Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: blast

https://packages.ecosyste.ms/registries/pypi.org/packages/blast

a simple web-based, multi-platform music/mp3 player written in python, HTML/CSS and javascript
3 versions
Latest release: over 12 years ago
120 downloads last month

Papers Mentioning blast 1,819

10.1186/1471-2148-8-44
Slipins: ancient origin, duplication and diversification of the stomatin protein family
Cited by: 39
Author(s): Jasper B. Green, J. Peter W. Young
Software Mentions: 1
Published: almost 17 years ago
10.1186/1471-2148-4-36
Cited by: 235
Author(s): Jibin Sun, Rolf Daniel, Irene Wagner‐Döbler, An‐Ping Zeng
Software Mentions: 1
Published: almost 21 years ago
10.1186/1471-2148-8-110
The genome of the brown alga Ectocarpus siliculosus contains a series of viral DNA pieces, suggesting an ancient association with large dsDNA viruses
Cited by: 44
Author(s): Nicolas Delaroque, Wilhelm Boland
Software Mentions: 1
Published: almost 17 years ago
10.1186/s12862-015-0301-9
The alveolate translation initiation factor 4E family reveals a custom toolkit for translational control in core dinoflagellates
Cited by: 17
Author(s): Grant D Jones, Ernest Williams, Allen R. Place, Rosemary Jagus, Tsvetan R. Bachvaroff
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2148-7-150
Thyroid hormone receptor orthologues from invertebrate species with emphasis on Schistosoma mansoni
Cited by: 60
Author(s): Wenjie Wu, Edward G. Niles, Philip T. LoVerde
Software Mentions: 1
Published: about 17 years ago
10.1186/s12862-015-0286-4
Extensive horizontal gene transfer, duplication, and loss of chlorophyll synthesis genes in the algae
Cited by: 47
Author(s): Heather M. Hunsperger, Tejinder S. Randhawa, Rose Ann Cattolico
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2148-11-356
Pathogen-origin horizontally transferred genes contribute to the evolution of Lepidopteran insects
Cited by: 38
Author(s): Zi-Wen Li, Yi Hong Shen, Zhong Huai Xiang, Ze Zhang
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2148-7-43
Tic62: a protein family from metabolism to protein translocation
Cited by: 53
Author(s): Mónica Balsera, Anna Stengel, Jürgen Soll, Bettina Bölter
Software Mentions: 1
Published: almost 18 years ago
10.1186/1471-2148-12-183
Comparative genomics of eukaryotic small nucleolar RNAs reveals deep evolutionary ancestry amidst ongoing intragenomic mobility
Cited by: 32
Author(s): Marc P. Hoeppner, Anthony M. Poole
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2148-8-192
Adaptive evolution of SCML1 in primates, a gene involved in male reproduction
Cited by: 13
Author(s): Haihui Wu, Bing Su
Software Mentions: 1
Published: almost 17 years ago
10.1186/1471-2148-4-24
Cited by: 39
Author(s): Emily E. Hare, Curtis M. Loer
Software Mentions: 1
Published: almost 21 years ago
10.1186/1471-2148-9-205
Evolutionary dynamics of the LTR retrotransposons roo and rooA inferred from twelve complete Drosophila genomes
Cited by: 17
Author(s): Nicole de la Chaux, Andreas Wagner
Software Mentions: 1
Published: almost 16 years ago
10.1186/1471-2148-10-341
Evolution of xyloglucan-related genes in green plants
Cited by: 66
Author(s): Luiz-Eduardo Del-Bem, Michel Vincentz
Software Mentions: 1
Published: almost 15 years ago
10.1186/1471-2148-10-24
Signature proteins for the major clades of Cyanobacteria
Cited by: 71
Author(s): Radhey S. Gupta, Divya W Mathews
Software Mentions: 1
Published: almost 15 years ago
10.1186/s12862-015-0441-y
The evolutionary dynamics of tRNA-gene copy number and codon-use in E. coli.
Cited by: 25
Author(s): Michael J. McDonald, Chih‐Hung Chou, Krishna B S Swamy, Hsien Da Huang, Jun‐Yi Leu
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2148-7-177
Evolution of two distinct phylogenetic lineages of the emerging human pathogen Mycobacterium ulcerans
Cited by: 83
Author(s): Michael Käser, Simona Rondini, Naegeli Martin, Timothy P. Stinear, Françoise Portaels, Ulrich Certa, Gerd Pluschke
Software Mentions: 1
Published: almost 18 years ago
10.1186/1471-2148-10-276
An efficient method to find potentially universal population genetic markers, applied to metazoans
Cited by: 37
Author(s): Anne Chenuil, Thierry B. Hoareau, Émilie Egea, Gwilherm Penant, Caroline Rocher, Didier Aurelle, Kenza Mokhtar-Jamaï, John D. D. Bishop, Émilie Boissin, A Mendoza Diaz, Manuela Krakau, Pieternella C. Luttikhuizen, Francesco Paolo Patti, Nicolas Blavet, Sylvain Mousset
Software Mentions: 1
Published: almost 15 years ago
10.1186/s12876-021-01911-5
Mutation analysis of the ATP7B gene and genotype–phenotype correlation in Chinese patients with Wilson disease
Cited by: 4
Author(s): Mingming Li, Jing Ma, Wenlong Wang, Xu Yang, Kaizhong Luo
Software Mentions: 1
Published: about 3 years ago
10.1186/1471-2156-13-15
A synthetic rainbow trout linkage map provides new insights into the salmonid whole genome duplication and the conservation of synteny among teleosts
Cited by: 78
Author(s): René Guyomard, Mekki Boussaha, Francine Krieg, Caroline Hervet, Edwige Quillet
Software Mentions: 1
Published: almost 13 years ago
10.1186/s12863-017-0520-8
Large-scale mitochondrial DNA analysis of native honey bee Apis mellifera populations reveals a new African subgroup private to the South West Indian Ocean islands
Cited by: 25
Author(s): Maéva Angélique Techer, Johanna Clémencet, Christophe Simiand, P. Sookar, Hamza Abdou Azali, Bernard Reynaud, Hélène Delatte
Software Mentions: 1
Published: over 7 years ago
10.1186/s12864-016-3468-6
Identification of candidate infection genes from the model entomopathogenic nematode Heterorhabditis bacteriophora
Cited by: 16
Author(s): Jonathan Vadnal, Ramesh Ratnappan, Melissa Keaney, Eric Kenney, Ioannis Eleftherianos, Damien M. O’Halloran, John M. Hawdon
Software Mentions: 1
Published: almost 8 years ago
10.1186/1471-2164-13-425
Yellow lupin (Lupinus luteus L.) transcriptome sequencing: molecular marker development and comparative studies
Cited by: 67
Author(s): Lorena B Parra-González, Gabriela A Aravena-Abarzúa, Cristell S Navarro-Navarro, Joshua A. Udall, Jeff Maughan, Louis M Peterson, Haroldo Salvo-Garrido, Iván J. Maureira-Butler
Software Mentions: 1
Published: about 12 years ago
10.1186/s12864-018-4970-9
Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns
Cited by: 29
Author(s): Carlos Lloréns, Susana C. Arcos, Lee Robertson, Ricardo Ramos, Ricardo Futami, Beatriz Soriano, Sergio Ciordia, Mercedes Careche, Miguel González‐Muñoz, Yolanda Jiménez-Ruíz, Noelia Carballeda-Sangiao, Ignacio Moneo, Juan Pablo Albar, Mark Blaxter, Andrés Navas
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2164-14-328
Optimizing de novo assembly of short-read RNA-seq data for phylogenomics
Cited by: 178
Author(s): Yichun Yang, Stephen A. Smith
Software Mentions: 1
Published: almost 12 years ago
10.1186/s12864-015-2184-y
Construction of a high-density genetic map and mapping of a sex-linked locus for the brown alga Undaria pinnatifida (Phaeophyceae) based on large scale marker development by specific length amplified fragment (SLAF) sequencing
Cited by: 32
Author(s): Tifeng Shan, Shaojun Pang, Jing Li, Xia Li, Su Li
Software Mentions: 1
Published: about 9 years ago
10.1186/1471-2164-9-581
Comparative genomic analysis of carbon and nitrogen assimilation mechanisms in three indigenous bioleaching bacteria: predictions and validations
Cited by: 100
Author(s): Gloria Levicán, Juan A. Ugalde, Nicole Ehrenfeld, Alejandro Maass, Pilar Parada
Software Mentions: 1
Published: almost 16 years ago
10.1186/1471-2164-10-45
An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes.
Cited by: 120
Author(s): David J. Bertioli, Márcio de Carvalho Moretzsohn, Lene Heegaard Madsen, Niels Sandal, Soraya C. M. Leal‐Bertioli, P. M. Guimarães, Birgit Kristine Hougaard, Jakob Fredslund, Leif Schauser, Anna Marie Nielsen, Shusei Sato, Satoshi Tabata, Steven B. Cannon, Jens Stougaard
Software Mentions: 1
Published: almost 16 years ago
10.1186/1471-2164-10-262
Gene expression profiling of intestinal regeneration in the sea cucumber
Cited by: 92
Author(s): Pablo A. Ortíz-Pineda, Francisco Ramírez-Gómez, Judit M. Pérez Ortiz, Sebastián González-Díaz, Francisco Santiago-De Jesús, Josué Hernández‐Pasos, Cristina Del Valle-Avila, Carmencita Rojas‐Cartagena, Edna C. Suárez-Castillo, Karen Tossas, Ana T. Méndez-Merced, José L. Roig-López, Humberto Ortíz-Zuazaga, José E. García‐Arrarás
Software Mentions: 1
Published: over 15 years ago
10.1186/1471-2164-11-457
A new family of phosphoinositide phosphatases in microorganisms: identification and biochemical analysis
Cited by: 23
Author(s): Nicola J. Beresford, Charis R Saville, Hayley Bennett, Ian S. Roberts, Lydia Tabernero
Software Mentions: 1
Published: over 14 years ago
10.1186/1471-2164-14-167
A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly
Cited by: 81
Author(s): Warren R. Francis, Lynne M. Christianson, Rainer Kiko, Meghan L. Powers, Nathan C. Shaner, Steven H. D. Haddock
Software Mentions: 1
Published: almost 12 years ago
10.1186/1471-2164-12-114
Mycoplasma mycoides, from "mycoides Small Colony" to "capri". A microevolutionary perspective
Cited by: 54
Author(s): François Thiaucourt, Lucía Manso-Silván, Salah Woubit, Valérie Barbe, Benoît Vacherie, Daniel Jacob, Michelyne Breton, Virginie Dupuy, Anne Marie Lomenech, Alain Blanchard, Pascal Sirand‐Pugnet
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12864-017-3839-7
100 million years of multigene family evolution: origin and evolution of the avian MHC class IIB
Cited by: 24
Author(s): Julien Goebel, Marta Promerová, Francesco Bonadonna, Karen D. McCoy, Céline Serbielle, Maria Strandh, Glenn Yannic, Reto Burri, Luca Fumagalli
Software Mentions: 1
Published: over 7 years ago
10.1186/s12864-020-06942-y
Polyploidization and pseudogenization in allotetraploid frog Xenopus laevis promote the evolution of aquaporin family in higher vertebrates
Cited by: 4
Author(s): Yanglei Jia, Xiao Liu
Software Mentions: 1
Published: over 4 years ago
10.1186/1471-2164-10-637
Genome-wide loss-of-function analysis of deubiquitylating enzymes for zebrafish development
Cited by: 62
Author(s): William Ka Fai Tse, Birgit Eisenhaber, Soo Yei Ho, Qimei Ng, Frank Eisenhaber, Yun-Jin Jiang
Software Mentions: 1
Published: almost 15 years ago
10.1186/1471-2164-11-S4-S9
In vitro homology search array comprehensively reveals highly conserved genes and their functional characteristics in non-sequenced species
Cited by: 2
Author(s): Atsushi Ogura, Masa‐aki Yoshida, Mutsumi Fukuzaki, Jun Sese
Software Mentions: 1
Published: almost 15 years ago
10.1186/1471-2164-11-607
Conserved and variable correlated mutations in the plant MADS protein network
Cited by: 2
Author(s): Aalt D. J. van Dijk, Roeland C. H. J. van Ham
Software Mentions: 1
Published: about 14 years ago
10.1186/1471-2164-14-222
Integration of mate pair sequences to improve shotgun assemblies of flow-sorted chromosome arms of hexaploid wheat
Cited by: 13
Author(s): Tatiana Belova, Bin Zhan, Jonathan Wright, Mario Cáccamo, Torben Asp, Hana Šimková, Matthew Kent, Christian Berthou, Frank Panitz, Sigbjørn Lien, Jaroslav Doležel, Odd‐Arne Olsen, Simen Rød Sandve
Software Mentions: 1
Published: over 11 years ago
10.1186/s12864-015-2276-8
Comparative genomics and biological characterization of sequential Pseudomonas aeruginosa isolates from persistent airways infection
Cited by: 35
Author(s): Irene Bianconi, Julie Jeukens, Luca Freschi, Beatriz Alcalá-Franco, Marcella Facchini, Brian Boyle, Antonio Molinaro, Iréna Kukavica-Ibrulj, Burkhard Tümmler, Roger C. Levesque, Alessandra Bragonzi
Software Mentions: 1
Published: almost 9 years ago
10.1186/1471-2164-7-25
The expansion of the metazoan microRNA repertoire
Cited by: 325
Author(s): Jana Hertel, Manuela Lindemeyer, Kristin Missal, Claudia Fried, Andrea Tanzer, Ivo L. Hofacker, Peter F. Stadler
Software Mentions: 1
Published: almost 19 years ago
10.1186/s12864-018-4672-3
Elucidation of the anti-hyperammonemic mechanism of Lactobacillus amylovorus JBD401 by comparative genomic analysis
Cited by: 11
Author(s): Parul Singh, Hea-Jong Chung, Inah Lee, Roshan D’Souza, Hyeon Jin Kim, Seong‐Tshool Hong
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-015-1373-z
Transcriptomic profiling of the salt-stress response in the halophyte Halogeton glomeratus
Cited by: 55
Author(s): Juncheng Wang, Baochun Li, Yali Meng, Xiao Ma, Yong Lai, Erjing Si, Ke Yang, Ping Ren, Xianwen Shang, Huajun Wang
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2164-12-263
Transcriptomic assessment of resistance to effects of an aryl hydrocarbon receptor (AHR) agonist in embryos of Atlantic killifish (Fundulus heteroclitus) from a marine Superfund site
Cited by: 51
Author(s): Marjorie F. Oleksiak, Sibel I. Karchner, Matthew J. Jenny, Diana G. Franks, David B. Mark Welch, Mark E. Hahn
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2164-10-435
Assessing the genomic evidence for conserved transcribed pseudogenes under selection
Cited by: 62
Author(s): Amit N. Khachane, Paul M. Harrison
Software Mentions: 1
Published: almost 16 years ago
10.1186/1471-2164-8-338
The G protein-coupled receptor subset of the rat genome
Cited by: 179
Author(s): David E. Gloriam, Robert Fredriksson, Helgi B. Schiöth
Software Mentions: 1
Published: almost 18 years ago
10.1186/s12864-016-2915-8
Target-site and non-target-site based resistance to the herbicide tribenuron-methyl in flixweed (Descurainia sophia L.)
Cited by: 67
Author(s): Qian Yang, Wei Deng, Xuefeng Li, Qin Yu, Lianyang Bai, Mingqi Zheng
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2164-9-238
Simultaneous gene expression profiling in human macrophages infected with Leishmania major parasites using SAGE
Cited by: 53
Author(s): Fatma Z. Guerfali, Dhafer Laouini, Lamia Guizani-Tabbane, Florence Ottonès, Khadija Ben-Aissa, Alia Benkahla, Laurent Manchon, David Piquemal, Sondos Smandi, Ons Mghirbi, Thérèse Commes, Jacques Marti, Koussay Dellagi
Software Mentions: 1
Published: over 16 years ago
10.1186/s12864-016-2709-z
Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database
Cited by: 260
Author(s): Jérémy Pasquier, Cédric Cabau, Thuy Thao Vi Nguyen, Elodie Jouanno, Dany Séverac, Ingo Braasch, Laurent Journot, Pierre Pontarotti, Christophe Klopp, John H. Postlethwait, Yann Guiguen, Julien Bobe
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2164-8-86
Phylogenomic analysis of proteins that are distinctive of Archaea and its main subgroups and the origin of methanogenesis
Cited by: 68
Author(s): Beile Gao, Radhey S. Gupta
Software Mentions: 1
Published: almost 18 years ago
10.1186/s12864-019-6365-y
Mitochondrial genomes of the early land plant lineage liverworts (Marchantiophyta): conserved genome structure, and ongoing low frequency recombination
Cited by: 20
Author(s): Shanshan Dong, Chaoxian Zhao, Shouzhou Zhang, Li Zhang, Hong Wu, Sunil Kumar Sahu, Rui‐Liang Zhu, Yu Jia, Bernard Goffinet, Yang Liu
Software Mentions: 1
Published: almost 5 years ago
10.1186/1471-2164-15-220
Hen uterine gene expression profiling during eggshell formation reveals putative proteins involved in the supply of minerals or in the shell mineralization process
Cited by: 83
Author(s): Aurélien Brionne, Yves Nys, Christelle Hennequet-Antier, Joël Gautron
Software Mentions: 1
Published: over 10 years ago
10.1186/s12864-017-3952-7
The adaptive landscape of wildtype and glycosylation-deficient populations of the industrial yeast Pichia pastoris
Cited by: 9
Author(s): Josef W. Moser, Iain B. H. Wilson, Martin Dragosits
Software Mentions: 1
Published: over 7 years ago
10.1186/s12864-017-4210-8
Diatom flagellar genes and their expression during sexual reproduction in Leptocylindrus danicus
Cited by: 12
Author(s): Deepak Nanjappa, Remo Sanges, Maria Immacolata Ferrante, Adriana Zingone
Software Mentions: 1
Published: about 7 years ago
10.1186/s12864-019-5721-2
Mitochondrial genome and transcriptome analysis of five alloplasmic male-sterile lines in Brassica juncea
Cited by: 19
Author(s): Zengxiang Wu, Kaining Hu, Mei Yan, Liping Song, Jing Wen, Chaozhi Ma, Jinxiong Shen, FU Ting-dong, Jinxing Tu
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2164-13-135
A Gaijin-like miniature inverted repeat transposable element is mobilized in rice during cell differentiation
Cited by: 19
Author(s): Hua Dong, Lu Zhang, Zheng Kangle, Haigen Yao, Jack Chen, Feng-Chi Yu, Xiaoxing Yu, Bizeng Mao, Dong Zhang, Jian Yao, Debao Li
Software Mentions: 1
Published: over 12 years ago
10.1186/1471-2164-14-551
Comparative genomic and transcriptome analyses of pathotypes of Xanthomonas citri subsp. citri provide insights into mechanisms of bacterial virulence and host range
Cited by: 71
Author(s): Neha Jalan, Dibyendu Kumar, Maxuel O. Andrade, Fahong Yu, Jeffrey B. Jones, James H. Graham, Frank F. White, João Carlos Setúbal, Nian Wang
Software Mentions: 1
Published: over 11 years ago
10.1186/1471-2164-12-S2-S6
CAMBer: an approach to support comparative analysis of multiple bacterial strains
Cited by: 19
Author(s): Michał Woźniak, Limsoon Wong, Jerzy Tiuryn
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12864-015-2185-x
Evolution of the EKA family of powdery mildew avirulence-effector genes from the ORF 1 of a LINE retrotransposon
Cited by: 25
Author(s): Joëlle Amselem, Marielle Vigouroux, Simone Oberhaensli, J. K. M. Brown, Laurence V. Bindschedler, Pari Skamnioti, Thomas Wicker, Pietro D. Spanu, Hadi Quesneville, Soledad Sacristán
Software Mentions: 1
Published: about 9 years ago
10.1186/1471-2164-8-434
The TriTryp Phosphatome: analysis of the protein phosphatase catalytic domains
Cited by: 90
Author(s): Rachel Brenchley, Humera Tariq, Helen McElhinney, Balázs Szöőr, Julie Huxley-Jones, Robert Stevens, Keith R. Matthews, Lydia Tabernero
Software Mentions: 1
Published: almost 17 years ago
10.1186/1471-2164-13-122
Identification of microRNAs from Amur grape (vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics
Cited by: 87
Author(s): Chen Wang, Han jinsoo, Chonghuai Liu, Korir Nicholas Kibet, Emrul Kayesh, Lingfei Shangguan, Xiaoying Li, Jinggui Fang
Software Mentions: 1
Published: over 12 years ago
10.1186/1471-2164-13-303
Oomycete transcriptomics database: A resource for oomycete transcriptomes
Cited by: 8
Author(s): Sucheta Tripathy, Tejal Deo, Brett M. Tyler
Software Mentions: 1
Published: almost 13 years ago
10.1186/s12864-016-2927-4
Orthologs, turn-over, and remolding of tRNAs in primates and fruit flies
Cited by: 17
Author(s): Cristian A. Velandia-Huerto, Sarah J. Berkemer, Anne Hoffmann, Nancy Retzlaff, Liliana C. Romero Marroquín, Maribel Hernández-Rosales, Peter F. Stadler, Clara Isabel Bermúdez-Santana
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2164-14-389
Skin transcriptome profiles associated with coat color in sheep
Cited by: 64
Author(s): Rong Fan, Jun Xie, Junming Bai, Haidong Wang, Tian Xue, Rui Bai, Xiaoyun Jia, Lei Yang, Yunfei Song, Muren Herrid, Wenjun Gao, Xu He, Jianbo Yao, George W. Smith, Changsheng Dong
Software Mentions: 1
Published: over 11 years ago
10.1186/s12864-019-5937-1
Genome-wide characterization of SPL family in Medicago truncatula reveals the novel roles of miR156/SPL module in spiky pod development
Cited by: 17
Author(s): Hongfeng Wang, Zhichao Lu, Yiteng Xu, Lingcui Kong, Jiankui Shi, Yafei Liu, Chunxiang Fu, Xiaoshan Wang, Zeng‐Yu Wang, Chuanen Zhou, Li Han
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2164-11-335
Sequencing, annotation, and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain B8
Cited by: 59
Author(s): Max Farnbacher, Thomas Jahns, Dirk Willrodt, Rolf Daniel, Rainer Haas, Alexander Goesmann, Stefan Kurtz, Gabriele Rieder
Software Mentions: 1
Published: over 14 years ago
10.1186/s12864-021-07551-z
RNA-Seq analysis of blood meal induced gene-expression changes in Aedes aegypti ovaries
Cited by: 7
Author(s): Dilip K. Nag, Constentin Dieme, Pascal Lapierre, Erica Lasek‐Nesselquist, Laura D. Kramer
Software Mentions: 1
Published: over 3 years ago
10.1186/s12864-018-5232-6
Transcriptomic time-series analysis of early development in olive from germinated embryos to juvenile tree
Cited by: 9
Author(s): Jaime Jiménez-Ruiz, María de la O Leyva-Pérez, Isabel Vidoy-Mercado, Araceli Barceló, Francisco Luque
Software Mentions: 1
Published: about 6 years ago
10.1186/1471-2164-13-331
Genomic and proteomic characterization of SuMu, a Mu-like bacteriophage infecting Haemophilus parasuis
Cited by: 18
Author(s): Emilie S. Zehr, Louisa B. Tabatabai, Darrell O. Bayles
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2164-12-88
The mining of toxin-like polypeptides from EST database by single residue distribution analysis
Cited by: 35
Author(s): Sergey A. Kozlov, Eugene V. Grishin
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12864-021-07908-4
Mapping of quantitative trait loci underlying a magic trait in ongoing ecological speciation
Cited by: 3
Author(s): Tetsumi Takahashi, Atsushi J. Nagano, Teiji Sota
Software Mentions: 1
Published: over 3 years ago
10.1186/s12864-021-07490-9
Assembly and comparative analysis of the complete mitochondrial genome of Suaeda glauca
Cited by: 50
Author(s): Yan Cheng, Xiaoxue He, S. V. G. N. Priyadarshani, Yu Wang, Ye Li, Chao Shi, Kangzhuo Ye, Qiao Zhou, Zhihua Luo, Fang Deng, Ling Cao, Ping Zheng, Mohammad Aslam, Yuan Qin
Software Mentions: 1
Published: over 3 years ago
10.1186/s12864-016-3064-9
Combined genomic and structural analyses of a cultured magnetotactic bacterium reveals its niche adaptation to a dynamic environment
Cited by: 17
Author(s): Ana Carolina Vieira Araújo, Viviana Morillo, Jefferson Cypriano, Lia Cardoso Rocha Saraiva Teixeira, Pedro Leão, Sidcley Lyra, Luiz Gonzaga Paula de Almeida, Dennis A. Bazylinski, Ana Tereza Ribeiro de Vasconcellos, Fernanda Abreu, Ulysses Lins
Software Mentions: 1
Published: about 8 years ago
10.1186/s12864-019-5547-y
De novo comparative transcriptome analysis of a rare cicada, with identification of candidate genes related to adaptation to a novel host plant and drier habitats
Cited by: 18
Author(s): Zehai Hou, Cong Wang
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2164-14-S7-S2
Filtering of MS/MS data for peptide identification
Cited by: 2
Author(s): Jason Gallia, Katelyn S. Lavrich, Anna L. Tan-Wilson, Patrick H. Madden
Software Mentions: 1
Published: about 11 years ago
10.1186/1471-2164-10-518
Discovery of novel human transcript variants by analysis of intronic single-block EST with polyadenylation site
Cited by: 10
Author(s): Pingzhang Wang, Peng Yu, Peng Gao, Taiping Shi, Dalong Ma
Software Mentions: 1
Published: about 15 years ago
10.1186/1471-2164-7-174
Automated SNP detection from a large collection of white spruce expressed sequences: contributing factors and approaches for the categorization of SNPs
Cited by: 67
Author(s): Nathalie Pavy, Lee S. Parsons, Charles Paule, John Mackay, Jean Bousquet
Software Mentions: 1
Published: over 18 years ago
10.1186/s12864-016-3365-z
Genome-wide identification, phylogeny, and expression analysis of pectin methylesterases reveal their major role in cotton fiber development
Cited by: 39
Author(s): Weijie Li, Hǎihóng Shāng, Qún Gě, Changsong Zou, Juan Cai, Daojie Wang, Senmiao Fan, Zhen Zhang, Xiǎoyīng Dèng, Yunna Tan, Weiwu Song, Pengtao Li, Palanga Kibalou Koffi, Muhammad Jamshed, Quánwěi Lú, Wànkuí Gǒng, Jùnwén Lǐ, Yùzhēn Shí, Tingting Chen, Jǔwǔ Gōng, Àiyīng Liú, Yǒulù Yuán
Software Mentions: 1
Published: almost 8 years ago
10.1186/1471-2164-15-679
Comparative genomics highlights the unique biology of Methanomassiliicoccales, a Thermoplasmatales-related seventh order of methanogenic archaea that encodes pyrrolysine
Cited by: 231
Author(s): Guillaume Borrel, Nicolas Parisot, Hugh M. B. Harris, Éric Peyretaillade, Nadia Gaci, William Tottey, Olivier Bardot, Kasie Raymann, Simonetta Gribaldo, Pierre Peyret, Paul W. O’Toole, Jean-François Brugère
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2164-13-88
Genomic variation in Salmonella enterica core genes for epidemiological typing
Cited by: 71
Author(s): Pimlapas Leekitcharoenphon, Oksana Lukjancenko, Carsten Friis, Frank Møller Aarestrup, David W. Ussery
Software Mentions: 1
Published: over 12 years ago
10.1186/s12864-016-3244-7
Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma
Cited by: 31
Author(s): Nicolás Bellora, Martín Moliné, Márcia David-Palma, Marco A. Coelho, Chris Todd Hittinger, José Paulo Sampaio, Paula Gonçalves, Diego Libkind
Software Mentions: 1
Published: about 8 years ago
10.1186/1471-2164-12-548
Genetic variability of transcript abundance in pig peri-mortem skeletal muscle: eQTL localized genes involved in stress response, cell death, muscle disorders and metabolism
Cited by: 21
Author(s): Laurence Liaubet, Valérie Lobjois, Thomas Faraut, Aurélie Tircazes, Francis Benne, Nathalie Iannuccelli, José Luís Pires, Jérôme Glénisson, Annie Robic, Pascale Le Roy, Magali SanCristobal, Pierre Chérel
Software Mentions: 1
Published: about 13 years ago
10.1186/s12864-019-5945-1
Integrated transcriptome, small RNA, and degradome analysis reveals the complex network regulating starch biosynthesis in maize
Cited by: 14
Author(s): Xiaocong Zhang, Sidi Xie, Jienan Han, Yu Zhou, Chang Liu, Zhiqiang Zhou, Feifei Wang, Zixiang Cheng, Junjie Zhang, Yu‐Feng Hu, Hao Zhang, Mingshun Li, Degui Zhang, Hongjun Yong, Yubi Huang, Jianfeng Weng, Xinhai Li
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2164-11-249
Small RNA expression and strain specificity in the rat
Cited by: 71
Author(s): Sam E.V. Linsen, Elzo de Wit, Ewart de Bruijn, Edwin Cuppen
Software Mentions: 1
Published: over 14 years ago
10.1186/1471-2164-10-24
The G protein-coupled receptor subset of the dog genome is more similar to that in humans than rodents
Cited by: 48
Author(s): Tatjana Haitina, Robert Fredriksson, Steven M. Foord, Helgi B. Schiöth, David E. Gloriam
Software Mentions: 1
Published: almost 16 years ago
10.1186/s12864-019-5501-z
Transcriptomic profiling of the flower scent biosynthesis pathway of Cymbidium faberi Rolfe and functional characterization of its jasmonic acid carboxyl methyltransferase gene
Cited by: 21
Author(s): Qi Xu, Songtai Wang, Hao Hong, Yin Zhou
Software Mentions: 1
Published: almost 6 years ago
10.1186/s12864-017-3727-1
Evolutionary history of glucose-6-phosphatase encoding genes in vertebrate lineages: towards a better understanding of the functions of multiple duplicates
Cited by: 17
Author(s): Lucie Marandel, Stéphane Panserat, Élisabeth Plagnes-Juan, Eva Arbenoits, José L. Soengas, Julien Bobe
Software Mentions: 1
Published: over 7 years ago
10.1186/s12864-016-2934-5
Automated detection of ncRNAs in the draft genome sequence of a colonial tunicate: the carpet sea squirt Didemnum vexillum
Cited by: 10
Author(s): Cristian A. Velandia-Huerto, Adriaan Gittenberger, Federico D. Brown, Peter F. Stadler, Clara Isabel Bermúdez-Santana
Software Mentions: 1
Published: about 8 years ago
10.1186/1471-2164-9-127
Evolution of hedgehog and hedgehog-related genes, their origin from Hog proteins in ancestral eukaryotes and discovery of a novel Hint motif
Cited by: 43
Author(s): Thomas R. Bürglin
Software Mentions: 1
Published: almost 17 years ago
10.1186/1471-2164-14-534
Nannochloropsis plastid and mitochondrial phylogenomes reveal organelle diversification mechanism and intragenus phylotyping strategy in microalgae
Cited by: 52
Author(s): Li Wei, Xin Yi, Dongmei Wang, Xiaoyan Jing, Qian Zhou, Xiaoquan Su, Jun Jia, Kang Ning, Feng Chen, Qiang Hu, Jian Xu
Software Mentions: 1
Published: over 11 years ago
10.1186/s12864-015-2128-6
Identification of alternative splicing events by RNA sequencing in early growth tomato fruits
Cited by: 43
Author(s): Yuan Sun, Xianpei Han
Software Mentions: 1
Published: about 9 years ago
10.1186/s12864-021-07673-4
Transcriptome analysis provides insights into copper toxicology in piebald naked carp (Gymnocypris eckloni)
Cited by: 3
Author(s): Wenjie Jin, Zixuan Li, Fengxia Ran, Shuxian Huang, Kefan Huo, Jianjuan Li, Qingshuo Han, Guojie Wang, Zhen-Ji Wang, Shenlong Jian, Kemao Li, Changzhong Li
Software Mentions: 1
Published: over 3 years ago
10.1186/s12864-019-5758-2
Comparative transcriptome analyses of genes involved in sulforaphane metabolism at different treatment in Chinese kale using full-length transcriptome sequencing
Cited by: 20
Author(s): Qiuyun Wu, Junwei Wang, Shuxiang Mao, Hongyan Xu, Qi Wu, Mantian Liang, Yǒulù Yuán, Mingyue Liu, Ke Huang
Software Mentions: 1
Published: over 5 years ago
10.1186/s12864-018-4676-z
Complex evolution of the GSTM gene family involves sharing of GSTM1 deletion polymorphism in humans and chimpanzees
Cited by: 11
Author(s): Marie Saitou, Yoko Satta, Ömer Gökçümen, Takafumi Ishida
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-020-06851-0
Transcriptome profiling of venom gland from wasp species: de novo assembly, functional annotation, and discovery of molecular markers
Cited by: 4
Author(s): Junjie Tan, Wenbo Wang, Fan Wu, Yunming Li, Qing Fan
Software Mentions: 1
Published: over 4 years ago
10.1186/1471-2164-11-390
Heart transcriptome of the bank vole (Myodes glareolus): towards understanding the evolutionary variation in metabolic rate
Cited by: 23
Author(s): Wiesław Babik, Michał Stuglik, Weihong Qi, Marzanna Kuenzli, Katarzyna Kuduk, Paweł Koteja, Jacek Radwan
Software Mentions: 1
Published: almost 15 years ago
10.1186/1471-2164-11-522
An improved, high-quality draft genome sequence of the Germination-Arrest Factor-producing Pseudomonas fluorescens WH6
Cited by: 53
Author(s): Jeffrey A. Kimbrel, Scott A. Givan, Anne Halgren, Allison Creason, Dallice Mills, Gary M. Banowetz, Donald J. Armstrong, Jeff H. Chang
Software Mentions: 1
Published: about 14 years ago
10.1186/1471-2164-8-173
Patterned sequence in the transcriptome of vascular plants
Cited by: 4
Author(s): Charles F. Crane
Software Mentions: 1
Published: almost 18 years ago
10.1186/1471-2164-8-174
Comparative chloroplast genomics: analyses including new sequences from the angiosperms Nuphar advena and Ranunculus macranthus
Cited by: 322
Author(s): Linda A. Raubeson, Rhiannon Peery, Timothy W. Chumley, Chris Dziubek, H. Matthew Fourcade, Jeffrey L. Boore, Robert K. Jansen
Software Mentions: 1
Published: almost 18 years ago
10.1186/s12864-016-2418-7
Impact of selenium supplementation on fish antiviral responses: a whole transcriptomic analysis in rainbow trout (Oncorhynchus mykiss) fed supranutritional levels of Sel-Plex®
Cited by: 65
Author(s): Davide Pacitti, Muhammad M. Lawan, Jörg Feldmann, John Sweetman, Tiehui Wang, Samuel Martín
Software Mentions: 1
Published: almost 9 years ago
10.1186/1471-2164-10-134
A robust linkage map of the porcine autosomes based on gene-associated SNPs
Cited by: 27
Author(s): R. K. K. Vingborg, Vivi Raundahl Gregersen, Bin Zhan, Frank Panitz, Anette Høj, Kirsten Kørup Sørensen, Lone Bruhn Madsen, Knud Larsen, Henrik Hornshøj, Xuefei Wang, Christian Berthou
Software Mentions: 1
Published: over 15 years ago
10.1186/1471-2164-7-105
Direct and heterologous approaches to identify the LET-756/FGF interactome
Cited by: 10
Author(s): Cornel Popovici, Yael Berda, Fabien Conchonaud, Aurélie Harbis, Daniel Birnbaum, Régine Roubin
Software Mentions: 1
Published: over 18 years ago