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: fastx

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

Just a simple kseq.h binding
3 versions
Latest release: about 4 years ago
19 downloads last month

Papers Mentioning fastx 197

10.1186/bcr3586
Next generation sequencing-based expression profiling identifies signatures from benign stromal proliferations that define stromal components of breast cancer
Cited by: 15
Author(s): Xiangqian Guo, Shirley Zhu, Alayne Brunner, Matt van de Rijn, Robert B. West
Software Mentions: 2
Published: almost 11 years ago
10.1186/s12911-019-0964-z
Expression alteration of microRNAs in Nucleus Accumbens is associated with chronic stress and antidepressant treatment in rats
Cited by: 10
Author(s): Weichen Song, Yifeng Shen, Yanhua Zhang, Shoujiao Peng, Ran Zhang, Ailing Ning, Huafang Li, Xia Li, Guan Ning Lin, Shunying Yu
Software Mentions: 2
Published: almost 5 years ago
10.1186/1471-2164-16-S12-S14
An integrative approach for efficient analysis of whole genome bisulfite sequencing data
Cited by: 7
Author(s): Jong-Hun Lee, Sung‐Joon Park, Kenta Nakai
Software Mentions: 2
Published: almost 9 years ago
10.3390/biomedicines8100387
Osteoblastogenesis Alters Small RNA Profiles in EVs Derived from Bone Marrow Stem Cells (BMSCs) and Adipose Stem Cells (ASCs)
Cited by: 7
Author(s): Yan Yan, Cheng Fu Chang, Junjing Su, Morten T. Venø, Jørgen Kjems
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pgen.1005735
Loss of the Yeast SR Protein Npl3 Alters Gene Expression Due to Transcription Readthrough
Cited by: 19
Author(s): Rebecca K. Holmes, Alex Tuck, Chenchen Zhu, Hywel Dunn-Davies, Grzegorz Kudla, Sandra Clauder‐Münster, Sander Granneman, Lars M. Steinmetz, Christine Guthrie, David Tollervey
Software Mentions: 2
Published: over 8 years ago
10.1016/j.virusres.2014.10.004
Beyond the whole genome consensus: Unravelling of PRRSV phylogenomics using next generation sequencing technologies
Cited by: 10
Author(s): Zen H. Lu, Alan Archibald, Tahar Aït-Ali
Software Mentions: 2
Published: almost 10 years ago
10.3389/fgene.2018.00034
The Circular RNA Profiles of Colorectal Tumor Metastatic Cells
Cited by: 37
Author(s): Weiqin Jiang, Xingchen Zhang, Qinjie Chu, Sen Lu, Linfu Zhou, Xianghua Lu, Chen Liu, Limin Mao, Chu-Yu Ye, Michael P. Timko, Longjiang Fan, Haixing Ju
Software Mentions: 2
Published: over 6 years ago
10.7717/peerj.6659
Comparative analysis of the complete mitochondrial genomes of five Achilidae species (Hemiptera: Fulgoroidea) and other Fulgoroidea reveals conserved mitochondrial genome organization
Cited by: 18
Author(s): Shiyan Xu, Jian-Kun Long, Xiang-Sheng Chen
Software Mentions: 2
Published: over 5 years ago
10.7717/peerj.9311
Mining of candidate genes involved in the biosynthesis of dextrorotatory borneol in <i>Cinnamomum burmannii</i> by transcriptomic analysis on three chemotypes
Cited by: 15
Author(s): Zerui Yang, Wenli An, Shanshan Liu, Yuying Huang, Chunzhu Xie, Song Huang, Xiasheng Zheng
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pone.0108639
Detection of Very Long Antisense Transcripts by Whole Transcriptome RNA-Seq Analysis of Listeria monocytogenes by Semiconductor Sequencing Technology
Cited by: 15
Author(s): Stefanie Wehner, Gopala Krishna Mannala, Xiaoxing Qing, Ramakanth Madhugiri, Trinad Chakraborty, Mobarak Abu Mraheil, Torsten Hain, Manja Marz
Software Mentions: 2
Published: almost 10 years ago
10.3389/fgene.2018.00236
Association of Transfer RNA Fragments in White Blood Cells With Antibody Response to Bovine Leukemia Virus in Holstein Cattle
Cited by: 10
Author(s): Tasia M. Taxis, Marcus E. Kehrli, Rui D’Orey-Branco, Eduardo Casas
Software Mentions: 2
Published: about 6 years ago
10.3389/fmicb.2018.02336
Changes in the Fungal Microbiome of Maize During Hermetic Storage in the United States and Kenya
Cited by: 19
Author(s): Brett Lane, Sandeep Sharma, Chenxing Niu, Angeline W. Maina, John M. Wagacha, Burton H. Bluhm, Charles P. Woloshuk
Software Mentions: 2
Published: almost 6 years ago
10.3389/fnmol.2016.00144
Integrative Analysis of Sex-Specific microRNA Networks Following Stress in Mouse Nucleus Accumbens
Cited by: 31
Author(s): Madeline L. Pfau, Immanuel Purushothaman, Jian Feng, Sam A. Golden, Hossein Aleyasin, Zachary S. Lorsch, Hannah M. Cates, Meghan E. Flanigan, Caroline Ménard, Mitra Heshmati, Zichen Wang, Avi Ma’ayan, Li Shen, Georgia E. Hodes, Scott J. Russo
Software Mentions: 2
Published: over 7 years ago
10.3390/cancers13040639
NRF2 Activation Confers Resistance to eIF4A Inhibitors in Cancer Therapy
Cited by: 12
Author(s): Viraj R. Sanghvi, Prathibha Mohan, Hans-Guido Wendel, Linlin Cao, Marjan Berishaj, Andrew L. Wolfe, Jonathan H. Schatz, Nathalie Lailler, Elisa de Stanchina, Agnès Viale
Software Mentions: 2
Published: over 3 years ago
10.7554/eLife.44795
A tRNA modification balances carbon and nitrogen metabolism by regulating phosphate homeostasis
Cited by: 47
Author(s): Ritu Gupta, Adhish Walvekar, Shun Liang, Zeenat Rashida, Premal Shah, Sunil Laxman
Software Mentions: 2
Published: about 5 years ago
10.1186/1471-2229-14-83
Identification of candidate genes for drought tolerance by whole-genome resequencing in maize
Cited by: 86
Author(s): Jie Xu, Yibing Yuan, Yunbi Xu, Gengyun Zhang, Xiaosen Guo, Fengkai Wu, Qi Wang, Rong Tang, Guangtang Pan, Mengji Cao, Qilin Tang, Shibin Gao, Yaxi Liu, Jing Wang, Hai Long, Yanli Lu
Software Mentions: 2
Published: over 10 years ago
10.3389/fpls.2018.01146
Genome-Wide Association Studies for Five Forage Quality-Related Traits in Sorghum (Sorghum bicolor L.)
Cited by: 27
Author(s): Jieqin Li, Weijie Tang, Yawen Zhang, Kaining Chen, Chenchen Wang, Yanlong Liu, Qiuwen Zhan, Chunming Wang, Shibo Wang, Shuang Xie, Lihua Wang
Software Mentions: 2
Published: about 6 years ago
10.3389/fpls.2018.01941
Phylogenomics of the Major Tropical Plant Family Annonaceae Using Targeted Enrichment of Nuclear Genes
Cited by: 69
Author(s): Thomas L. P. Couvreur, Andrew J. Helmstetter, Erik J. M. Koenen, Kévin Bethune, Rita D. Brandão, Stefan A. Little, Hervê Sauquet, Roy Erkens
Software Mentions: 2
Published: over 5 years ago
10.1016/j.cell.2013.07.047
A Transcriptome-wide Atlas of RNP Composition Reveals Diverse Classes of mRNAs and lncRNAs
Cited by: 201
Author(s): Alex Tuck, David Tollervey
Software Mentions: 2
Published: about 11 years ago
10.1038/celldisc.2017.40
Binding to RNA regulates Set1 function
Cited by: 27
Author(s): Pierre Luciano, Jongcheol Jeon, Abdessamad El-Kaoutari, Drice Challal, Amandine Bonnet, Mara Barucco, Tito Candelli, Frédéric Jourquin, Pascale Lesage, Jae-Hoon Kim, Domenico Libri, Vincent Géli
Software Mentions: 2
Published: almost 7 years ago
10.1534/g3.115.022129
Genome-Wide Estimates of Mutation Rates and Spectrum in<i>Schizosaccharomyces pombe</i>Indicate CpG Sites are Highly Mutagenic Despite the Absence of DNA Methylation
Cited by: 50
Author(s): Megan G Behringer, David W. Hall
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pone.0008636
Phylogenetic Analysis of Cellulolytic Enzyme Genes from Representative Lineages of Termites and a Related Cockroach
Cited by: 62
Author(s): Nemuri Todaka, Tsuneo Inoue, Kanako Saita, Moriya Ohkuma, Christine A. Nalepa, Michael Lenz, Toshiaki Kudo, Shigeharu Moriya
Software Mentions: 2
Published: over 14 years ago
10.1371/journal.pone.0043012
ESSENTIALS: Software for Rapid Analysis of High Throughput Transposon Insertion Sequencing Data
Cited by: 125
Author(s): Aldert Zomer, Peter Burghout, Hester J. Bootsma, Peter W. M. Hermans, Sacha A. F. T. van Hijum
Software Mentions: 2
Published: about 12 years ago
10.1186/s12864-014-1204-7
Genome-wide high-resolution mapping of DNA methylation identifies epigenetic variation across embryo and endosperm in Maize (Zea may)
Cited by: 61
Author(s): Pengfei Wang, Han Xia, Ye Zhang, Shuzhen Zhao, Chuanzhi Zhao, Lei Hou, Changsheng Li, Aiqin Li, Chunyan Ma, Xingjun Wang
Software Mentions: 2
Published: over 9 years ago
10.1186/1471-2164-15-19
Contribution of natural antisense transcription to an endogenous siRNA signature in human cells
Cited by: 37
Author(s): Andreas Werner, Simon Cockell, Jane Falconer, Mark Carlile, Sammer Alnumeir, John H. Robinson
Software Mentions: 2
Published: over 10 years ago
10.1186/s13059-015-0819-6
P16-specific DNA methylation by engineered zinc finger methyltransferase inactivates gene transcription and promotes cancer metastasis
Cited by: 57
Author(s): Chenghua Cui, Ying Gan, Lin Gu, James M. Wilson, Zhaojun Liu, Baozhen Zhang, Dajun Deng
Software Mentions: 2
Published: almost 9 years ago
10.1186/s13059-016-0952-x
RISC-mediated control of selected chromatin regulators stabilizes ground state pluripotency of mouse embryonic stem cells
Cited by: 11
Author(s): Luca Pandolfini, Ettore Luzi, Dario Bressan, Nadia Ucciferri, Michele Bertacchi, Rossella Brandi, Silvia Rocchiccioli, Mara D’Onofrio, Federico Cremisi
Software Mentions: 2
Published: over 8 years ago
10.1186/s12864-018-4519-y
Gene expression correlated with delay in shell formation in larval Pacific oysters (Crassostrea gigas) exposed to experimental ocean acidification provides insights into shell formation mechanisms
Cited by: 46
Author(s): Pierre De Wit, Evan Durland, Alexander Ventura, C. Langdon
Software Mentions: 2
Published: over 6 years ago
10.1186/s12870-017-1020-8
An integrated RNAseq-1H NMR metabolomics approach to understand soybean primary metabolism regulation in response to Rhizoctonia foliar blight disease
Cited by: 39
Author(s): Tanya Copley, Konstantinos A. Aliferis, Daniel J. Kliebenstein, Suha Jabaji
Software Mentions: 2
Published: over 7 years ago
10.1186/s12864-015-1838-0
Transcriptome profiling during a natural host-parasite interaction
Cited by: 13
Author(s): Seanna J. McTaggart, Timothée Cezard, Jennie S. Garbutt, Phil J. Wilson, Tom J. Little
Software Mentions: 2
Published: about 9 years ago
10.1016/j.dib.2017.11.049
Complete genome sequence of native Bacillus cereus strains isolated from intestinal tract of the crab Ucides sp.
Cited by: 8
Author(s): João Costa Filho, Sérgio Jorge, Frederico Schmitt Kremer, Natasha Rodrigues de Oliveira, Vinícius Farias Campos, Luciano da Silva Pinto, Odir A. Dellagostin, Rubens Galdino Feijó, Francisca Gleire Rodrigues de Menezes, Oscarina Viana de Sousa, Rodrigo Maggioni, Luís Fernando Marins
Software Mentions: 2
Published: over 6 years ago
10.1128/IAI.00688-16
Novel MicroRNA Involved in Host Response to Avian Pathogenic Escherichia coli Identified by Deep Sequencing and Integration Analysis
Cited by: 17
Author(s): Xiaoyun Jia, Qiang Nie, Xiquan Zhang, Lisa K. Nolan, Susan J. Lamont
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.ppat.1009069
Genomic analysis reveals an exogenous viral symbiont with dual functionality in parasitoid wasps and their hosts
Cited by: 10
Author(s): Kelsey A. Coffman, Gaelen R. Burke
Software Mentions: 2
Published: almost 4 years ago
10.1186/1939-8433-6-4
Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data
Cited by: 1,492
Author(s): Yoshihiro Kawahara, M. de la Bastide, John Hamilton, Hajime Kanamori, W. Richard McCombie, Shuai Ouyang, David C. Schwartz, Tsuyoshi Tanaka, Jianzhong Wu, Shiguo Zhou, Kevin L. Childs, Rebecca M. Davidson, Haining Lin, Lina M. Quesada‐Ocampo, Brieanne Vaillancourt, Hiroaki Sakai, Sung Shin Lee, Jungsok Kim, Hisataka Numa, Takeshi Itoh, C. Robin Buell, Takashi Matsumoto
Software Mentions: 2
Published: over 11 years ago
10.1038/sdata.2017.93
Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition
Cited by: 138
Author(s): Adriana Alberti, Julie Poulain, Stéfan Engelen, Karine Labadie, Sarah Romac, Isabel Ferrera, Guillaume Albini, Jean‐Marc Aury, Caroline Belser, Alexis Bertrand, Corinne Cruaud, Corinne Da Silva, Carole Dossat, Frédérick Gavory, Shahinaz Gas, Julie Guy, Maud Haquelle, E'krame Jacoby, Olivier Jaillon, Arnaud Lemainque, Éric Pelletier, Gaëlle Samson, Mark Wessner, Silvia G. Acinas, Marta Royo-Llonch, Francisco M. Cornejo‐Castillo, Ramiro Logares, Beatriz Fernández-Gómez, Chris Bowler, Guy Cochrane, Clara Amid, Petra ten Hoopen, Colomban de Vargas, Nigel Grimsley, Élodie Desgranges, Stefanie Kandels‐Lewis, Hiroyuki Ogata, Nicole Poulton, Michael E. Sieracki, Ramunas Stepanauskas, Matthew B. Sullivan, Jennifer R. Brum, Melissa B. Duhaime, Bonnie T. Poulos, Bonnie Hurwitz, Stéphane Pesant, Eric Karsenti, Patrick Wincker
Software Mentions: 2
Published: about 7 years ago
10.1038/srep20850
tRNA-Derived Small Non-Coding RNAs in Response to Ischemia Inhibit Angiogenesis
Cited by: 83
Author(s): Qing Li, Bin Hu, Guowen Hu, Chun-Yuan Chen, Xiamu Niu, Juan Liu, Shumin Zhou, Changqing Zhang, Yan Wang, Zhifeng Deng
Software Mentions: 2
Published: over 8 years ago
10.1038/srep35299
Ovarian transcriptomic study reveals the differential regulation of miRNAs and lncRNAs related to fecundity in different sheep
Cited by: 53
Author(s): Xiangyang Miao, Qingmiao Luo, Haiping Zhao, Xiaoqiong Qin
Software Mentions: 2
Published: almost 8 years ago
10.15252/embj.2020107455
<i>HASTY</i> , the <i>Arabidopsis EXPORTIN5</i> ortholog, regulates cell‐to‐cell and vascular microRNA movement
Cited by: 27
Author(s): Florian Brioudes, Florence Jay, Alexis Sarazin, Thomas Grentzinger, Emanuel A. Devers, Olivier Voinnet
Software Mentions: 2
Published: about 3 years ago
10.1002/ece3.2812
Capture efficiency and trophic adaptations of a specialist and generalist predator: A comparison
Cited by: 30
Author(s): Ondřej Michálek, Lenka Petráková, Stanislav Pekár
Software Mentions: 2
Published: over 7 years ago
10.1038/s41598-018-28121-6
Proteomic and metagenomic insights into prehistoric Spanish Levantine Rock Art
Cited by: 17
Author(s): C. Roldán, Sonia Murcia‐Mascarós, Esther López-Montalvo, Cristina Vilanova, Manuel Porcar
Software Mentions: 2
Published: about 6 years ago
10.1038/s41598-018-34937-z
Diet-dependent gene expression highlights the importance of Cytochrome P450 in detoxification of algal secondary metabolites in a marine isopod
Cited by: 8
Author(s): Pierre De Wit, Keith Yamada, Marina Panova, Carl André, Kerstin Johannesson
Software Mentions: 2
Published: almost 6 years ago
10.1186/s12859-015-0454-y
TagDust2: a generic method to extract reads from sequencing data
Cited by: 55
Author(s): Timo Lassmann
Software Mentions: 2
Published: over 9 years ago
10.1186/s12859-020-3445-6
Joining Illumina paired-end reads for classifying phylogenetic marker sequences
Cited by: 10
Author(s): Tsunglin Liu, Chen-Yu Chen, An Chen-Deng, Yi Lin Chen, Jiu Yao Wang, Yung I. Hou, Min Lin
Software Mentions: 2
Published: over 4 years ago
10.1186/1471-2164-15-713
High resolution assembly and characterization of genomes of Canadian isolates of Salmonella Enteritidis
Cited by: 12
Author(s): Dele Ogunremi, John Devenish, Kingsley K. Amoako, Hilary Kelly, Andrée Ann Dupras, Sébastien Bélanger, Lin Ru Wang
Software Mentions: 1
Published: over 10 years ago
10.3897/phytokeys.95.21126
A taxonomic study of Quercus langbianensis complex based on morphology and DNA barcodes of classic and next generation sequences
Cited by: 19
Author(s): Hoàng Thị Bình, Nguyễn Văn Ngọc, Shuichiro Tagane, Hironori Toyama, Keiko Mase, Chika Mitsuyuki, Joeri S. Strijk, Yoshihisa Suyama, Tetsukazu Yahara
Software Mentions: 1
Published: over 6 years ago
10.1186/s13007-017-0237-8
Sequence analysis of cultivated strawberry (Fragaria × ananassa Duch.) using microdissected single somatic chromosomes
Cited by: 4
Author(s): Tetsuo Yanagi, Kenta Shirasawa, Terachi Mayuko, Sachiko Isobe
Software Mentions: 1
Published: almost 7 years ago
10.1186/s12917-018-1418-z
Association of Circulating Transfer RNA fragments with antibody response to Mycoplasma bovis in beef cattle
Cited by: 3
Author(s): Eduardo Casas, Guohong Cai, L. A. Kuehn, Karen B. Register, T. G. McDaneld, John D. Neill
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2229-8-115
Large-scale collection and annotation of full-length enriched cDNAs from a model halophyte, Thellungiella halophila
Cited by: 63
Author(s): Teruaki Taji, Tetsuya Sakurai, Keiichi Mochida, Atsushi Ishiwata, Atsushi Kurotani, Yasushi Totoki, Atsushi Toyoda, Yoshiyuki Sakaki, Motoaki Seki, Hirokazu Ono, Yoichi Sakata, Shigeo Tanaka, Kazuo Shinozaki
Software Mentions: 1
Published: almost 16 years ago
10.1371/journal.pgen.1005799
RecG Directs DNA Synthesis during Double-Strand Break Repair
Cited by: 48
Author(s): Benura Azeroglu, Julia S. P. Mawer, Charlotte Cockram, Merry White, A M Mahedi Hasan, Filatenkova Milana, David R. F. Leach
Software Mentions: 1
Published: over 8 years ago
10.1093/ajcn/nqz299
The role of the gut microbiome in the association between habitual anthocyanin intake and visceral abdominal fat in population-level analysis
Cited by: 19
Author(s): Amy Jennings, Manja Koch, Majken K. Jensen, Corinna Bang, Jan Kassubek, Hans Peter Müller, Ute Nöthlings, André Franke, Wolfgang Lieb, Aedín Cassidy
Software Mentions: 1
Published: over 4 years ago
10.1186/s13568-017-0429-7
Meta-barcoding in combination with palynological inference is a potent diagnostic marker for honey floral composition
Cited by: 17
Author(s): Rama Chandra Laha, Surajit De Mandal, Lalhmanghai Ralte, Laldinfeli Ralte, Nachimuthu Senthil Kumar, Guruswami Gurusubramanian, Ramalingam Satishkumar, Raja C. Mugasimangalam, Nagesh A. Kuravadi
Software Mentions: 1
Published: about 7 years ago
10.1371/journal.pone.0161651
Association of MicroRNAs with Antibody Response to Mycoplasma bovis in Beef Cattle
Cited by: 17
Author(s): Eduardo Casas, Guohong Cai, L. A. Kuehn, Karen B. Register, T. G. McDaneld, John D. Neill
Software Mentions: 1
Published: about 8 years ago
10.1371/journal.pone.0227053
Intra-host symbiont diversity in eastern Pacific cold seep tubeworms identified by the 16S-V6 region, but undetected by the 16S-V4 region
Cited by: 5
Author(s): Corinna Breusing, Maximilian Franke, Charles W. Young
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0047656
MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit
Cited by: 166
Author(s): Jens Roat Kultima, Shinichi Sunagawa, Junhua Li, Wei-Neng Chen, Hua Chen, Daniel R. Mende, Manimozhiyan Arumugam, Qi Pan, Binghang Liu, Junjie Qin, Jun Wang, Peer Bork
Software Mentions: 1
Published: almost 12 years ago
10.1371/journal.pone.0098465
Transcriptome Analysis of Shade-Induced Inhibition on Leaf Size in Relay Intercropped Soybean
Cited by: 35
Author(s): Wanzhuo Gong, Pengfei Qi, Junbo Du, Xin Sun, Xiaoling Wu, Chun Song, Weiguo Liu, Yushan Wu, Xiaobo Yu, Taiwen Yong, Xiaochun Wang, Feng Yang, Yanhong Yan, Wenyu Yang
Software Mentions: 1
Published: over 10 years ago
10.3791/58715
Determining 3'-Termini and Sequences of Nascent Single-Stranded Viral DNA Molecules during HIV-1 Reverse Transcription in Infected Cells
Cited by: 0
Author(s): Darja Pollpeter, Andrew Sobala, Michael H. Malim
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0171323
Draft genome sequence of Karnal bunt pathogen (Tilletia indica) of wheat provides insights into the pathogenic mechanisms of quarantined fungus
Cited by: 21
Author(s): Anil Kumar, Vishakha Pandey, Manoj Singh, Dinesh Pandey, M. S. Saharan, Soma S. Marla
Software Mentions: 1
Published: over 7 years ago
10.1186/s12920-021-00893-3
MIPP-Seq: ultra-sensitive rapid detection and validation of low-frequency mosaic mutations
Cited by: 9
Author(s): Ryan Doan, Michael B. Miller, Sonia N. Kim, Rachel E. Rodin, Javier Ganz, Sara Bizzotto, Katherine Morillo, August Yue Huang, Reethika Digumarthy, Zachary Zemmel, Christopher A. Walsh
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0082408
Genome-Wide Microsatellite Identification in the Fungus Anisogramma anomala Using Illumina Sequencing and Genome Assembly
Cited by: 36
Author(s): Guohong Cai, Clayton W. Leadbetter, Megan Muehlbauer, Thomas J. Molnar, Bradley I. Hillman
Software Mentions: 1
Published: almost 11 years ago
10.3390/cancers13092017
Cyathus striatus Extract Induces Apoptosis in Human Pancreatic Cancer Cells and Inhibits Xenograft Tumor Growth In Vivo
Cited by: 4
Author(s): Lital Sharvit, Rinat Bar-Shalom, Naiel Azzam, Yaniv Yechiel, Solomon P. Wasser, Fuad Fares
Software Mentions: 1
Published: over 3 years ago
10.1186/1471-2164-11-641
Combining target enrichment with barcode multiplexing for high throughput SNP discovery
Cited by: 24
Author(s): Nik Cummings, Rob King, Andre Rickers, Antony Kaspi, Sebastian Lunke, Izhak Haviv, Jeremy B. M. Jowett
Software Mentions: 1
Published: almost 14 years ago
10.1038/celldisc.2017.21
miRNA-200c-3p is crucial in acute respiratory distress syndrome
Cited by: 91
Author(s): Qiang Liu, Jun Du, Xuezhong Yu, Jun Xu, Fengming Huang, Xiaoyun Li, Cong Zhang, Li Xiao, Jian Chang, Daozhen Shang, Yan Zhao, Mingyao Tian, Huijun Lu, Jiaming Xu, Chang Li, Huadong Zhu, Ningyi Jin, Chengyu Jiang
Software Mentions: 1
Published: about 7 years ago
10.1007/s00441-016-2358-1
Exosomes derived from endometriotic stromal cells have enhanced angiogenic effects in vitro
Cited by: 83
Author(s): Djana Harp, Adel Driss, Sharifeh Mehrabi, Indrajit Chowdhury, Wei Xu, Dong Liu, Minerva T. Garcia-Barrio, Robert N. Taylor, Bert Gold, Samantha Jefferson, Neil Sidell, Winston E. Thompson
Software Mentions: 1
Published: over 8 years ago
10.1093/dnares/dsaa026
Genome sequence of <i>Hydrangea macrophylla</i> and its application in analysis of the double flower phenotype
Cited by: 9
Author(s): Kenji Nashima, Kenta Shirasawa, Andrea Ghelfi, Hideki Hirakawa, Sachiko Isobe, Takahito Suyama, Takahiro Wada, Takeshi Kurokura, Tatuya Uemachi, Mirai Azuma, Midori Akutsu, Masashi Kodama, Yoshiko Nakazawa, Kiyoshi Namai
Software Mentions: 1
Published: almost 4 years ago
10.3390/ijms20102472
Transcriptomic Analysis of Leaf Sheath Maturation in Maize
Cited by: 15
Author(s): Lei Dong, Lei Qin, Xiuru Dai, Zehong Ding, Ran Bi, Peng Liu, Yanhui Chen, Thomas P. Brutnell, Xianglan Wang, Pinghua Li
Software Mentions: 1
Published: over 5 years ago
10.1002/ece3.3192
Sorting things out: Assessing effects of unequal specimen biomass on <scp>DNA</scp> metabarcoding
Cited by: 133
Author(s): Vasco Elbrecht, Bianca Peinert, Florian Leese
Software Mentions: 1
Published: about 7 years ago
10.1186/s12864-018-4611-3
A Sequel to Sanger: amplicon sequencing that scales
Cited by: 165
Author(s): Paul D. N. Hebert, Thomas Braukmann, Sean W. J. Prosser, Sujeevan Ratnasingham, Jeremy R deWaard, Natalia V. Ivanova, Daniel H. Janzen, Winnie Hallwachs, Suresh Naik, Jayme E Sones, Evgeny Zakharov
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2164-15-401
Selective and flexible depletion of problematic sequences from RNA-seq libraries at the cDNA stage
Cited by: 25
Author(s): Stuart K. Archer, Nikolay E. Shirokikh, Thomas Preiß
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2164-14-S3-S3
Identifying Mendelian disease genes with the Variant Effect Scoring Tool
Cited by: 333
Author(s): Hannah Carter, Christopher Douville, Peter D. Stenson, David Neil Cooper, Rachel Karchin
Software Mentions: 1
Published: over 11 years ago
10.1186/1471-2105-13-77
Tavaxy: Integrating Taverna and Galaxy workflows with cloud computing support
Cited by: 106
Author(s): Mohamed Abouelhoda, Shady Issa, Moustafa Ghanem
Software Mentions: 1
Published: over 12 years ago
10.12688/f1000research.10116.1
Dynamics of tRNA fragments and their targets in aging mammalian brain
Cited by: 41
Author(s): Spyros Karaiskos, Andrey Grigoriev
Software Mentions: 1
Published: almost 8 years ago
10.3389/fgene.2017.00091
Circulating MicroRNAs in Serum from Cattle Challenged with Bovine Viral Diarrhea Virus‡
Cited by: 19
Author(s): Tasia M. Taxis, Fernando V. Bauermann, Julia F. Ridpath, Eduardo Casas
Software Mentions: 1
Published: about 7 years ago
10.3389/fped.2019.00237
MiR-222-3p in Platelets Serves as a Distinguishing Marker for Early Recognition of Kawasaki Disease
Cited by: 7
Author(s): Bo Wang, Li-nong Wang, Fei Cheng, Haitao Lv, Ling Sun, Dong-kai Wei, Yu Pu, Jie Wu, Yuan-yuan Hou, Wen Bai, Xia-ping Xu, Yan Wang
Software Mentions: 1
Published: about 5 years ago
10.3389/fphys.2018.01697
Comparative Transcriptome and iTRAQ Proteome Analyses Reveal the Mechanisms of Diapause in Aphidius gifuensis Ashmead (Hymenoptera: Aphidiidae)
Cited by: 31
Author(s): Hongzhi Zhang, Yuyan Li, Tao An, Feng-Xia Huang, Mengqing Wang, Chenxi Liu, Jianjun Mao, Lisheng Zhang
Software Mentions: 1
Published: almost 6 years ago
10.3389/fpls.2017.01168
QTL Mapping for Pest and Disease Resistance in Cassava and Coincidence of Some QTL with Introgression Regions Derived from Manihot glaziovii
Cited by: 42
Author(s): Inosters Nzuki, Manpreet S. Katari, Jessen V. Bredeson, Esther Masumba, Fortunus A. Kapinga, Kasele Salum, Geoffrey Mkamilo, Trushar Shah, Jessica B. Lyons, Daniel S. Rokhsar, Steve Rounsley, Alexander Andrew Myburg, Morag Ferguson
Software Mentions: 1
Published: about 7 years ago
10.3389/fpls.2015.00921
Methylation of miRNA genes in the response to temperature stress in Populus simonii
Cited by: 47
Author(s): Dong Ci, Yuepeng Song, Mingyi Tian, Deqiang Zhang
Software Mentions: 1
Published: almost 9 years ago
10.3390/ijms21020558
Small RNA and mRNA Sequencing Reveal the Roles of microRNAs Involved in Pomegranate Female Sterility
Cited by: 6
Author(s): Lina Chen, Xiang Luo, Xin Yang, Dan Jing, Xiaocong Xia, Haoxian Li, Krishna Poudel, Shangyin Cao
Software Mentions: 1
Published: over 4 years ago
10.1186/1471-2164-13-353
Comprehensive microRNA profiling in B-cells of human centenarians by massively parallel sequencing
Cited by: 66
Author(s): Saurabh Gombar, Hwa Jin Jung, Feng Dong, Brent Calder, Gil Atzmon, Nir Barzilai, Xiao Tian, Joris Pothof, Jan H.J. Hoeijmakers, Judith Campisi, Jan Vijg, Yousin Suh
Software Mentions: 1
Published: about 12 years ago
10.1093/g3journal/jkab106
Mutation of the nuclear pore complex component, <i>aladin1</i>, disrupts asymmetric cell division in <i>Zea mays</i> (maize)
Cited by: 6
Author(s): Norman B. Best, Charles Addo‐Quaye, Bong-Suk Kim, Clifford F. Weil, Burkhard Schulz, Gurmukh S. Johal, Brian P. Dilkes
Software Mentions: 1
Published: over 3 years ago
10.1186/gb-2013-14-6-r60
Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis
Cited by: 172
Author(s): Nicolas Sierro, James N. D. Battey, Sonia Ouadi, Lucien Bovet, Simon Goepfert, Nicolas Bakaher, Manuel C. Peitsch, Nikolai V. Ivanov
Software Mentions: 1
Published: over 11 years ago
10.1155/2015/456479
A Comparison of Variant Calling Pipelines Using Genome in a Bottle as a Reference
Cited by: 107
Author(s): Adam Cornish, Chittibabu Guda
Software Mentions: 1
Published: over 9 years ago
10.1186/s12864-015-2039-6
In silico hybridization enables transcriptomic illumination of the nature and evolution of Myxozoa
Cited by: 21
Author(s): Jonathan Foox, Maurice J. Ringuette, Sherwin S. Desser, Mark E. Siddall
Software Mentions: 1
Published: almost 9 years ago
10.1186/s12864-015-1520-6
Molecular tools to support metabolic and immune function research in the Guinea Fowl (Numida meleagris)
Cited by: 2
Author(s): Carl Darris, James Tyus, Gary Kelley, Alexander J. Ropelewski, Hugh B. Nicholas, Xiaofei Wang, Samuel N. Nahashon
Software Mentions: 1
Published: over 9 years ago
10.3390/ijms22062900
One Heat Shock Transcription Factor Confers High Thermal Tolerance in Clematis Plants
Cited by: 6
Author(s): Rui Wang, Chanjuan Mao, Changhua Jiang, Long Zhang, Siyuan Peng, Yi Zhang, Shucheng Feng, Feng Ming
Software Mentions: 1
Published: over 3 years ago
10.1038/srep37983
Genome-wide analysis of miRNAs in the ovaries of Jining Grey and Laiwu Black goats to explore the regulation of fecundity
Cited by: 29
Author(s): Xiangyang Miao, Qingmiao Luo, Haiping Zhao, Xiaoqiong Qin
Software Mentions: 1
Published: almost 8 years ago
10.1038/s41598-017-07920-3
Paternal nicotine exposure defines different behavior in subsequent generation via hyper-methylation of mmu-miR-15b
Cited by: 47
Author(s): Jingbo Dai, Zhaoxia Wang, Wangjie Xu, Meixing Zhang, Zijue Zhu, Xianglong Zhao, Dong Zhang, Dongsheng Nie, Lianyun Wang, Zhongdong Qiao
Software Mentions: 1
Published: about 7 years ago
10.1186/s12885-019-5636-y
Circulating microRNAs miR-331 and miR-195 differentiate local luminal a from metastatic breast cancer
Cited by: 62
Author(s): Peter McAnena, Kahraman Tanrıverdi, Catherine Curran, Katie Gilligan, Jane E. Freedman, James A. L. Brown, Michael J. Kerin
Software Mentions: 1
Published: over 5 years ago
10.3390/ani11020535
Arginine Alters miRNA Expression Involved in Development and Proliferation of Rat Mammary Tissue
Cited by: 2
Author(s): Gang Zhou, Qiang Xu, Feng Wu, Mengzhi Wang, Lianmin Chen, Liangyu Hu, Jingwen Zhao, Juan J. Loor, Jun Zhang
Software Mentions: 1
Published: over 3 years ago
10.1002/jez.b.22714
Cell Proliferation Pattern and<i>Twist</i>Expression in an Aplacophoran Mollusk Argue Against Segmented Ancestry of Mollusca
Cited by: 9
Author(s): Emanuel Redl, Maik Scherholz, Tim Wollesen, Christiane Todt, Andreas Wanninger
Software Mentions: 1
Published: almost 8 years ago
10.1186/s12859-016-0883-2
EchinoDB, an application for comparative transcriptomics of deeply-sampled clades of echinoderms
Cited by: 25
Author(s): Daniel Janies, Zachary L. Witter, Gregorio V. Linchangco, David W. Foltz, Allison K. Miller, Alexander M. Kerr, Jeremy J. Jay, Robert W. Reid, Gregory A. Wray
Software Mentions: 1
Published: over 8 years ago
10.1080/23802359.2021.1944377
The complete mitogenome of Lophops carinata (Hemiptera: Fulgoroidea: Lophopidae)
Cited by: 0
Author(s): Shiyan Xu, Xiang-Sheng Chen
Software Mentions: 1
Published: about 3 years ago
10.1264/jsme2.ME19068
Thiocyanate Degradation by a Highly Enriched Culture of the Neutrophilic Halophile &lt;i&gt;Thiohalobacter sp&lt;/i&gt;. Strain FOKN1 from Activated Sludge and Genomic Insights into Thiocyanate Metabolism
Cited by: 10
Author(s): Mamoru Oshiki, Toshikazu Fukushima, Shuichi Kawano, Yasuhiro Kasahara, Junichi Nakagawa
Software Mentions: 1
Published: over 5 years ago
10.1016/j.ympev.2013.01.002
Adaptin evolution in kinetoplastids and emergence of the variant surface glycoprotein coat in African trypanosomatids
Cited by: 44
Author(s): Paul T. Manna, Steven Kelly, Mark C. Field
Software Mentions: 1
Published: over 11 years ago
10.1186/s12859-017-1572-5
SAG-QC: quality control of single amplified genome information by subtracting non-target sequences based on sequence compositions
Cited by: 4
Author(s): Toru Maruyama, Tetsushi Mori, Keisuke Yamagishi, Haruko Takeyama
Software Mentions: 1
Published: over 7 years ago
10.1186/s12985-021-01535-x
High throughput sequencing from Angolan citrus accessions discloses the presence of emerging CTV strains
Cited by: 1
Author(s): Adérito Tomás Pais da Cunha, Michela Chiumenti, Laurindo Chambula Ladeira, Raied Abou Kubaa, Giuliana Loconsole, Vitantonio Pantaleo, A. Minafra
Software Mentions: 1
Published: over 3 years ago
10.1080/21505594.2018.1475795
Deep sequencing of the mouse lung transcriptome reveals distinct long non-coding RNAs expression associated with the high virulence of H5N1 avian influenza virus in mice
Cited by: 6
Author(s): Jiao Hu, Zenglei Hu, Xiaoquan Wang, Minghong Gu, Guimin Zhao, Yanyan Liang, Cuiqing Ma, Xiaowen Liu, Shunlin Hu, Sujuan Chen, Daxing Peng, Xinan Jiao
Software Mentions: 1
Published: about 6 years ago
10.1051/parasite/2016023
MicroRNA profiling of the intestinal tissue of Kazakh sheep after experimental<i>Echinococcus granulosus</i>infection, using a high-throughput approach
Cited by: 27
Author(s): Jukun Song, Xin Li, Xuhai Wang, Qian Ban, Wenqiao Hui, Bin Jia
Software Mentions: 1
Published: over 8 years ago