Ecosyste.ms: Papers

10.1371/journal.pone.0063604

Characterization of Gonadal Transcriptomes from Nile Tilapia (Oreochromis niloticus) Reveals Differentially Expressed Genes
Cited by: 172
Author(s): Wenjing Tao, Jing Yuan, Lei Zhou, Lina Sun, Yueru Sun, Shuli Yang, Minghui Li, Sheng Zeng, Biao Huang, Deshou Wang
Software Mentions: 1
Published: over 11 years ago

10.1093/dnares/dsw031

Z-DNA-forming sites identified by ChIP-Seq are associated with actively transcribed regions in the human genome
Cited by: 71
Author(s): So-I Shin, Seokjin Ham, Jihwan Park, Seong Hye Seo, Chae Hyun Lim, Hyeongrin Jeon, Jounghyun Huh, Tae-Young Roh
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0120678

Small Toxic Protein Encoded on Chromosome VII of Saccharomyces cerevisiae
Cited by: 5
Author(s): Koji Makanae, Reiko Kintaka, Kōji Ishikawa, Hisao Moriya
Software Mentions: 1
Published: over 9 years ago

10.1093/dnares/dsy048

De novo whole-genome assembly in Chrysanthemum seticuspe, a model species of Chrysanthemums, and its application to genetic and gene discovery analysis
Cited by: 61
Author(s): Hideki Hirakawa, Katsuhiko Sumitomo, Tamotsu Hashizume, Soichiro Nagano, Kenta Shirasawa, Y Higuchi, Makoto Kusaba, Masaji Koshioka, Yuzo Nakano, Masafumi Yagi, Hiroyasu Yamaguchi, Kenji Taniguchi, Michiharu Nakano, Sachiko Isobe
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0059685

Functional Impacts of NRXN1 Knockdown on Neurodevelopment in Stem Cell Models
Cited by: 53
Author(s): Liyun Zeng, Peilin Zhang, Lingling Shi, Vicky Yamamoto, Wange Lu, Kai Wang
Software Mentions: 1
Published: over 11 years ago

10.1016/j.dib.2020.106188

Transcriptome dataset from bark and latex tissues of three Hevea brasiliensis clones
Cited by: 2
Author(s): Mohd Fahmi Abu Bakar, Urwashi Kamerkar, Siti Nurfazilah Abdul Rahman, Muhd Khairul Luqman Muhd Sakaff, Ahmad Sofiman Othman
Software Mentions: 1
Published: about 4 years ago

10.1016/j.dib.2017.07.043

RNA-seq data of Oryza sativa cultivar Kuku Belang under PEG treatment
Cited by: 1
Author(s): Bernadette Toni, Hossein Hosseini Monfared, Mohd Noor Mat Isa, Nurulhikma Md Isa, Ismanizan Ismail, Zamri Zainal
Software Mentions: 1
Published: about 7 years ago

10.1016/j.dib.2017.06.001

Dataset on transcriptional profiles and the developmental characteristics of PDGFRα expressing lung fibroblasts
Cited by: 12
Author(s): Mehari Endale, Shawn K. Ahlfeld, Erik L. Bao, Marc E. Rothenberg, Jenna Green, Zach Bess, Matthew T. Weirauch, Yan Xu, Anne‐Karina T. Perl
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-13-529

Analysis of a native whitefly transcriptome and its sequence divergence with two invasive whitefly species
Cited by: 53
Author(s): Xiaowei Wang, Qiongyi Zhao, Jing Luan, Yujun Wang, Gen-Hong Yan, Shu‐Sheng Liu
Software Mentions: 1
Published: almost 13 years ago

10.1016/j.dib.2019.104288

Transcriptomic data of mature oil palm basal trunk tissue infected with Ganoderma boninense
Cited by: 4
Author(s): Nur Qistina Othman, Suhaila Sulaiman, Yang Ping Lee, Joon Sheong Tan
Software Mentions: 1
Published: over 5 years ago

10.1016/j.dib.2020.105910

Insight in the transcriptome data of hairy root disease-causing bacterium-Agrobacterium rhizogenes
Cited by: 0
Author(s): Akhilesh Yadav, Hariom Verma, Waquar Akhter Ansari, Asha Singh, Major Singh
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0070835

Comprehensive Characterization of 10,571 Mouse Large Intergenic Noncoding RNAs from Whole Transcriptome Sequencing
Cited by: 51
Author(s): Haitao Luo, Silong Sun, Ping Li, Dechao Bu, Haiming Cao, Yi Zhao
Software Mentions: 1
Published: over 11 years ago

10.1038/s41598-019-49177-y

Characterisation and localisation of the endocannabinoid system components in the adult human testis
Cited by: 46
Author(s): John Nielsen, Antoine Rolland, Ewa Rajpert–De Meyts, Christian Janfelt, Anne Jørgensen, Sofia B. Winge, David M. Kristensen, Anders Juul, Frédéric Chalmel, Bernard Jégou, Niels E. Skakkebæk
Software Mentions: 1
Published: about 5 years ago

10.5713/ajas.18.0718

Selection of candidate genes affecting meat quality and preliminary exploration of related molecular mechanisms in the Mashen pig
Cited by: 14
Author(s): Pengfei Gao, Zhimin Cheng, Meng Li, Ningfang Zhang, Baoyu Le, Wanfeng Zhang, Pengkang Song, Xiaohong Guo, Guoqing Cao
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0143549

Transcriptome Analysis Revealed Highly Expressed Genes Encoding Secondary Metabolite Pathways and Small Cysteine-Rich Proteins in the Sclerotium of Lignosus rhinocerotis
Cited by: 14
Author(s): Hui-Yeng Y. Yap, Yit‐Heng Chooi, Shin-Yee Fung, Szu-Ting Ng, Cher Siang Tan, Nget-Hong Tan
Software Mentions: 1
Published: almost 9 years ago

10.1016/j.dib.2019.104069

Physiological and RNA sequencing data of white lupin plants grown under Fe and P deficiency
Cited by: 5
Author(s): Laura Zanin, Silvia Venuti, Fabio Marroni, Alessandro Franco, Michèle Morgante, Roberto Pinton, Nicola Tomasi
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-020-07075-y

Transcriptome analysis of the hypothalamus and pituitary of turkey hens with low and high egg production
Cited by: 7
Author(s): Kristen Brady, Hsiao‐Ching Liu, Julie A. Hicks, Julie A. Long, Tom E. Porter
Software Mentions: 1
Published: about 4 years ago

10.1016/j.dib.2020.105228

Error-free and error-prone DNA repair gene expression data through reprogramming and passage in human iPS cells
Cited by: 1
Author(s): Yayoi Yoshimura, Daisuke Okuzaki
Software Mentions: 1
Published: over 4 years ago

10.3390/ijms22179574

Culturomics Approach to Identify Diabetic Foot Infection Bacteria
Cited by: 8
Author(s): Michał Złoch, Ewelina Maślak, Wojciech Kupczyk, Marek Jackowski, Paweł Pomastowski, Bogusław Buszewski
Software Mentions: 1
Published: about 3 years ago

10.1371/journal.pone.0229925

Bovistol B, bovistol D and strossmayerin: Sesquiterpene metabolites from the culture filtrate of the basidiomycete Coprinopsis strossmayeri
Cited by: 5
Author(s): Alice M. Banks, Lijiang Song, Gregory L. Challis, Andy M. Bailey, Gary D. Foster
Software Mentions: 1
Published: over 4 years ago

10.1016/j.dib.2020.105337

Dataset of Cavendish banana transcriptome in response to chitosan coating application
Cited by: 3
Author(s): Fenny Martha Dwivany, Husna Nugrahapraja, Eiichiro Fukusaki, Sastia Prama Putri, Cindy Novianti, Septhy Kusuma Radjasa, Tessa Fauziah, Lutfi Dewi Nirmala Sari
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0087361

A Pan-Cancer Analysis of Transcriptome Changes Associated with Somatic Mutations in U2AF1 Reveals Commonly Altered Splicing Events
Cited by: 154
Author(s): Angela N. Brooks, Peter S. Choi, Luc de Waal, Tanaz Sharifnia, Marcin Imieliński, Gordon Saksena, Chandra Sekhar Pedamallu, Andrey Sivachenko, Mara Rosenberg, Juliann Chmielecki, Michael S. Lawrence, David S. DeLuca, Gad Getz, Matthew Meyerson
Software Mentions: 1
Published: almost 11 years ago

10.1016/j.dib.2017.09.052

Long-read transcriptome data for improved gene prediction in Lentinula edodes
Cited by: 12
Author(s): Sin Gi Park, Seung il Yoo, Dong Sung Ryu, Hyunsung Lee, Yong Ju Ahn, Hojin Ryu, Junsu Ko, Chang Pyo Hong
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0111556

DNA Methylation and Transcription in a Distal Region Upstream from the Bovine AlphaS1 Casein Gene after Once or Twice Daily Milking
Cited by: 18
Author(s): Minh Anh Nguyen, Marion Boutinaud, Barbara Pétridou, Anne Gabory, Maëlle Pannetier, Sophie Chat, Stéphan Bouet, Luc Jouneau, Florence Jaffrézic, Dénis Laloë, Christophe Klopp, Nicolas Brun, Clémence Kress, Hélène Jammes, Madia Charlier, Ève Devinoy
Software Mentions: 1
Published: about 10 years ago

10.5713/ajas.18.0302

Muscle differentiation induced up-regulation of calcium-related gene expression in quail myoblasts
Cited by: 16
Author(s): Jeong-Woong Park, Jeong Hyo Lee, Seo Woo Kim, Ji Seon Han, Ki Ser Kang, Sung-Jo Kim, Tae Sub Park
Software Mentions: 1
Published: about 6 years ago

10.1186/1471-2164-15-521

Examining the condition-specific antisense transcription in S. cerevisiae and S. paradoxus
Cited by: 9
Author(s): Krishna B S Swamy, Chih-Hsu Lin, Ming‐Ren Yen, Chuen-Yi Wang, Daryi Wang
Software Mentions: 1
Published: over 10 years ago

10.1186/s13075-018-1754-1

Aberrant expression of interleukin-23-regulated miRNAs in T cells from patients with ankylosing spondylitis
Cited by: 12
Author(s): Ning‐Sheng Lai, Hui-Chun Yu, Chien-Hsueh Tung, Kuang-Yung Huang, Huey W. Huang, Ming‐Chi Lu
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0154892

Comparative Transcriptomics Reveals Key Gene Expression Differences between Diapausing and Non-Diapausing Adults of Culex pipiens
Cited by: 30
Author(s): Dukjin Kang, Michael A. Cotten, David L. Denlinger, Cheolho Sim
Software Mentions: 1
Published: over 8 years ago

10.1093/database/bau096

CarrotDB: a genomic and transcriptomic database for carrot
Cited by: 68
Author(s): Zhihong Xu, Huawei Tan, Feng Wang, Xilin Hou, Ai‐Sheng Xiong
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0117075

Variable Frequency of Plastid RNA Editing among Ferns and Repeated Loss of Uridine-to-Cytidine Editing from Vascular Plants
Cited by: 54
Author(s): Wenhu Guo, Felix Grewe, Jeffrey P. Mower
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2164-14-778

Finding the active genes in deep RNA-seq gene expression studies
Cited by: 183
Author(s): Traver Hart, H. Kiyomi Komori, Sarah A. LaMere, Katie Podshivalova, Daniel R. Salomon
Software Mentions: 1
Published: almost 12 years ago

10.1186/s12864-019-6266-0

The genomes of two parasitic wasps that parasitize the diamondback moth
Cited by: 14
Author(s): Min Shi, Zhizhi Wang, Xi-qian Ye, Hongqing Xie, Fĕi Li, Xiaoxiao Hu, Zehua Wang, Chuanlin Yin, Yuenan Zhou, Qijuan Gu, Jiani Zou, Le-qing Zhan, Yuan Yao, Jian Yang, Shu‐Jun Wei, Rongmin Hu, Dan Guo, Jiangyan Zhu, Yanping Wang, Jianhua Huang, Francesco Pennacchio, Michael R. Strand, Xue‐Xin Chen
Software Mentions: 1
Published: about 5 years ago

10.3390/ijms221810106

Efficient Neutrophil Activation Requires Two Simultaneous Activating Stimuli
Cited by: 21
Author(s): Sanne Mol, Florianne Hafkamp, Laura Varela, Neena Simkhada, Esther W. M. Taanman-Kueter, Sander W. Tas, Marca H. M. Wauben, Tom Groot Kormelink, Esther C. de Jong
Software Mentions: 1
Published: about 3 years ago

10.1371/journal.pone.0111827

Long Term Storage of Dry versus Frozen RNA for Next Generation Molecular Studies
Cited by: 34
Author(s): Eric Seelenfreund, William A. Robinson, Carol M. Amato, Aik Choon Tan, Jihye Kim, Steven E. Robinson
Software Mentions: 1
Published: about 10 years ago

10.1038/s41598-019-52599-3

Genome-wide transcriptional profiling for elucidating the effects of brassinosteroids on Glycine max during early vegetative development
Cited by: 11
Author(s): Li Song, Wei Chen, Qiuming Yao, Binhui Guo, Babu Valliyodan, Wenfei Wang, Henry T. Nguyen
Software Mentions: 1
Published: about 5 years ago

10.1093/database/bau099

miRIAD—integrating microRNA inter- and intragenic data
Cited by: 77
Author(s): Christian Hinske, Gustavo S. França, Hugo A. M. Torres, Daniel T. O’Hara, Camila M. Lopes‐Ramos, Jens Heyn, Luiz F. L. Reis, Lucila Ohno-Machado, Simone Kreth, Pedro A. F. Galante
Software Mentions: 1
Published: almost 11 years ago

10.1093/database/bau057

A novel multi-alignment pipeline for high-throughput sequencing data
Cited by: 36
Author(s): Shangyu Huang, James Holt, Chia Yu Kao, Leonard McMillan, Wei Wang
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0129329

Characterizing HSF1 Binding and Post-Translational Modifications of hsp70 Promoter in Cultured Cortical Neurons: Implications in the Heat-Shock Response
Cited by: 7
Author(s): Andrea V. Gómez, Gonzalo Córdova, Roberto Munita, Guillermo E. Parada, Álvaro P. Barrios, Gonzalo I. Cancino, Alejandra Álvarez, Marı́a Estela Andrés
Software Mentions: 1
Published: over 9 years ago

10.1093/database/bav082

Co-LncRNA: investigating the lncRNA combinatorial effects in GO annotations and KEGG pathways based on human RNA-Seq data
Cited by: 99
Author(s): Zheng Zhao, Jing Bai, Aiwei Wu, Yuan Wang, Jinwen Zhang, Zishan Wang, Yongsheng Li, Juan Xu, Xia Li
Software Mentions: 1
Published: almost 10 years ago

10.1093/database/bay069

KM-express: an integrated online patient survival and gene expression analysis tool for the identification and functional characterization of prognostic markers in breast and prostate cancers
Cited by: 20
Author(s): Xin Chen, Zhengqiang Miao, Mayur Divate, Zhenqun Zhao, Edwin Cheung
Software Mentions: 1
Published: almost 7 years ago

10.18632/oncotarget.17187

Downregulated long noncoding RNA ALDBGALG0000005049 induces inflammation in chicken muscle suffered from selenium deficiency by regulating stearoyl-CoA desaturase
Cited by: 15
Author(s): Rui-Feng Fan, Changyu Cao, Xiaona Zhao, Qunxiang Shi, Jinxin Zhao, Shiwen Xu
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0076282

Transcriptome Sequencing Reveals Differences between Primary and Secondary Hair Follicle-derived Dermal Papilla Cells of the Cashmere Goat (Capra hircus)
Cited by: 55
Author(s): Bing Zhu, Teng Xu, Jiangzi Yuan, Xudong Guo, Dongjun Liu
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0107562

Comparative Transcriptome Analysis of Climacteric Fruit of Chinese Pear (Pyrus ussuriensis) Reveals New Insights into Fruit Ripening
Cited by: 42
Author(s): GQ Huang, Tong Li, Xinyue Li, Dongmei Tan, Zhongyu Jiang, Yun Wei, Juncai Li, Aide Wang
Software Mentions: 1
Published: about 10 years ago

10.1038/s41598-019-53239-6

The DOT1L inhibitor Pinometostat decreases the host-response against infections: Considerations about its use in human therapy
Cited by: 18
Author(s): Laura Marcos-Villar, Amelia Nieto
Software Mentions: 1
Published: about 5 years ago

10.1007/s00204-021-03084-2

Dynamic alteration in miRNA and mRNA expression profiles at different stages of chronic arsenic exposure-induced carcinogenesis in a human cell culture model of skin cancer
Cited by: 18
Author(s): Mayukh Banerjee, Ana Paula Ferragut Cardoso, Laila Al-Eryani, Jianmin Pan, Theodore S. Kalbfleisch, Sudhir Srivastava, N. Shesh, J. Christopher States
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0059319

Investigation of Radiation-induced Transcriptome Profile of Radioresistant Non-small Cell Lung Cancer A549 Cells Using RNA-seq
Cited by: 49
Author(s): Hee Jung Yang, Namshin Kim, Ki Moon Seong, HyeSook Youn, BuHyun Youn
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0219799

Transcriptomic profiling and analysis of differentially expressed genes in asparagus bean (Vigna unguiculata ssp. sesquipedalis) under salt stress
Cited by: 12
Author(s): Lei Pan, Xiaolu Yu, Jingjie Shao, Zhichao Liu, Tong Gao, Yu Zheng, Chen Zeng, Chengzhi Liang, Chen Chanyou
Software Mentions: 1
Published: over 5 years ago

10.1016/j.devcel.2021.06.004

The Polycomb group protein MEDEA controls cell proliferation and embryonic patterning in Arabidopsis
Cited by: 12
Author(s): Sara Simonini, Marian Bemer, Stefano Bencivenga, Valeria Gagliardini, Nuno D. Pires, Bénédicte Desvoyes, Eric van der Graaff, Crisanto Gutiérrez, Ueli Grossniklaus
Software Mentions: 1
Published: over 3 years ago

10.1186/s12864-017-4330-1

A comprehensive study on cellular RNA editing activity in response to infections with different subtypes of influenza a viruses
Cited by: 15
Author(s): Yingying Cao, Ruiyuan Cao, Yao‐Wei Huang, Hongxia Zhou, Yuanhua Liu, Xuan Li, Zhong Wu, Pei Hao
Software Mentions: 1
Published: almost 7 years ago

10.3390/ijms221810036

Quinolone Resistance of Actinobacillus pleuropneumoniae Revealed through Genome and Transcriptome Analyses
Cited by: 4
Author(s): Xiaoping Ma, Bowen Zheng, Jiafan Wang, Gen Li, Sanjie Cao, Yiping Wen, Xiaobo Huang, Zhuang Zuo, Zhijun Zhong, Yu Gu
Software Mentions: 1
Published: about 3 years ago

10.1242/dev.162461

Mbf1 ensures Polycomb silencing by protecting <i>E(z)</i> mRNA from degradation by Pacman
Cited by: 4
Author(s): Kusuki Nishioka, Xianfeng Wang, Hiroyuki Miyazaki, Hidenobu Soejima, Susumu Hirose
Software Mentions: 1
Published: over 6 years ago

10.1242/dev.144758

The <i>miR-124</i> family of microRNAs is critical for regeneration of the brain and visual system in the planarian <i>Schmidtea mediterranea</i>
Cited by: 28
Author(s): Vidyanand Sasidharan, Srujan Marepally, Sarah A. Elliott, Srishti Baid, Vairavan Lakshmanan, Nishtha Nayyar, Dhiru Bansal, Alejandro Sánchez Alvarado, Praveen Kumar Vemula, Dasaradhi Palakodeti
Software Mentions: 1
Published: almost 8 years ago

10.1242/dev.196360

Ror2-mediated non-canonical Wnt signaling regulates Cdc42 and cell proliferation during tooth root development
Cited by: 11
Author(s): Yuanyuan Ma, Junjun Jing, Jifan Feng, Yuan Yuan, Quan Wen, Xia Han, Jinzhi He, Shuo Chen, Thach-Vu Ho, Yang Chai
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0188625

Differential transcriptome profiling of chilling stress response between shoots and rhizomes of Oryza longistaminata using RNA sequencing
Cited by: 28
Author(s): Ting Zhang, Liying Huang, Yinxiao Wang, Wensheng Wang, Xiuqin Zhao, Shilai Zhang, Jing Zhang, Fengyi Hu, Binying Fu, Zhikang Li
Software Mentions: 1
Published: almost 7 years ago

10.1242/dev.129973

Differential regulation of meristem size, morphology and organization by the ERECTA, CLAVATA and class III HD-ZIP pathways
Cited by: 43
Author(s): Tali Mandel, Héctor Candela, Udi Landau, Lior Asis, Einat Zelinger, Cristel C. Carles, Leor Eshed Williams
Software Mentions: 1
Published: almost 9 years ago

10.1242/dev.139360

Transient ectopic expression of the histone demethylase JMJD3 accelerates the differentiation of human pluripotent stem cells
Cited by: 38
Author(s): Tasuku Akiyama, Shokichi Wakabayashi, Atsumi Soma, Saeko Sato, Yuhki Nakatake, Mayumi Oda, Miyako Murakami, Miki Sakota, Nana Chikazawa-Nohtomi, Shigeru B. H. Ko, Minoru S.H. Ko
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0169641

Screening of Candidate Leaf Morphology Genes by Integration of QTL Mapping and RNA Sequencing Technologies in Oilseed Rape (Brassica napus L.)
Cited by: 12
Author(s): Hongju Jian, Bo Yang, Aoxiang Zhang, Li Zhang, Xinhua Xu, Jiana Li, Liezhao Liu
Software Mentions: 1
Published: almost 8 years ago

10.18632/oncotarget.18584

Differential gene and lncRNA expression in the lower thoracic spinal cord following ischemia/reperfusion-induced acute kidney injury in rats
Cited by: 13
Author(s): Qingquan Liu, Hui Liu, Zhigang He, Shijie Zhang, Baowen Liu, Le Wang, Wenhui Qiu, Qing Xu, Hong‐Bing Xiang, Yongman Lv
Software Mentions: 1
Published: over 7 years ago

10.1186/s13000-014-0218-4

Identification of a novel gene fusion (BMX-ARHGAP) in gastric cardia adenocarcinoma
Cited by: 12
Author(s): Xiaofeng Xu, Liang Xu, Feng Gao, Jianjiang Wang, Jinsong Ye, Mingyue Zhou, Yunling Zhu, Tao Lan
Software Mentions: 1
Published: almost 10 years ago

10.1186/s13000-017-0630-7

A comparison of gene expression profiles in patients with coronary artery disease, type 2 diabetes, and their coexisting conditions
Cited by: 15
Author(s): Rui Gong, Menghui Chen, Cuizhao Zhang, Manli Chen, Haibin Li
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0180403

Deep RNA sequencing of pectoralis muscle transcriptomes during late-term embryonic to neonatal development in indigenous Chinese duck breeds
Cited by: 9
Author(s): Chunhong Zhu, Wenming Song, Tao Zhang, Hongxiang Liu, Wenjuan Xu, Shuangjie Zhang, Huifang Li
Software Mentions: 1
Published: over 7 years ago

10.1155/2014/123165

RNA-Seq Data Mining: Downregulation of NeuroD6 Serves as a Possible Biomarker for Alzheimer’s Disease Brains
Cited by: 34
Author(s): Jun‐ichi Satoh, Yoji Yamamoto, Naohiro Asahina, Shouta Kitano, Yoshihiro Kino
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-015-2195-8

Multifunctional polyketide synthase genes identified by genomic survey of the symbiotic dinoflagellate, Symbiodinium minutum
Cited by: 27
Author(s): Girish Beedessee, Kanako Hisata, Michael C. Roy, Noriyuki Satoh, Eiichi Shoguchi
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0126466

Cancer Cells Hijack PRC2 to Modify Multiple Cytokine Pathways
Cited by: 28
Author(s): Mohamed F. Hassan, Katherine Huang, Manoja B.K. Eswara, Michael Zhao, Song Liu, Yu Tao, Yu Liu, Jeffrey Liu, Sean R. McCurdy, Anqi Ma, Joan E. Wither, Jian Jin, Eldad Zacksenhaus, Jeffrey L. Wrana, Rod Bremner
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-019-55902-4

Lipid and DHA-production in Aurantiochytrium sp. – Responses to nitrogen starvation and oxygen limitation revealed by analyses of production kinetics and global transcriptomes
Cited by: 45
Author(s): Tonje Marita Bjerkan Heggeset, Helga Ertesvåg, Bin Liu, Trond E. Ellingsen, Ôlav Vadstein, Inga Marie Aasen
Software Mentions: 1
Published: almost 5 years ago

10.1242/dmm.040139

Lack of whey acidic protein four disulphide core (WFDC) 2 protease inhibitor causes neonatal death from respiratory failure in mice
Cited by: 7
Author(s): Kuniko Nakajima, Michio Ono, Uroš Radović, Selma Dizdarević, Shin-ichi Tomizawa, Kazushige Kuroha, Go Nagamatsu, Ikue Hoshi, Risa Matsunaga, Takayuki Shirakawa, Takeyuki Kurosawa, Yasunari Miyazaki, Masahide Seki, Yutaka Suzuki, Haruhiko Koseki, Masataka Nakamura, Toshio Suda, Kazuyuki Ohbo
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-019-56171-x

Terminal neuron localization to the upper cortical plate is controlled by the transcription factor NEUROD2
Cited by: 14
Author(s): Gizem Guzelsoy, Cansu Akkaya, Dila Atak, Cory D. Dunn, Alkan Kabakçıoğlu, Nurhan Özlü, Gulayse Ince-Dunn
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0166314

Transcriptome Profiling of Watermelon Root in Response to Short-Term Osmotic Stress
Cited by: 17
Author(s): Yongchao Yang, Yanling Mo, Yang Xiaozheng, Haifei Zhang, Yongqi Wang, Hao Li, Chunhua Wei, Xian Zhang
Software Mentions: 1
Published: about 8 years ago

10.1242/dmm.020933

A rapid <i>in vivo</i> screen for pancreatic ductal adenocarcinoma therapeutics
Cited by: 14
Author(s): Ozhan Ocal, Victor Pashkov, Rahul K. Kollipara, Yalda Zolghadri, Victoria H. Cruz, Michael A. Hale, Blake R. Heath, Alex B. Artyukhin, Alana Christie, Pantelis Tsoulfas, James B. Lorens, Galvin H. Swift, Rolf A. Brekken, Thomas M. Wilkie
Software Mentions: 1
Published: about 9 years ago

10.3390/ijms221910288

Identification of Estrogen Signaling in a Prioritization Study of Intraocular Pressure-Associated Genes
Cited by: 4
Author(s): Hannah Youngblood, E.J. Parker, Jingwen Cai, Kristin Perkumas, Hongfang Yu, Jason Sun, Sylvia B. Smith, Kathryn E. Bollinger, Janey L. Wiggs, Louis R. Pasquale, Michael A. Hauser, W. Daniel Stamer, Yutao Liu
Software Mentions: 1
Published: about 3 years ago

10.1242/dmm.037721

Anti-tumour effects of antimicrobial peptides, targets of the innate immune system, against haematopoietic tumours in<i>Drosophila mxc</i>mutants
Cited by: 25
Author(s): Mayo Araki, Massanori Kurihara, Suzuko Kinoshita, Rie Awane, Tetsuya Sato, Yasuyuki Ohkawa, Yoshihiro Inoué
Software Mentions: 1
Published: almost 6 years ago

10.1242/dmm.033506

Genetic and cellular sensitivity of <i>Caenorhabditis elegans</i> to the chemotherapeutic agent cisplatin
Cited by: 13
Author(s): Francisco J. García‐Rodríguez, Carmen Martínez-Fernández, David Brena, Dmytro Kukhtar, Xènia Serrat, Ernest Nadal, Mike Boxem, Sebastian Honnen, Antonio Miranda‐Vizuete, Alberto Villanueva, Julián Cerón
Software Mentions: 1
Published: almost 7 years ago

10.1242/dmm.040154

Haploinsufficiency of mechanistic target of rapamycin ameliorates <i>bag3</i> cardiomyopathy in adult zebrafish
Cited by: 13
Author(s): Yonghe Ding, Alexey V. Dvornikov, Xiao Ma, Hong Zhang, Yong Wang, Matthew R. Lowerison, René R. Sevag Packard, Lei Wang, Jun Chen, Yuji Zhang, Tzung K. Hsiai, Xueying Lin, Xiaolei Xu
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0161204

The Transcriptional Response to DNA-Double-Strand Breaks in Physcomitrella patens
Cited by: 29
Author(s): Yasuko Kamisugi, John W. Whitaker, Andrew C. Cuming
Software Mentions: 1
Published: over 8 years ago

10.1016/j.ebiom.2016.04.018

Glycosylation is an Androgen-Regulated Process Essential for Prostate Cancer Cell Viability
Cited by: 66
Author(s): Jennifer Munkley, Daniel Vodák, Karen E. Livermore, Katherine James, Brian T. Wilson, Bridget Knight, Paul McCullagh, John McGrath, Malcolm Crundwell, Lorna W. Harries, Hing Y. Leung, Craig Robson, Ian G. Mills, Prabhakar Rajan, David J. Elliott
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0132628

Widespread Polycistronic Transcripts in Fungi Revealed by Single-Molecule mRNA Sequencing
Cited by: 296
Author(s): Sean P. Gordon, Elizabeth Tseng, Asaf Salamov, Jiwei Zhang, Xiangru Meng, Zhiying Zhao, Dongwan Kang, Jason G. Underwood, Igor V. Grigoriev, Melania Figueroa, Jonathan S. Schilling, Feng Chen, Zhong Wang
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0048005

Trigeminal Ganglion Neurons of Mice Show Intracellular Chloride Accumulation and Chloride-Dependent Amplification of Capsaicin-Induced Responses
Cited by: 26
Author(s): Nicole Schöbel, Debbie Radtke, Matthias Lübbert, Günter Gisselmann, Ramona Lehmann, Annika Cichy, Benjamin S. P. Schreiner, Janine Altmüller, Alan C. Spector, Jennifer Spehr, Hanns Hatt, Christian H. Wetzel
Software Mentions: 1
Published: about 12 years ago

10.1038/s41598-019-56305-1

Differential immune response modulation in early Leishmania amazonensis infection of BALB/c and C57BL/6 macrophages based on transcriptome profiles
Cited by: 21
Author(s): Juliana Ide Aoki, Sandra Márcia Muxel, Ricardo Andrade Zampieri, Karl Erik Müller, Audun Helge Nerland, Lucile Maria Floeter‐Winter
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0146511

Reduced Glucose Sensation Can Increase the Fitness of Saccharomyces cerevisiae Lacking Mitochondrial DNA
Cited by: 6
Author(s): Emel Akdoğan, Mehmet Tardu, Görkem Garipler, Gülkız Baytek, İbrahim Halil Kavaklı, Cory D. Dunn
Software Mentions: 1
Published: almost 9 years ago

10.15252/embj.2019101688

Lymphatic vessels interact dynamically with the hair follicle stem cell niche during skin regeneration <i>in vivo</i>
Cited by: 42
Author(s): Daniel Peña-Jiménez, Sílvia Fontenete, Diego Megı́as, Coral Fustero‐Torre, Osvaldo Graña‐Castro, Donatello Castellana, Robert Loewe, Mirna Perez‐Moreno
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0178008

Genomic and transcriptomic analyses reveal adaptation mechanisms of an Acidithiobacillus ferrivorans strain YL15 to alpine acid mine drainage
Cited by: 28
Author(s): Tangjian Peng, Liyuan Ma, Xue Feng, Jiemeng Tao, Mei-hua Nan, Yuandong Liu, Jiaokun Li, Ли Шен, Xueling Wu, Runlan Yu, Xueduan Liu, Guanzhou Qiu, Weimin Zeng
Software Mentions: 1
Published: over 7 years ago

10.15252/embj.201899518

Metabolic regulation of pluripotency and germ cell fate through α‐ketoglutarate
Cited by: 70
Author(s): Julia Tischler, Wolfram H Gruhn, John E. Reid, Edward S. Allgeyer, Florian Buettner, Carsten Marr, Fabian J. Theis, Benjamin D. Simons, Lorenz Wernisch, M. Azim Surani
Software Mentions: 1
Published: about 6 years ago

10.15252/emmm.201809828

A KDM6A–KLF10 reinforcing feedback mechanism aggravates diabetic podocyte dysfunction
Cited by: 46
Author(s): Chun‐Liang Lin, Yung‐Chien Hsu, Yu‐Ting Huang, Ya‐Hsueh Shih, Ching‐Jen Wang, Wen‐Chih Chiang, Pey‐Jium Chang
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0094250

FANSe2: A Robust and Cost-Efficient Alignment Tool for Quantitative Next-Generation Sequencing Applications
Cited by: 39
Author(s): Chuan-Le Xiao, Zhibiao Mai, Xinlei Lian, Jiayong Zhong, Jingjie Jin, Qing‐Yu He, Gong Zhang
Software Mentions: 1
Published: over 10 years ago

10.15252/emmm.201910695

Excess hydrogen sulfide and polysulfides production underlies a schizophrenia pathophysiology
Cited by: 40
Author(s): Masayuki Ide, Tetsuo Ohnishi, Manabu Toyoshima, Shabeesh Balan, Motoko Maekawa, Chie Shimamoto-Mitsuyama, Yoshimi Iwayama, Hideki Ohba, Akïharu Watanabe, Takashi Ishii, Norihiro Shibuya, Yoshinobu Kimura, Yu Hisano, Y. Murata, Tomonori Hara, Momo Morikawa, Kenji Hashimoto, Yayoi Nozaki, Tomoko Toyota, Yuina Wada, Yosuke Tanaka, Takeshi Kato, Akinori Nishi, Shigeyoshi Fujisawa, Hideyuki Okano, Masanari Itokawa, Nobutaka Hirokawa, Yasuto Kunii, Akiyoshi Kakita, Hirooki Yabe, Kazuya Iwamoto, Kohji Meno, Takuya Katagiri, Brian Dean, Keiji Uchida, Hideo Kimura, Takeo Yoshikawa
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0183007

Transcriptional responses of ecologically diverse Drosophila species to larval diets differing in relative sugar and protein ratios
Cited by: 14
Author(s): Nestor O. Nazario-Yepiz, Mariana Ramírez Loustalot-Laclette, Javier Carpinteyro-Ponce, Cei Abreu‐Goodger, Therese A. Markow
Software Mentions: 1
Published: about 7 years ago

10.5194/aab-64-53-2021

Molecular mechanisms of fat deposition: &amp;lt;i&amp;gt;IL-6&amp;lt;/i&amp;gt; is a hub gene in fat lipolysis, comparing thin-tailed with fat-tailed sheep breeds
Cited by: 3
Author(s): Sana Farhadi, Jalil Shodja Ghias, Karim Hasanpur, Seyed Abolghasem Mohammadi, Esmaeil Ebrahimie
Software Mentions: 1
Published: almost 4 years ago

10.15252/emmm.201404525

Antigen delivery by filamentous bacteriophage fd displaying an anti‐ <scp>DEC</scp> ‐205 single‐chain variable fragment confers adjuvanticity by triggering a <scp>TLR</scp> 9‐mediated immune response
Cited by: 36
Author(s): Rossella Sartorius, Luciana D’Apice, Maria Trovato, Fausta Cuccaro, Valerio Costa, Maria Giovanna De Leo, Vincenzo Manuel Marzullo, Carmelo Biondo, Sabato D’Auria, Maria Antonietta De Matteis, Alfredo Ciccodicola, Piergiuseppe De Berardinis
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-019-56407-w

Crebl2 regulates cell metabolism in muscle and liver cells
Cited by: 10
Author(s): Marcel Tiebe, Martina S. Lutz, Deniz Senyilmaz Tiebe, Aurelio A. Teleman
Software Mentions: 1
Published: almost 5 years ago

10.3390/ijms221910892

Salt Stress Promotes Abscisic Acid Accumulation to Affect Cell Proliferation and Expansion of Primary Roots in Rice
Cited by: 22
Author(s): Yingying Huang, Jiahao Zhou, Yuxiang Li, Ruidang Quan, Juan Wang, Rongfeng Huang, Hua Qin
Software Mentions: 1
Published: about 3 years ago

10.15252/emmm.202012627

<i>Nanog</i> maintains stemness of <i>Lkb1</i> ‐deficient lung adenocarcinoma and prevents gastric differentiation
Cited by: 3
Author(s): Xinyuan Tong, Yueqing Chen, Xinsheng Zhu, Yi Ye, Yun Xue, Rui Wang, Yijun Gao, Wenjing Zhang, Wei‐Qiang Gao, Lei Xiao, Haiquan Chen, Peng Zhang, Hongbin Ji
Software Mentions: 1
Published: almost 4 years ago

10.1186/1471-2164-14-694

Host-Mycobacterium avium subsp. paratuberculosis interactome reveals a novel iron assimilation mechanism linked to nitric oxide stress during early infection
Cited by: 33
Author(s): Elise A. Lamont, Wayne Xu, Srinand Sreevatsan
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0227020

Heterogeneous root zone salinity mitigates salt injury to Sorghum bicolor (L.) Moench in a split-root system
Cited by: 5
Author(s): Huawen Zhang, Runfeng Wang, Hailian Wang, Bin Liu, Ming Xu, Yanan Guan, Yanbing Yang, Ling Qin, Erying Chen, Feifei Li, Huang Rui, Yufei Zhou
Software Mentions: 1
Published: almost 5 years ago

10.15252/emmm.201404218

<scp>MED</scp>13‐dependent signaling from the heart confers leanness by enhancing metabolism in adipose tissue and liver
Cited by: 74
Author(s): Kedryn K. Baskin, Chad E. Grueter, Christine M. Kusminski, William L. Holland, Angie L. Bookout, Santosh Satapati, Yuyao Kong, Shawn C. Burgess, Craig R. Malloy, Philipp E. Scherer, Christopher B. Newgard, Rhonda Bassel‐Duby, Eric N. Olson
Software Mentions: 1
Published: almost 10 years ago

10.15252/emmm.201910697

Role of bulge epidermal stem cells and <scp>TSLP</scp> signaling in psoriasis
Cited by: 15
Author(s): Nuria Gago-López, Liliana F. Mellor, Diego Megı́as, Guillermo Martín-Serrano, Ander Izeta, Francisco Jiménez, Erwin F. Wagner
Software Mentions: 1
Published: about 5 years ago

10.1002/emmm.201303573

Defective minor spliceosome <scp>mRNA</scp> processing results in isolated familial growth hormone deficiency
Cited by: 86
Author(s): Jesús Argente, Raquel Flores, Armand Gutiérrez-Arumí, Bhupendra Verma, Gabriel Ángel Martos‐Moreno, Ivon Cuscò, Ali Oghabian, Julie A. Chowen, Mikko J. Frilander, Luis A. Pérez‐Jurado
Software Mentions: 1
Published: almost 11 years ago

10.1186/s12864-015-1221-1

Re-annotation of the woodland strawberry (Fragaria vesca) genome
Cited by: 62
Author(s): Omar Darwish, Rachel Shahan, Zhongchi Liu, Janet P. Slovin, Nadim W. Alkharouf
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0227102

Ontogenic mRNA expression of RNA modification writers, erasers, and readers in mouse liver
Cited by: 12
Author(s): Liming Chen, Pei Wang, Raman Bahal, José E. Manautou, Xiao‐bo Zhong
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0099720

Differences in Muscle Transcriptome among Pigs Phenotypically Extreme for Fatty Acid Composition
Cited by: 57
Author(s): Anna Puig-Oliveras, Yuliaxis Ramayo-Caldas, Jordi Corominas, Jordi Estellé, Dafne Pérez-Montarelo, Nicholas J. Hudson, J. Casellas, Josep María Folch, María Ballester
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0169598

Transcriptomic Analysis of Calonectria pseudoreteaudii during Various Stages of Eucalyptus Infection
Cited by: 13
Author(s): Xiaozhen Ye, Hongyi Liu, Yajie Jin, Mengmeng Guo, Aizhen Huang, Quanzhu Chen, Wenhui Guo, Feiping Zhang, Li Feng
Software Mentions: 1
Published: almost 8 years ago