bioconductor: edgeR | Projects | Ecosyste.ms: Papers

10.7150/thno.42010

Skipping of exon 10 in Axl pre-mRNA regulated by PTBP1 mediates invasion and metastasis process of liver cancer cells
Cited by: 27
Author(s): Lianghua Shen, Sijia Lei, Bin Zhang, Shuaiguang Li, Luyuan Huang, Alexander Czachor, Mason Breitzig, Yuman Gao, Meiyan Huang, Xuemei Mo, Qi Zheng, Han Sun, Feng Wang
Software Mentions: 1
Published: over 6 years ago

10.3389/fnins.2020.00181

Prdx1 Reduces Intracerebral Hemorrhage-Induced Brain Injury via Targeting Inflammation- and Apoptosis-Related mRNA Stability
Cited by: 14
Author(s): Guoqiang Yang, Jiacheng Huang, Junjie Yuan, Zhang Qin, Chang‐Xiong Gong, Qiong Chen, Qiang Xie, Lin Xie, Ru Chen, Zhongming Qiu, Kai Zhou, Rui Xu, Guohui Jiang, Xiao‐Yi Xiong, Qingwu Yang
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-018-19837-6

Persistent activation of interlinked type 2 airway epithelial gene networks in sputum-derived cells from aeroallergen-sensitized symptomatic asthmatics
Cited by: 15
Author(s): Anya C. Jones, Niamh M. Troy, Elisha White, Elysia M. Hollams, Alexander M. Gout, Kak-Ming Ling, Anthony Kicic, Stephen M. Stick, Peter D. Sly, Patrick G. Holt, Graham L. Hall, Anthony Bosco
Software Mentions: 1
Published: over 8 years ago

10.1038/s41598-018-19954-2

Different milk diets have substantial effects on the jejunal mucosal immune system of pre-weaning calves, as demonstrated by whole transcriptome sequencing
Cited by: 18
Author(s): H.M. Hammon, D. Frieten, C. Gerbert, Christian Koch, G. Dusel, Rosemarie Weikard, Christa Kühn
Software Mentions: 1
Published: over 8 years ago

10.3390/ijms19082417

In Vivo Analysis of miR-34a Regulated Glucose Metabolism Related Genes in Megalobrama amblycephala
Cited by: 6
Author(s): Linghong Miao, Yan Lin, Xin Huang, Wenjing Pan, Qunlan Zhou, Bo Liu, Mingchun Ren, Xianping Ge, Liangkun Pan
Software Mentions: 1
Published: about 8 years ago

10.3390/ijms21124252

Micro-Transcriptome Analysis Reveals Immune-Related MicroRNA Regulatory Networks of Paralichthys olivaceus Induced by Vibrio anguillarum Infection
Cited by: 11
Author(s): Xianhui Ning, Li Sun
Software Mentions: 1
Published: about 6 years ago

10.7150/thno.45971

KRAS Mutation-Responsive miR-139-5p inhibits Colorectal Cancer Progression and is repressed by Wnt Signaling
Cited by: 35
Author(s): Feng Du, Tianyu Cao, Hui Xie, Ting Li, Lina Sun, Hao Líu, Hao Guo, Xin Wang, Qi Liu, Taewan Kim, Jeffrey L. Franklin, Ramona Graves‐Deal, Wei Han, Zuhong Tian, Minghui Ge, Yongzhan Nie, Daiming Fan, Robert J. Coffey, Yuanyuan Lu, Xiaodi Zhao
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0178189

Systematic genomic and translational efficiency studies of uveal melanoma
Cited by: 27
Author(s): Chelsea Place Johnson, Ivana K. Kim, Bita Esmaeli, Ali Amin‐Mansour, Daniel J. Treacy, Scott L. Carter, Eran Hodis, Nikhil Wagle, Sara Seepo, Xiaoxing Yu, Anne Marie Lane, Evangelos S. Gragoudas, Francisca Vázquez, Elizabeth Nickerson, Kristian Cibulskis, Aaron McKenna, Stacey Gabriel, Gad Getz, Eliezer M. Van Allen, Peter A.C. ’t Hoen, Levi A. Garraway, Scott E. Woodman
Software Mentions: 1
Published: about 9 years ago

10.1155/2017/4352450

The miRNA Expression Profile in Acute Myocardial Infarct Using Sheep Model with Left Ventricular Assist Device Unloading
Cited by: 4
Author(s): Xiaoqian Yan, Yu Gan, Haibo Chen, Guang-Mao Liu, Shengshou Hu, Jianye Zhou
Software Mentions: 1
Published: over 9 years ago

10.1155/2021/8846951

Construction of Potential Gene Expression and Regulation Networks in Prostate Cancer Using Bioinformatics Tools
Cited by: 4
Author(s): Heyu Liu, Lirong Li, Fan Yu, Yaping Lü, Changhong Zhu, Wei Xia
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2021.598296

TRPM2, PDLIM5, BCL3, CD14, GBA Genes as Feasible Markers for Premature Coronary Heart Disease Risk
Cited by: 9
Author(s): Kriengchai Prasongsukarn, Wilanee Dechkhajorn, Surachet Benjathummarak, Yaowapa Maneerat
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-018-21525-4

Molecular characterization of colorectal adenomas with and without malignancy reveals distinguishing genome, transcriptome and methylome alterations
Cited by: 35
Author(s): Brooke R. Druliner, Panwen Wang, Taejeong Bae, Saurabh Baheti, Seth W. Slettedahl, Douglas W. Mahoney, Nikolaos Vasmatzis, Hang Xu, Min‐Soo Kim, Matthew A. Bockol, Daniel R. O’Brien, Diane E. Grill, Nathaniel D. Warner, Miguel Munoz-Gomez, Kimberlee Kossick, Ruth A. Johnson, Mohamad Mouchli, Donna Felmlee-Devine, Jill Washechek-Aletto, Thomas C. Smyrk, Ann L. Oberg, Junwen Wang, Nicholas Chia, Alexej Abyzov, David A. Ahlquist, Lisa A. Boardman
Software Mentions: 1
Published: over 8 years ago

10.3390/ijms19082364

Transcriptome Analysis of JA Signal Transduction, Transcription Factors, and Monoterpene Biosynthesis Pathway in Response to Methyl Jasmonate Elicitation in Mentha canadensis L.
Cited by: 21
Author(s): Xiwu Qi, Hailing Fang, Yan Xu, Dongbei Xu, Li Li, Chengyuan Liang, Hongfei Lü, Weilin Li, Chen Yin, Zequn Chen
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pntd.0002402

Sex-Biased Expression of MicroRNAs in Schistosoma mansoni
Cited by: 59
Author(s): A. De Marco, Ana Kozomara, Jerome H. L. Hui, Aidan M. Emery, David Rollinson, Sam Griffiths-Jones, Matthew Ronshaugen
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pntd.0003975

Global Gene Expression Profiling through the Complete Life Cycle of Trypanosoma vivax
Cited by: 31
Author(s): Andrew P. Jackson, Sophie Goyard, Dong Xia, Bernardo J. Foth, Mandy Sanders, Jonathan M. Wastling, Paola Minóprio, Matthew Berriman
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2164-14-19

Transcriptome analysis of rice root heterosis by RNA-Seq
Cited by: 118
Author(s): Rongrong Zhai, Feng Yue, Huimin Wang, Xiaodeng Zhan, Xihong Shen, Weiming Wu, Yingxin Zhang, Daibo Chen, Gaoxing Dai, Yang Zhou, Shifeng Cheng
Software Mentions: 1
Published: over 13 years ago

10.1186/s12864-017-3596-7

Transcriptome analysis of lentil (Lens culinaris Medikus) in response to seedling drought stress
Cited by: 88
Author(s): Dharmendra Singh, Chandan Kumar Singh, Jyoti Taunk, R. S. Tomar, Ashish Chaturvedi, Kishor Gaikwad, Madan Pal
Software Mentions: 1
Published: over 9 years ago

10.3389/fonc.2020.01224

Glycogene Expression Profiling of Hepatic Cells by RNA-Seq Analysis for Glyco-Biomarker Identification
Cited by: 6
Author(s): Kiyohiko Angata, Hiromichi Sawaki, Shigeko Tsujikawa, Makoto Ocho, Akira Togayachi, Hisashi Narimatsu
Software Mentions: 1
Published: about 6 years ago

10.3389/fonc.2020.00049

Upregulated Expression of TUBA1C Predicts Poor Prognosis and Promotes Oncogenesis in Pancreatic Ductal Adenocarcinoma via Regulating the Cell Cycle
Cited by: 23
Author(s): Mugahed Abdullah Hasan Albahde, Haining Zhang, Qiu-Qiang Zhang, Guoqi Li, Weilin Wang
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-018-21371-4

Characterization of gene regulation and protein interaction networks for Matrin 3 encoding mutations linked to amyotrophic lateral sclerosis and myopathy
Cited by: 28
Author(s): María Carolina Gallego Iradi, Judy C. Triplett, James Thomas, Rachel Davila, Anthony M Crown, Hilda Brown, Jada Lewis, Maurice S. Swanson, Guilian Xu, Edgardo Rodríguez-Lebrón, David R. Borchelt
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pntd.0009377

Combined gene deletion of dihydrofolate reductase-thymidylate synthase and pteridine reductase in Leishmania infantum
Cited by: 5
Author(s): Arijit Bhattacharya, Philippe Leprohon, Marc Ouellette
Software Mentions: 1
Published: over 5 years ago

10.1155/2020/7871918

De novo Transcriptome Reveals Gene Changes in the Development of the Endosperm Chalazal Haustorium in Taxillus chinensis (DC.) Danser
Cited by: 8
Author(s): Shugen Wei, Lingyun Wan, Lili He, Ying Wei, Hairong Long, Xiaowen Ji, Jine Fu, Limei Pan
Software Mentions: 1
Published: over 6 years ago

10.1186/s13072-018-0241-x

Physiological effects of KDM5C on neural crest migration and eye formation during vertebrate development
Cited by: 17
Author(s): Youni Kim, Youngeun Jeong, Kujin Kwon, Tayaba Ismail, Hyun-Kyung Lee, Chowon Kim, Jeen‐Woo Park, Oh Nam Kwon, Beom‐Sik Kang, Dong‐Seok Lee, Tae Joo Park, Taejoon Kwon, Hyun‐Shik Lee
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0055596

A High-Dimensional, Deep-Sequencing Study of Lung Adenocarcinoma in Female Never-Smokers
Cited by: 73
Author(s): Sang Cheol Kim, Yeonjoo Jung, Jinah Park, Sooyoung Cho, Chaehwa Seo, Jaesang Kim, Pora Kim, Jehwan Park, Jihae Seo, Jiwoong Kim, Seong-Jin Park, In-Su Jang, Namshin Kim, Jin Yang, Byung-Wook Lee, Kyoohyoung Rho, Juhee Keum, Jinseon Lee, Jungho Han, Sangeun Kang, Sujin Bae, So Jung Choi, Sujin Kim, Jong Eun Lee, Wankyu Kim, Young Tae Kim, Sanghyuk Lee
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pntd.0006186

Multifaceted functional implications of an endogenously expressed tRNA fragment in the vector mosquito Aedes aegypti
Cited by: 10
Author(s): Matthew W. Eng, Anthony Clemons, Casey Hill, Roberta Engel, David W. Severson, Susanta K. Behura
Software Mentions: 1
Published: over 8 years ago

10.7150/thno.48028

IL-33/ST2 induces neutrophil-dependent reactive oxygen species production and mediates gout pain
Cited by: 31
Author(s): Chengyu Yin, Boyu Liu, Yuanyuan Li, Xiaojie Li, Jie Wang, Ruixiang Chen, Yan Tai, Qiyang Shou, Ping Wang, Xiaomei Shao, Yi Liang, Hong Zhou, Wen-Li Mi, Jianqiao Fang
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-018-23714-7

Vitamin C promotes apoptosis in breast cancer cells by increasing TRAIL expression
Cited by: 61
Author(s): David W. Sant, Sushmita Mustafi, Christopher B. Gustafson, Joshua Chen, Joyce M. Slingerland, Gaofeng Wang
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pntd.0004634

Analysis on Gene Expression Profile in Oncospheres and Early Stage Metacestodes from Echinococcus multilocularis
Cited by: 28
Author(s): Fuqiang Huang, Zhisheng Dang, Yutaka Suzuki, T Horiuchi, Kinpei Yagi, Hirokazu Kouguchi, Takao Irie, Kyeong-Soon Kim, Yuzaburo Oku
Software Mentions: 1
Published: over 10 years ago

10.3390/ijms19092837

Guanidinoacetic Acid Regulates Myogenic Differentiation and Muscle Growth Through miR-133a-3p and miR-1a-3p Co-mediated Akt/mTOR/S6K Signaling Pathway
Cited by: 35
Author(s): Yujie Wang, Jideng Ma, Wanling Qiu, Jinwei Zhang, Siyuan Feng, Xiankun Zhou, Xun Wang, Long Jin, Keren Long, Lingyan Liu, Weihang Xiao, Qianzi Tang, Li Zhu, Yanzhi Jiang, Xuewei Li, Mingzhou Li
Software Mentions: 1
Published: almost 8 years ago

10.3389/fonc.2018.00398

Circular RNA Expression in Oral Squamous Cell Carcinoma
Cited by: 28
Author(s): Yufan Wang, Bowen Li, Shuai Sun, Xiang Li, Wen Su, Zhihong Wang, Feng Wang, Wei Zhang, Hongyu Yang
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pcbi.1006758

Augmenting subnetwork inference with information extracted from the scientific literature
Cited by: 0
Author(s): Sid Kiblawi, Deborah Chasman, Amanda N. Henning, Eunju Park, Hoifung Poon, Michael N. Gould, Paul Ahlquist, Mark Craven
Software Mentions: 1
Published: about 7 years ago

10.3390/ijms19102858

Identification of Endogenous Control miRNAs for RT-qPCR in T-Cell Acute Lymphoblastic Leukemia
Cited by: 30
Author(s): Monika Drobna, Bronisława Szarzyńska‐Zawadzka, Patrycja Daca-Roszak, Maria Kosmalska, Roman Jaksik, Michał Witt, Małgorzata Dawidowska
Software Mentions: 1
Published: almost 8 years ago

10.7554/eLife.46012

CCN1 interlinks integrin and hippo pathway to autoregulate tip cell activity
Cited by: 34
Author(s): Myo-Hyeon Park, Ae kyung Kim, Sarala Manandhar, Su-Young Oh, Gil-Jin Jang, Kang Li, Dongwon Lee, Do Young Hyeon, Sunhee Lee, Hye-Eun Lee, Tae‐Lin Huh, Sang Heon Suh, Daehee Hwang, Kyunghee Byun, Hae-Chul Park, You Mie Lee
Software Mentions: 1
Published: about 7 years ago

10.7150/thno.49186

Discovery of extracellular vesicles derived miR-181a-5p in patient's serum as an indicator for bone-metastatic prostate cancer
Cited by: 28
Author(s): Yanqing Wang, Yuxiang Fang, Baijun Dong, Xin Du, Jialin Wang, Xiao Wang, Wei‐Qiang Gao, Wei Xue
Software Mentions: 1
Published: over 5 years ago

10.1186/s12864-020-07000-3

Integrative analysis of circRNAs, miRNAs, and mRNAs profiles to reveal ceRNAs networks in chicken intramuscular and abdominal adipogenesis
Cited by: 24
Author(s): Meng Zhang, Yu Han, Yanhui Zhai, Xiangfei Ma, Xinglan An, Sheng Zhang, Ziyi Li
Software Mentions: 1
Published: about 6 years ago

10.1038/s41598-018-24284-4

Measurement of metabolite variations and analysis of related gene expression in Chinese liquorice (Glycyrrhiza uralensis) plants under UV-B irradiation
Cited by: 33
Author(s): Xiao Zhang, Xiaoli Ding, Yaxi Ji, Shouchuang Wang, Yingying Chen, Jie Luo, Yingbai Shen, Peng Li
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pcbi.1007873

Inferring the immune response from repertoire sequencing
Cited by: 20
Author(s): Maximilian Puelma Touzel, Aleksandra M. Walczak, Thierry Mora
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0073783

Inducible Knockdown of Plasmodium Gene Expression Using the glmS Ribozyme
Cited by: 190
Author(s): Parichat Prommana, Chairat Uthaipibull, Chayaphat Wongsombat, Sumalee Kamchonwongpaisan, Yongyuth Yuthavong, Ellen Knuepfer, Anthony A. Holder, Philip Shaw
Software Mentions: 1
Published: about 13 years ago

10.3390/ijms19103083

Comprehensive Analysis of MicroRNA–Messenger RNA from White Yak Testis Reveals the Differentially Expressed Molecules Involved in Development and Reproduction
Cited by: 18
Author(s): Quanwei Zhang, Qi Wang, Yong Zhang, Cheng ShuRu, Junjie Hu, Youji Ma, Xingxu Zhao
Software Mentions: 1
Published: almost 8 years ago

10.7554/eLife.09594

A robust transcriptional program in newts undergoing multiple events of lens regeneration throughout their lifespan
Cited by: 28
Author(s): Konstantinos Sousounis, Feng Qi, Manisha Yadav, José Luis Millán, Fubito Toyama, Chikafumi Chiba, Yukiko Eguchi, Goro Eguchi, Panagiotis A. Tsonis
Software Mentions: 1
Published: almost 11 years ago

10.1155/2021/5584099

Transcriptomic Analysis Exploring the Molecular Mechanisms of Hanchuan Zupa Granules in Alleviating Asthma in Rat
Cited by: 2
Author(s): Hai-Long Yin, Yanbo Fan, Dandan Mu, Fei Song, Fang Tian, Qiang Yin
Software Mentions: 1
Published: about 5 years ago

10.7554/eLife.68054

SMA-miRs (miR-181a-5p, -324-5p, and -451a) are overexpressed in spinal muscular atrophy skeletal muscle and serum samples
Cited by: 9
Author(s): Emanuela Abiusi, Paola Infante, Cinzia Cagnoli, Ludovica Lospinoso Severini, Marika Pane, Giorgia Coratti, Maria Carmela Pera, Adele D’Amico, F Diano, Agnese Novelli, Serena Spartano, Stefania Fiori, Giovanni Baranello, Isabella Moroni, Marina Mora, Maria Barbara Pasanisi, Krizia Pocino, Loredana Le Pera, Davide D’Amico, Lorena Travaglini, Francesco Ria, Claudio Bruno, Denise Locatelli, Enrico Bertini, Lucia Morandi, Eugenio Mercuri, Lucia Di Marcotullio, Francesco Danilo Tiziano
Software Mentions: 1
Published: almost 5 years ago

10.7554/eLife.08833

Suppression of transcriptional drift extends C. elegans lifespan by postponing the onset of mortality
Cited by: 68
Author(s): Sunitha Rangaraju, Gregory M. Solis, Ryan Thompson, Rafael L. Gomez‐Amaro, Leo Kurian, Sandra E. Encalada, Alexander B. Niculescu, Daniel R. Salomon, Michael Petrascheck
Software Mentions: 1
Published: almost 11 years ago

10.1155/2020/4830847

The ceRNA Network Has Potential Prognostic Value in Clear Cell Renal Cell Carcinoma: A Study Based on TCGA Database
Cited by: 3
Author(s): Haosheng Liu, Zhaowen Zhu, Jianxiong Fang, Tianqi Liu, Zhenhui Zhang, Chao Zhao, Xiao‐Yong Pu, Jiumin Liu
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms19103170

De Novo Transcriptome Sequencing Analysis of Goose (Anser anser) Embryonic Skin and the Identification of Genes Related to Feather Follicle Morphogenesis at Three Stages of Development
Cited by: 15
Author(s): Chang Liu, Cornelius Tlotliso Sello, Yanbo Sun, Yifang Zhou, Hongtao Lu, Yuanyuan Sui, Jingtao Hu, Chi Xu, Yue Sun, Jing Liu, Shengyi Li, Yiming Zhang, Kaiyan Zhang
Software Mentions: 1
Published: almost 8 years ago

10.7554/eLife.59469

Adrenergic activation modulates the signal from the Reissner fiber to cerebrospinal fluid-contacting neurons during development
Cited by: 20
Author(s): Yasmine Cantaut-Belarif, Adeline Orts-Del’Immagine, Margot Penru, Guillaume Pézeron, Claire Wyart, Pierre-Luc Bardet
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms21176017

Integrated Analysis of Small RNA, Transcriptome, and Degradome Sequencing Reveals the Water-Deficit and Heat Stress Response Network in Durum Wheat
Cited by: 25
Author(s): Haipei Liu, Amanda J. Able, Jason A. Able
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pbio.3001012

TMT-Opsins differentially modulate medaka brain function in a context-dependent manner
Cited by: 8
Author(s): Bruno M. Fontinha, Theresa Zekoll, M. Alrawi, Miguel Gallach, Florian Reithofer, Alison J. Barker, Maximilian Hofbauer, Roland Fischer, Arndt von Haeseler, Herwig Baier, Kristin Tessmar-Raible
Software Mentions: 1
Published: over 5 years ago

10.3390/ijms19103180

iTRAQ-Based Proteomic Analysis of Ogura-CMS Cabbage and Its Maintainer Line
Cited by: 12
Author(s): Fengqing Han, Xiaoli Zhang, Limei Yang, Mu Zhuang, Yangyong Zhang, Zhansheng Li, Zhiyuan Fang, Honghao Lv
Software Mentions: 1
Published: almost 8 years ago

10.3389/fonc.2021.654424

Clinical Value and Underlying Mechanisms of Upregulated LINC00485 in Hepatocellular Carcinoma
Cited by: 0
Author(s): Xinyu Zhu, Yan Feng, Dingdong He, Zi Wang, Fangfang Huang, Jiancheng Tu
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pbio.3000471

Transcription-induced formation of extrachromosomal DNA during yeast ageing
Cited by: 63
Author(s): Ryan M. Hull, Michelle King, G Pizza, Felix Krueger, Xabier Vergara, Jonathan Houseley
Software Mentions: 1
Published: almost 7 years ago

10.3389/fonc.2020.586342

VWCE Functions as a Tumor Suppressor in Breast Cancer Cells
Cited by: 0
Author(s): Dan Zhang, Lei Wan, Fan Yang, Wenlan Liu, Litao Liu, Shengnan He, Ni Xie
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pbio.3000238

Fat body–specific vitellogenin expression regulates host-seeking behaviour in the mosquito Aedes albopictus
Cited by: 22
Author(s): Jessica Dittmer, Ayad Alafndi, Paolo Gabrieli
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-14-855

A platform independent RNA-Seq protocol for the detection of transcriptome complexity
Cited by: 6
Author(s): Claudia Calabrese, Marina Mangiulli, Caterina Manzari, Anna Maria Paluscio, Mariano Francesco Caratozzolo, Flaviana Marzano, Ivana Kurelac, Anna Maria D’Erchia, Domenica D’Elia, Flavio Licciulli, Sabino Liuni, Ernesto Picardi, Marcella Attimonelli, Giuseppe Gasparre, Anna Maria Porcelli, Graziano Pesole, Elisabetta Sbisà, Apollonia Tullo
Software Mentions: 1
Published: almost 13 years ago

10.3389/fonc.2021.564296

Identification and Validation of SNP-Containing Genes With Prognostic Value in Gastric Cancer via Integrated Bioinformatics Analysis
Cited by: 8
Author(s): Hui Li, Jing Guo, Guang Cheng, Yucheng Wei, Shihai Liu, Yaoyue Qi, Gongjun Wang, Ruoxi Xiao, Weiwei Qi, Wensheng Qiu
Software Mentions: 1
Published: over 5 years ago

10.1155/2020/9502560

The YTH Domain Family of N6-Methyladenosine “Readers” in the Diagnosis and Prognosis of Colonic Adenocarcinoma
Cited by: 17
Author(s): Dian Xu, Jun Shao, Huan Song, Jianming Wang
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-019-43998-7

Progressive expression of PPARGC1α is associated with hair miniaturization in androgenetic alopecia
Cited by: 11
Author(s): Brian Ho, Candida Vaz, Srinivas Ramasamy, Elaine Guo Yan Chew, Jameelah Sheik Mohamed, Huma Jaffar, Axel M. Hillmer, Vivek Tanavde, Mei Bigliardi-Qi, Paul L. Bigliardi
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0174892

Changes in circulating microRNA levels can be identified as early as day 8 of pregnancy in cattle
Cited by: 29
Author(s): Jason Ioannidis, F.X. Donadeu
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-019-45346-1

Methylation and transcription patterns are distinct in IDH mutant gliomas compared to other IDH mutant cancers
Cited by: 41
Author(s): Dusten Unruh, Makda Zewde, Adam Buss, Michael Drumm, Anh Tran, Denise M. Scholtens, Craig Horbinski
Software Mentions: 1
Published: about 7 years ago

10.3389/fonc.2021.614925

The Human Cytomegalovirus US31 Gene Predicts Favorable Survival and Regulates the Tumor Microenvironment in Gastric Cancer
Cited by: 2
Author(s): Sisi Ye, Yuanbo Hu, Chenbin Chen, Sian Chen, Xinya Tong, Huanbo Zhu, Bo Deng, Xianjing Hu, Xia Sun, Xiao Chen, Xinyu Shi, Ruihong Gu, Wangkai Xie, Gangqiang Guo, Dong Xing, Xian Shen, Xiangyang Xue, Shurong Shen
Software Mentions: 1
Published: over 5 years ago

10.7554/eLife.64330

SARS-CoV-2 suppresses anticoagulant and fibrinolytic gene expression in the lung
Cited by: 40
Author(s): Alan E. Mast, Alisa S. Wolberg, David Gailani, Michael R. Garvin, Christiane Alvarez, J Izaak Miller, Bruce J. Aronow, Daniel Jacobson
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-019-45354-1

Adaptive adipose tissue stromal plasticity in response to cold stress and antibody-based metabolic therapy
Cited by: 9
Author(s): Joshua C. Chang, Steffen Durinck, Mark Z. Chen, Nadia Martínez‐Martín, Jingli A. Zhang, Isabelle Lehoux, Hong Li, Millicent Lin, Jianguo Wu, Travis W. Bainbridge, James A. Ernst, Sree R. Ramani, Sairupa Paduchuri, Lance Kates, Margaret Solon, Matthew B. Buechler, Alessandra Castiglioni, Minh Thai, Beatrice Breart, Zora Modrušan, Andrew S. Peterson, Shannon J. Turley, Junichiro Sonoda
Software Mentions: 1
Published: about 7 years ago

10.7554/eLife.59177

A mechanistic model and therapeutic interventions for COVID-19 involving a RAS-mediated bradykinin storm
Cited by: 291
Author(s): Michael R. Garvin, Christiane Alvarez, J Izaak Miller, Érica T. Prates, Angelica M. Walker, B. Kirtley Amos, Alan E. Mast, Amy C. Justice, Bruce J. Aronow, Daniel Jacobson
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pbio.3001387

Neutrophils promote T-cell activation through the regulated release of CD44-bound Galectin-9 from the cell surface during HIV infection
Cited by: 16
Author(s): Garett Dunsmore, Eliana Perez Rosero, Shima Shahbaz, Deanna M. Santer, Juan Jovel, Paige Lacy, Stan Houston, Shokrollah Elahi
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pbio.1001732

A Downy Mildew Effector Attenuates Salicylic Acid–Triggered Immunity in Arabidopsis by Interacting with the Host Mediator Complex
Cited by: 167
Author(s): Marie‐Cécile Caillaud, Shuji Asai, Ghanasyam Rallapalli, Sophie J. M. Piquerez, Georgina Fabro, Jonathan D. G. Jones
Software Mentions: 1
Published: over 12 years ago

10.3389/fonc.2021.634732

Using lncRNA Sequencing to Reveal a Putative lncRNA-mRNA Correlation Network and the Potential Role of PCBP1-AS1 in the Pathogenesis of Cervical Cancer
Cited by: 6
Author(s): Linhan Li, Qiuju Peng, Min Gong, Ling Ling, Yingxue Xu, Qiaoling Liu
Software Mentions: 1
Published: over 5 years ago

10.3389/fonc.2021.696532

FOXM1-AKT Positive Regulation Loop Provides Venetoclax Resistance in AML
Cited by: 10
Author(s): Mikhail S. Chesnokov, Soheila Borhani, Marianna Halasi, Zarema Arbieva, Irum Khan, Andrei L. Gartel
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pbio.3001352

The antiviral state has shaped the CpG composition of the vertebrate interferome to avoid self-targeting
Cited by: 13
Author(s): Andrew Shaw, Suzannah J. Rihn, Nardus Mollentze, Arthur Wickenhagen, Douglas G. Stewart, Richard Orton, Srikeerthana Kuchi, Siddharth Bakshi, Milagros Rodriguez Collados, Matthew L. Turnbull, Joseph Busby, Quan Gu, Katherine Smollett, Connor Bamford, Elena Sugrue, Paul C. D. Johnson, Ana Filipe da Silva, Alfredo Castelló, Daniel G. Streicker, David L. Robertson, Massimo Palmarini, Sam J. Wilson
Software Mentions: 1
Published: almost 5 years ago

10.1038/s41598-019-45326-5

Genes functioned in kleptoplastids of Dinophysis are derived from haptophytes rather than from cryptophytes
Cited by: 10
Author(s): Yuki Hongo, Akinori Yabuki, Katsunori Fujikura, Satoshi Nagai
Software Mentions: 1
Published: about 7 years ago

10.1186/s12864-017-3585-x

RNA-seq of life stages of the oomycete Phytophthora infestans reveals dynamic changes in metabolic, signal transduction, and pathogenesis genes and a major role for calcium signaling in development
Cited by: 70
Author(s): Audrey M. V. Ah‐Fong, Kyoung Su Kim, Howard S. Judelson
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-019-6370-1

Combining transcriptomics and metabolomics to reveal the underlying molecular mechanism of ergosterol biosynthesis during the fruiting process of Flammulina velutipes
Cited by: 14
Author(s): Ruihong Wang, Pengda Ma, Chen Li, Lingang Xiao, Zongsuo Liang, Juane Dong
Software Mentions: 1
Published: almost 7 years ago

10.3390/ijms21186493

Transcriptome Analysis of Testis from HFD-Induced Obese Rats (Rattus norvigicus) Indicated Predisposition for Male Infertility
Cited by: 6
Author(s): Ahmed M. El-Shehawi, Samir Ahmed El-Shazly, Mohamed M. Ahmed, Mohamed Alkafafy, Samy Sayed, Samy Farouk, Saqer S. Alotaibi, Mona M. Elseehy
Software Mentions: 1
Published: about 6 years ago

10.3390/plants10091775

Comparative Transcriptomics of Non-Embryogenic and Embryogenic Callus in Semi-Recalcitrant and Non-Recalcitrant Upland Cotton Lines
Cited by: 8
Author(s): Sonika Kumar, Ashleigh Ruggles, Sam Logan, Alora Mazarakis, Tyson Thomas, Matthew Bates, Clayton Grosse, David L. Reed, Zhigang Li, Jane Grimwood, Jeremy Schmutz, Christopher Saski
Software Mentions: 1
Published: about 5 years ago

10.3390/plants9060713

Transcriptome and Network Analyses of Heterostyly in Turnera subulata Provide Mechanistic Insights: Are S-Loci a Red-Light for Pistil Elongation?
Cited by: 8
Author(s): Paige M. Henning, Joel S. Shore, Andrew G. McCubbin
Software Mentions: 1
Published: over 6 years ago

10.3389/fonc.2020.00330

Bioinformatics Identified 17 Immune Genes as Prognostic Biomarkers for Breast Cancer: Application Study Based on Artificial Intelligence Algorithms
Cited by: 29
Author(s): Zhiqiao Zhang, Jing Li, Tingshan He, Jianqiang Ding
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-015-1420-9

Comparative transcriptome analyses on silk glands of six silkmoths imply the genetic basis of silk structure and coloration
Cited by: 21
Author(s): Yang Dong, Fangyin Dai, Yandong Ren, Hui Liu, Lei Chen, Pengcheng Yang, Yanping Liu, Xin Li, Wen Wang, Hui Xiang
Software Mentions: 1
Published: over 11 years ago

10.3390/plants9040540

Transcriptome Profiling of Ornithogalum dubium Leaves and Flowers to Identify Key Carotenoid Genes for CRISPR Gene Editing
Cited by: 9
Author(s): Zunzheng Wei, Tzahi Arazi, Nofar Hod, Matat Zohar, Tal Isaacson, Adi Doron‐Faigenboim, Noam Reznik, Iris Yedidia
Software Mentions: 1
Published: over 6 years ago

10.3390/plants10081535

Transcriptome Analysis Reveals Key Genes Involved in Weevil Resistance in the Hexaploid Sweetpotato
Cited by: 3
Author(s): Kanoko Nokihara, Yoshihiro Okada, Shinichiro Ohata, Yuki Monden
Software Mentions: 1
Published: about 5 years ago

10.3390/ijms19113412

Transcriptomic Analysis of Betula halophila in Response to Salt Stress
Cited by: 17
Author(s): Fenjuan Shao, Lisha Zhang, Iain W. Wilson, Deyou Qiu
Software Mentions: 1
Published: almost 8 years ago

10.3389/fonc.2019.00357

Significance of PTEN Mutation in Cellular Process, Prognosis, and Drug Selection in Clear Cell Renal Cell Carcinoma
Cited by: 21
Author(s): Caibin Fan, Chenhao Zhao, Fei Wang, Shugen Li, Jianqing Wang
Software Mentions: 1
Published: over 7 years ago

10.3390/plants8120603

Conjunctive Analyses of BSA-Seq and BSR-Seq to Reveal the Molecular Pathway of Leafy Head Formation in Chinese Cabbage
Cited by: 13
Author(s): Rui Li, Zhongle Hou, Liwei Gao, Dong Xiao, Xilin Hou, Changwei Zhang, Jun Yan, Lixiao Song
Software Mentions: 1
Published: over 6 years ago

10.3389/fpls.2016.01338

Identification of Candidate Anthocyanin-Related Genes by Transcriptomic Analysis of ‘Furongli’ Plum (Prunus salicina Lindl.) during Fruit Ripening Using RNA-Seq
Cited by: 46
Author(s): Zhi‐Zhen Fang, Dan‐Rong Zhou, Xinfu Ye, Cuicui Jiang, Shao‐Lin Pan
Software Mentions: 1
Published: about 10 years ago

10.1186/1471-2164-14-864

A detailed gene expression study of the Miscanthusgenus reveals changes in the transcriptome associated with the rejuvenation of spring rhizomes
Cited by: 28
Author(s): Adam Barling, Kankshita Swaminathan, Therese Mitros, Brandon T. James, Juliette Morris, Ornella Ngamboma, Mark E. Hall, Jessica Kirkpatrick, Magdy S. Alabady, Ashley K. Spence, Matthew E. Hudson, Daniel S. Rokhsar, Stephen P. Moose
Software Mentions: 1
Published: almost 13 years ago

10.3390/ijms19123735

Comparative Transcriptome Analysis between a Resistant and a Susceptible Wild Tomato Accession in Response to Phytophthora parasitica
Cited by: 25
Author(s): Zunaira Afzal Naveed, Gul Shad Ali
Software Mentions: 1
Published: almost 8 years ago

10.3390/plants9091068

Overexpression of Jatropha curcas ERFVII2 Transcription Factor Confers Low Oxygen Tolerance in Transgenic Arabidopsis by Modulating Expression of Metabolic Enzymes and Multiple Stress-Responsive Genes
Cited by: 4
Author(s): Piyada Juntawong, Pimprapai Butsayawarapat, Pattralak Songserm, Ratchaneeporn Pimjan, Supachai Vuttipongchaikij
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms21197251

Inhibitory Effect of a Human MicroRNA, miR-6133-5p, on the Fibrotic Activity of Hepatic Stellate Cells in Culture
Cited by: 8
Author(s): Susumu Hamada-Tsutsumi, Mai Onishi, Kiyotaka Matsuura, Masanori Isogawa, Keigo Kawashima, Yusuke Sato, Yasuhito Tanaka
Software Mentions: 1
Published: almost 6 years ago

10.3390/nu10111721

The Effect of Dietary Mushroom Agaricus bisporus on Intestinal Microbiota Composition and Host Immunological Function
Cited by: 25
Author(s): Gloria Solano‐Aguilar, Saebyeol Jang, Sukla Lakshman, Richi Gupta, Ethiopia Beshah, Masoumeh Sikaroodi, Bryan T. Vinyard, Aleksey Molokin, Patrick M. Gillevet, Joseph F. Urban
Software Mentions: 1
Published: almost 8 years ago

10.3390/plants9080970

Histological, Physiological and Transcriptomic Analysis Reveal Gibberellin-Induced Axillary Meristem Formation in Garlic (Allium sativum)
Cited by: 10
Author(s): Hongjiu Liu, Yanbin Wen, Mingming Cui, Xiaofang Qi, Rui Deng, Jingcao Gao, Zhihui Cheng
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms21062128

Cardiac miRNA Expression and their mRNA Targets in a Rat Model of Prediabetes
Cited by: 8
Author(s): Éva Sághy, Imre Vörös, Bence Ágg, Bernadett Kiss, Gábor Koncsos, Zoltán V. Varga, Anikó Görbe, Zoltán Giricz, Rainer Schulz, Péter Ferdinándy
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2019.00707

Target Genes of Autism Risk Loci in Brain Frontal Cortex
Cited by: 13
Author(s): Yan Sun, Xueming Yao, Michael March, Xinyi Meng, Junyi Li, Zhi Wei, Patrick Sleiman, Hákon Hákonarson, Qianghua Xia, Jin Li
Software Mentions: 1
Published: about 7 years ago

10.3389/fpls.2016.00432

Using Transcriptomics to Identify Differential Gene Expression in Response to Salinity among Australian Phragmites australis Clones
Cited by: 18
Author(s): Gareth D. Holmes, Nathan E. Hall, Anthony R. Gendall, Paul I. Boon, Elizabeth A. James
Software Mentions: 1
Published: over 10 years ago

10.3390/plants10061204

Identification and Expression Profiling of Nonphosphorus Glycerolipid Synthase Genes in Response to Abiotic Stresses in Dendrobium catenatum
Cited by: 3
Author(s): Xinqiao Zhan, Yichun Qian, Bizeng Mao
Software Mentions: 1
Published: about 5 years ago

10.3389/fpls.2018.00252

The Novel Secreted Meloidogyne incognita Effector MiISE6 Targets the Host Nucleus and Facilitates Parasitism in Arabidopsis
Cited by: 27
Author(s): Qianqian Shi, Zhenchuan Mao, Xiaoping Zhang, Jian Ling, Runmao Lin, Xi Zhang, Rui Li, Yunsheng Wang, Youyou Yang, Xinyue Cheng, Bingyan Xie
Software Mentions: 1
Published: over 8 years ago

10.3389/fgene.2019.01377

Data Mining and Expression Analysis of Differential lncRNA ADAMTS9-AS1 in Prostate Cancer
Cited by: 39
Author(s): Jiahui Wan, Jiangbo Shu, Ying Jiang, Wei Ma, Xiuli Wang, Zikang He, Rongjun Cui
Software Mentions: 1
Published: over 6 years ago

10.1155/2021/5597135

A New Lectin from Auricularia auricula Inhibited the Proliferation of Lung Cancer Cells and Improved Pulmonary Flora
Cited by: 2
Author(s): Zhendong Liu, Liang Li, Bei Xue, Dandan Zhao, Yanlong Zhang, Xiufeng Yan
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-019-46696-6

De novo assembly of the Platycladus orientalis (L.) Franco transcriptome provides insight into the development and pollination mechanism of female cone based on RNA-Seq data
Cited by: 4
Author(s): Wei Zhou, Qi Chen, Xiaobing Wang, Tyler O. Hughes, Jing Liu, Xin Zhang
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-019-46886-2

RNA sequencing analysis revealed the induction of CCL3 expression in human intracranial aneurysms
Cited by: 15
Author(s): Tomohiro Aoki, Hirokazu Koseki, Haruka Miyata, Masayoshi Itoh, Hideya Kawaji, Kazuyasu Takizawa, Akitsugu Kawashima, Hiroshi Ujiié, Takashi Higa, Kenzo Minamimura, Toshikazu Kimura, Hidetoshi Kasuya, Kazuhiko Nozaki, Akio Morita, Hirotoshi Sano, Shuh Narumiya
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-019-46981-4

Analysis of lncRNA-miRNA-mRNA Interactions in Hyper-proliferative Human Pulmonary Arterial Smooth Muscle Cells
Cited by: 9
Author(s): Mahendran Chinnappan, Sumedha Gunewardena, Prabhakar Chalise, Navneet K. Dhillon
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-019-47016-8

Wx: a neural network-based feature selection algorithm for transcriptomic data
Cited by: 12
Author(s): Sung Soo Park, Bonggun Shin, Won Sang Shim, Yuni Choi, Kilsoo Kang, Keunsoo Kang
Software Mentions: 1
Published: about 7 years ago

10.3390/plants9070891

RNAseq Analysis Reveals Altered Expression of Key Ion Transporters Causing Differential Uptake of Selective Ions in Canola (Brassica napus L.) Grown under NaCl Stress
Cited by: 16
Author(s): Mobina Ulfat, Habib‐ur‐Rehman Athar, Zaheer-Ud-Din Khan, Hazem M. Kalaji
Software Mentions: 1
Published: about 6 years ago

Projects: bioconductor: edgeR

Science Score: 100/100

Bonuses:

Papers Mentioning edgeR 6,568