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: bioconductor: NOISeq

https://packages.ecosyste.ms/registries/bioconductor.org/packages/NOISeq

Exploratory analysis and differential expression for RNA-seq data
1 version
Latest release: about 1 year ago
5 dependent packages
94,516 downloads total

Papers Mentioning NOISeq 321

10.1186/s12864-015-1853-1
RNAseq analysis of Aspergillus fumigatus in blood reveals a just wait and see resting stage behavior
Cited by: 23
Author(s): Henriette Irmer, Sonia Tarazona, Christoph Sasse, Patrick Olbermann, Jürgen Loeffler, Sven Krappmann, Ana Conesa, Gerhard H. Braus
Software Mentions: 3
Published: about 9 years ago
10.1038/s41598-019-46491-3
Transcriptome Network Analysis Identifies CXCL13-CXCR5 Signaling Modules in the Prostate Tumor Immune Microenvironment
Cited by: 21
Author(s): Adaugo Q. Ohandjo, Zongzhi Liu, Eric B. Dammer, Courtney D. Dill, Tiara Griffen, Kaylin Carey, Denise E. Hinton, Robert Meller, James W. Lillard
Software Mentions: 3
Published: about 5 years ago
10.1186/s12870-021-02956-0
Transcriptome architecture reveals genetic networks of bolting regulation in spinach
Cited by: 10
Author(s): Reza Abolghasemi, Maryam Haghighi, Nematollah Etemadi, Shui Wang, Aboozar Soorni
Software Mentions: 3
Published: over 3 years ago
10.1186/s12864-020-6586-0
Loci associated with variation in gene expression and growth in juvenile salmon are influenced by the presence of a growth hormone transgene
Cited by: 5
Author(s): Erin K. McClelland, Michelle Chan, Xiang Lin, Dionne Sakhrani, Felicia Vincelli, Jin-Hyoung Kim, Daniel D. Heath, Robert H. Devlin
Software Mentions: 3
Published: over 4 years ago
10.1186/1471-2105-14-S9-S1
Parallel comparison of Illumina RNA-Seq and Affymetrix microarray platforms on transcriptomic profiles generated from 5-aza-deoxy-cytidine treated HT-29 colon cancer cells and simulated datasets
Cited by: 84
Author(s): Xiao Xu, Yuanhao Zhang, Jennie L. Williams, Eric Antoniou, W. Richard McCombie, Song Wu, Wei Zhu, Nicholas O. Davidson, Paula Denoya, Ellen Li
Software Mentions: 3
Published: over 11 years ago
10.1038/s41598-019-43872-6
A de novo transcriptome assembly approach elucidates the dynamics of ovarian maturation in the swordfish (Xiphias gladius)
Cited by: 11
Author(s): Giorgia Gioacchini, Luca Marisaldi, Danilo Basili, Michela Candelma, Paolo Pignalosa, Riccardo Aiese Cigliano, Walter Sanseverino, Gary Hardiman, Oliana Carnevali
Software Mentions: 3
Published: over 5 years ago
10.1186/s12870-018-1601-1
Transcriptomic signature reveals mechanism of flower bud distortion in witches’-broom disease of soybean (Glycine max)
Cited by: 10
Author(s): Sarika Jaiswal, P. V. Jadhav, Rahul Singh Jasrotia, P. B. Kale, Snehal Krishna Kad, M. P. Moharil, M. S. Dudhare, Jashminkumar Kheni, A. G. Deshmukh, S. S. Mane, R. S. Nandanwar, Suprasanna Penna, J. G. Manjaya, Mir Asif Iquebal, R. S. Tomar, Prashant G. Kawar, Anil Rai, Dinesh Kumar
Software Mentions: 3
Published: almost 6 years ago
10.1186/s12864-019-5452-4
Usability of reference-free transcriptome assemblies for detection of differential expression: a case study on Aethionema arabicum dimorphic seeds
Cited by: 16
Author(s): Per K.I. Wilhelmsson, Jake O. Chandler, Noé Fernandez-Pozo, Kai Graeber, Kristian K. Ullrich, Waheed Arshad, Safina Khan, Johannes A. Hofberger, Karl Buchta, Patrick P. Edger, J. Chris Pires, M. Eric Schranz, Gerhard Leubner‐Metzger, Stefan A. Rensing
Software Mentions: 3
Published: almost 6 years ago
10.1038/s41598-019-39445-2
Transcriptomics of cardiac biopsies reveals differences in patients with or without diagnostic parameters for heart failure with preserved ejection fraction
Cited by: 32
Author(s): Sarbashis Das, Christoffer Frisk, Maria Eriksson, Anna Walentinsson, Matthias Corbascio, Camilla Hage, Chanchal Kumar, Michaela Asp, Joakim Lundeberg, Eva Maret, Hans Persson, Cecilia Linde, Bengt Persson
Software Mentions: 3
Published: over 5 years ago
10.1186/s12917-016-0881-7
RNA-Sequencing for profiling goat milk transcriptome in colostrum and mature milk
Cited by: 43
Author(s): Alessandra Crisà, Fabrizio Ferrè, Giovanni Chillemi, B. Moioli
Software Mentions: 3
Published: almost 8 years ago
10.1038/s41598-020-65454-7
Genetic regulators of mineral amount in Nelore cattle muscle predicted by a new co-expression and regulatory impact factor approach
Cited by: 8
Author(s): Juliana Afonso, M. R. S. Fortes, Antônio Reverter, W. J. da S. Diniz, A. S. M. César, A. O. de Lima, Juliana Petrini, Marcela Maria de Souza, Gérson Barreto Mourão, Adhemar Zerlotini, Caio Fernando Gromboni, Ana Rita A. Nogueira, L. C. de A. Regitano
Software Mentions: 3
Published: over 4 years ago
10.3389/fpls.2017.01585
HvPap-1 C1A Protease Participates Differentially in the Barley Response to a Pathogen and an Herbivore
Cited by: 11
Author(s): Mercedes Díaz-Mendoza, Blanca Velasco-Arroyo, M. Estrella Santamaría, Isabel Dı́az, Manuel Martínez
Software Mentions: 3
Published: about 7 years ago
10.1038/s41598-018-25430-8
Phylogenetic analyses and in-seedling expression of ammonium and nitrate transporters in wheat
Cited by: 22
Author(s): Prabin Bajgain, Blake Russell, Mohsen Mohammadi
Software Mentions: 3
Published: over 6 years ago
10.1186/1471-2164-15-744
Transcriptome differences in the hypopharyngeal gland between Western Honeybees (Apis mellifera) and Eastern Honeybees (Apis cerana)
Cited by: 26
Author(s): Hao Líu, Zilong Wang, Li Tian, Qiuhong Qin, Xiaobo Wu, Yan Wei, Zhen Zeng
Software Mentions: 3
Published: about 10 years ago
10.3389/fpls.2021.640135
Histone Demethylases ELF6 and JMJ13 Antagonistically Regulate Self-Fertility in Arabidopsis
Cited by: 9
Author(s): Charlie Keyzor, Benoît Mermaz, Efstathios Trigazis, SoYoung Jo, Jié Song
Software Mentions: 3
Published: almost 4 years ago
10.1186/s12864-019-6229-5
Functional categorization of de novo transcriptome assembly of Vanilla planifolia Jacks. potentially points to a translational regulation during early stages of infection by Fusarium oxysporum f. sp. vanillae
Cited by: 14
Author(s): Marco Tulio Solano-De la Cruz, Jacel Adame-García, Josefat Gregorio-Jorge, Verónica Jiménez-Jacinto, Leticia Vega‐Alvarado, Lourdes Georgina Iglesias-Andreu, Esteban Elías Escobar-Hernández, Mauricio Luna-Rodríguez
Software Mentions: 3
Published: about 5 years ago
10.1038/srep23219
Identification of genes for controlling swine adipose deposition by integrating transcriptome, whole-genome resequencing, and quantitative trait loci data
Cited by: 42
Author(s): Kai Xing, Feng Zhu, Lichao Zhai, ShaoKang Chen, Zhen Tan, Yangyang Sun, Zhuocheng Hou, ChuDuan Wang
Software Mentions: 3
Published: over 8 years ago
10.1186/1471-2164-13-484
Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing
Cited by: 180
Author(s): José A Robles, Sumaira Qureshi, Stuart Stephen, Susan R. Wilson, Conrad J. Burden, Jennifer Taylor
Software Mentions: 3
Published: about 12 years ago
10.3390/ani10040681
Comprehensive Transcriptional Changes in the Liver of Kanglang White Minnow (Anabarilius grahami) in Response to the Infection of Parasite Ichthyophthirius multifiliis
Cited by: 3
Author(s): Ying Qiu, Yanhui Yin, Zhiqiang Ruan, Yu Gao, Chao Bian, Jieming Chen, Xiaoai Wang, Xiaofu Pan, Jing Yang, Qiong Shi, Weixing Jiang
Software Mentions: 3
Published: over 4 years ago
10.1371/journal.pone.0165375
Gene Expression Patterns during Light and Dark Infection of Prochlorococcus by Cyanophage
Cited by: 33
Author(s): Luke R. Thompson, Qinglu Zeng, Sallie W. Chisholm
Software Mentions: 3
Published: about 8 years ago
10.1186/s12915-021-01025-0
The epigenetic regulator G9a attenuates stress-induced resistance and metabolic transcriptional programs across different stressors and species
Cited by: 8
Author(s): Human Riahi, Michaela Fencková, Kayla J. Goruk, Annette Schenck, Jamie M. Kramer
Software Mentions: 3
Published: over 3 years ago
10.1186/s12885-017-3860-x
Gene expression, regulation of DEN and HBx induced HCC mice models and comparisons of tumor, para-tumor and normal tissues
Cited by: 18
Author(s): Qin Tang, Qi Wang, Qiong Zhang, Sheng‐Yan Lin, Yanhong Zhu, Xiangliang Yang, An‐Yuan Guo
Software Mentions: 3
Published: almost 7 years ago
10.18632/oncotarget.27112
Drivers of topoisomerase II poisoning mimic and complement cytotoxicity in AML cells
Cited by: 2
Author(s): Piyush More, Ute Goedtel-Armbrust, Viral Shah, Marianne Mathaes, Thomas Kindler, Miguel A. Andrade‐Navarro, Leszek Wojnowski
Software Mentions: 3
Published: about 5 years ago
10.3389/fpls.2018.00217
Identification of Metabolites and Transcripts Involved in Salt Stress and Recovery in Peanut
Cited by: 70
Author(s): Feng Cui, Na Sui, Guangyou Duan, Yiyang Liu, Han Yan, Shanshan Liu, Shubo Wan, Guowei Li
Software Mentions: 3
Published: over 6 years ago
10.1371/journal.pone.0213591
Diurnal biomarkers reveal key photosynthetic genes associated with increased oil palm yield
Cited by: 5
Author(s): Bee Keat Neoh, Yick Ching Wong, Huey Fang Teh, Theresa Lee Mei Ng, Soon Huat Tiong, Tony Eng Keong Ooi, Mohd Zairey Md Zain, Mohd Amiron Ersad, Chee Keng Teh, Heng Leng Lee, Siti Khadijah Mohd Rais, See Siang Cheah, Fook Tim Chew, Harikrishna Kulaveerasingam, David R. Appleton
Software Mentions: 3
Published: over 5 years ago
10.3390/ijms19103169
Multiple Regulatory Networks Are Activated during Cold Stress in Medicago sativa L.
Cited by: 23
Author(s): Qiang Zhou, Dong Luo, Xutian Chai, Yuguo Wu, Yanrong Wang, Nan Zhang, Qingchuan Yang, Wenxian Liu
Software Mentions: 3
Published: about 6 years ago
10.29219/fnr.v62.1446
Cholesterol-lowering effects and potential mechanisms of chitooligosaccharide capsules in hyperlipidemic rats
Cited by: 23
Author(s): Yao Jiang, Chuhan Fu, Guihua Liu, Jiao Guo, Zhixing Su
Software Mentions: 2
Published: over 6 years ago
10.1186/s12864-017-3506-z
Identification and evolutionary analysis of long non-coding RNAs in zebra finch
Cited by: 11
Author(s): Chih-Kuan Chen, Chun-Ping Yu, Sung‐Chou Li, Siao-Man Wu, Mei-Yeh Jade Lu, Yihua Chen, Di‐Rong Chen, Chen Siang Ng, Chau‐Ti Ting, Wen‐Hsiung Li
Software Mentions: 2
Published: almost 8 years ago
10.1186/s12864-021-07547-9
Transcriptomic analysis of the poultry red mite, Dermanyssus gallinae, across all stages of the lifecycle
Cited by: 8
Author(s): Kathryn Bartley, Wan Chen, Richard I. Lloyd Mills, Francesca Nunn, Daniel D. Price, Stéphane Rombauts, Yves Van de Peer, Lise Roy, Alasdair J. Nisbet, Stewart T. G. Burgess
Software Mentions: 2
Published: over 3 years ago
10.1186/s12864-019-6180-5
The transcriptional events and their relationship to physiological changes during poplar seed germination and post-germination
Cited by: 2
Author(s): Chunpu Qu, Hongwei Zhao, Jinyuan Chen, Zhuang Zuo, Xue Sun, Jiahuan Huang, Chengjun Yang, Xiuli Zhang, Peng Zhang, Xiankui Quan, Xu Zhang, Guanjun Liu
Software Mentions: 2
Published: about 5 years ago
10.1186/1471-2164-15-114
Drechslerella stenobrocha genome illustrates the mechanism of constricting rings and the origin of nematode predation in fungi
Cited by: 66
Author(s): Keke Liu, Weiwei Zhang, Yiling Lai, Meichun Xiang, Xiuna Wang, Xinyu Zhang, Xingzhong Liu
Software Mentions: 2
Published: almost 11 years ago
10.1186/s12864-015-1503-7
Temperature during early development has long-term effects on microRNA expression in Atlantic cod
Cited by: 76
Author(s): Teshome Tilahun Bizuayehu, Steinar Johansen, Velmurugu Puvanendran, Hilde Toften, Igor Babiak
Software Mentions: 2
Published: over 9 years ago
10.1186/1471-2164-15-770
RNA-Seq analysis of the multipartite genome of Rhizobium etli CE3 shows different replicon contributions under heat and saline shock
Cited by: 29
Author(s): Gamaliel López-Leal, Marı́a Luisa Tabche, Santiago Castillo-Ramírez, Alfredo Mendoza-Vargas, Miguel A. Ramı́rez-Romero, Guillermo Dávila
Software Mentions: 2
Published: almost 11 years ago
10.1186/1471-2164-15-675
Influence of RNA extraction methods and library selection schemes on RNA-seq data
Cited by: 135
Author(s): Marc Sultan, Vyacheslav Amstislavskiy, Thomas S. Risch, M. Schuette, Simon Dökel, Markus Ralser, Daniela Balzereit, Hans Lehrach, Marie–Laure Yaspo
Software Mentions: 2
Published: almost 11 years ago
10.1186/s12870-019-1862-3
Comprehensive dissection of transcript and metabolite shifts during seed germination and post-germination stages in poplar
Cited by: 14
Author(s): Chunpu Qu, Zhuang Zuo, Lina Cao, Jiahuan Huang, Xue Sun, Peng Zhang, Chengjun Yang, Lixin Li, Xu Zhang, Guanjun Liu
Software Mentions: 2
Published: over 5 years ago
10.1186/s12870-019-1875-y
Effect of wet storage conditions on potato tuber transcriptome, phytohormones and growth
Cited by: 9
Author(s): Bahram Peivastegan, Iman Hadizadeh, Johanna Nykyri, Kåre Lehmann Nielsen, Panu Somervuo, Nina Sipari, Huy Cuong Tran, Minna Pirhonen
Software Mentions: 2
Published: over 5 years ago
10.1186/s12870-016-0969-z
MicroRNA 157-targeted SPL genes regulate floral organ size and ovule production in cotton
Cited by: 49
Author(s): Nian Liu, Lili Tu, Lichen Wang, Haiyan Hu, Jiao Xu, Xianlong Zhang
Software Mentions: 2
Published: almost 8 years ago
10.1093/bioinformatics/btab290
‘Single-subject studies’-derived analyses unveil altered biomechanisms between very small cohorts: implications for rare diseases
Cited by: 2
Author(s): Dillon Aberasturi, Nima Pouladi, Samir Rachid Zaim, Colleen Kenost, Joanne Berghout, Walter W. Piegorsch, Yves A. Lussier
Software Mentions: 2
Published: over 3 years ago
10.1186/s13068-018-1345-z
Identification of an essential regulator controlling the production of raw-starch-digesting glucoamylase in Penicillium oxalicum
Cited by: 11
Author(s): Mei-Yuan Zhang, Shuai Zhao, Yuan-Ni Ning, Lihao Fu, Chengxi Li, Qi Wang, Ran You, Chen-Ying Wang, Han-Nan Xu, Xi Luo, Jia‐Xun Feng
Software Mentions: 2
Published: almost 6 years ago
10.1093/bib/bbaa417
Integrated network analysis reveals new genes suggesting COVID-19 chronic effects and treatment
Cited by: 28
Author(s): Alisa Pavel, Giusy del Giudice, Antonio Federico, Andrea Di Lieto, Pia Anneli Sofia Kinaret, Angela Serra, Dario Greco
Software Mentions: 2
Published: almost 4 years ago
10.3390/life9010004
Metatranscriptomic Analysis of the Bacterial Symbiont Dactylopiibacterium carminicum from the Carmine Cochineal Dactylopius coccus (Hemiptera: Coccoidea: Dactylopiidae)
Cited by: 12
Author(s): Rafael Bustamante-Brito, Arturo Vera‐Ponce de León, Mónica Rosenblueth, Julio Martínez‐Romero, Esperanza Martínez‐Romero
Software Mentions: 2
Published: almost 6 years ago
10.15252/msb.20209864
Precise transcriptional control of cellular quiescence by BRAVO/WOX5 complex in <i>Arabidopsis</i> roots
Cited by: 8
Author(s): Isabel Betegón‐Putze, Josep Mercadal, Nadja Bosch, Ainoa Planas-Riverola, María Mar Marquès-Bueno, Josep Vilarrasa-Blasi, David Frigola, Rebecca C. Burkart, Consuelo Martı́nez, Ana Conesa, Rosangela Sozzani, Yvonne Stahl, Salomé Prat, Marta Ibañes, Ana I. Caño‐Delgado
Software Mentions: 2
Published: over 3 years ago
10.1016/j.omtn.2019.10.033
Systematic Transcriptome and Regulatory Network Analyses Reveal the Hypoglycemic Mechanism of Dendrobium fimbriatum
Cited by: 9
Author(s): Qiong Zhang, Jing Li, Mei Luo, Gui-Yan Xie, Weiwei Zeng, Yuxin Wu, Yanhong Zhu, Xiangliang Yang, An‐Yuan Guo
Software Mentions: 2
Published: over 4 years ago
10.1080/21505594.2021.1950268
Importance of twitching and surface-associated motility in the virulence of <i>Acinetobacter baumannii</i>
Cited by: 12
Author(s): Jordi Corral, María Pérez-Varela, Miquel Sánchez-Osuna, Pilar Cortés, Jordi Barbé, Jesús Aranda
Software Mentions: 2
Published: about 3 years ago
10.1186/s12957-020-01820-z
Identification of key differentially expressed genes and gene mutations in breast ductal carcinoma in situ using RNA-seq analysis
Cited by: 3
Author(s): Congyuan Zhu, Hao Hu, Jianping Li, Jingli Wang, Ke Wang, Jingqiu Sun
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.pgen.1006741
Differential gene expression along the animal-vegetal axis in the ascidian embryo is maintained by a dual functional protein Foxd
Cited by: 14
Author(s): Shin Ichi Tokuhiro, Miki Tokuoka, Kenji Kobayashi, Atsushi Kubo, Izumi Oda-Ishii, Yutaka Satou
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pntd.0004334
Schistosoma mansoni Egg, Adult Male and Female Comparative Gene Expression Analysis and Identification of Novel Genes by RNA-Seq
Cited by: 73
Author(s): Letícia Anderson, Murilo Sena Amaral, Felipe Beckedorff, Lucas F. Silva, Bianca Dazzani, Kátia C. Oliveira, Giulliana T. Almeida, Maria de Lourdes Contente Gomes, David S. Pires, João Carlos Setúbal, Ricardo DeMarco, Sérgio Verjovski-Almeida
Software Mentions: 2
Published: almost 9 years ago
10.1371/journal.pone.0085150
Transforming RNA-Seq Data to Improve the Performance of Prognostic Gene Signatures
Cited by: 124
Author(s): Isabella Zwiener, Barbara Frisch, Harald Binder
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0084160
The Utility of Shallow RNA-Seq for Documenting Differential Gene Expression in Genes with High and Low Levels of Expression
Cited by: 11
Author(s): Joel Atallah, David C. Plachetzki, W. Cameron Jasper, Brian R. Johnson
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0170715
Transcriptional regulation of male-sterility in 7B-1 male-sterile tomato mutant
Cited by: 17
Author(s): Vahid Omidvar, Irina Mohorianu, Tamás Dalmay, Yi Zheng, Zhangjun Fei, Anna Pucci, Andrea Mazzucato, Vendula Večeřová, Michaela Sedlářová, Martin Fellner
Software Mentions: 2
Published: almost 8 years ago
10.1038/s42003-021-01944-2
Deletion of LBR N-terminal domains recapitulates Pelger-Huet anomaly phenotypes in mouse without disrupting X chromosome inactivation
Cited by: 4
Author(s): Alexander N. Young, Emerald Perlas, Nerea Ruiz-Blanes, Andreas Hierholzer, Nicola Pomella, Belén Martı́n-Martı́n, Alessandra Liverziani, Joanna W. Jachowicz, Thomas Giannakouŕos, Andrea Cerase
Software Mentions: 2
Published: over 3 years ago
10.1002/2211-5463.13114
Circular RNA profiles and the potential involvement of down‐expression of hsa_circ_0001360 in cutaneous squamous cell carcinogenesis
Cited by: 9
Author(s): Pingjiao Chen, Changxing Li, Hongchang Huang, Li-Fang Liang, Jing Zhang, Qian Li, Qi Wang, Sanquan Zhang, Kang Zeng, Xibao Zhang, Jingyao Liang
Software Mentions: 2
Published: over 3 years ago
10.1186/s40478-020-01029-x
Proteogenomic analysis of melanoma brain metastases from distinct anatomical sites identifies pathways of metastatic progression
Cited by: 4
Author(s): E. Stewart Taylor, Stephanie D. Byrum, Jacob L. Edmondson, Christopher P. Wardell, Brittany G. Griffin, Sara C. Shalin, Murat Gökden, Issam Makhoul, Alan J. Tackett, Analiz Rodriguez
Software Mentions: 2
Published: about 4 years ago
10.3389/fgene.2020.578679
Gene Expression and Co-expression Networks Are Strongly Altered Through Stages in Clear Cell Renal Carcinoma
Cited by: 18
Author(s): José María Zamora-Fuentes, Enrique Hernández‐Lemus, Jesús Espinal-Enríquez
Software Mentions: 2
Published: about 4 years ago
10.3389/fimmu.2020.00299
Stroke Exacerbates Cancer Progression by Upregulating LCN2 in PMN-MDSC
Cited by: 4
Author(s): Tingting Huang, Yan Li, Yue Zhou, Bingwei Lu, Yueman Zhang, Dan Tang, Yu Gan, Zhengzhou He, Zengai Chen, Weifeng Yu, Peiying Li
Software Mentions: 2
Published: over 4 years ago
10.3389/fmicb.2019.02180
An Overview of Genes From Cyberlindnera americana, a Symbiont Yeast Isolated From the Gut of the Bark Beetle Dendroctonus rhizophagus (Curculionidae: Scolytinae), Involved in the Detoxification Process Using Genome and Transcriptome Data
Cited by: 8
Author(s): L. Viridiana Soto-Robles, Verónica Torres-Banda, Flor N. Rivera-Orduña, Everardo Curiel-Quesada, María Eugenia Hidalgo-Lara, Gerardo Zúñiga
Software Mentions: 2
Published: about 5 years ago
10.3389/fmicb.2021.626443
Specialization of the Reiterated Copies of the Heterodimeric Integration Host Factor Genes in Geobacter sulfurreducens
Cited by: 5
Author(s): Ángel Andrade, Alberto Hernández-Eligio, Ana Lilia Tirado, Leticia Vega‐Alvarado, Maricela Olvera, Enrique Morett, Katy Juárez
Software Mentions: 2
Published: over 3 years ago
10.3389/fmicb.2019.00590
Metatranscriptomic Signatures Associated With Phytoplankton Regime Shift From Diatom Dominance to a Dinoflagellate Bloom
Cited by: 48
Author(s): Yaqun Zhang, Xin Lin, Xinguo Shi, Lingxiao Lin, Hao Luo, Ling Li, Senjie Lin
Software Mentions: 2
Published: over 5 years ago
10.3389/fnins.2021.636969
Mutant PRPF8 Causes Widespread Splicing Changes in Spliceosome Components in Retinitis Pigmentosa Patient iPSC-Derived RPE Cells
Cited by: 5
Author(s): Ángeles Arzalluz-Luque, José Luis Cabrera, Heli Skottman, Alberto Benguría, Arantxa Bolinches-Amorós, Nicolás Cuenca, Vincenzo Lupo, Ana Dopazo, Sonia Tarazona, Bárbara Delás, Miguel Carballo, Beatriz Pascual, Imma Hernán, Slaven Erceg, Dunja Lukovic
Software Mentions: 2
Published: over 3 years ago
10.3389/fpls.2021.638051
Meiocyte Isolation by INTACT and Meiotic Transcriptome Analysis in Arabidopsis
Cited by: 2
Author(s): Lucia Barra, Pasquale Termolino, Riccardo Aiese Cigliano, Gaetana Cremona, Rosa Paparo, Carmine Lanzillo, Federica Consiglio, Clara Conicella
Software Mentions: 2
Published: over 3 years ago
10.3390/genes8090234
Circulating microRNAs and Bioinformatics Tools to Discover Novel Diagnostic Biomarkers of Pediatric Diseases
Cited by: 27
Author(s): Antonella Baldassarre, Cristina Felli, Giorgio Prantera, Andrea Masotti
Software Mentions: 2
Published: about 7 years ago
10.3390/genes12010067
Multi-Omics Approach Reveals miR-SNPs Affecting Muscle Fatty Acids Profile in Nelore Cattle
Cited by: 10
Author(s): Tainã Figueiredo Cardoso, Luiz Lehmann Coutinho, Jennifer Jessica Bruscadin, Wellison J. S. Diniz, Juliana Petrini, Bruno de Bezerril Andrade, P. S. N. Oliveira, Mirele Daiana Poleti, Juliano Coelho da Silveira, Marcos Roberto Chiaratti, Adhemar Zerlotini Neto, Gerson Barreto Mourão, L. C. de A. Regitano
Software Mentions: 2
Published: almost 4 years ago
10.1093/gbe/evu241
Comparative Genomics and Transcriptomics Analyses Reveal Divergent Lifestyle Features of Nematode Endoparasitic Fungus Hirsutella minnesotensis
Cited by: 48
Author(s): Yiling Lai, Keke Liu, Xinyu Zhang, Xiaoling Zhang, Kuan Li, Niuniu Wang, Chi Shu, Yunpeng Wu, Chengshu Wang, Kathryn E. Bushley, Meichun Xiang, Xingzhong Liu
Software Mentions: 2
Published: about 10 years ago
10.1038/s41438-019-0194-7
Integrated analysis of transcriptomic and proteomic data from tree peony (P. ostii) seeds reveals key developmental stages and candidate genes related to oil biosynthesis and fatty acid metabolism
Cited by: 61
Author(s): Xiaojing Wang, Haiying Liang, Da‐Long Guo, Lili Guo, Xiangguang Duan, Qishi Jia, Xiaogai Hou
Software Mentions: 2
Published: about 5 years ago
10.1186/2049-1891-5-32
The liver transcriptome of two full-sibling Songliao black pigs with extreme differences in backfat thickness
Cited by: 20
Author(s): Kai Xing, Feng Zhu, Lichao Zhai, Huijie Liu, Zhijun Wang, Zhuocheng Hou, Chuduan Wang
Software Mentions: 2
Published: over 10 years ago
10.1111/jcmm.14075
Biallelic<i>CCM3</i>mutations cause a clonogenic survival advantage and endothelial cell stiffening
Cited by: 14
Author(s): Konrad Schwefel, Stefanie Spiegler, Sabine Ameling, Christiane D. Much, Robin A. Pilz, Oliver Otto, Uwe Völker, Ute Felbor, Matthias Rath
Software Mentions: 2
Published: almost 6 years ago
10.1126/sciadv.abg6424
Disruption of paternal circadian rhythm affects metabolic health in male offspring via nongerm cell factors
Cited by: 10
Author(s): Maximilian Lassi, Archana Tomar, Gemma Comas-Armangué, Rebekka Vogtmann, Dorieke J. Dijkstra, David Corujo, Raffaele Gerlini, Jonatan Darr, F. Scheid, Jan Rozman, Antonio Aguilar-Pimentel, Omry Koren, Marcus Buschbeck, Helmut Fuchs, Susan Marschall, Valérie Gailus‐Durner, Martin Hrabě de Angelis, Torsten Plösch, Alexandra Gellhaus, Raffaele Teperino
Software Mentions: 2
Published: over 3 years ago
10.1038/srep41114
Comparative evaluation of rRNA depletion procedures for the improved analysis of bacterial biofilm and mixed pathogen culture transcriptomes
Cited by: 55
Author(s): Olga Petrova, Fernando García-Alcalde, Claudia Zampaloni, Karin Sauer
Software Mentions: 2
Published: almost 8 years ago
10.1038/s41598-017-11929-z
Global transcriptome analysis and identification of genes involved in nutrients accumulation during seed development of rice tartary buckwheat (Fagopyrum Tararicum)
Cited by: 22
Author(s): Juan Huang, Jiao Deng, Taoxiong Shi, Qijiao Chen, Chenggang Liang, Ziye Meng, Lingjun Zhu, Yan Wang, Fengli Zhao, Shizhou Yu, Chen Qing-fu
Software Mentions: 2
Published: about 7 years ago
10.1038/s41598-018-33113-7
Gene coexpression network analysis combined with metabonomics reveals the resistance responses to powdery mildew in Tibetan hulless barley
Cited by: 35
Author(s): Hongjun Yuan, Xingquan Zeng, Qiaofeng Yang, Qijun Xu, Yulin Wang, Dunzhu Jabu, Zha Sang, Nyima Tashi
Software Mentions: 2
Published: about 6 years ago
10.1038/s41598-019-53959-9
Transcriptional profiling reveals differentially expressed genes involved in lipid biosynthesis during cacao seed development
Cited by: 2
Author(s): Fupeng Li, Binhe Wu, Yan Lin, Chaoyun Hao, Xiaowei Qin, Jianxiong Lai, Yinghui Song
Software Mentions: 2
Published: about 5 years ago
10.1038/s41598-019-56007-8
Proteomic and Transcriptomic Changes in Hibernating Grizzly Bears Reveal Metabolic and Signaling Pathways that Protect against Muscle Atrophy
Cited by: 14
Author(s): Douaa Mugahid, Tuğçe Şengül, Xintian You, Yongbo Wang, Leif Steil, Nora Bergmann, Michaël Radkë, Andreas Ofenbauer, Manuela Gesell-Salazar, András Balogh, Stefan Kempa, Baris Tursun, Charles T. Robbins, Uwe Völker, W. Chen, Lonnie A. Nelson, Michael Gotthardt
Software Mentions: 2
Published: almost 5 years ago
10.1038/s41598-021-95313-y
k-core genes underpin structural features of breast cancer
Cited by: 13
Author(s): Rodrigo Dorantes-Gilardi, Diana García-Cortés, Enrique Hernández‐Lemus, Jesús Espinal-Enríquez
Software Mentions: 2
Published: over 3 years ago
10.1186/s13046-019-1314-9
Exosomal transfer of p-STAT3 promotes acquired 5-FU resistance in colorectal cancer cells
Cited by: 78
Author(s): Qian Zhang, Ruixian Liu, Ka-Wo Chan, Jiancong Hu, Jingdan Zhang, Lili Wei, Huiliu Tan, Xiangling Yang, Huanliang Liu
Software Mentions: 2
Published: over 5 years ago
10.1186/s13046-021-01999-3
Zinc transporter SLC39A13/ZIP13 facilitates the metastasis of human ovarian cancer cells via activating Src/FAK signaling pathway
Cited by: 14
Author(s): Xinxin Cheng, Jie Wang, Chunling Liu, Tianduo Jiang, Ningzhi Yang, Dan Liŭ, Huanhuan Zhao, Zhelong Xu
Software Mentions: 2
Published: over 3 years ago
10.3390/ijms18030494
Distinct Antigen Delivery Systems Induce Dendritic Cells’ Divergent Transcriptional Response: New Insights from a Comparative and Reproducible Computational Analysis
Cited by: 8
Author(s): Valerio Costa, Dario Righelli, Francesco Russo, Piergiuseppe De Berardinis, Claudia Angelini, Luciana D’Apice
Software Mentions: 2
Published: over 7 years ago
10.3390/ijms20215515
Comparative Transcriptome Analysis Reveals the Cause for Accumulation of Reactive Oxygen Species During Pollen Abortion in Cytoplasmic Male-Sterile Kenaf Line 722HA
Cited by: 11
Author(s): Bujin Zhou, Liu Yiding, Zhenxia Chen, Dongmei Li, Yining Wang, Jie Zheng, Xiaofang Liao, And Ruiyang Zhou
Software Mentions: 2
Published: about 5 years ago
10.3390/ijms22073568
A Tale of Two Transcriptomic Responses in Agricultural Pests via Host Defenses and Viral Replication
Cited by: 5
Author(s): Pramod Pantha, Chalivendra C. Subbaiah, Dong Ha Oh, Bret D. Elderd, Maheshi Dassanayake
Software Mentions: 2
Published: over 3 years ago
10.3390/ijms22094476
Identification of Compounds with Potential Therapeutic Uses from Sweet Pepper (Capsicum annuum L.) Fruits and Their Modulation by Nitric Oxide (NO)
Cited by: 22
Author(s): Lucía Guevara, María Ángeles Domínguez-Anaya, Alba Ortigosa, Salvador González‐Gordo, Caridad Díaz, Francisca Vicente, Francisco J. Corpas, J Palacio, José M. Palma
Software Mentions: 2
Published: over 3 years ago
10.18632/oncotarget.6594
MicroRNA-708-5p acts as a therapeutic agent against metastatic lung cancer
Cited by: 44
Author(s): Xiaoping Wu, Tianchi Liu, Fang Ou, Wende Dong, Fengjun Zhang, Lindsey Leach, Xiaohua Hu, Zewei Luo
Software Mentions: 2
Published: almost 9 years ago
10.18632/oncotarget.11803
Single-cell analyses of transcriptional heterogeneity in squamous cell carcinoma of urinary bladder
Cited by: 29
Author(s): Xiaolong Zhang, Meng Zhang, Yong Hou, Liqin Xu, Weidong Li, Zhi Zou, Chunxiao Liu, Aiming Xu, Song Wu
Software Mentions: 2
Published: about 8 years ago
10.18632/oncotarget.22995
RNA-seq expression profiling of rat MCAO model following reperfusion Orexin-A
Cited by: 16
Author(s): Chunmei Wang, Yanyou Pan, Minghui Liu, Baohua Cheng, Bo Bai, Jing Chen
Software Mentions: 2
Published: almost 7 years ago
10.1098/rsob.160184
The BTG4 and CAF1 complex prevents the spontaneous activation of eggs by deadenylating maternal mRNAs
Cited by: 44
Author(s): Michał Pasternak, Sybille Pfender, S. Balaji, Melina Schuh
Software Mentions: 2
Published: about 8 years ago
10.3390/ijms19072067
Transcriptome Analyses in Different Cucumber Cultivars Provide Novel Insights into Drought Stress Responses
Cited by: 26
Author(s): Min Wang, Biao Jiang, Qingwu Peng, Wenrui Liu, Xiaoming He, Zhaojun Liang, Yan Lin
Software Mentions: 1
Published: over 6 years ago
10.1186/1471-2164-14-234
Integrated “omics” profiling indicates that miRNAs are modulators of the ontogenetic venom composition shift in the Central American rattlesnake, Crotalus simus simus
Cited by: 162
Author(s): Jordi Durbán, Alícia Pérez, Libia Sanz, Aarón Gómez, Fabián Bonilla, Santos Rodríguez, Danilo Chacón, Mahmood Sasa, Yamileth Angulo, José Marı́a Gutiérrez, Juan J. Calvete
Software Mentions: 1
Published: over 11 years ago
10.3389/fmicb.2018.00846
Dissecting the Acid Stress Response of Rhizobium tropici CIAT 899
Cited by: 15
Author(s): Julio Guerrero-Castro, Luis Lozano, Christian Sohlenkamp
Software Mentions: 1
Published: over 6 years ago
10.3389/fnins.2020.00644
Loss of Wwox Perturbs Neuronal Migration and Impairs Early Cortical Development
Cited by: 16
Author(s): Michele Iacomino, Sımona Baldassari, Yuki Tochigi, Katarzyna Kośla, Francesca Buffelli, Annalaura Torella, Mariasavina Severino, D. Paladini, Luana Mandarà, Antonella Riva, Marcello Scala, Ganna Balagura, Andrea Accogli, Vincenzo Nigro, Carlo Minetti, Ezio Fulcheri, Federico Zara, Andrzej K. Bednarek, Pasquale Striano, Hiroyoshi Suzuki, Vincenzo Salpietro
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms20010047
Comparative Transcriptomic and Physiological Analyses of Medicago sativa L. Indicates that Multiple Regulatory Networks Are Activated during Continuous ABA Treatment
Cited by: 19
Author(s): Dong Luo, Yuguo Wu, Jie Liu, Qiang Zhou, Wenxian Liu, Yanrong Wang, Qingchuan Yang, Zengyu Wang, Wenxian Liu
Software Mentions: 1
Published: almost 6 years ago
10.3389/fnut.2021.671353
Quercetin Ameliorates Gut Microbiota Dysbiosis That Drives Hypothalamic Damage and Hepatic Lipogenesis in Monosodium Glutamate-Induced Abdominal Obesity
Cited by: 17
Author(s): Lijun Zhao, Xiaoqiang Zhu, Mengxuan Xia, Jing Li, An‐Yuan Guo, Yanhong Zhu, Xiangliang Yang
Software Mentions: 1
Published: over 3 years ago
10.3389/fonc.2020.581208
Hexokinase 2 Promotes Cell Growth and Tumor Formation Through the Raf/MEK/ERK Signaling Pathway in Cervical Cancer
Cited by: 14
Author(s): Nan Cui, Lü Li, Qian Feng, Hongmei Ma, Dan Lei, Pan Zheng
Software Mentions: 1
Published: almost 4 years ago
10.3389/fphar.2018.00616
Transcriptome Profiling Analysis Reveals the Potential Mechanisms of Three Bioactive Ingredients of Fufang E’jiao Jiang During Chemotherapy-Induced Myelosuppression in Mice
Cited by: 15
Author(s): Xue Li, Yan Zhang, Zhuping Hong, Gong Shouliang, Wei Liu, Xiangshan Zhou, Yangen Sun, Jing Qian, Haibin Qu
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0160338
Transcriptome Analysis of Storage Roots and Fibrous Roots of the Traditional Medicinal Herb Callerya speciosa (Champ.) ScHot
Cited by: 17
Author(s): Li Xu, Jiabin Wang, Ming Lei, Li Li, Yuhua Fu, Zhunian Wang, Meng-Fei Ao, Zhiying Li
Software Mentions: 1
Published: over 8 years ago
10.3389/fphys.2020.00950
Neurotropin Inhibits Lipid Accumulation by Maintaining Mitochondrial Function in Hepatocytes via AMPK Activation
Cited by: 2
Author(s): Qinglan Wang, Zhijun Wang, Ming-Yi Xu, Wei Tu, I-Fang Hsin, Aleksandr Stotland, Jeong Han Kim, Ping Liu, Mitsuru Naiki, Roberta A. Gottlieb, Ekihiro Seki
Software Mentions: 1
Published: over 4 years ago
10.1371/journal.pone.0201124
Transcriptome analysis of tomato (Solanum lycopersicum L.) shoots reveals a crosstalk between auxin and strigolactone
Cited by: 13
Author(s): Yihua Zhan, Yinchao Qu, Longjing Zhu, Chenjia Shen, Xuping Feng, Chenliang Yu
Software Mentions: 1
Published: over 6 years ago
10.3389/fpls.2016.00491
Global Transcriptome Profiling Analysis of Inhibitory Effects of Paclobutrazol on Leaf Growth in Lily (Lilium Longiflorum-Asiatic Hybrid)
Cited by: 13
Author(s): Xiaoyang Zhu, Maofeng Chai, Yang Li, Min Sun, Jinzheng Zhang, Guofeng Sun, Chuntao Jiang, Lei Shi
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0158784
Genome Wide Identification and Functional Prediction of Long Non-Coding RNAs Responsive to Sclerotinia sclerotiorum Infection in Brassica napus
Cited by: 103
Author(s): Raj Kumar Joshi, Swati Megha, Urmila Basu, Masudur Rahman, Nat N. V. Kav
Software Mentions: 1
Published: over 8 years ago
10.1371/journal.pone.0159194
Time-Course Study of the Transcriptome of Peripheral Blood Mononuclear Cells (PBMCs) from Sheep Infected with Fasciola hepatica
Cited by: 25
Author(s): Cristian A. Álvarez Rojas, Jean-Pierre Y. Scheerlinck, Brendan R E Ansell, Ross S. Hall, Robin B. Gasser, Aaron R. Jex
Software Mentions: 1
Published: over 8 years ago
10.3390/ijms20030684
Molecular Mechanisms Underlying Increase in Lysine Content of Waxy Maize through the Introgression of the opaque2 Allele
Cited by: 7
Author(s): Wei Wang, Suzhen Niu, Yi Dai, Xinmi Zhai, Mingchun Wang, Yuqiang Ding, Wenlong Yang, Degang Zhao
Software Mentions: 1
Published: almost 6 years ago
10.3389/fpls.2021.669565
Transcriptomic and Physiological Analysis Reveal That α-Linolenic Acid Biosynthesis Responds to Early Chilling Tolerance in Pumpkin Rootstock Varieties
Cited by: 12
Author(s): Wenqian Liu, Ruoyan Zhang, Chenggang Xiang, Ruiyun Zhang, Qing Wang, Tao Wang, Xiaojun Li, Xiaohong Lü, Shunli Gao, Zixi Liu, Mengshuang Liu, Lihong Gao, Wenna Zhang
Software Mentions: 1
Published: over 3 years ago
10.1371/journal.pone.0164724
Ovarian Transcriptome Analysis of Vitellogenic and Non-Vitellogenic Female Banana Shrimp (Fenneropenaeus merguiensis)
Cited by: 16
Author(s): Uraipan Saetan, Unitsa Sangket, Panchalika Deachamag, Wilaiwan Chotigeat
Software Mentions: 1
Published: about 8 years ago