Ecosyste.ms: Papers

10.1038/s41422-020-00458-6

Mutual dependency between lncRNA LETN and protein NPM1 in controlling the nucleolar structure and functions sustaining cell proliferation
Cited by: 25
Author(s): Xianteng Wang, Xiaolin Hu, Wanlu Song, Hui Xu, Zhao Xiao, Rongxia Huang, Qing-Ran Bai, Fan Zhang, Yongzhen Chen, Yu Liu, Jau–Shiung Fang, Xin Li, Qin Shen, Haitao Zhao, Xuerui Yang
Software Mentions: 4
Published: almost 4 years ago

10.1038/srep34838

lncScore: alignment-free identification of long noncoding RNA from assembled novel transcripts
Cited by: 39
Author(s): Jian Zhao, Xiaofeng Song, Kai Wang
Software Mentions: 4
Published: about 8 years ago

10.3390/genes11090981

PreLnc: An Accurate Tool for Predicting lncRNAs Based on Multiple Features
Cited by: 6
Author(s): Lei Cao, Yupeng Wang, Changwei Bi, Qiaolin Ye, Tongming Yin, Ning Ye
Software Mentions: 4
Published: about 4 years ago

10.7554/eLife.25607

lncRNA requirements for mouse acute myeloid leukemia and normal differentiation
Cited by: 47
Author(s): M. Joaquina Delás, Leah R. Sabin, Egor Dolzhenko, Simon Knott, Ester Munera Maravilla, Benjamin T. Jackson, Sophia A Wild, Tatjana Kovačević, Eva Maria Stork, Meng Zhou, Nicolas Erard, Emily Lee, David R. Kelley, Mareike Roth, Inês Barbosa, Johannes Zuber, John L. Rinn, Andrew D. Smith, Gregory J. Hannon
Software Mentions: 4
Published: about 7 years ago

10.1186/s12865-020-00344-1

Identification of differentially expressed circulating exosomal lncRNAs in IgA nephropathy patients
Cited by: 17
Author(s): Na Guo, Qin Zhou, Xiang Huang, Jia-Kuo Yu, Qianqian Han, Baoting Nong, Yuanyan Xiong, Peifeng Liang, Jiajia Li, Min Feng, Jun Lv, Qiongqiong Yang
Software Mentions: 4
Published: over 4 years ago

10.1186/s12864-019-5832-9

A survey of transcriptome complexity using PacBio single-molecule real-time analysis combined with Illumina RNA sequencing for a better understanding of ricinoleic acid biosynthesis in Ricinus communis
Cited by: 23
Author(s): Lijun Wang, Xiaoling Jiang, Lei Wang, Wei Wang, Chunling Fu, Xin Yan, Xinxin Geng
Software Mentions: 4
Published: over 5 years ago

10.1038/s41598-020-80635-0

Differentially expressed lncRNAs in liver tissues of TX mice with hepatolenticular degeneration
Cited by: 5
Author(s): Juan Zhang, Ying Ma, Denghui Xie, Bao Yuan-cheng, Weiren Yang, Han Wang, Huaizhou Jiang, Hui Han, Ting Dong
Software Mentions: 4
Published: almost 4 years ago

10.3389/fvets.2021.644474

Identification of Photoperiod-Induced LncRNAs and mRNAs in Pituitary Pars Tuberalis of Sheep
Cited by: 10
Author(s): Qing Xia, Mingxing Chu, Xiaoyun He, Qiuyue Liu, Xiaosheng Zhang, Jinlong Zhang, Xiaofei Guo, Ran Di
Software Mentions: 3
Published: over 3 years ago

10.3390/ani11082263

Identification and Characterization of lncRNA and mRNA in Testes of Landrace and Hezuo Boars
Cited by: 4
Author(s): Bo Zhang, Zunqiang Yan, Pengfei Wang, Qiaoli Yang, Xiaoyu Huang, Huidong Shi, Yuran Tang, Yanan Ji, Juanli Zhang, Shuangbao Gun
Software Mentions: 3
Published: over 3 years ago

10.1186/s12859-017-1714-9

Integration of quantitated expression estimates from polyA-selected and rRNA-depleted RNA-seq libraries
Cited by: 26
Author(s): Stephen J. Bush, Mary E. B. McCulloch, Kim M. Summers, David Hume, Emily L. Clark
Software Mentions: 3
Published: over 7 years ago

10.1186/s12859-019-3033-9

MiPepid: MicroPeptide identification tool using machine learning
Cited by: 46
Author(s): Mengmeng Zhu, Michael Gribskov
Software Mentions: 3
Published: about 5 years ago

10.1186/s12885-019-5715-0

A novel long non-coding RNA from the HOXA6-HOXA5 locus facilitates colon cancer cell growth
Cited by: 6
Author(s): Saki Saijo, Yuki Kuwano, Shoichiro Tange, Kazuhito Rokutan, Kensei Nishida
Software Mentions: 3
Published: over 5 years ago

10.1186/s12885-021-07900-x

Super-enhancer-associated long noncoding RNA AC005592.2 promotes tumor progression by regulating OLFM4 in colorectal cancer
Cited by: 7
Author(s): Yan Liu, Huanhuan Chen, Li Tang, Pan Jiang, Feng Yan
Software Mentions: 3
Published: over 3 years ago

10.1186/s12875-016-0538-4

Using program evaluation to support knowledge translation in an interprofessional primary care team: a case study
Cited by: 6
Author(s): Catherine Donnelly, Lyn M. Shulha, Don A. Klinger, Lori Letts
Software Mentions: 3
Published: about 8 years ago

10.1186/s12864-017-3858-4

Identification and characterization of long intergenic noncoding RNAs in bovine mammary glands
Cited by: 51
Author(s): Chao Tong, Qiaoling Chen, Lili Zhao, Junfei Ma, Eveline M. Ibeagha‐Awemu, Xin Zhao
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-017-4232-2

Genome-wide identification of miRNAs and lncRNAs in Cajanus cajan
Cited by: 26
Author(s): Chandran Nithin, Amal Thomas, Jolly Basak, Ranjit Prasad Bahadur
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-015-1633-y

De novo transcriptome characterization and gene expression profiling of the desiccation tolerant moss Bryum argenteum following rehydration
Cited by: 51
Author(s): Bei Gao, Daoyuan Zhang, Xiaoshuang Li, Yang Hong-yuan, Yuanming Zhang, Andrew J. Wood
Software Mentions: 3
Published: over 9 years ago

10.1186/s12864-018-5183-y

Improved Macaca fascicularis gene annotation reveals evolution of gene expression profiles in multiple tissues
Cited by: 4
Author(s): Tao Tan, Lin Xia, Kailing Tu, Jie Tang, Senlin Yin, Lunzhi Dai, Peng Lei, Biao Dong, Hongbo Hu, Yong Fan, Yang Yu, Dan Xie
Software Mentions: 3
Published: about 6 years ago

10.1186/s12864-021-08035-w

Construction of a ceRNA network in glioma and analysis of its clinical significance
Cited by: 4
Author(s): Guangdong Liu, Haihong Li, Wenyang Ji, Haidong Gong, Yan Jiang, Guomin Ji
Software Mentions: 3
Published: about 3 years ago

10.1186/s12864-019-5497-4

PLAIDOH: a novel method for functional prediction of long non-coding RNAs identifies cancer-specific LncRNA activities
Cited by: 28
Author(s): Sarah C. Pyfrom, Hong Luo, Jacqueline E. Payton
Software Mentions: 3
Published: almost 6 years ago

10.1186/s12864-018-4665-2

Prediction of plant lncRNA by ensemble machine learning classifiers
Cited by: 48
Author(s): Caitlin M. A. Simopoulos, Elizabeth A. Weretilnyk, G. Brian Golding
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-021-07421-8

Genome-wide identification and functional prediction of long non-coding RNAs in Sprague-Dawley rats during heat stress
Cited by: 4
Author(s): Junling Dou, F.S. Schenkel, Lirong Hu, Adnan Khan, Muhammad Zahoor Khan, Ying Yu, Yajing Wang
Software Mentions: 3
Published: almost 4 years ago

10.1186/s12864-019-5903-y

Systematic identification of intergenic long-noncoding RNAs in mouse retinas using full-length isoform sequencing
Cited by: 17
Author(s): Ying Wan, Xiaoyang Liu, Dongwang Zheng, Yuying Wang, Huan Chen, Xiaofeng Zhao, Guozheng Liang, Dongliang Yu, Lin Gan
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-015-2088-x

De novo assembly and sex-specific transcriptome profiling in the sand fly Phlebotomus perniciosus (Diptera, Phlebotominae), a major Old World vector of Leishmania infantum
Cited by: 22
Author(s): Valeria Petrella, Serena Aceto, Francesco Musacchia, Vincenza Colonna, Mark D. Robinson, Vladimı́r Beneš, G. Cicotti, Gioia Bongiorno, Luigi Gradoni, Petr Volf, Marco Salvemini
Software Mentions: 3
Published: about 9 years ago

10.1186/s12864-020-07237-y

Predicting Long non-coding RNAs through feature ensemble learning
Cited by: 3
Author(s): Yanzhen Xu, Xiaohan Zhao, Shuai Liu, Wen Zhang
Software Mentions: 3
Published: almost 4 years ago

10.1186/s12864-020-07055-2

Integrated analysis of lncRNA, miRNA and mRNA reveals novel insights into the fertility regulation of large white sows
Cited by: 10
Author(s): Huiyan Hu, Qiong Jia, Jianzhong Xi, Bo Zhou, Zhiqiang Li
Software Mentions: 3
Published: about 4 years ago

10.1186/s12864-016-2707-1

The floral transcriptomes of four bamboo species (Bambusoideae; Poaceae): support for common ancestry among woody bamboos
Cited by: 32
Author(s): William P. Wysocki, Eduardo Ruiz‐Sánchez, Yanbin Yin, Melvin R. Duvall
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-021-07969-5

Integrated analysis of lncRNA and mRNA in liver of Megalobrama amblycephala post Aeromonas hydrophila infection
Cited by: 7
Author(s): Qianhui Sun, Jixiu Wang, Guowen Wang, Huanling Wang, Hong Liu
Software Mentions: 3
Published: about 3 years ago

10.1186/1471-2164-14-789

Identification of novel transcripts and noncoding RNAs in bovine skin by deep next generation sequencing
Cited by: 115
Author(s): Rosemarie Weikard, Frieder Hadlich, Christa Kühn
Software Mentions: 3
Published: almost 12 years ago

10.1186/1471-2164-15-499

Identification of large intergenic non-coding RNAs in bovine muscle using next-generation transcriptomic sequencing
Cited by: 105
Author(s): Coline Billerey, Mekki Boussaha, Diane Esquerré, Emmanuelle Rebours, Anis Djari, Cédric Meersseman, Christophe Klopp, Daniel Gautheret, Dominique Rocha
Software Mentions: 3
Published: over 10 years ago

10.1186/s12864-020-06894-3

PacBio single molecule long-read sequencing provides insight into the complexity and diversity of the Pinctada fucata martensii transcriptome
Cited by: 13
Author(s): Hua Zhang, Hanzhi Xu, Huiru Liu, Xiaolan Pan, Meng Xu, Gege Zhang, Maoxian He
Software Mentions: 3
Published: over 4 years ago

10.1186/s12864-020-07195-5

Characterizing glycosyltransferases by a combination of sequencing platforms applied to the leaf tissues of Stevia rebaudiana
Cited by: 12
Author(s): Shaoshan Zhang, Qiong Liu, Chengcheng Lyu, Jinsong Chen, Ruofu Xiao, Jingtian Chen, Yunshu Yang, Huihui Zhang, Kai Hou, Wei Wu
Software Mentions: 3
Published: about 4 years ago

10.1186/1471-2318-14-138

Pain assessment for people with dementia: a systematic review of systematic reviews of pain assessment tools
Cited by: 200
Author(s): Valentina Lichtner, Dawn Dowding, Philip Esterhuizen, S. José Closs, Andrew Long, Anne Corbett, Michelle Briggs
Software Mentions: 3
Published: almost 10 years ago

10.1186/s12870-021-03195-z

LncRNA TCONS_00021861 is functionally associated with drought tolerance in rice (Oryza sativa L.) via competing endogenous RNA regulation
Cited by: 30
Author(s): Jiajia Chen, Yuqing Zhong, Xin Qi
Software Mentions: 3
Published: about 3 years ago

10.1186/s12870-019-2133-z

Single-molecule real-time sequencing facilitates the analysis of transcripts and splice isoforms of anthers in Chinese cabbage (Brassica rapa L. ssp. pekinensis)
Cited by: 15
Author(s): Chong Tan, Hongxin Liu, Jie Ren, Xueling Ye, Hui Feng, Yong Li
Software Mentions: 3
Published: almost 5 years ago

10.1186/s12870-021-02989-5

Characterization of full-length transcriptome in Saccharum officinarum and molecular insights into tiller development
Cited by: 10
Author(s): Haifeng Yan, Huiwen Zhou, Hanmin Luo, Yanting Fan, Zhongfeng Zhou, Rongfa Chen, Ting Luo, Xujuan Li, Xin-long Liu, Yang‐Rui Li, Lihang Qiu, Jianming Wu
Software Mentions: 3
Published: over 3 years ago

10.1186/1745-6150-9-15

Exploring the stability of long intergenic non-coding RNA in K562 cells by comparative studies of RNA-Seq datasets
Cited by: 6
Author(s): Lei Wang, Dequan Zhou, Jing Tu, Yan Wang, Lu Zhang
Software Mentions: 3
Published: over 10 years ago

10.3390/biology10050371

Computational Analysis Predicts Hundreds of Coding lncRNAs in Zebrafish
Cited by: 5
Author(s): Shital Kumar Mishra, Han Wang
Software Mentions: 3
Published: over 3 years ago

10.1155/2016/8496165

Long Noncoding RNA Identification: Comparing Machine Learning Based Tools for Long Noncoding Transcripts Discrimination
Cited by: 33
Author(s): Siyu Han, Yanchun Liang, Ying Li, Wei Du
Software Mentions: 3
Published: almost 9 years ago

10.3390/v11060549

Lnc-ITM2C-1 and GPR55 Are Proviral Host Factors for Hepatitis C Virus
Cited by: 14
Author(s): Pan Hu, Jochen Wilhelm, Gesche K. Gerresheim, Lyudmila Shalamova, Michael Niepmann
Software Mentions: 3
Published: over 5 years ago

10.1186/s13007-020-00629-x

Analysis and comprehensive comparison of PacBio and nanopore-based RNA sequencing of the Arabidopsis transcriptome
Cited by: 60
Author(s): Jiawen Cui, Nan Shen, Zhaogeng Lu, Guolu Xu, Yuyao Wang, Biao Jin
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pgen.1005680

LncRNA-HIT Functions as an Epigenetic Regulator of Chondrogenesis through Its Recruitment of p100/CBP Complexes
Cited by: 54
Author(s): Hanqian L. Carlson, Jeffrey J. Quinn, Yul W. Yang, Chelsea K. Thornburg, Howard Y. Chang, H. Scott Stadler
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.pgen.1006482

A Point Mutation in a lincRNA Upstream of GDNF Is Associated to a Canine Insensitivity to Pain: A Spontaneous Model for Human Sensory Neuropathies
Cited by: 26
Author(s): Jocelyn Plassais, Laëtitia Lagoutte, Solenne Correard, Manon Paradis, É. Guaguère, Benoît Hédan, Alix Pommier, Nadine Botherel, Marie‐Christine Cadiergues, Philippe Pilorge, David W. Silversides, Maud Bizot, Mark E. Samuels, Carme Arnan, Rory Johnson, Christophe Hitte, Gilles Salbert, Agnès Méreau, Pascale Quignon, Thomas Derrien, Catherine André
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pntd.0008351

Genome-wide identification of Aedes albopictus long noncoding RNAs and their association with dengue and Zika virus infection
Cited by: 17
Author(s): Azali Azlan, Sattam M. Obeidat, Kumitaa Theva Das, Muhammad Amir Yunus, Ghows Azzam
Software Mentions: 3
Published: almost 4 years ago

10.1371/journal.pone.0191682

The long noncoding RNA lncR492 inhibits neural differentiation of murine embryonic stem cells
Cited by: 15
Author(s): Maria Winzi, Núria Casas-Vila, Maciej Paszkowski‐Rogacz, Li Ding, Svenja Noack, Mirko Theis, Falk Butter, Frank Buchholz
Software Mentions: 3
Published: almost 7 years ago

10.1371/journal.pone.0172389

Analysis of long noncoding RNA and mRNA using RNA sequencing during the differentiation of intramuscular preadipocytes in chicken
Cited by: 34
Author(s): Tao Zhang, Xiangqian Zhang, Kai Han, Genxi Zhang, Jinyu Wang, Kaizhou Xie, Qingwu Xue, Xiaolong Fan
Software Mentions: 3
Published: almost 8 years ago

10.1371/journal.pone.0138236

Long Noncoding RNA Expression during Human B-Cell Development
Cited by: 73
Author(s): Andreas Petri, Karen Dybkær, Martin Bøgsted, Charlotte Albæk Thrue, Peter Hagedorn, Alexander Schmitz, Julie Støve Bødker, Hans Erik Johnsen, Sakari Kauppinen
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pone.0139654

lncRScan-SVM: A Tool for Predicting Long Non-Coding RNAs Using Support Vector Machine
Cited by: 86
Author(s): Lei Sun, Hui Liu, Lin Zhang, Jia Meng
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pone.0193898

Identification of long noncoding RNAs involved in muscle differentiation
Cited by: 18
Author(s): Yeong Hwan Lim, Duk-Hwa Kwon, Jaetaek Kim, Woo Jin Park, Hyun Kook, Young Kook Kim
Software Mentions: 3
Published: over 6 years ago

10.1038/s41419-019-1331-9

Long noncoding RNA EGFR-AS1 promotes cell growth and metastasis via affecting HuR mediated mRNA stability of EGFR in renal cancer
Cited by: 95
Author(s): Anbang Wang, Yi Bao, Zhenjie Wu, Tangliang Zhao, Dong Wang, Jianhui Shi, Bing Liu, Shuhan Sun, Fusheng Yang, Linhui Wang, Le Qu
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41419-019-1566-5

KLF5 regulated lncRNA RP1 promotes the growth and metastasis of breast cancer via repressing p27kip1 translation
Cited by: 57
Author(s): Xiaoting Jia, Lejuan Shi, Xiaorong Wang, Li Luo, Ling Li, Jun Yin, Ying Song, Zhijie Zhang, Ni Qiu, Hao Líu, Min Deng, Zhiwei He, Hongsheng Li, Guopei Zheng
Software Mentions: 3
Published: over 5 years ago

10.1038/s41419-019-2137-5

The MS-lincRNA landscape reveals a novel lincRNA BCLIN25 that contributes to tumorigenesis by upregulating ERBB2 expression via epigenetic modification and RNA–RNA interactions in breast cancer
Cited by: 11
Author(s): Shouping Xu, Hongbo Liu, Lin Wan, Weijia Zhang, Qin Wang, Shumei Zhang, Shuai Shang, Yan Zhang, Da Pang
Software Mentions: 3
Published: almost 5 years ago

10.1038/s41419-020-2557-2

LncRNA SNORD3A specifically sensitizes breast cancer cells to 5-FU by sponging miR-185-5p to enhance UMPS expression
Cited by: 31
Author(s): Li Luo, Jianlei Zhang, Hailin Tang, Dongfeng Zhai, Dongzhou Huang, Ling Li, Xiaorong Wang, Ting Liu, Qiong Zhang, Zhijie Zhang, Zhiwei He, Guopei Zheng
Software Mentions: 3
Published: over 4 years ago

10.1038/s41420-020-00368-x

Argonaute 2 is a key regulator of maternal mRNA degradation in mouse early embryos
Cited by: 10
Author(s): Jiaming Zhang, Weibo Hou, Jiawei Du, Min‐Hua Zong, Kai-lun Zheng, Weijia Wang, Jiaqiang Wang, Heng Zhang, Yanshuang Mu, Zhi Yin, Chunming Ding, Qing‐Yuan Sun, Liu Z, Qingran Kong
Software Mentions: 3
Published: almost 4 years ago

10.1111/cpr.12738

SPAG5‐AS1 inhibited autophagy and aggravated apoptosis of podocytes via SPAG5/AKT/mTOR pathway
Cited by: 52
Author(s): Jun Xu, Yujie Deng, Yi Wang, Xiaofang Sun, Shuqin Chen, Guoxiang Fu
Software Mentions: 3
Published: almost 5 years ago

10.1038/s42003-020-01289-2

The E3 ubiquitin ligase HectD3 attenuates cardiac hypertrophy and inflammation in mice
Cited by: 14
Author(s): Ashraf Yusuf Rangrez, Ankush Borlepawar, Nesrin Schmiedel, Anushka Deshpande, Anca Remes, Manju Kumari, Alexander Bernt, Lynn Christen, Andreas O. Helbig, Andreas Jungmann, Samuel Sossalla, Andreas Tholey, Oliver Müller, Norbert Frey
Software Mentions: 3
Published: about 4 years ago

10.1016/j.csbj.2016.07.002

Well-characterized sequence features of eukaryote genomes and implications for ab initio gene prediction
Cited by: 10
Author(s): Ying Huang, Shiyi Chen, Feilong Deng
Software Mentions: 3
Published: almost 9 years ago

10.1093/dnares/dsv008

Genome-wide view of natural antisense transcripts in Arabidopsis thaliana
Cited by: 41
Author(s): Chunhui Yuan, Jingjing Wang, Andrew Harrison, Xianwen Meng, Dijun Chen, Ming Chen
Software Mentions: 3
Published: over 9 years ago

10.1093/database/baab053

OUP accepted manuscript
Cited by: 3
Author(s): Yi-Wei Lee, Ming Chen, I‐Fang Chung, Ting‐Yu Chang
Software Mentions: 3
Published: almost 4 years ago

10.15252/embj.2020107134

LncRNA <i>VEAL2</i> regulates PRKCB2 to modulate endothelial permeability in diabetic retinopathy
Cited by: 27
Author(s): Paras Sehgal, Samatha Mathew, Ambily Sivadas, Ray A, Jyoti Tanwar, Sushma Vishwakarma, Gyan Ranjan, K. V. Shamsudheen, Rahul C. Bhoyar, Abhishek Pateria, Elvin Leonard, Mukesh Kumar Lalwani, Archana Vats, Rajeev Reddy Pappuru, Mudit Tyagi, Saumya Jakati, Shantanu Sengupta, B. Binukumar, Subhabrata Chakrabarti, Inderjeet Kaur, Rajender K. Motiani, Vinod Scaria, Sridhar Sivasubbu
Software Mentions: 3
Published: over 3 years ago

10.1186/s13072-018-0178-0

Alterations in sperm DNA methylation, non-coding RNA and histone retention associate with DDT-induced epigenetic transgenerational inheritance of disease
Cited by: 134
Author(s): Michael K. Skinner, Millissia Ben Maamar, Ingrid Sadler‐Riggleman, Daniel Beck, Eric Nilsson, Margaux McBirney, Rachel Klukovich, Yeming Xie, Chong Tang, Wei Yan
Software Mentions: 3
Published: over 6 years ago

10.3389/fcell.2021.643043

The Tyrosine Kinase-Driven Networks of Novel Long Non-coding RNAs and Their Molecular Targets in Myeloproliferative Neoplasms
Cited by: 3
Author(s): Nonthaphat Kent Wong, Shuai Luo, Eudora Y.D. Chow, Fei Meng, Adenike Ebunoluwa Adesanya, Jiahong Sun, Hildegard Herman, Wenfei Jin, Wan Chun Li, Shea Ping Yip, Chien Ling Huang
Software Mentions: 3
Published: over 3 years ago

10.3389/fgene.2020.00090

NCResNet: Noncoding Ribonucleic Acid Prediction Based on a Deep Resident Network of Ribonucleic Acid Sequences
Cited by: 10
Author(s): Sen Yang, Yan Wang, Shuangquan Zhang, Xuemei Hu, Qin Ma, Yuan Tian
Software Mentions: 3
Published: over 4 years ago

10.3389/fgene.2019.00668

A Gene Expression Atlas of the Domestic Water Buffalo (Bubalus bubalis)
Cited by: 28
Author(s): Rachel Young, Lucas Lefèvre, Stephen J. Bush, Akshay Joshi, Shailesh Kumar Singh, Santosh Kumar Jadhav, Dhanikachalam Velu, Zofia M. Lisowski, Daniela Iamartino, Kim M. Summers, J. L. Williams, Alan Archibald, S. B. Gokhale, Satish Kumar, David Hume
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2021.681680

Novel Insights Into Genetic Responses for Waterlogging Stress in Two Local Wheat Cultivars in Yangtze River Basin
Cited by: 3
Author(s): Mingmei Wei, Xiu Li, Rui Yang, Liulong Li, Zhuangzhi Wang, Xiaoyan Wang, Aihua Sha
Software Mentions: 3
Published: over 3 years ago

10.3389/fgene.2021.656137

Single-Molecule Real-Time and Illumina-Based RNA Sequencing Data Identified Vernalization-Responsive Candidate Genes in Faba Bean (Vicia faba L.)
Cited by: 3
Author(s): Xuesong Yuan, Qiong Wang, Bin Yan, Jiong Zhang, Chenchen Xue, Jingbin Chen, Yun Lin, Xiaoyan Zhang, Wenbiao Shen, Xin Chen
Software Mentions: 3
Published: over 3 years ago

10.3389/fimmu.2014.00655

Long Non-Coding RNA BST2/BISPR is Induced by IFN and Regulates the Expression of the Antiviral Factor Tetherin
Cited by: 84
Author(s): Marina Barriocanal, Elena Carnero, Víctor Segura, Puri Fortes
Software Mentions: 3
Published: almost 10 years ago

10.3389/fonc.2019.01340

The TGFβ-Induced Long Non-coding RNA TBULC Promotes the Invasion and Migration of Non-small Cell Lung Cancer Cells and Indicates Poor Prognosis
Cited by: 4
Author(s): Sufei Zheng, Zhiliang Lu, Chengming Liu, Xinfeng Wang, Runsen Jin, Shuangshuang Mao, Jianbing Huang, Yuanyuan Lei, Chaoqi Zhang, Nan Sun, Jie He
Software Mentions: 3
Published: almost 5 years ago

10.3389/fvets.2021.639053

Identification of Long Non-coding RNA Isolated From Naturally Infected Macrophages and Associated With Bovine Johne's Disease in Canadian Holstein Using a Combination of Neural Networks and Logistic Regression
Cited by: 8
Author(s): Andrew Marete, Olivier Ariel, Eveline M. Ibeagha‐Awemu, Nathalie Bissonnette
Software Mentions: 3
Published: over 3 years ago

10.1534/g3.119.200997

Full-Length Transcriptome Sequencing and the Discovery of New Transcripts in the Unfertilized Eggs of Zebrafish (<i>Danio rerio</i>)
Cited by: 14
Author(s): Rumana Mehjabin, Lv Xiong, Rong Huang, Yang Cheng, Geng Chen, Libo He, Lanjie Liao, Zhu Zhang, Yaping Wang
Software Mentions: 3
Published: over 5 years ago

10.3390/genes10030201

Transcriptomic Analysis of Coding Genes and Non-Coding RNAs Reveals Complex Regulatory Networks Underlying the Black Back and White Belly Coat Phenotype in Chinese Wuzhishan Pigs
Cited by: 6
Author(s): Qiao Xu, Ximing Liu, Zhe Chao, Kejun Wang, Jue Wang, Qiguo Tang, Yabiao Luo, Jie Zheng, Shanzhong Tan, Meiying Fang
Software Mentions: 3
Published: over 5 years ago

10.3390/genes10090689

High-Throughput RNA Sequencing Reveals NDUFC2-AS lncRNA Promotes Adipogenic Differentiation in Chinese Buffalo (Bubalus bubalis L)
Cited by: 19
Author(s): Jieping Huang, Qiuzhi Zheng, Shuzhe Wang, Xuefeng Wei, Fen Li, Yun Ma
Software Mentions: 3
Published: about 5 years ago

10.1186/s12711-016-0275-0

Long noncoding RNA repertoire in chicken liver and adipose tissue
Cited by: 52
Author(s): Kévin Muret, Christophe Klopp, Valentin Wucher, Diane Esquerré, Fabrice Legeai, Frédéric Lecerf, Colette Désert, Morgane Boutin, Frédéric Jehl, Hervé Acloque, Elisabetta Giuffra, Sarah Djebali, Sylvain Foissac, Thomas Derrien, Sandrine Lagarrigue
Software Mentions: 3
Published: almost 8 years ago

10.1186/s13073-015-0230-7

Transcriptome sequencing reveals thousands of novel long non-coding RNAs in B cell lymphoma
Cited by: 56
Author(s): Akanksha Verma, Yanwen Jiang, Wei Du, Lauren Fairchild, Ari Melnick, Olivier Elemento
Software Mentions: 3
Published: about 9 years ago

10.1186/s40104-021-00582-2

Comprehensive analysis of coding and non-coding RNA transcriptomes related to hypoxic adaptation in Tibetan chickens
Cited by: 6
Author(s): Ying Zhang, Woyu Su, Bo Zhang, Ling Yao, Woo Kyun Kim
Software Mentions: 3
Published: over 3 years ago

10.7150/jca.52413

LncRNA loc339803 acts as CeRNA of miR-30a-5p to promote the migration and invasion of hepatocellular carcinoma cells
Cited by: 9
Author(s): Cailin Xue, Xudong Zhang, Peng Gao, Xiaoping Chen, Chen Zhu, Xihu Qin
Software Mentions: 3
Published: almost 4 years ago

10.1111/jcmm.15897

LncRNA ARAP1‐AS2 promotes high glucose‐induced human proximal tubular cell injury via persistent transactivation of the EGFR by interacting with ARAP1
Cited by: 15
Author(s): Xin Li, Kui Tian, Song Wen, Lu Lu Li, Li‐Yan Xu, Xin Zhu, Cong Xiao Zhang, Nan Liu, Xu Wang, Qiu Ling Fan
Software Mentions: 3
Published: about 4 years ago

10.1038/srep45981

Genome-wide identification and functional prediction of cold and/or drought-responsive lncRNAs in cassava
Cited by: 93
Author(s): Shuxia Li, Xiang Yu, Lei Ning, Zhihao Cheng, Pingjuan Zhao, Yuqing He, Wenquan Wang, Ming Peng
Software Mentions: 3
Published: over 7 years ago

10.1038/s41598-018-33078-7

Landscape of alternative splicing in Capra_hircus
Cited by: 3
Author(s): Tieshan Xu, Xu Feng, Lihong Gu, Guang Rong, Li Mao, Fei Qiao, Liguang Shi, Dingfa Wang, Wanliang Xia, Wenjuan Xun, Ting Cao, Yiming Liu, Zhemin Lin, Hanlin Zhou
Software Mentions: 3
Published: about 6 years ago

10.1038/s41598-018-38141-x

Analysis of long non-coding RNA and mRNA expression in bovine macrophages brings up novel aspects of Mycobacterium avium subspecies paratuberculosis infections
Cited by: 22
Author(s): Pooja Gupta, Sarah Peter, Markus Jung, Astrid Lewin, Georg Hemmrich-Stanisak, André Franke, Max von Kleist, Christof Schütte, Ralf Einspanier, Soroush Sharbati, Jennifer zur Bruegge
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-019-38741-1

Environmental Toxicant Induced Epigenetic Transgenerational Inheritance of Prostate Pathology and Stromal-Epithelial Cell Epigenome and Transcriptome Alterations: Ancestral Origins of Prostate Disease
Cited by: 26
Author(s): Rachel Klukovich, Eric Nilsson, Ingrid Sadler‐Riggleman, Daniel Beck, Yeming Xie, Wei Yan, Michael K. Skinner
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-019-39286-z

Comprehensive identification of the full-length transcripts and alternative splicing related to the secondary metabolism pathways in the tea plant (Camellia sinensis)
Cited by: 41
Author(s): Dahe Qiao, Chun Yang, Juan Chen, Yan Guo, Yán Li, Suzhen Niu, Kemei Cao, Zhengwu Chen
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-019-44195-2

Regulation of Cholesterol Homeostasis by a Novel Long Non-coding RNA LASER
Cited by: 16
Author(s): Chuanwei Li, Zhangxue Hu, Zhang Wen, Junyi Yu, Yang Yang, Zaicheng Xu, Hao Luo, Xiaoli Liu, Yukai Liu, Caiyu Chen, Yuchen Cai, Xuewei Xia, Xiaoqun Zhang, Dazhi Wang, Gengze Wu, Chunyu Zeng
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-019-47506-9

Systematic identification and characterization of Aedes aegypti long noncoding RNAs (lncRNAs)
Cited by: 34
Author(s): Azali Azlan, Sattam M. Obeidat, Muhammad Amir Yunus, Ghows Azzam
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-019-51176-y

SMRT sequencing of full-length transcriptome of seagrasses Zostera japonica
Cited by: 18
Author(s): Siting Chen, Guanglong Qiu, Ming Yang
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-020-66582-w

Full-length transcript sequencing accelerates the transcriptome research of Gymnocypris namensis, an iconic fish of the Tibetan Plateau
Cited by: 8
Author(s): Hongyu Luo, Haiping Li, Jie Zhang, Bingjie Hu, Chaowei Zhou, Mengbin Xiang, Y J Yang, Mingrui Zhou, Tingsen Jing, Zhe Li, Xinghua Zhou, Guangjun Lv, Wei He, Benhe Zeng, Shijun Xiao, Qinglu Li, Hua Ye
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-021-95054-y

Atypical DNA methylation, sRNA-size distribution, and female gametogenesis in Utricularia gibba
Cited by: 4
Author(s): Sergio Alan Cervantes-Pérez, Lenin Yong-Villalobos, Nathalia Flórez-Zapata, Araceli Oropeza-Aburto, Félix Rico-Reséndiz, Itzel Amasende-Morales, Tianying Lan, Octavio Martínez, Jean‐Philippe Vielle‐Calzada, Victor A. Albert, Luis Herrera‐Estrella
Software Mentions: 3
Published: over 3 years ago

10.1186/s13046-020-01622-x

Non-coding RNAs in cancer: platforms and strategies for investigating the genomic “dark matter”
Cited by: 110
Author(s): Katia Grillone, Caterina Riillo, Francesca Scionti, Roberta Rocca, Giuseppe Tradigo, Pietro Hiram Guzzi, Stefano Alcaro, Maria Teresa Di Martino, Pierosandro Tagliaferri, Pierfrancesco Tassone
Software Mentions: 3
Published: over 4 years ago

10.7150/ijms.51743

Identifying daily changes in circRNAs and circRNA-associated-ceRNA networks in the rat pineal gland
Cited by: 5
Author(s): Yi Zheng, Hao Jiang, Hao-Qi Wang, Haixiang Guo, Dong-Xu Han, Yongping Huang, Yan Gao, Bao Yuan
Software Mentions: 3
Published: almost 4 years ago

10.1038/s41389-020-0217-0

The long non-coding RNA PIK3CD-AS2 promotes lung adenocarcinoma progression via YBX1-mediated suppression of p53 pathway
Cited by: 26
Author(s): Xiufen Zheng, Junying Zhang, Fang Tian, Xiaoxiao Wang, Siwei Wang, Zhongliang Ma, Yongming Xu, Chencheng Han, Mengting Sun, Lin Xu, Jie Wang, Rong Yin
Software Mentions: 3
Published: over 4 years ago

10.7554/eLife.68263

PHAROH lncRNA regulates Myc translation in hepatocellular carcinoma via sequestering TIAR
Cited by: 14
Author(s): Aihong Yu, Carmen Berasain, Sonam Bhatia, Keith Rivera, Bodu Liu, Frank Rigo, Darryl Pappin, David L. Spector
Software Mentions: 3
Published: over 3 years ago

10.3390/ijms19113610

Transcriptome Analysis of Long Non-Coding RNA in the Bovine Mammary Gland Following Dietary Supplementation with Linseed Oil and Safflower Oil
Cited by: 19
Author(s): Eveline M. Ibeagha‐Awemu, Ran Li, Pier-Luc Dudemaine, Duy Ngoc, Nathalie Bissonnette
Software Mentions: 3
Published: about 6 years ago

10.3390/ijms21093292

Identification and Annotation of Potential Function of Regulatory Antisense Long Non-Coding RNAs Related to Feed Efficiency in Bos taurus Bulls
Cited by: 10
Author(s): Wietje Nolte, Rosemarie Weikard, Ronald M. Brunner, Elke Albrecht, H.M. Hammon, Antônio Reverter, Christa Küehn
Software Mentions: 3
Published: over 4 years ago

10.3390/ijms21155222

lncRNA_Mdeep: An Alignment-Free Predictor for Distinguishing Long Non-Coding RNAs from Protein-Coding Transcripts by Multimodal Deep Learning
Cited by: 11
Author(s): Xiao-Nan Fan, Shaowu Zhang, Song-Yao Zhang, Jinjie Ni
Software Mentions: 3
Published: over 4 years ago

10.3390/ijms22168719

Advances in Computational Methodologies for Classification and Sub-Cellular Locality Prediction of Non-Coding RNAs
Cited by: 11
Author(s): Muhammad Nabeel Asim, Muhammad Ali Ibrahim, Muhammad Imran Malik, Andreas Dengel, Sheraz Ahmed
Software Mentions: 3
Published: over 3 years ago

10.3390/ijms22168951

OTX2 Homeoprotein Functions in Adult Choroid Plexus
Cited by: 4
Author(s): Anabelle Planques, Vanessa Oliveira Moreira, David Benacom, C. Bernard, Laurent Jourdren, Corinne Blugeon, Florent Dingli, Vanessa Masson, Damarys Loew, Alain Prochiantz, Ariel A. Di Nardo
Software Mentions: 3
Published: over 3 years ago

10.1186/s12986-020-00467-7

Integrated analysis of differentially expressed long noncoding RNAs and mRNAs associated with high-fat diet-induced hepatic insulin resistance in mice
Cited by: 1
Author(s): Zengyuan Zhou, Xue Zhao, Liang Chen, Yuzheng Li, Chen Zhao, Yuanyuan Wang, Zihao Zhou, Xia Chu
Software Mentions: 2
Published: over 4 years ago

10.1038/s41419-018-0528-7

Long non-coding RNA Lnc-Tim3 exacerbates CD8 T cell exhaustion via binding to Tim-3 and inducing nuclear translocation of Bat3 in HCC
Cited by: 109
Author(s): Jie Ji, Yin Yin, Huanyu Ju, Xiaoliang Xu, Wei Liu, Qiang Fu, Jiaojiao Hu, Xudong Zhang, Beicheng Sun
Software Mentions: 2
Published: over 6 years ago

10.1038/cddis.2015.203

A novel lncRNA, LUADT1, promotes lung adenocarcinoma proliferation via the epigenetic suppression of p27
Cited by: 94
Author(s): Mantang Qiu, Yingying Xu, Jinfan Wang, E Zhang, Ming Sun, Yuxiao Zheng, M Li, Wenjie Xia, Dan Feng, Rong Yin, Lin Xu
Software Mentions: 2
Published: over 9 years ago

10.1038/s41419-018-0771-y

The novel long noncoding RNA u50535 promotes colorectal cancer growth and metastasis by regulating CCL20
Cited by: 26
Author(s): Xihu Yu, Zixu Yuan, Zhaohui Yang, Daici Chen, Taewan Kim, Yejia Cui, Qianxin Luo, Zhihang Liu, Zihuan Yang, Xinjuan Fan, Dianke Chen, Lei Wang
Software Mentions: 2
Published: over 6 years ago