, Alysha Dance, Igor Kovalchuk, John P. Kastelic, Jacob C. Thundathil
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-019-55896-z

System OMICs analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster
Cited by: 7
Author(s): Julia Bespyatykh, Egor Shitikov, Andrei Guliaev, Alexander Smolyakov, Ksenia M. Klimina, Vladimir A. Veselovsky, М В Малахова, Georgij Arapidi, Marine Dogonadze, Olga Manicheva, Dmitry Bespiatykh, Igor Mokrousov, Viacheslav Zhuravlev, Elena N. Ilina, Vadim M. Govorun
Software Mentions: 3
Published: over 6 years ago

10.1128/mSphere.00305-16

Coordinate Regulation of Antimycin and Candicidin Biosynthesis
Cited by: 34
Author(s): Thomas C McLean, Paul A. Hoskisson, Ryan F. Seipke
Software Mentions: 3
Published: over 9 years ago

10.1099/mic.0.000861

Variation in genome content and predatory phenotypes between Bdellovibrio sp. NC01 isolated from soil and B. bacteriovorus type strain HD100
Cited by: 11
Author(s): Laura E. Williams, Nicole Cullen, Joseph A. DeGiorgis, Karla J Martinez, Justina Mellone, Molly Oser, Jing Wang, Ying Zhang
Software Mentions: 3
Published: almost 7 years ago

10.3390/genes12020254

Paracellular and Transcellular Leukocytes Diapedesis Are Divergent but Interconnected Evolutionary Events
Cited by: 20
Author(s): Michel‐Edwar Mickael, Norwin Kubick, Pavel Klimovich, Patrick Henckell Flournoy, Irmina Bieńkowska, Mariusz Sacharczuk
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-05222-2

Impacts of Early Life Stress on the Methylome and Transcriptome of Atlantic Salmon
Cited by: 41
Author(s): Hooman K. Moghadam, Hanne Johnsen, Nick Robinson, Øivind Andersen, Even H. Jørgensen, Hanne Johnsen, Vegar J. Bæhr, Helge Tveiten
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-019-41189-y

Identifying High Confidence microRNAs in the Developing Seeds of Jatropha curcas
Cited by: 11
Author(s): Mo Yang, Hongyu Lu, Feiqun Xue, Lanqing Ma
Software Mentions: 3
Published: over 7 years ago

10.1186/1471-2105-15-61

CDSbank: taxonomy-aware extraction, selection, renaming and formatting of protein-coding DNA or amino acid sequences
Cited by: 2
Author(s): Bart Hazes
Software Mentions: 3
Published: over 12 years ago

10.1186/1471-2164-15-853

Cyclic nucleotide-gated ion channel gene family in rice, identification, characterization and experimental analysis of expression response to plant hormones, biotic and abiotic stresses
Cited by: 109
Author(s): Zarqa Nawaz, Kaleem Ullah Kakar, Mumtaz Ali Saand, Qingyao Shu
Software Mentions: 3
Published: almost 12 years ago

10.1186/1471-2164-12-104

Transcriptome characterization and high throughput SSRs and SNPs discovery in Cucurbita pepo (Cucurbitaceae)
Cited by: 176
Author(s): José Blanca, Joaquı́n Cañizares, Cristina Roig, Peio Ziarsolo, F. Nuez, Belén Picó
Software Mentions: 3
Published: over 15 years ago

10.1128/AEM.02885-19

Nutrient Level Determines Biofilm Characteristics and Subsequent Impact on Microbial Corrosion and Biocide Effectiveness
Cited by: 48
Author(s): Silvia J. Salgar-Chaparro, Kateřina Lepková, Thunyaluk Pojtanabuntoeng, Adam Darwin, Laura L. Machuca
Software Mentions: 3
Published: over 6 years ago

10.1099/mgen.0.000347

Comparison of core-genome MLST, coreSNP and PFGE methods for Klebsiella pneumoniae cluster analysis
Cited by: 29
Author(s): Floriana Gona, Francesco Comandatore, Simone Battaglia, Aurora Piazza, Alberto Trovato, Giovanni Lorenzin, Paola Cichero, Anna Biancardi, Paola Nizzero, Matteo Moro, Daniela María Cirillo
Software Mentions: 3
Published: over 6 years ago

10.1186/s12859-015-0833-4

GigaTON: an extensive publicly searchable database providing a new reference transcriptome in the pacific oyster Crassostrea gigas
Cited by: 33
Author(s): Guillaume Rivière, Christophe Klopp, Ibouniyamine Nabihoudine, Arnaud Huvet, Pierre Boudry, Pascal Favrel
Software Mentions: 3
Published: almost 11 years ago

10.1186/1754-6834-6-72

Comparative transcriptome analysis to investigate the high starch accumulation of duckweed (Landoltia punctata) under nutrient starvation
Cited by: 79
Author(s): Tao Xiang, Yang Fang, Yao Xiao, Yanling Jin, Xinrong Ma, Yun Zhao, Kai He, Hai Zhao, Haiyan Wang
Software Mentions: 3
Published: over 13 years ago

10.1371/journal.pone.0041645

Deep Sequencing-Based Transcriptome Analysis of Chicken Spleen in Response to Avian Pathogenic Escherichia coli (APEC) Infection
Cited by: 36
Author(s): Qinghua Nie, Erin Sandford, Xiquan Zhang, Lisa K. Nolan, Susan J. Lamont
Software Mentions: 3
Published: about 14 years ago

10.1016/j.csbj.2020.11.013

HARP: a database of structural impacts of systematic missense mutations in drug targets of Mycobacterium leprae
Cited by: 13
Author(s): Sundeep Chaitanya Vedithi, Sony Malhotra, Marcin J. Skwark, Asma Munir, Marta Acebrón-García-de-Eulate, Vaishali P. Waman, Ali Alsulami, David B. Ascher, Tom L. Blundell
Software Mentions: 3
Published: over 6 years ago

10.1002/ece3.3798

Transcriptome response of Atlantic salmon (Salmo salar) to competition with ecologically similar non-native species
Cited by: 8
Author(s): Xiaoping He, Aimee Lee S. Houde, Bryan D. Neff, Daniel D. Heath
Software Mentions: 3
Published: over 8 years ago

10.15252/emmm.201911210

Glufosinate constrains synchronous and metachronous metastasis by promoting anti‐tumor macrophages
Cited by: 27
Author(s): Alessio Menga, Marina Serra, Simona Todisco, Carla Riera-Domingo, Ummi Ammarah, Manuel Ehling, Erika M. Palmieri, Maria Antonietta Di Noia, Rosanna Gissi, Maria Favia, Ciro Leonardo Pierri, Paolo E. Porporato, Alessandra Castegna, Massimiliano Mazzone
Software Mentions: 3
Published: about 6 years ago

10.1002/ece3.5991

New genome assembly of the barn owl (Tyto alba alba)
Cited by: 8
Author(s): Anne‐Lyse Ducrest, Samuel Neuenschwander, Emanuel Schmid‐Siegert, Marco Pagni, Clément Train, David Dylus, Yannis Nevers, Alex Warwick Vesztrocy, Luis M. San‐Jose, Mélanie Dupasquier, Christophe Dessimoz, Ioannis Xénarios, Alexandre Roulin, Jérôme Goudet
Software Mentions: 3
Published: over 6 years ago

10.18632/oncotarget.8338

Upregulation of long intergenic noncoding RNA 00673 promotes tumor proliferation via LSD1 interaction and repression of NCALD in non-small-cell lung cancer
Cited by: 59
Author(s): Xuefei Shi, Chenhui Ma, Qingqing Zhu, Dongmei Yuan, Ming Sun, Xiaoling Gu, Guannan Wu, Tangfeng Lv, Yong Song
Software Mentions: 3
Published: over 10 years ago

10.1155/2015/292950

Challenges of the Unknown: Clinical Application of Microbial Metagenomics
Cited by: 14
Author(s): Graham Rose, David Wooldridge, Catherine Anscombe, Edward T. Mee, Raju Misra, Saheer E. Gharbia
Software Mentions: 3
Published: over 11 years ago

10.1186/s12870-018-1601-1

Transcriptomic signature reveals mechanism of flower bud distortion in witches’-broom disease of soybean (Glycine max)
Cited by: 10
Author(s): Sarika Jaiswal, P. V. Jadhav, Rahul Singh Jasrotia, P. B. Kale, Snehal Krishna Kad, M. P. Moharil, M. S. Dudhare, Jashminkumar Kheni, A. G. Deshmukh, S. S. Mane, R. S. Nandanwar, Suprasanna Penna, J. G. Manjaya, Mir Asif Iquebal, R. S. Tomar, Prashant G. Kawar, Anil Rai, Dinesh Kumar
Software Mentions: 3
Published: over 7 years ago

10.1186/s13046-019-1239-3

RETRACTED ARTICLE: Down-regulated lncRNA DLX6-AS1 inhibits tumorigenesis through STAT3 signaling pathway by suppressing CADM1 promoter methylation in liver cancer stem cells
Cited by: 64
Author(s): Dongmei Wu, Zihui Zheng, Yingbo Zhang, Shao‐Hua Fan, Zi-Feng Zhang, Yongjian Wang, Yuxin Zheng, Jun Lü
Software Mentions: 3
Published: over 7 years ago

10.1186/s12883-020-02040-4

Mild cognitive impairment in novel SPG11 mutation-related sporadic hereditary spastic paraplegia with thin corpus callosum: case series
Cited by: 4
Author(s): Chuan Li, Qi Yan, Feng-ju Duan, Chao Zhao, Zhuo Zhang, Ying Du, Wei Zhang
Software Mentions: 3
Published: over 5 years ago

10.3390/ijms22147312

Structure, Distribution, Chemical Composition, and Gene Expression Pattern of Glandular Trichomes on the Leaves of Rhus potaninii Maxim
Cited by: 1
Author(s): Qin Lu, Nawaz Haider Bashir, Haixia Wu, Weiwei Wang, Zhang Jin-wen, Yongzhong Cui, Hang Chen
Software Mentions: 3
Published: about 5 years ago

10.7508/ibj.2015.03.007

Association of Lecithin Cholesterol Acyltransferase rs5923 Polymorphism in Iranian Individuals with Extremely Low High-Density Lipoprotein Cholesterol: Tehran Lipid and Glucose Study.
Cited by: 2
Author(s): Mohsen Naseri, Mehdi Hedayati, Maryam Sadat Daneshpour, Fatemeh Bandarian, Fereidoun Azizi
Software Mentions: 3
Published: over 11 years ago

10.3390/life11020129

Population Genomics Insights into the First Wave of COVID-19
Cited by: 14
Author(s): Maria Vasilarou, Nikolaos Alachiotis, Joanna Garefalaki, Apostolos Beloukas, Pavlos Pavlidis
Software Mentions: 3
Published: over 5 years ago

10.1099/ijsem.0.004837

Belnapia mucosa sp. nov. and Belnapia arida sp. nov., isolated from desert biocrust
Cited by: 7
Author(s): Esther Molina‐Menor, Àngela Vidal‐Verdú, Leila Satari, Alba Calonge-García, Javier Pascual, Juli Peretó, Manuel Porcar
Software Mentions: 3
Published: about 5 years ago

10.1186/s12870-021-02904-y

QTLs and candidate genes analyses for fruit size under domestication and differentiation in melon (Cucumis melo L.) based on high resolution maps
Cited by: 22
Author(s): Qiang Lian, Qihua Fu, Yong Xu, Zhicheng Hu, Jing Zheng, Aiai Zhang, Yue He, Changsheng Wang, Chuanqiang Xu, Benxue Chen, Jordi García-Más, Guangwei Zhao, Huaisong Wang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12870-019-2074-6

Transcriptomic and metabolomic profiling provide novel insights into fruit development and flesh coloration in Prunus mira Koehne, a special wild peach species
Cited by: 37
Author(s): Ying Hong, Jian Shi, Shanshan Zhang, Gesang Pingcuo, Shuo Wang, Fan Zhao, Yongning Cui, Xiuli Zeng
Software Mentions: 3
Published: almost 7 years ago

10.1111/1462-2920.13203

Molecular genetic and physical analysis of gas vesicles in buoyant enterobacteria
Cited by: 35
Author(s): Yosuke Tashiro, Rita E. Monson, Joshua P. Ramsay, George P. C. Salmond
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pntd.0006786

Genetic diversity, infection prevalence, and possible transmission routes of Bartonella spp. in vampire bats
Cited by: 32
Author(s): Daniel J. Becker, Laura M. Bergner, Alexandra B. Bentz, Richard Orton, Sonia Altizer, Daniel G. Streicker
Software Mentions: 3
Published: almost 8 years ago

10.18632/oncotarget.25523

FOXP3 and miR-155 cooperate to control the invasive potential of human breast cancer cells by down regulating ZEB2 independently of ZEB1
Cited by: 19
Author(s): Cheryl Y. Brown, Sonia Dayan, Soon Wei Wong, Adrian Kaczmarek, Christopher Hope, Stephen Pederson, Victoria K Arnet, Gregory J. Goodall, Darryl L. Russell, Timothy Sadlon, Simon C. Barry
Software Mentions: 3
Published: over 8 years ago

10.1186/s12870-020-02459-4

Reducing the nicotine content of tobacco by grafting with eggplant
Cited by: 5
Author(s): Mengjuan Ren, Mengyue Zhang, Huijuan Yang, Hongzhi Shi
Software Mentions: 3
Published: about 6 years ago

10.1155/2017/8027626

Transcriptome Analysis of Two Different Developmental Stages of Paeonia lactiflora Seeds
Cited by: 7
Author(s): Yong-Lei Ma, Jinqiu Cui, Xiujun Lu, Lijie Zhang, Zhijing Chen, Riwen Fei, Xiulan Sun
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pone.0146283

Multiple and Diverse vsp and vlp Sequences in Borrelia miyamotoi, a Hard Tick-Borne Zoonotic Pathogen
Cited by: 34
Author(s): Alan G. Barbour
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0234782

Ab initio GO-based mining for non-tandem-duplicated functional clusters in three model plant diploid genomes
Cited by: 0
Author(s): Paolo Bagnaresi, Luigi Cattivelli
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pntd.0002728

Presence of Extensive Wolbachia Symbiont Insertions Discovered in the Genome of Its Host Glossina morsitans morsitans
Cited by: 63
Author(s): Corey L. Brelsfoard, George Tsiamis, Marco Falchetto, Ludvik M. Gomulski, Erich Loza Telleria, Uzma Alam, Vangelis Doudoumis, Francesca Scolari, Joshua B. Benoit, Martin Swain, Peter Takáč, Anna R. Malacrida, Kostas Bourtzis, Serap Aksoy
Software Mentions: 3
Published: over 12 years ago

10.1186/s12870-020-02461-w

Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset
Cited by: 14
Author(s): Yunsheng Wang, Fude Nie, Muhammad Qasim Shahid, Faheem Shehzad Baloch
Software Mentions: 3
Published: over 6 years ago

10.1111/1462-2920.14800

The global distribution and evolutionary history of the pT26‐2 archaeal plasmid family
Cited by: 4
Author(s): Catherine Badel, Gaël Erauso, Annika L. Gomez, Ryan Catchpole, Mathieu Gonnet, Jacques Oberto, Patrick Forterre, Violette Da Cunha
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pgen.1009541

Mobile Type VI secretion system loci of the gut Bacteroidales display extensive intra-ecosystem transfer, multi-species spread and geographical clustering
Cited by: 25
Author(s): Leonor García-Bayona, Michael J. Coyne, Laurie E. Comstock
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0145053

Synergistic Interactions of Eugenol-tosylate and Its Congeners with Fluconazole against Candida albicans
Cited by: 57
Author(s): Aijaz Ahmad, Mohmmad Younus Wani, Amber Khan, Nikhat Manzoor, Julitha Molepo
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pgen.1002602

The Atypical Calpains: Evolutionary Analyses and Roles in Caenorhabditis elegans Cellular Degeneration
Cited by: 24
Author(s): Peter Joyce, Rahul Satija, Maozi C Chen, Patricia E. Kuwabara
Software Mentions: 3
Published: over 14 years ago

10.1371/journal.pgen.1000732

Exceptional Diversity, Non-Random Distribution, and Rapid Evolution of Retroelements in the B73 Maize Genome
Cited by: 332
Author(s): Regina S. Baucom, James C. Estill, Cristian Chaparro, Naadira C. Upshaw, Ansuya Jogi, Jean-Marc Deragon, Richard P. Westerman, Phillip SanMiguel, Jeffrey L. Bennetzen
Software Mentions: 3
Published: almost 17 years ago

10.3390/md19060286

An Integrative Bioinformatic Analysis for Keratinase Detection in Marine-Derived Streptomyces
Cited by: 2
Author(s): Ricardo Valencia, Valentina González, Agustina Undabarrena, Leonardo Zamora-Leiva, Juan A. Ugalde, Beatríz Cámara
Software Mentions: 3
Published: over 5 years ago

10.1155/2008/619832

Blast2GO: A Comprehensive Suite for Functional Analysis in Plant Genomics
Cited by: 1,633
Author(s): Ana Conesa, Stefan Götz
Software Mentions: 3
Published: over 18 years ago

10.1016/j.sjbs.2021.03.036

Structure insights of SARS-CoV-2 open state envelope protein and inhibiting through active phytochemical of ayurvedic medicinal plants from Withania somnifera
Cited by: 7
Author(s): Raed Alharbi
Software Mentions: 3
Published: over 5 years ago

10.1002/ece3.6749

The insertion of a mitochondrial selfish element into the nuclear genome and its consequences
Cited by: 2
Author(s): Julien Dutheil, Karin Münch, Klaas Schotanus, Eva H. Stukenbrock, Regine Kahmann
Software Mentions: 3
Published: about 6 years ago

10.1186/s12866-020-01877-6

Proteomic analysis of Rickettsia akari proposes a 44 kDa-OMP as a potential biomarker for Rickettsialpox diagnosis
Cited by: 5
Author(s): František Csicsay, Gabriela Flores‐Ramírez, Fernando Zúñiga-Navarrete, Mária Bartošová, Alena Fučíková, Petr Pajer, Jiří Dresler, Ľudovít Škultéty, Marco Antonio Quevedo-Diaz
Software Mentions: 3
Published: about 6 years ago

10.1099/jgv.0.000338

First complete genome sequence of European turkey coronavirus suggests complex recombination history related with US turkey and guinea fowl coronaviruses
Cited by: 31
Author(s): Paul A. Brown, Fabrice Touzain, François-Xavier Briand, A. M. Gouilh, Céline Courtillon, Chantal Allée, Evelyne Lemaitre, Claire de Boisséson, Yannick Blanchard, Nicolas Eterradossi
Software Mentions: 3
Published: over 10 years ago

10.1016/j.csbj.2016.09.004

Unbiased Mitoproteome Analyses Confirm Non-canonical RNA, Expanded Codon Translations
Cited by: 21
Author(s): Hervé Seligmann
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0250758

Comprehensive at-arrival transcriptomic analysis of post-weaned beef cattle uncovers type I interferon and antiviral mechanisms associated with bovine respiratory disease mortality
Cited by: 9
Author(s): Matthew A. Scott, Amelia R. Woolums, Cyprianna E. Swiderski, Andy D. Perkins, Bindu Nanduri, David R. Smith, Brandi B. Karisch, William B. Epperson, J. R. Blanton
Software Mentions: 3
Published: over 5 years ago

10.1038/srep39749

An expressed, endogenous Nodavirus-like element captured by a retrotransposon in the genome of the plant parasitic nematode Bursaphelenchus xylophilus
Cited by: 13
Author(s): James A. Cotton, Sascha Steinbiss, Toshiro Yokoi, Isheng Jason Tsai, Taisei Kikuchi
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pgen.1008850

Evolution of Salmonella enterica serotype Typhimurium driven by anthropogenic selection and niche adaptation
Cited by: 37
Author(s): Matt Bawn, Nabil-Fareed Alikhan, Gaëtan Thilliez, Mark Kirkwood, Nicole E. Wheeler, Liljana Petrovska, Timothy J. Dallman, Evelien M. Adriaenssens, Neil Hall, Robert A. Kingsley
Software Mentions: 3
Published: over 6 years ago

10.1111/febs.14976

Burkholderia pseudomallei <scp>d</scp> ‐alanine‐ <scp>d</scp> ‐alanine ligase; detailed characterisation and assessment of a potential antibiotic drug target
Cited by: 3
Author(s): L. Diaz-Saez, Leah S. Torrie, Stuart P. McElroy, David W. Gray, William N. Hunter
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pgen.1003323

Plant-Symbiotic Fungi as Chemical Engineers: Multi-Genome Analysis of the Clavicipitaceae Reveals Dynamics of Alkaloid Loci
Cited by: 343
Author(s): Christopher L. Schardl, Carolyn A. Young, Uljana Hesse, Stefan G. Amyotte, Kalina Andreeva, Patrick J. Calie, Damien J. Fleetwood, David Haws, Neil Moore, Birgitt Oeser, Daniel G. Panaccione, Kathryn Schweri, Christine R. Voisey, Mark L. Farman, Jerzy W. Jaromczyk, Bruce A. Roe, Donal M. O’Sullivan, Barry Scott, Paul Tudzynski, Zhiqiang An, Elissaveta G. Arnaoudova, Charles T. Bullock, Nikki D. Charlton, Li Chen, Murray P. Cox, Randy D. Dinkins, Simona Florea, Anthony E. Glenn, Anna Gordon, Ulrich Güldener, Daniel R. Harris, Walter Hollin, Jolanta Jaromczyk, Richard D. Johnson, Anar Khan, Eckhard Leistner, Adrian Leuchtmann, Chunjie Li, Jin Ge Liu, Jinze Liu, Miao Liu, Wade J. Mace, Caroline Machado, Padmaja Nagabhyru, Juan Pan, Jan Schmid, Kazuo Sugawara, Ulrike Steiner, Johanna E. Takach, Eiji Tanaka, James D. Webb, Ella V. Wilson, Jennifer L. Wiseman, Ruriko Yoshida, Zheng Zeng
Software Mentions: 3
Published: over 13 years ago

10.1093/jxb/erv553

Comparative cell-specific transcriptomics reveals differentiation of C4photosynthesis pathways in switchgrass and other C4lineages
Cited by: 45
Author(s): Xiaolan Rao, Nan Lu, Guifen Li, Jin Nakashima, Yuhong Tang, Richard A. Dixon
Software Mentions: 3
Published: over 10 years ago

10.1186/1758-2946-6-33

In Silicotarget fishing: addressing a “Big Data” problem by ligand-based similarity rankings with data fusion
Cited by: 46
Author(s): Xian Liu, Xu Yue, Shanshan Li, Yulan Wang, Jiantang Peng, Cheng Luo, Xiaomin Luo, Mingyue Zheng, Kaixian Chen, Hualiang Jiang
Software Mentions: 3
Published: about 12 years ago

10.1371/journal.ppat.1000181

Evidence for Restriction of Ancient Primate Gammaretroviruses by APOBEC3 but Not TRIM5α Proteins
Cited by: 35
Author(s): David Pérez-Caballero, Steven J. Soll, Paul D. Bieniasz
Software Mentions: 3
Published: almost 18 years ago

10.1111/jcmm.16550

Effect of lncRNA‐ATB/miR‐651‐3p/Yin Yang 1 pathway on trophoblast‐endothelial cell interaction networks
Cited by: 10
Author(s): Yangxue Yin, Jiashuo Zhang, Hongbiao Yu, Min Liu, Xuelian Zheng, Rong Zhou
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2021.713224

Genome-Wide Identification and Expression Analysis of Metal Tolerance Protein Gene Family in Medicago truncatula Under a Broad Range of Heavy Metal Stress
Cited by: 18
Author(s): Ahmed H. El-Sappah, Rania G. Elbaiomy, Ahmed S. Elrys, Yu Wang, Yumin Zhu, Qiulan Huang, Yan Ke, Xingbo Zhao, Yun Li, Khaled A. El‐Tarabily, Jia Li
Software Mentions: 3
Published: about 5 years ago

10.1038/s41437-021-00438-5

Whole genome sequencing reveals high differentiation, low levels of genetic diversity and short runs of homozygosity among Swedish wels catfish
Cited by: 7
Author(s): Axel Jensen, Mette Lillie, Kristofer Bergström, Per Larsson, Jacob Höglund
Software Mentions: 3
Published: over 5 years ago

10.1186/s13099-016-0084-6

Genome sequence of Escherichia coli NCCP15653, a group D strain isolated from a diarrhea patient
Cited by: 2
Author(s): Min Jung Kwak, Myoung Soo Kim, Soon Kyeong Kwon, Seung Hak Cho, Jihyun F. Kim
Software Mentions: 3
Published: over 10 years ago

10.1093/gigascience/giaa148

Chromosome-level reference genome of the European wasp spiderArgiope bruennichi: a resource for studies on range expansion and evolutionary adaptation
Cited by: 29
Author(s): Monica M. Sheffer, Anica Hoppe, Henrik Krehenwinkel, Gabriele Uhl, Andreas W. Kuß, Lars Riff Jensen, C. J. Jensen, Rosemary G. Gillespie, Katharina J. Hoff, Stefan Prost
Software Mentions: 3
Published: over 5 years ago

10.1371/journal.pone.0053779

Mining of Novel Thermo-Stable Cellulolytic Genes from a Thermophilic Cellulose-Degrading Consortium by Metagenomics
Cited by: 44
Author(s): Yu Xia, Feng Ju, Hhp Fang, Tong Zhang
Software Mentions: 3
Published: over 13 years ago

10.1093/gigascience/gix040

A combined meta-barcoding and shotgun metagenomic analysis of spontaneous wine fermentation
Cited by: 52
Author(s): Peter R. Sternes, Danna Lee, Dariusz R. Kutyna, Anthony R. Borneman
Software Mentions: 3
Published: over 9 years ago

10.1111/tpj.12600

The low‐recombining pericentromeric region of barley restricts gene diversity and evolution but not gene expression
Cited by: 31
Author(s): Katie Baker, Micha Bayer, Nicola Cook, Steven Dreißig, Taniya Dhillon, Joanne Russell, Pete E. Hedley, Jenny Morris, Luke Ramsay, Isabelle Colas, Robbie Waugh, Brian J. Steffenson, Iain Milne, Gordon Stephen, David Marshall, Andrew J. Flavell
Software Mentions: 3
Published: about 12 years ago

10.1093/gigascience/giy075

Binning enables efficient host genome reconstruction in cnidarian holobionts
Cited by: 15
Author(s): Juan Sebastián Celis, Daniel Wibberg, Catalina Ramírez‐Portilla, Oliver Rupp, Alexander Sczyrba, Anderson M. Winkler, Jörn Kalinowski, Thomas Wilke
Software Mentions: 3
Published: about 8 years ago

10.3389/fmicb.2018.01635

New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes
Cited by: 49
Author(s): Marie E. Kroeger, Tom O. Delmont, A. Murat Eren, Kyle Meyer, Jiarong Guo, Kiran Yasmin Khan, Jorge L. Mazza Rodrigues, Brendan J. M. Bohannan, Susannah G. Tringe, Clóvis Daniel Borges, James M. Tiedje, Siu Mui Tsai, Klaus Nüsslein
Software Mentions: 3
Published: about 8 years ago

10.1186/s13062-017-0195-0

ASXL gain-of-function truncation mutants: defective and dysregulated forms of a natural ribosomal frameshifting product?
Cited by: 12
Author(s): Adam M. Dinan, John F. Atkins, Andrew E. Firth
Software Mentions: 3
Published: almost 9 years ago

10.1186/gb-2012-13-2-r14

Chromatin structure changes around satellite repeats on the Schistosoma mansoni female sex chromosome suggest a possible mechanism for sex chromosome emergence
Cited by: 30
Author(s): Julie M. J. Lepesant, Céline Cosseau, Jérôme Boissier, Michael Freitag, Julien Portela, Déborah Climent, Cécile Perrin, Adhemar Zerlotini, Christoph Grunau
Software Mentions: 3
Published: over 14 years ago

10.1186/s13059-016-0883-6

Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes
Cited by: 156
Author(s): Anna Vlasova, Salvador Capella-Gutiérrez, Martha Rendón-Anaya, Miguel Ángel Hernández‐Oñate, André E. Minoche, Ionas Erb, Francisco Câmara, Pablo Prieto Barja, André Corvelo, Walter Sanseverino, Gastón Westergaard, Juliane C. Dohm, George J. Pappas, Soledad Saburido-Álvarez, Darek Kedra, Irene González González, Luca Cozzuto, Jèssica Gómez-Garrido, María A. Aguilar-Morón, Núria Andreu, O. Mario Aguilar, Jordi García-Más, Maik Zehnsdorf, Martı́n Vázquez, Alfonso Delgado‐Salinas, Luis Delaye, Ernesto Lowy, Alejandro Mentaberry, Rosana Pereira Vianello-Brondani, José Luis Garcı́a, Tyler Alioto, Federico Sánchez, Heinz Himmelbauer, Marta Santalla, Cédric Notredame, Toni Gabaldón, Alfredo Herrera-Estrella, Roderic Guigó
Software Mentions: 3
Published: over 10 years ago

10.1186/s12870-019-1672-7

Genome-wide discovery and characterization of flower development related long non-coding RNAs in Prunus mume
Cited by: 35
Author(s): Xinxin Wu, Ting Shi, Shahid Iqbal, Yong Zhang, Lin Liu, Zhihong Gao
Software Mentions: 3
Published: over 7 years ago

10.3389/fmicb.2019.00448

Multiple Recombination Events Drive the Current Genetic Structure of Xanthomonas perforans in Florida
Cited by: 40
Author(s): Sujan Timilsina, Juliana A. Pereira-Martin, Gerald V. Minsavage, Fernanda Iruegas-Bocardo, Peter Abrahamian, Neha Potnis, Bryan Kolaczkowski, Gary E. Vallad, Erica M. Goss, Jeffrey B. Jones
Software Mentions: 3
Published: over 7 years ago

10.3389/fmicb.2017.01812

Studying the Differences of Bacterial Metabolome and Microbiome in the Colon between Landrace and Meihua Piglets
Cited by: 21
Author(s): Shijuan Yan, Cui Zhu, Ting Yu, Wenjie Huang, Jianfeng Huang, Qian Kong, Jiandang Shi, Zhongjian Chen, Qinjian Liu, Shaolei Wang, Zongyong Jiang, Zhuang Chen
Software Mentions: 3
Published: almost 9 years ago

Projects: pypi: blast

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