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: perl

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

Perl as a Python package
2 versions
Latest release: about 5 years ago
1 dependent package
6,426 downloads last month

Papers Mentioning perl 604

10.1186/s12864-015-1534-0
Genome-wide identification of SSR and SNP markers from the non-heading Chinese cabbage for comparative genomic analyses
Cited by: 45
Author(s): Xiaoming Song, Tingting Ge, Ying Li, Xilin Hou
Software Mentions: 2
Published: over 9 years ago
10.1038/ismej.2013.254
Metagenomics reveals sediment microbial community response to Deepwater Horizon oil spill
Cited by: 295
Author(s): Olivia U. Mason, Nicole M. Scott, Antonio G. González, Adam Robbins‐Pianka, Jacob Bælum, Jeffrey A. Kimbrel, Nicholas J. Bouskill, Emmanuel Prestat, Sharon Borglin, Dominique C. Joyner, Julian L. Fortney, Diogo Jurelevicius, William T. Stringfellow, Lisa Alvarez‐Cohen, Terry C. Hazen, Rob Knight, Jack A. Gilbert, Janet Jansson
Software Mentions: 2
Published: almost 11 years ago
10.1186/1471-2164-7-171
Environmental genomics of "Haloquadratum walsbyi" in a saltern crystallizer indicates a large pool of accessory genes in an otherwise coherent species
Cited by: 127
Author(s): Boris A Legault, Arantxa López‐López, Jose Carlos Alba-Casado, W. Ford Doolittle, Henk Bolhuis, Francisco Rodríguez‐Valera, R. Thane Papke
Software Mentions: 2
Published: over 18 years ago
10.1186/s12864-015-1858-9
Cross-tissue and cross-species analysis of gene expression in skeletal muscle and electric organ of African weakly-electric fish (Teleostei; Mormyridae)
Cited by: 25
Author(s): Francesco Lamanna, Frank Kirschbaum, Isabelle Waurick, Christoph Dieterich, Ralph Tiedemann
Software Mentions: 2
Published: about 9 years ago
10.3389/fgene.2014.00190
A consensus approach to vertebrate de novo transcriptome assembly from RNA-seq data: assembly of the duck (Anas platyrhynchos) transcriptome
Cited by: 34
Author(s): Joanna Moreton, Stephen Dunham, Richard D. Emes
Software Mentions: 2
Published: over 10 years ago
10.1038/srep38708
First complete mitochondrial genome data from ancient South American camelids - The mystery of the chilihueques from Isla Mocha (Chile)
Cited by: 8
Author(s): Michael V. Westbury, Stefan Prost, Andrea Seelenfreund, José-Miguel Ramírez, Elizabeth Matisoo-Smith, Michael Knapp
Software Mentions: 2
Published: almost 8 years ago
10.1186/1471-2105-7-S2-S19
An Automated Method for Rapid Identification of Putative Gene Family Members in Plants
Cited by: 6
Author(s): Ronald Frank, Ajay Mane, Fikret Erçal
Software Mentions: 2
Published: about 18 years ago
10.3389/fgene.2013.00199
The spliced leader trans-splicing mechanism in different organisms: molecular details and possible biological roles
Cited by: 28
Author(s): Mainá Bitar, Mariana Boroni, Andréa Mara Macedo, Carlos Renato Machado, Glória Regina Franco
Software Mentions: 2
Published: almost 12 years ago
10.3389/fgene.2019.00105
Using Pan RNA-Seq Analysis to Reveal the Ubiquitous Existence of 5′ and 3′ End Small RNAs
Cited by: 14
Author(s): Xiao Xu, Haishuo Ji, Xiufeng Jin, Zhi Cheng, Xuemei Yao, Yanqiang Liu, Qiang Zhao, Tao Zhang, Jishou Ruan, Wenjun Bu, Ze Chen, Shan Gao
Software Mentions: 2
Published: almost 6 years ago
10.1186/1471-2164-14-849
The Clostridium small RNome that responds to stress: the paradigm and importance of toxic metabolite stress in C. acetobutylicum
Cited by: 50
Author(s): Keerthi P. Venkataramanan, Shawn W. Jones, Kevin McCormick, Sridhara G. Kunjeti, Matthew T. Ralston, Blake C. Meyers, Eleftherios T. Papoutsakis
Software Mentions: 2
Published: almost 11 years ago
10.1038/srep45479
Transcriptomics and proteomic studies reveal acaricidal mechanism of octadecanoic acid-3, 4 - tetrahydrofuran diester against Sarcoptes scabiei var. cuniculi
Cited by: 18
Author(s): Xu Song, Zhenzhen Chen, Renyong Jia, Mei Cao, Yuanfeng Zou, Lixia Li, Xiaoxia Liang, Lizi Yin, Chao He, Guizhou Yue
Software Mentions: 2
Published: over 7 years ago
10.1186/1471-2164-13-249
IS-seq: a novel high throughput survey of in vivo IS6110 transposition in multiple Mycobacterium tuberculosis genomes
Cited by: 29
Author(s): Alejandro Reyes, Andrea Sandoval, Andrés Cubillos-Ruiz, Katherine E. Varley, Iván Hernandez-Neuta, Sofía Samper, Carlos Martı́n, María Jesús García García, Viviana Ritacco, Lucelly López, Jaime Robledo, María Mercedes Zambrano, Robi D. Mitra, Patricia Del Portillo
Software Mentions: 2
Published: over 12 years ago
10.3389/fimmu.2020.618687
Integrated Analysis of circRNA-miRNA-mRNA Regulatory Networks in the Intestine of Sebastes schlegelii Following Edwardsiella tarda Challenge
Cited by: 15
Author(s): Min Cao, Yan Xu, Baofeng Su, Ning Yang, Qiang Fu, Ting Xue, Lin Song, Qi Li, Chao Li
Software Mentions: 2
Published: almost 4 years ago
10.1186/s12864-018-4775-x
TSVdb: a web-tool for TCGA splicing variants analysis
Cited by: 70
Author(s): Wenjie Sun, Ting Duan, Panmeng Ye, Kelie Chen, Guanling Zhang, Maode Lai, Honghe Zhang
Software Mentions: 2
Published: over 6 years ago
10.1371/journal.pone.0095599
The Genome Sequence of a Widespread Apex Predator, the Golden Eagle (Aquila chrysaetos)
Cited by: 46
Author(s): Jacqueline Doyle, Todd E. Katzner, Peter H. Bloom, Yanzhu Ji, Bhagya K. Wijayawardena, J. Andrew DeWoody
Software Mentions: 2
Published: over 10 years ago
10.1371/journal.pone.0053452
From QTL to QTN: Candidate Gene Set Approach and a Case Study in Porcine IGF1-FoxO Pathway
Cited by: 9
Author(s): Minghui Wang, Qishan Wang, Yuchun Pan
Software Mentions: 2
Published: almost 12 years ago
10.3389/fmicb.2018.01577
Related Endogenous Retrovirus-K Elements Harbor Distinct Protease Active Site Motifs
Cited by: 6
Author(s): Matthew Turnbull, Renée N. Douville
Software Mentions: 2
Published: over 6 years ago
10.1186/1471-2164-11-398
Characterization of the equine skeletal muscle transcriptome identifies novel functional responses to exercise training
Cited by: 78
Author(s): Beatrice A. McGivney, Paul A. McGettigan, John A. Browne, A.C.O. Evans, R. Fonseca, Brendan J. Loftus, Amanda J. Lohan, David E. MacHugh, Barbara A. Murphy, Lisa Katz, E. W. Hill
Software Mentions: 2
Published: over 14 years ago
10.1371/journal.pone.0089673
SnapShot-Seq: A Method for Extracting Genome-Wide, In Vivo mRNA Dynamics from a Single Total RNA Sample
Cited by: 51
Author(s): Jesse Gray, David A. Harmin, Sarah A. Boswell, Nicole Cloonan, Thomas E. Mullen, Joseph J. Ling, Nimrod Miller, Scott Kuersten, Chao Yin, Steven A. McCarroll, Sean M. Grimmond, Michael Springer
Software Mentions: 2
Published: over 10 years ago
10.3390/ijms21083029
Elimination of Viroids from Tobacco Pollen Involves a Decrease in Propagation Rate and an Increase of the Degradation Processes
Cited by: 13
Author(s): Jaroslav Matoušek, Lenka Steinbachová, Lenka Záveská Drábková, Tomáš Kocábek, David Potěšil, Ajay Kumar Mishra, David Honys, Gerhard Steger
Software Mentions: 2
Published: over 4 years ago
10.3389/fmicb.2021.594075
Domestication Shapes the Community Structure and Functional Metagenomic Content of the Yak Fecal Microbiota
Cited by: 7
Author(s): Haibo Fu, Liangzhi Zhang, Chao Fan, Chuanfa Liu, Wenjing Li, Jiye Li, Xinquan Zhao, Shangang Jia, Yanming Zhang
Software Mentions: 2
Published: over 3 years ago
10.1186/1471-2105-6-S4-S14
Mining published lists of cancer related microarray experiments: Identification of a gene expression signature having a critical role in cell-cycle control
Cited by: 20
Author(s): Giacomo Finocchiaro, Francesco Mancuso, Heiko Müller
Software Mentions: 2
Published: almost 19 years ago
10.1371/journal.pone.0197392
Genome-wide classification, evolutionary analysis and gene expression patterns of the kinome in Gossypium
Cited by: 12
Author(s): Jun Yan, Guilin Li, Xingqi Guo, Yang Li, Xiaohong Cao
Software Mentions: 2
Published: over 6 years ago
10.1186/s12864-017-3948-3
Expansion and evolutionary patterns of cysteine-rich peptides in plants
Cited by: 17
Author(s): Lianxi Xing, Huping Zhang, Huijun Jiao, Leiting Li, Xin Qiao, Fabrice Musana Rwalinda, Juyou Wu, Shaoling Zhang
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-021-90011-1
De novo transcriptome assembly and comparative transcriptomic analysis provide molecular insights into low temperature stress response of Canarium album
Cited by: 4
Author(s): Ruilian Lai, Xin Feng, Jin Chen, Yongyan Zhang, Xiaoxia Wei, Yi-Ting Chen, Chunzhen Cheng, Rujian Wu
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2018.02524
Expression Patterns, Genomic Conservation and Input Into Developmental Regulation of the GGDEF/EAL/HD-GYP Domain Proteins in Streptomyces
Cited by: 31
Author(s): Mahmoud M. Al‐Bassam, Julian Haist, Sara Alina Neumann, Sandra Lindenberg, Natalia Tschowri
Software Mentions: 2
Published: about 6 years ago
10.3390/ijms161126004
Molecular Effects of Irradiation (Cobalt-60) on the Control of Panonychus citri (Acari: Tetranychidae)
Cited by: 3
Author(s): Ke Zhang, Lingyan Luo, Xieting Chen, Meiying Hu, Qiongbo Hu, Liang Gong, Qunfang Weng
Software Mentions: 2
Published: about 9 years ago
10.1186/1755-8794-7-36
Whole genome sequencing reveals potential targets for therapy in patients with refractory KRASmutated metastatic colorectal cancer
Cited by: 17
Author(s): Vijayalakshmi Shanmugam, Ramesh K. Ramanathan, Nicole A. Lavender, Shripad Sinari, Manpreet K. Chadha, Winnie S. Liang, Ahmet Kurdoglu, Tyler Izatt, Alexis Christoforides, Hollie Benson, L Taylor Phillips, Angela Baker, Christopher W. Murray, Galen Hostetter, Daniel D. Von Hoff, David W. Craig, John D. Carpten
Software Mentions: 2
Published: over 10 years ago
10.1186/1755-8794-3-1
Systematic analysis, comparison, and integration of disease based human genetic association data and mouse genetic phenotypic information
Cited by: 104
Author(s): Yonqing Zhang, Supriyo De, John Garner, Kirstin Smith, S Alex Wang, Kevin G. Becker
Software Mentions: 2
Published: almost 15 years ago
10.1038/s41426-018-0081-6
A new subtype of eastern tick-borne encephalitis virus discovered in Qinghai-Tibet Plateau, China
Cited by: 120
Author(s): Xiaoyi Dai, Guobao Shang, Shan Lu, Jing Yang, Jianguo Xu
Software Mentions: 1
Published: over 6 years ago
10.18632/oncotarget.23636
Expression of Wnt-signaling pathway genes and their associations with miRNAs in colorectal cancer
Cited by: 16
Author(s): Martha L. Slattery, Lila E. Mullany, Lori C. Sakoda, Wade S. Samowitz, Roger K. Wolff, John R. Stevens, Jennifer S. Herrick
Software Mentions: 1
Published: almost 7 years ago
10.1002/evl3.15
Genetic differences between willow warbler migratory phenotypes are few and cluster in large haplotype blocks
Cited by: 75
Author(s): Max Lundberg, Miriam Liedvogel, Keith W. Larson, Hanna Sigeman, Mats Grahn, Anthony P. H. Wright, Susanne Åkesson, Staffan Bensch
Software Mentions: 1
Published: over 7 years ago
10.1093/emph/eos003
Why are male malaria parasites in such a rush?
Cited by: 6
Author(s): Shahid M. Khan, Sarah E. Reece, Andrew P. Waters, Chris J. Janse, Szymon Kaczanowski
Software Mentions: 1
Published: almost 12 years ago
10.1111/j.1558-5646.2012.01688.x
THE GENETIC BASIS OF A COMPLEX FUNCTIONAL SYSTEM
Cited by: 36
Author(s): Nicholas F. Parnell, C. Darrin Hulsey, J. Todd Streelman
Software Mentions: 1
Published: over 12 years ago
10.3389/fcell.2021.707572
Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in Skin Injury Induced by Ultraviolet Irradiation
Cited by: 13
Author(s): Yuan Fang, Yang Liu, Yu Yan, Yiyu Shen, Zenan Li, Xu Li, Yufang Zhang, Zhigang Xue, Cong Peng, Xiang Chen, Ke Cao, Jianda Zhou
Software Mentions: 1
Published: over 3 years ago
10.1186/1471-2105-11-336
PCA2GO: a new multivariate statistics based method to identify highly expressed GO-Terms
Cited by: 3
Author(s): Marc Bruckskotten, Mario Looso, Franz Cemič, Anne Konzer, Jürgen Hemberger, Marcus Krüger, Thomas Braun
Software Mentions: 1
Published: over 14 years ago
10.3389/fcimb.2020.00132
Profiling of miRNAs in Mouse Peritoneal Macrophages Responding to Echinococcus multilocularis Infection
Cited by: 4
Author(s): Xiaola Guo, Yadong Zheng
Software Mentions: 1
Published: over 4 years ago
10.1038/s41396-020-0620-8
Population genomics and evolution of a fungal pathogen after releasing exotic strains to control insect pests for 20 years
Cited by: 23
Author(s): Lijuan Mei, Mingjun Chen, Yanfang Shang, Gong‐Jian Tang, Ye Tao, Liang Zeng, Bo Huang, Zengzhi Li, Shuai Zhan, Chengshu Wang
Software Mentions: 1
Published: over 4 years ago
10.3389/fgene.2018.00448
Genetic Mapping of Head Size Related Traits in Common Carp (Cyprinus carpio)
Cited by: 24
Author(s): Lin Chen, Wenzhu Peng, Shengnan Kong, Fei Pu, Baohua Chen, Zhixiong Zhou, Jianxin Feng, Xuejun Li, Peng Xu
Software Mentions: 1
Published: about 6 years ago
10.1186/1471-2105-10-S1-S10
Improved algorithms for approximate string matching (extended abstract)
Cited by: 8
Author(s): Dimitrios P. Papamichail, Georgios Papamichail
Software Mentions: 1
Published: almost 16 years ago
10.1186/1471-2105-12-S9-S1
The rise and fall of breakpoint reuse depending on genome resolution
Cited by: 15
Author(s): Oliver Attie, Aaron E. Darling, Sophia Yancopoulos
Software Mentions: 1
Published: about 13 years ago
10.18632/oncotarget.25123
Somatic mutations in early onset luminal breast cancer
Cited by: 24
Author(s): Giselly Encinas, Veronica Y. Sabelnykova, Eduardo Carneiro de Lyra, Maria Lúcia Hirata Katayama, Simone Maistro, Pedro Wilson Mompean de Vasconcellos Valle, Gláucia Fernanda de Lima Pereira, Lívia Munhoz Rodrigues, Pedro Adolpho de Menezes Pacheco Serio, Ana Carolina Ribeiro Chaves de Gouvêa, Felipe C. Geyer, Ricardo Alves Basso, Fátima Solange Pasini, Maria del Pilar Esteves Diz, Maria Mitzi Brentani, João Carlos Guedes Sampaio Góes, Roger Chammas, Paul C. Boutros, Maria Aparecida Azevedo Koike Folgueira
Software Mentions: 1
Published: over 6 years ago
10.3389/fimmu.2018.01241
Behavioral Fever Drives Epigenetic Modulation of the Immune Response in Fish
Cited by: 19
Author(s): Sebastián Boltaña, Andrea Aguilar, Nataly Sanhueza, Andrea Donoso, Luís Mercado, Mónica Imarai, Simon Mackenzie
Software Mentions: 1
Published: over 6 years ago
10.3389/fmicb.2017.01484
Complete Mitochondrial Genome of Phytophthora nicotianae and Identification of Molecular Markers for the Oomycetes
Cited by: 21
Author(s): Xiaolong Yuan, Chao Feng, Zhongfeng Zhang, Chengsheng Zhang
Software Mentions: 1
Published: over 7 years ago
10.3389/fmicb.2021.651520
Comparative Whole Genome Sequence Analysis and Biological Features of Clostridioides difficile Sequence Type 2‡
Cited by: 1
Author(s): Xingxing Xu, Qiao Bian, Yun Luo, Xiaojun Song, Shan Lin, Huan Chen, Qian Liang, Meixia Wang, Guangyong Ye, Bo Zhu, Liang Chen, Yi‐Wei Tang, Xianjun Wang, Dazhi Jin
Software Mentions: 1
Published: over 3 years ago
10.1186/1755-8794-1-12
HIP2: An online database of human plasma proteins from healthy individuals
Cited by: 30
Author(s): Sudipto Saha, Scott H. Harrison, Changyu Shen, Haixu Tang, Predrag Radivojac, Randy J. Arnold, Xiang Zhang, Jake Y. Chen
Software Mentions: 1
Published: over 16 years ago
10.1186/1471-2105-11-506
Geoseq: a tool for dissecting deep-sequencing datasets
Cited by: 4
Author(s): James Gurtowski, Anthony Cancio, Hardik Shah, Chaya Levovitz, Ajish George, Robert Homann, Ravi Sachidanandam
Software Mentions: 1
Published: about 14 years ago
10.1186/1471-2105-6-105
Detailed protein sequence alignment based on Spectral Similarity Score (SSS)
Cited by: 9
Author(s): Kshitiz Gupta, Dina Thomas, SV Vidya, K. V. Venkatesh, Suryanarayanarao Ramakumar
Software Mentions: 1
Published: over 19 years ago
10.1186/1471-2105-13-S13-S5
Accuracy of RNA-Seq and its dependence on sequencing depth
Cited by: 27
Author(s): Guoshuai Cai, Hua Li, Yao Lu, Xuelin Huang, Ju Hee Lee, Peter Müller, Yuan Ji, Shoudan Liang
Software Mentions: 1
Published: over 12 years ago
10.1186/1471-2105-7-143
Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
Cited by: 25
Author(s): Rahul Siddharthan
Software Mentions: 1
Published: over 18 years ago
10.1186/s12859-015-0509-0
Fully automated pipeline for detection of sex linked genes using RNA-Seq data
Cited by: 16
Author(s): Monika Michalovová, Zdeněk Kubát, Roman Hobza, Boris Vyskot, Eduard Kejnovský
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2105-15-212
CicArMiSatDB: the chickpea microsatellite database
Cited by: 30
Author(s): Dadakhalandar Doddamani, A. V. S. K. Mohan Katta, Aamir W. Khan, Gaurav Agarwal, Trushar Shah, Rajeev K. Varshney
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2105-9-22
MeInfoText: associated gene methylation and cancer information from text mining
Cited by: 38
Author(s): Feifei Yu, Hsuan‐Cheng Huang, Hsueh‐Fen Juan
Software Mentions: 1
Published: almost 17 years ago
10.1186/1471-2105-13-63
Predicting the outer membrane proteome of Pasteurella multocida based on consensus prediction enhanced by results integration and manual confirmation
Cited by: 18
Author(s): Teerasak E-komon, Richard Burchmore, Paweł Herzyk, Robert L. Davies
Software Mentions: 1
Published: over 12 years ago
10.3389/fphys.2018.01768
The in vivo dsRNA Cleavage Has Sequence Preference in Insects
Cited by: 16
Author(s): Ruobing Guan, Shaoru Hu, Haichao Li, Zhenying Shi, Miao Xing
Software Mentions: 1
Published: almost 6 years ago
10.1155/2013/275616
Comparative Inference of Duplicated Genes Produced by Polyploidization in Soybean Genome
Cited by: 1
Author(s): Yanmei Yang, Jinpeng Wang, Jianyong Di
Software Mentions: 1
Published: almost 12 years ago
10.3389/fpls.2016.00732
RNA-seq of Ranunculus sceleratus and Identification of Orthologous Genes among Four Ranunculus Species
Cited by: 4
Author(s): Shu Ying Zhao, Ling Yun Chen, Yan Wei, Qing Feng Wang, Michael L. Moody
Software Mentions: 1
Published: over 8 years ago
10.1155/2017/8724304
Exception to the Rule: Genomic Characterization of Naturally Occurring Unusual <i>Vibrio cholerae</i> Strains with a Single Chromosome
Cited by: 15
Author(s): Gary Xie, Shannon L. Johnson, Karen W. Davenport, Mathumathi Rajavel, Torsten Waldminghaus, John C. Detter, Patrick Chain, Shanmuga Sozhamannan
Software Mentions: 1
Published: almost 8 years ago
10.3389/fpls.2017.02009
Putative Microsatellite DNA Marker-Based Wheat Genomic Resource for Varietal Improvement and Management
Cited by: 21
Author(s): Sarika Jaiswal, Sonia Sheoran, Vasu Arora, U. B. Angadi, Mir Asif Iquebal, Nishu Raghav, Bharti Aneja, Dhiraj Kumar, Rajender Singh, Pradeep Sharma, Gyanendra Singh, Anil Rai, Ruchi Tiwari, Dinesh Kumar
Software Mentions: 1
Published: almost 7 years ago
10.1155/2016/5283628
The Whole Genome Assembly and Comparative Genomic Research of<i>Thellungiella parvula</i>(Extremophile Crucifer) Mitochondrion
Cited by: 4
Author(s): Xuelin Wang, Changwei Bi, Yiqing Xu, Suyun Wei, Xiaogang Dai, Tongming Yin, Ning Ye
Software Mentions: 1
Published: almost 9 years ago
10.3389/fvets.2020.585276
Expression Pattern of Seminal Plasma Extracellular Vesicle Small RNAs in Boar Semen
Cited by: 19
Author(s): Zhiqian Xu, Yanshe Xie, Chunmei Zhou, Qun Hu, Tao Gu, Jie Yang, Enqin Zheng, Sixiu Huang, Zheng Xu, Guangyan Cai, Dewu Liu, Zhenfang Wu, Linjun Hong
Software Mentions: 1
Published: about 4 years ago
10.1186/s12983-017-0191-3
An integrative systematic framework helps to reconstruct skeletal evolution of glass sponges (Porifera, Hexactinellida)
Cited by: 23
Author(s): Martin Dohrmann, Christopher Kelley, Michelle Kelly, Andrzej Pisera, John N. A. Hooper, Henry M. Reiswig
Software Mentions: 1
Published: over 7 years ago
10.1534/g3.111.000349
Translational Genomics in Legumes Allowed Placing <i>In Silico</i> 5460 Unigenes on the Pea Functional Map and Identified Candidate Genes in <i>Pisum sativum</i> L.
Cited by: 96
Author(s): Amandine Bordat, Vincent Savois, Marie Nicolas, Jérôme Salse, Aurélie Chauveau, Michaël Bourgeois, J. Potier, Hervé Houtin, Céline Rond, Florent Murat, Pascal Marget, Grégoire Aubert, Judith Burstin
Software Mentions: 1
Published: over 13 years ago
10.1534/g3.114.014621
Association Mapping of Disease Resistance Traits in Rainbow Trout Using Restriction Site Associated DNA Sequencing
Cited by: 51
Author(s): Nathan R. Campbell, Scott E. LaPatra, Ken Overturf, Richard Towner, Shawn R. Narum
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2105-10-S4-S1
Identifying promoter features of co-regulated genes with similar network motifs
Cited by: 11
Author(s): Oscar Harari, Coral del Val, Rocío Romero-Záliz, Dongwoo Shin, Henry V. Huang, Eduardo A. Groisman, Igor Zwir
Software Mentions: 1
Published: over 15 years ago
10.1534/g3.116.029660
Forward Genetics by Sequencing EMS Variation-Induced Inbred Lines
Cited by: 21
Author(s): Charles Addo‐Quaye, Elizabeth Buescher, Norman B. Best, Vijay Chaikam, Ivan Baxter, Brian P. Dilkes
Software Mentions: 1
Published: almost 8 years ago
10.18632/genesandcancer.167
miRNA involvement in cell cycle regulation in colorectal cancer cases
Cited by: 27
Author(s): Lila E. Mullany, Jennifer S. Herrick, Lori C. Sakoda, Wade S. Samowitz, John R. Stevens, Roger K. Wolff, Martha L. Slattery
Software Mentions: 1
Published: almost 7 years ago
10.18632/genesandcancer.177
MicroRNA-messenger RNA interactions involving JAK-STAT signaling genes in colorectal cancer
Cited by: 5
Author(s): Lila E. Mullany, Jennifer S. Herrick, Lori C. Sakoda, Wade S. Samowitz, John R. Stevens, Roger K. Wolff, Martha L. Slattery
Software Mentions: 1
Published: about 6 years ago
10.1128/genomeA.01539-14
Draft Genome Sequences of Five Spore-Forming Food Isolates of Bacillus pumilus
Cited by: 3
Author(s): Anne de Jong, Auke J. van Heel, Manuel Montalbán-López, Antonina O. Krawczyk, Erwin M. Berendsen, M.H.J. Wells-Bennik, Oscar P. Kuipers
Software Mentions: 1
Published: over 9 years ago
10.1128/genomeA.01597-16
Draft Genome Sequence of an Isolate of Fusarium oxysporum f. sp. melongenae , the Causal Agent of Fusarium Wilt of Eggplant
Cited by: 3
Author(s): Zhangyong Dong, Tom Hsiang, Mei Luo, Ming Xiang
Software Mentions: 1
Published: almost 8 years ago
10.1186/gb-2006-7-2-r14
Cited by: 201
Author(s): Mark Lawson, Liqing Zhang
Software Mentions: 1
Published: almost 19 years ago
10.1186/gb-2006-7-5-r41
Cited by: 139
Author(s): Haining Lin, Wei Zhu, Joana C. Silva, Xun Gu, C. Robin Buell
Software Mentions: 1
Published: almost 19 years ago
10.1186/gb-2007-8-1-r10
Cited by: 261
Author(s): Jeroen Raes, Jan O. Korbel, Martin J. Lercher, Christian von Mering, Peer Bork
Software Mentions: 1
Published: almost 18 years ago
10.1155/2016/5781412
<i>De Novo</i>Sequencing and Characterization of the Transcriptome of Dwarf Polish Wheat (<i>Triticum polonicum</i>L.)
Cited by: 6
Author(s): Yi Wang, Chao Wang, Xiaolu Wang, Fan Peng, Ruijiao Wang, Yulin Jiang, Jian Zeng, Xing Fan, Houyang Kang, Sha Li, Haiqin Zhang, Xue Xiao, Yong‐Hong Zhou
Software Mentions: 1
Published: almost 9 years ago
10.1186/1471-2105-8-27
Scoring functions and enrichment: a case study on Hsp90
Cited by: 11
Author(s): Chrysi Konstantinou-Kirtay, John B. O. Mitchell, James A. Lumley
Software Mentions: 1
Published: almost 18 years ago
10.1093/gbe/evv002
Studying Genome Heterogeneity within the Arbuscular Mycorrhizal Fungal Cytoplasm
Cited by: 31
Author(s): Eva Boon, Sébastien Halary, Éric Bapteste, Mohamed Hijri
Software Mentions: 1
Published: almost 10 years ago
10.1093/gbe/evv099
Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis
Cited by: 19
Author(s): Roy N. Platt, Yuhua Zhang, David J. Witherspoon, Jinchuan Xing, Alexander Suh, Megan S. Keith, Lynn B. Jorde, Richard D. Stevens, David A. Ray
Software Mentions: 1
Published: over 9 years ago
10.1093/gbe/evx096
The Whole-Genome and Transcriptome of the Manila Clam (Ruditapes philippinarum)
Cited by: 59
Author(s): Seyoung Mun, Yun-Ji Kim, Kesavan Markkandan, Wonseok Shin, Seungmin Oh, Jiyoung Woo, Jongsu Yoo, Hye Suck An, Kyudong Han
Software Mentions: 1
Published: over 7 years ago
10.1186/gm357
Cancer of the ampulla of Vater: analysis of the whole genome sequence exposes a potential therapeutic vulnerability
Cited by: 15
Author(s): Michael J. Demeure, David W. Craig, Shripad Sinari, Tracy M. Moses, Alexis Christoforides, Jennifer Dinh, Tyler Izatt, Jessica Aldrich, Ardis Decker, Angela Baker, Irene Cherni, April Watanabe, Lawrence J. Koep, Douglas F. Lake, Galen Hostetter, Jeffrey M. Trent, Daniel D. Von Hoff, John D. Carpten
Software Mentions: 1
Published: almost 13 years ago
10.5808/GI.2020.18.1.e3
Validity of patient-derived xenograft mouse models for lung cancer based on exome sequencing data
Cited by: 6
Author(s): Jae-Won Kim, Hwanseok Rhee, Young Tae Kim, Sanghyuk Lee
Software Mentions: 1
Published: over 4 years ago
10.1093/gigascience/giz081
Toxins from scratch? Diverse, multimodal gene origins in the predatory robber fly Dasypogon diadema indicate a dynamic venom evolution in dipteran insects
Cited by: 19
Author(s): Stephan Drukewitz, Lukas Bokelmann, Eivind A. B. Undheim, Björn M. von Reumont
Software Mentions: 1
Published: over 5 years ago
10.1016/j.immuni.2018.08.025
Germinal Center B Cells Replace Their Antigen Receptors in Dark Zones and Fail Light Zone Entry when Immunoglobulin Gene Mutations are Damaging
Cited by: 68
Author(s): Isabelle Stewart, Daniel Radtke, Bethan Phillips, Simon J. McGowan, Oliver Bannard
Software Mentions: 1
Published: about 6 years ago
10.1186/1745-7580-4-4
Efficiency of the immunome protein interaction network increases during evolution
Cited by: 12
Author(s): Csaba Ortutay, Mauno Vihinen
Software Mentions: 1
Published: almost 17 years ago
10.1186/1471-2105-8-405
AxPcoords &amp; parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa
Cited by: 41
Author(s): Alexandros Stamatakis, Alexander F. Auch, Jan P. Meier‐Kolthoff, Markus Göker
Software Mentions: 1
Published: about 17 years ago
10.1074/jbc.M115.666123
Comparative Proteomic Analyses of Avirulent, Virulent, and Clinical Strains of Mycobacterium tuberculosis Identify Strain-specific Patterns
Cited by: 34
Author(s): Gagan Deep Jhingan, Sangeeta Kumari, Shilpa Jamwal, Haroon Kalam, Divya Arora, Neharika Jain, Lakshmi Krishna Kumaar, Areejit Samal, Kanury V. S. Rao, Dhiraj Kumar, Vinay Kumar Nandicoori
Software Mentions: 1
Published: over 8 years ago
10.1007/s00432-017-2548-6
The NF-κB signalling pathway in colorectal cancer: associations between dysregulated gene and miRNA expression
Cited by: 63
Author(s): Martha L. Slattery, Lila E. Mullany, Lori C. Sakoda, Wade S. Samowitz, Roger K. Wolff, John R. Stevens, Jennifer S. Herrick
Software Mentions: 1
Published: almost 7 years ago
10.5334/jcr.184
Genetic Variants in Circadian Rhythm Genes and Self-Reported Sleep Quality in Women with Breast Cancer
Cited by: 6
Author(s): Tricia D. LeVan, Xiao Peng, Gaurav Kumar, Kevin Kupzyk, Fang Qiu, David Klinkebiel, James D. Eudy, Kenneth H. Cowan, Ann M. Berger
Software Mentions: 1
Published: almost 6 years ago
10.1186/2043-9113-1-4
The NFI-Regulome Database: A tool for annotation and analysis of control regions of genes regulated by Nuclear Factor I transcription factors
Cited by: 16
Author(s): Richard M. Gronostajski, Joseph Guaneri, Dong Hoon Lee, Steven M. Gallo
Software Mentions: 1
Published: almost 14 years ago
10.1007/s10822-021-00388-4
Binding free energy predictions in host-guest systems using Autodock4. A retrospective analysis on SAMPL6, SAMPL7 and SAMPL8 challenges
Cited by: 7
Author(s): Lorenzo Casbarra, Piero Procacci
Software Mentions: 1
Published: over 3 years ago
10.7554/eLife.32472
The genetic landscape of a physical interaction
Cited by: 103
Author(s): Guillaume Diss, Ben Lehner
Software Mentions: 1
Published: over 6 years ago
10.1093/jxb/eru392
Melatonin enhances plant growth and abiotic stress tolerance in soybean plants
Cited by: 437
Author(s): Wei Wei, Qing Tian Li, Ya Nan Chu, Russel J. Reíter, Xiao Yu, Dan Hua Zhu, Wan Ke Zhang, Biao Ma, Qing Lin, Jin Song Zhang, Shou Yi Chen
Software Mentions: 1
Published: about 10 years ago
10.1186/1471-2105-9-102
Clustering exact matches of pairwise sequence alignments by weighted linear regression
Cited by: 4
Author(s): Álvaro González, Li‐Ying Liao
Software Mentions: 1
Published: almost 17 years ago
10.1038/srep17087
Metagenomic insights into communities, functions of endophytes and their associates with infection by root-knot nematode, Meloidogyne incognita, in tomato roots
Cited by: 133
Author(s): Baoyu Tian, Yi Cao, Ke‐Qin Zhang
Software Mentions: 1
Published: almost 9 years ago
10.1038/srep20954
Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection
Cited by: 69
Author(s): Thomas Crellen, Fiona Allan, Sophia David, Caroline Durrant, Harrison Thomas, Nancy Holroyd, Aidan M. Emery, David Rollinson, David M. Aanensen, Matthew Berriman, Joanne P. Webster, James A. Cotton
Software Mentions: 1
Published: almost 9 years ago
10.1038/srep24373
BPGA- an ultra-fast pan-genome analysis pipeline
Cited by: 591
Author(s): Narendrakumar M. Chaudhari, Vinod Kumar Gupta, Chitra Dutta
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2105-6-283
DSD – An integrated, web-accessible database of Dehydrogenase Enzyme Stereospecificities
Cited by: 3
Author(s): Christopher P. Toseland, Helen McSparron, Darren R. Flower
Software Mentions: 1
Published: almost 19 years ago
10.1038/srep30786
Identification of novel miRNAs from drought tolerant rice variety Nagina 22
Cited by: 58
Author(s): Roseeta Devi Mutum, Santosh Kumar, Sonia Balyan, Shivani Kansal, Saloni Mathur, Saurabh Raghuvanshi
Software Mentions: 1
Published: over 8 years ago
10.1186/1471-2164-5-77
Integrating linkage and radiation hybrid mapping data for bovine chromosome 15
Cited by: 13
Author(s): W. M. Snelling, Mathieu Gautier, J. W. Keele, Timothy P. L. Smith, R. T. Stone, Gregory P Harhay, G. L. Bennett, Naoya Ihara, Akiko Takasuga, Hitoshi Takeda, Yoshikazu Sugimoto, Andre A. Eggen
Software Mentions: 1
Published: about 20 years ago
10.1186/1471-2164-6-14
Specialized microbial databases for inductive exploration of microbial genome sequences
Cited by: 12
Author(s): Gang Fang, Christine Ho, Yaowu Qiu, Virginie Cubas, Yu Zhou, Cédric Cabau, Frankie Cheung, Ivan Moszer, Antoine Danchin
Software Mentions: 1
Published: almost 20 years ago
10.1186/s12864-015-1718-7
The Medicago sativa gene index 1.2: a web-accessible gene expression atlas for investigating expression differences between Medicago sativa subspecies
Cited by: 51
Author(s): Jamie A. O’Rourke, Fengli Fu, Bruna Bucciarelli, Sean Yang, Deborah A. Samac, J. F. S. Lamb, María J. Monteros, Michelle A. Graham, John W. Gronwald, Nick Krom, Jun Li, Xinbin Dai, Patrick Xuechun Zhao, Carroll P. Vance
Software Mentions: 1
Published: over 9 years ago