bioconductor: edgeR | Projects | Ecosyste.ms: Papers

10.1096/fj.201701558R

Macrophage‐derived extracellular vesicles mediate smooth muscle hyperplasia: role of altered miRNA cargo in response to HIV infection and substance abuse
Cited by: 45
Author(s): Himanshu Sharma, Mahendran Chinnappan, Stuti Agarwal, Pranjali Dalvi, Sumedha Gunewardena, Amy O’Brien-Ladner, Navneet K. Dhillon
Software Mentions: 1
Published: over 8 years ago

10.12688/f1000research.9094.2

Selective inhibition of ASIC1a confers functional and morphological neuroprotection following traumatic spinal cord injury
Cited by: 6
Author(s): Liam M. Koehn, Natassya M. Noor, Qing Dong, Sing-Yan Er, Lachlan D. Rash, Glenn F. King, Katarzyna M. Dzięgielewska, NR Saunders, Mark D. Habgood
Software Mentions: 1
Published: almost 10 years ago

10.12688/f1000research.3928.2

edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR-Cas9 genetic screens
Cited by: 68
Author(s): Zhiyin Dai, Julie Sheridan, Linden J. Gearing, Darcy Moore, Shian Su, Sam Wormald, Stephen Wilcox, Liam O’Connor, Ross A. Dickins, Marnie E. Blewitt, Matthew E. Ritchie
Software Mentions: 1
Published: about 12 years ago

10.1186/s40164-021-00230-5

Blocking siglec-10hi tumor-associated macrophages improves anti-tumor immunity and enhances immunotherapy for hepatocellular carcinoma
Cited by: 26
Author(s): Nan Xiao, Xiao‐Dong Zhu, Kangshuai Li, Yifan Chen, Xuefeng Li, Bin Xu, Ming Lei, Jiejie Xu, Hui–Chuan Sun
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-76171-6

Characterization of transcriptional response of Lactobacillus plantarum under acidic conditions provides insight into bacterial adaptation in fermentative environments
Cited by: 6
Author(s): Sera Jung, Jong Hee Lee
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms20092360

OsbZIP81, A Homologue of Arabidopsis VIP1, May Positively Regulate JA Levels by Directly Targetting the Genes in JA Signaling and Metabolism Pathway in Rice
Cited by: 22
Author(s): Defang Liu, Shaopeng Shi, Hao Zhang, Wentao Xiong, Meizhong Luo
Software Mentions: 1
Published: over 7 years ago

10.1093/emph/eow010

Human fibroblasts display a differential focal adhesion phenotype relative to chimpanzee
Cited by: 5
Author(s): Alexander S. Advani, Annie Y. Chen, Courtney C. Babbitt
Software Mentions: 1
Published: almost 11 years ago

10.1002/mbo3.899

Shared and unique microbes between Small hive beetles (Aethina tumida) and their honey bee hosts
Cited by: 9
Author(s): Qiang Huang, Dawn Lopez, Jay D. Evans
Software Mentions: 1
Published: over 7 years ago

10.1111/eva.13024

Age‐dependent expression of cancer‐related genes in a long‐lived seabird
Cited by: 4
Author(s): Richard Meitern, Jérôme Fort, Mathieu Giraudeau, Kalev Rattiste, Elin Sild, Tuul Sepp
Software Mentions: 1
Published: over 6 years ago

10.1186/s13227-016-0050-x

Conserved expression of vertebrate microvillar gene homologs in choanocytes of freshwater sponges
Cited by: 42
Author(s): Jesús F. Peña, Alexandre Alié, Daniel J. Richter, Lingyu Wang, Noriko Funayama, Scott Nichols
Software Mentions: 1
Published: over 10 years ago

10.1186/s13227-016-0044-8

HOX gene complement and expression in the planarian Schmidtea mediterranea
Cited by: 73
Author(s): Ko W. Currie, David D. R. Brown, Shujun Zhu, Changjiang Xu, Véronique Voisin, Gary D. Bader, Bret J. Pearson
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-020-74594-9

Involvement of neutrophils in machineries underlying the rupture of intracranial aneurysms in rats
Cited by: 19
Author(s): Mika Kushamae, Haruka Miyata, Makoto Shirai, Kampei Shimizu, Mieko Oka, Hirokazu Koseki, Yu Abekura, Isao Ono, Kazuhiko Nozaki, Tohru Mizutani, Tomohiro Aoki
Software Mentions: 1
Published: almost 6 years ago

10.1155/2020/8591892

Fuzheng Huayu Recipe Prevented and Treated CCl4-Induced Mice Liver Fibrosis through Regulating Polarization and Chemotaxis of Intrahepatic Macrophages via CCL2 and CX3CL1
Cited by: 14
Author(s): Man Zhang, Hongliang Liu, Kai Huang, Yuan Peng, Tao Yue, Changqing Zhao, Xudong Hu, Chenghai Liu
Software Mentions: 1
Published: almost 6 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: over 5 years ago

10.1111/pbi.12960

Transgenic creeping bentgrass overexpressing Osa‐miR393a exhibits altered plant development and improved multiple stress tolerance
Cited by: 63
Author(s): Junlong Zhao, Shuangrong Yuan, Man Zhou, Nannan Yuan, Zhigang Li, Qian Hu, Frank Bethea, Haibo Liu, Shigui Li, Hong Luo
Software Mentions: 1
Published: over 8 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

10.1038/s41598-020-77177-w

Transcriptome analyses reveals the dynamic nature of oil accumulation during seed development of Plukenetia volubilis L.
Cited by: 6
Author(s): Lu Guo, Zhihua Wu, Peng Yan, Xiuhua Shang, Yi Xie, R. J. Arnold
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-77598-7

Functional characterisation of the transcriptome from leaf tissue of the fluoroacetate-producing plant, Dichapetalum cymosum, in response to mechanical wounding
Cited by: 7
Author(s): Selisha A. Sooklal, Phelelani T. Mpangase, Mihai-Silviu Tomescu, Shaun Aron, Scott Hazelhurst, Robert H. Archer, Karl Rumbold
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13072-015-0013-9

Modelling the conditional regulatory activity of methylated and bivalent promoters
Cited by: 7
Author(s): David Budden, Daniel Hurley, Edmund J. Crampin
Software Mentions: 1
Published: over 11 years ago

10.1289/ehp.1408188

Effects of the Endocrine-Disrupting Chemical DDT on Self-Renewal and Differentiation of Human Mesenchymal Stem Cells
Cited by: 53
Author(s): Amy L. Strong, Zhenzhen Shi, Michael J. Strong, David F. Miller, Douglas B. Rusch, Aaron Buechlein, Erik K. Flemington, John A. McLachlan, Kenneth P. Nephew, Matthew E. Burow, Bruce A. Bunnell
Software Mentions: 1
Published: almost 12 years ago

10.1038/s41598-020-77293-7

Comparative transcriptome analysis implied a ZEP paralog was a key gene involved in carotenoid accumulation in yellow-fleshed sweetpotato
Cited by: 13
Author(s): Koichi Suematsu, Masaru Tanaka, Rie Kurata, Kai Yu
Software Mentions: 1
Published: almost 6 years ago

10.1155/2020/1384907

Proteome and Transcriptome Analysis of the Antioxidant Mechanism in Chicken Regulated by Eucalyptus Leaf Polyphenols Extract
Cited by: 2
Author(s): Wei Li, Zeqi He, Xiaoying Zhang, Yunjiao Chen, Jianjun Zuo, Yong Cao
Software Mentions: 1
Published: over 6 years ago

10.1186/s12940-017-0288-3

Genome-wide gene by lead exposure interaction analysis identifies UNC5D as a candidate gene for neurodevelopment
Cited by: 18
Author(s): Zhao‐Xi Wang, Birgit Claus Henn, Chaolong Wang, Yongyue Wei, Su Li, Ryan Sun, Han Chen, Peter J. Wagner, Quan Lu, Xihong Lin, Robert O. Wright, David C. Bellinger, Molly L. Kile, Maitreyi Mazumdar, Martha María Téllez‐Rojo, Lourdes Schnaas, David C. Christiani
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-020-78976-x

Early pregnancy maternal progesterone administration alters pituitary and testis function and steroid profile in male fetuses
Cited by: 13
Author(s): Katarzyna Siemienowicz, Yili Wang, Magda Marečková, Junko Nio‐Kobayashi, Paul A. Fowler, Michael T. Rae, W. Colin Duncan
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-78781-6

Identifying transcription factors that reduce wood recalcitrance and improve enzymatic degradation of xylem cell wall in Populus
Cited by: 6
Author(s): Chiaki Hori, Naoki Takata, Pui Ying Lam, Yuki Tobimatsu, Soichiro Nagano, Jenny C. Mortimer, Dan Cullen
Software Mentions: 1
Published: almost 6 years ago

10.1111/pbi.12754

Genomewide analysis of the lateral organ boundaries domain gene family in Eucalyptus grandis reveals members that differentially impact secondary growth
Cited by: 40
Author(s): Qiang Lu, Fenjuan Shao, Colleen MacMillan, Iain W. Wilson, Karen Van der Merwe, Steven G. Hussey, Alexander Andrew Myburg, Xiaomei Dong, Deyou Qiu
Software Mentions: 1
Published: over 9 years ago

10.1155/2020/8847226

A Prognostic 14-Gene Expression Signature for Lung Adenocarcinoma: A Study Based on TCGA Data Mining
Cited by: 4
Author(s): Jie Liu, Shiqiang Hou, Jinyi Wang, Zhengjun Chai, Xuan Hong, Tian Zhao, Zheng Sun, Liandi Bai, Hongyan Gao, Jing Gao, Guohan Chen
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12940-020-00666-y

Epigenome-wide association study for pesticide (Permethrin and DEET) induced DNA methylation epimutation biomarkers for specific transgenerational disease
Cited by: 12
Author(s): Jennifer L. M. Thorson, Daniel Beck, Millissia Ben Maamar, Eric Nilsson, Michael K. Skinner
Software Mentions: 1
Published: almost 6 years ago

10.1093/eep/dvaa022

Effect of concentration and duration of particulate matter exposure on the transcriptome and DNA methylome of bronchial epithelial cells
Cited by: 12
Author(s): Steven K. Huang, Priya Tripathi, Lada A. Koneva, Raymond G. Cavalcante, N. Craig, Anne M. Scruggs, Maureen A. Sartor, Furong Deng, Yahong Chen
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-80837-6

Transcriptome and phytochemical analyses provide insights into the organic sulfur pathway in Allium hirtifolium
Cited by: 6
Author(s): Aboozar Soorni, Amir Mohammad Akrami, Reza Abolghasemi, Maryam Vahedi
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-020-80280-7

Comparative transcriptome analysis reveals resistant and susceptible genes in tobacco cultivars in response to infection by Phytophthora nicotianae
Cited by: 15
Author(s): He Meng, Mingming Sun, Zipeng Jiang, Yutong Liu, Yu Sun, Dan Liŭ, Caihong Jiang, Min Ren, Guangdi Yuan, Wenlong Yu, Qi Sheng Feng, Aiguo Yang, Lei Cheng, Yuanying Wang
Software Mentions: 1
Published: almost 6 years ago

10.1093/eep/dvy026

Fatherhood alters gene expression within the MPOA
Cited by: 7
Author(s): Adele M. H. Seelke, Jessica Bond, Trent C Simmons, Nikhil Joshi, Matthew L. Settles, Danielle S. Stolzenberg, Mijke Rhemtulla, Karen L. Bales
Software Mentions: 1
Published: about 8 years ago

10.1111/pbi.12913

Transcriptome reprogramming due to the introduction of a barley telosome into bread wheat affects more barley genes than wheat
Cited by: 27
Author(s): Elodie Rey, Michaël Abrouk, Gabriel Keeble‐Gagnère, Miroslava Karafiátová, Jan Vrána, Sandrine Balzergue, Ludivine Soubigou‐Taconnat, Véronique Brunaud, Marie‐Laure Martin‐Magniette, Takashi R. Endo, Jan Bartoš, R. Appels, Jaroslav Doležel
Software Mentions: 1
Published: over 8 years ago

10.1002/ece3.7581

Comparative transcriptomics of albino and warningly‐coloured caterpillars
Cited by: 4
Author(s): Juan A. Galarza
Software Mentions: 1
Published: over 5 years ago

10.3390/ijms20143582

In Silico Analysis of Gene Expression Change Associated with Copy Number of Enhancers in Pancreatic Adenocarcinoma
Cited by: 12
Author(s): Rajesh Kumar, Sumeet Patiyal, Vinod Kumar, Gandharva Nagpal, Gajendra P. S. Raghava
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-021-81164-0

Androgen receptor and its splice variant, AR-V7, differentially induce mRNA splicing in prostate cancer cells
Cited by: 9
Author(s): Manjul Rana, Jianrong Dong, Matthew J. Robertson, Cristian Coarfa, Nancy L. Weigel
Software Mentions: 1
Published: almost 6 years ago

10.1002/ece3.7889

Transcriptomic response of Daphnia magna to nitrogen‐ or phosphorus‐limited diet
Cited by: 3
Author(s): Zhimeng Xu, Yingdong Li, Meng Li, Hongbin Liu
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-020-80680-9

GATA3 somatic mutations are associated with clinicopathological features and expression profile in TCGA breast cancer patients
Cited by: 14
Author(s): Fahimeh Afzaljavan, Ayeh Sadat Sadr, Sevtap Savas, Alireza Pasdar
Software Mentions: 1
Published: almost 6 years ago

10.1155/2020/4623107

Global Transcriptional Profiling Reveals Novel Autocrine Functions of Interleukin 6 in Human Vascular Endothelial Cells
Cited by: 8
Author(s): Liza U. Ljungberg, Mulugeta M. Zegeye, Caroline Kardeby, Knut Fälker, Dirk Repsilber, Allan Sirsjö
Software Mentions: 1
Published: over 6 years ago

10.15252/embr.202051660

Plasmodium transcription repressor AP2‐O3 regulates sex‐specific identity of gene expression in female gametocytes
Cited by: 21
Author(s): Zhenkui Li, Huiting Cui, Jiepeng Guan, Cong Liu, Zhengang Yang, Jing Yuan
Software Mentions: 1
Published: over 5 years ago

10.1002/mbo3.836

Metabolic comparison of aerial and submerged mycelia formed in the liquid surface culture of Cordyceps militaris
Cited by: 14
Author(s): Ahmad Suparmin, Tatsuya Kato, Hiroyuki Takemoto, Enoch Y. Park
Software Mentions: 1
Published: over 7 years ago

10.3390/ijms20174117

Transcriptome Profiling Provides Insight into the Genes in Carotenoid Biosynthesis during the Mesocarp and Seed Developmental Stages of Avocado (Persea americana)
Cited by: 17
Author(s): Yu Ge, Zhihao Cheng, Xiongyuan Si, Wei Ma, Lin Tan, Xiaoping Zang, Bin Wu, Zining Xu, Nan Wang, Zhaoxi Zhou, Xiao Lin, Xiangshu Dong, Rulin Zhan
Software Mentions: 1
Published: about 7 years ago

10.15252/embr.201744853

The dynamic recruitment of <scp>TRBP</scp> to neuronal membranes mediates dendritogenesis during development
Cited by: 22
Author(s): Anna Antoniou, Sharof Khudayberdiev, Agata Idziak, Silvia Bicker, Ralf Jacob, Gerhard Schratt
Software Mentions: 1
Published: almost 9 years ago

10.15252/embr.201949942

SMaRT lncRNA controls translation of a G‐quadruplex‐containing mRNA antagonizing the DHX36 helicase
Cited by: 18
Author(s): Julie Martone, Davide Mariani, Tiziana Santini, Adriano Setti, Sama Shamloo, Alessio Colantoni, Francesca Capparelli, Alessandro Paiardini, Dacia Dimartino, Mariangela Morlando, Irene Bozzoni
Software Mentions: 1
Published: over 6 years ago

10.1038/s41598-021-81856-7

Freshwater mussels (Unionidae) brought into captivity exhibit up-regulation of genes involved in stress and energy metabolism
Cited by: 10
Author(s): Ieva Roznere, Brandon T. Sinn, Marymegan Daly, G. Thomas Watters
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-021-82284-3

Notch signaling-modified mesenchymal stem cells improve tissue perfusion by induction of arteriogenesis in a rat hindlimb ischemia model
Cited by: 7
Author(s): Shigeru Miyagawa, Shigeru Miyagawa, Takuji Kawamura, Takashi Shibuya, Kenichi Watanabe, Tomoya Nakagawa, Akira Harada, Dai Chida, Yoshiki Sawa
Software Mentions: 1
Published: over 5 years ago

10.1038/s41420-020-00328-5

A defined N6-methyladenosine (m6A) profile conferred by METTL3 regulates muscle stem cell/myoblast state transitions
Cited by: 35
Author(s): Brandon Gheller, Jamie Blum, Ern Hwei Hannah Fong, Olga Malysheva, Benjamin D. Cosgrove, Anna Thalacker‐Mercer
Software Mentions: 1
Published: about 6 years ago

10.1038/s41420-021-00440-0

Dysregulation of miR-23b-5p promotes cell proliferation via targeting FOXM1 in hepatocellular carcinoma
Cited by: 9
Author(s): Xiaopei Yang, Shuguang Yang, Jun Song, Wenjie Yang, Jicheng Yang, Feng Zhang, Jianhua Rao
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-82509-5

Long non-coding RNAs as novel therapeutic targets in juvenile myelomonocytic leukemia
Cited by: 7
Author(s): Mattias Hofmans, Tim Lammens, Barbara Depreter, Ying Wu, Miriam Erlacher, Aurélie Cayé, Hélène Cavé, Christian Flotho, Valérie de Haas, Charlotte M. Niemeyer, Jan Starý, Filip Van Nieuwerburgh, Dieter Deforce, Wouter Van Loocke, Pieter Van Vlierberghe, Jan Philippé, Barbara De Moerloose
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-83074-7

Small RNAs and their targets are associated with the transgenerational effects of water-deficit stress in durum wheat
Cited by: 13
Author(s): Haipei Liu, Amanda J. Able, Jason A. Able
Software Mentions: 1
Published: over 5 years ago

10.3390/ijms20194933

Transforming Growth Factor-β1 Selectively Recruits microRNAs to the RNA-Induced Silencing Complex and Degrades CFTR mRNA under Permissive Conditions in Human Bronchial Epithelial Cells
Cited by: 13
Author(s): Nilay Mitash, Fangping Mu, Joshua E Donovan, Michael M. Myerburg, Sarangarajan Ranganathan, Catherine M. Greene, Agnieszka Swiatecka‐Urban
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-021-82848-3

A transcriptomic view to wounding response in young Scots pine stems
Cited by: 9
Author(s): Kean‐Jin Lim, Tanja Paasela, Anni Harju, Martti Venäläinen, Lars Paulín, Petri Auvinen, Katri Kärkkäinen, Teemu H. Teeri
Software Mentions: 1
Published: over 5 years ago

10.1038/s41420-019-0152-z

The whole transcriptome and proteome changes in the early stage of myocardial infarction
Cited by: 15
Author(s): Yanfei Li, Cuiping Wang, Tingting Li, Linlin Ma, Fangzhou Fan, Yueling Jin, Junwei Shen
Software Mentions: 1
Published: over 7 years ago

10.1186/s12934-020-01503-0

Effect of overexpression of SNF1 on the transcriptional and metabolic landscape of baker’s yeast under freezing stress
Cited by: 10
Author(s): Meng Kai Lü, Yang Xu, Xue Lin, Huan-Yuan Jiang, Xiaoping Hu, Sixin Liu
Software Mentions: 1
Published: almost 6 years ago

10.1038/s41598-021-83835-4

Lysosome repositioning as an autophagy escape mechanism by Mycobacterium tuberculosis Beijing strain
Cited by: 12
Author(s): Thanida Laopanupong, Pinidphon Prombutara, Phongthon Kanjanasirirat, Salisa Benjaskulluecha, Atsadang Boonmee, Tanapat Palaga, Stéphane Méresse, Jiraporn Paha, Tegar Adriansyah Putra Siregar, Tanawadee Khumpanied, Suparerk Borwornpinyo, Angkana Chaiprasert, Pongsak Utaisincharoen, Marisa Ponpuak
Software Mentions: 1
Published: over 5 years ago

10.1038/s41419-018-1025-8

IGF1R upregulation confers resistance to isoform-specific inhibitors of PI3K in PIK3CA-driven ovarian cancer
Cited by: 30
Author(s): Jonathan Zorea, Manu Prasad, Limor Cohen, Nan Li, Roman Schefzik, Susmita Ghosh, Barak Rotblat, Benedikt Brors, Moshe Elkabets
Software Mentions: 1
Published: about 8 years ago

10.1038/s41419-021-04126-4

Non-apoptotic function of caspase-8 confers prostate cancer enzalutamide resistance via NF-κB activation
Cited by: 6
Author(s): Jia Xia, Jiahui Zhang, Liangzhe Wang, Hailong Liu, Jie Wang, Junyan Liu, Zhao‐Qian Liu, Yingke Zhu, Yingjie Xu, Wen Yang, Yu Yan
Software Mentions: 1
Published: about 5 years ago

10.1038/s41598-021-84355-x

The role of gut microbiota and amino metabolism in the effects of improvement of islet β-cell function after modified jejunoileal bypass
Cited by: 9
Author(s): Cai Tan, Zhihua Zheng, Xiaogang Wan, Jiaqing Cao, Ran Wei, Jinyuan Duan
Software Mentions: 1
Published: over 5 years ago

10.3390/ijms20205172

Novel Pituitary Actions of Epidermal Growth Factor: Receptor Specificity and Signal Transduction for UTS1, EGR1, and MMP13 Regulation by EGF
Cited by: 5
Author(s): Qiongyao Hu, Shaohua Xu, Ya Cheng, Jingyi Jia, Lingling Zhou, Guangfu Hu
Software Mentions: 1
Published: about 7 years ago

10.1038/s41598-021-84402-7

Absence of X-chromosome dosage compensation in the primordial germ cells of Drosophila embryos
Cited by: 3
Author(s): Ryoma Ota, Makoto Hayashi, Shumpei Morita, Hideharu Miura, Satoru Kobayashi
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-021-84519-9

Comparative transcriptome profiles of large and small bodied large-scale loaches cultivated in paddy fields
Cited by: 3
Author(s): Liulan Zhao, Kuo He, Qing Xiao, Qiao Li, Wei Luo, Jie Luo, Hongmei Fu, Jiayao Li, Xugan Wu, Jun Du, Quan Gong, Xun Wang
Software Mentions: 1
Published: over 5 years ago

10.1038/s41419-019-1887-4

Direct neuronal reprogramming of olfactory ensheathing cells for CNS repair
Cited by: 15
Author(s): Xiaoyan Sun, Zijian Tan, Xu Huang, Xueyan Cheng, Yihang Yuan, Shangyao Qin, Dan Wang, Xiangyou Hu, Yakun Gu, Wen-Jing Qian, Zhongfeng Wang, Cheng He, Zhida Su
Software Mentions: 1
Published: about 7 years ago

10.3390/ijms20205069

Renal Artery Stenosis Alters Gene Expression in Swine Scattered Tubular-Like Cells
Cited by: 7
Author(s): Arash Aghajani Nargesi, Xiang Yang Zhu, Yuanhang Liu, Hui Tang, Kyra L. Jordan, Lilach O. Lerman, Alfonso Eirin
Software Mentions: 1
Published: about 7 years ago

10.1007/s00425-020-03424-z

The identification of differentially expressed genes in male and female gametophytes of simple thalloid liverwort Pellia endiviifolia sp. B using an RNA-seq approach
Cited by: 3
Author(s): Izabela Sierocka, Sylwia Alaba, Artur Jarmołowski, Wojciech M. Karłowski, Zofia Szweykowska-Kulińska
Software Mentions: 1
Published: over 6 years ago

10.1038/s41419-021-03510-4

Suppression of steroid 5α-reductase type I promotes cellular apoptosis and autophagy via PI3K/Akt/mTOR pathway in multiple myeloma
Cited by: 12
Author(s): Renjie Dou, Jinjun Qian, Wei Wu, Yanxin Zhang, Ye Yuan, Mengjie Guo, Rongfang Wei, Shu Yang, Artur Jurczyszyn, Siegfried Janz, Meral Beksaç, Chunyan Gu, Ye Yang
Software Mentions: 1
Published: over 5 years ago

10.1038/cddis.2015.392

Hemoglobinuria-related acute kidney injury is driven by intrarenal oxidative reactions triggering a heme toxicity response
Cited by: 96
Author(s): Jeremy Deuel, Christian A. Schaer, Felicitas S Boretti, Lennart Opitz, Inés García-Rubio, Jin Hyen Baek, Donat R. Spahn, Paul W. Buehler, Dominik J. Schaer
Software Mentions: 1
Published: almost 11 years ago

10.1038/s41419-020-03107-3

ClC-3/SGK1 regulatory axis enhances the olaparib-induced antitumor effect in human stomach adenocarcinoma
Cited by: 12
Author(s): Zhuoyu Gu, Liping Wang, Xiaohan Yao, Long Qian, Kaping Lee, Jieyao Li, Dongli Yue, Shuman Yang, Yanfen Liu, Na Li, Yixin Li
Software Mentions: 1
Published: about 6 years ago

10.1038/s41419-020-2331-5

The nuclear gene rpl18 regulates erythroid maturation via JAK2-STAT3 signaling in zebrafish model of Diamond–Blackfan anemia
Cited by: 9
Author(s): Cheng Chen, Mengjia Lu, Shuo Lin, Wenzhi Qin
Software Mentions: 1
Published: over 6 years ago

10.1038/s41419-021-03661-4

MCPIP1-mediated NFIC alternative splicing inhibits proliferation of triple-negative breast cancer via cyclin D1-Rb-E2F1 axis
Cited by: 21
Author(s): Fengxia Chen, Qingqing Wang, Xiaoyan Yu, Ningning Yang, Yuan Wang, Yongquan Zeng, Zhewen Zheng, Fuxiang Zhou, Youwen Zhou
Software Mentions: 1
Published: over 5 years ago

10.1038/s41419-018-1110-z

Increasing G9a automethylation sensitizes B acute lymphoblastic leukemia cells to glucocorticoid-induced death
Cited by: 21
Author(s): Coralie Poulard, Estelle Baulu, Brian H. Lee, Miles A. Pufall, Michael R. Stallcup
Software Mentions: 1
Published: about 8 years ago

10.1038/s41419-020-03317-9

Histone deacetylase 2 regulates ULK1 mediated pyroptosis during acute liver failure by the K68 acetylation site
Cited by: 19
Author(s): Yao Wang, Qian Chen, Fangzhou Jiao, Chunxia Shi, Maohua Pei, Gaofeng Wang, Zuojiong Gong
Software Mentions: 1
Published: almost 6 years ago

10.14814/phy2.14344

Transcriptomic profiles reveal differences between the right and left ventricle in normoxia and hypoxia
Cited by: 9
Author(s): Matthew W. Gorr, Krishna Sriram, Amy M. Chinn, Abinaya Muthusamy, Paul A. Insel
Software Mentions: 1
Published: almost 7 years ago

10.7150/thno.59056

CXCL10 potentiates immune checkpoint blockade therapy in homologous recombination-deficient tumors
Cited by: 31
Author(s): Zhiwen Shi, Jianfeng Shen, Junjun Qiu, Qingguo Zhao, Keqin Hua, Hongyan Wang
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms20235893

An Integrated Analysis of the Rice Transcriptome and Metabolome Reveals Root Growth Regulation Mechanisms in Response to Nitrogen Availability
Cited by: 39
Author(s): Xin Wei, Lina Zhang, Wenzhong Zhang, Jiping Gao, Jun Yi, Xiaoxi Zhen, Min Du, Yanze Zhao, Liqiang Chen
Software Mentions: 1
Published: almost 7 years ago

10.14814/phy2.12473

The effect of acute and long-term physical activity on extracellular matrix and serglycin in human skeletal muscle
Cited by: 43
Author(s): Marit Hjorth, Frode Norheim, Astri Jeanette Meen, Shirin Pourteymour, Sindre Lee, Torgeir Holen, Jørgen Jensen, Kåre I. Birkeland, Vladimir Martinov, Torgrim M. Langleite, Kristin Eckardt, Christian A. Drevon, Svein Olav Kolset
Software Mentions: 1
Published: about 11 years ago

10.1038/s41419-021-03978-0

Novel FOXM1 inhibitor identified via gene network analysis induces autophagic FOXM1 degradation to overcome chemoresistance of human cancer cells
Cited by: 11
Author(s): Mikhail S. Chesnokov, Marianna Halasi, Soheila Borhani, Zarema Arbieva, Binal N. Shah, Rick Oerlemans, Irum Khan, Carlos J. Camacho, Andrei L. Gartel
Software Mentions: 1
Published: over 5 years ago

10.1007/s00408-019-00257-w

Growth Hormone-Releasing Hormone Receptor Antagonist Modulates Lung Inflammation and Fibrosis due to Bleomycin
Cited by: 29
Author(s): Chongxu Zhang, Renzhi Cai, Aaron Lazerson, Gaëtan J.-R. Delcroix, Medhi Wangpaichitr, Mehdi Mirsaeidi, Anthony J. Griswold, Andrew V. Schally, Robert M. Jackson
Software Mentions: 1
Published: about 7 years ago

10.3390/toxins11050299

Effects of Predator-Prey Interactions on Predator Traits: Differentiation of Diets and Venoms of a Marine Snail
Cited by: 9
Author(s): David Weese, Thomas F. Duda
Software Mentions: 1
Published: over 7 years ago

10.3390/toxins12030180

Deoxynivalenol Induces Inflammation in IPEC-J2 Cells by Activating P38 Mapk And Erk1/2
Cited by: 33
Author(s): Hua Zhang, Xiaoyan Deng, Chuang Zhou, Weijie Wu, Haibin Zhang
Software Mentions: 1
Published: over 6 years ago

10.1038/s41419-019-2027-x

Circ-Spidr enhances axon regeneration after peripheral nerve injury
Cited by: 22
Author(s): Susu Mao, Tao Huang, Yuanyuan Chen, Longxiang Shen, Shuoshuo Zhou, Shanshan Zhang, Bin Yu
Software Mentions: 1
Published: about 7 years ago

10.3390/toxins13010021

Tissue-Biased and Species-Specific Regulation of Glutathione Peroxidase (GPx) Genes in Scallops Exposed to Toxic Dinoflagellates
Cited by: 10
Author(s): Sein Moh Moh Hlaing, Jiarun Lou, Jie Cheng, Xiaogang Xun, Moli Li, Wei Lü, Xiaoli Hu, Zhenmin Bao
Software Mentions: 1
Published: almost 6 years ago

10.14814/phy2.14289

Prostaglandin D2signaling is not involved in the recovery of rat hind limb tendons from injury
Cited by: 3
Author(s): Dylan C. Sarver, Kristoffer B. Sugg, Jeffrey R Talarek, Jacob B. Swanson, David J. Oliver, Aaron C. Hinken, Henning F. Kramer, Christopher L. Mendias
Software Mentions: 1
Published: almost 7 years ago

10.14814/phy2.12750

RNA-sequencing of WFS1-deficient pancreatic islets
Cited by: 17
Author(s): Marilin Ivask, Alison Hugill, Sulev Kõks
Software Mentions: 1
Published: over 10 years ago

10.3390/toxins13070452

Tentacle Morphological Variation Coincides with Differential Expression of Toxins in Sea Anemones
Cited by: 10
Author(s): Lauren M. Ashwood, Michela L. Mitchell, Bruno Madio, David A. Hurwood, Glenn F. King, Eivind A. B. Undheim, Raymond S. Norton, Peter J. Prentis
Software Mentions: 1
Published: over 5 years ago

10.1038/s41419-018-0705-8

Jnk2 deficiency increases the rate of glaucomatous neurodegeneration in ocular hypertensive DBA/2J mice
Cited by: 16
Author(s): Jeffrey M Harder, Pete A. Williams, Ileana Soto, Nicole E. Foxworth, Kimberly A. Fernandes, Nelson F. Freeburg, Richard T. Libby, Simon W. M. John
Software Mentions: 1
Published: over 8 years ago

10.1038/cddis.2016.91

The cytoskeleton adaptor protein ankyrin-1 is upregulated by p53 following DNA damage and alters cell migration
Cited by: 26
Author(s): Alan Hall, Wei-Ting Lu, Jack D. Godfrey, Alexey V. Antonov, Claudia Paicu, Simon Moxon, Tamás Dalmay, Ania Wilczynska, Patricia Müller, Martin Bushell
Software Mentions: 1
Published: over 10 years ago

10.3390/ijms21010159

Transcriptome Response to Drought, Rehydration and Re-Dehydration in Potato
Cited by: 47
Author(s): Yongkun Chen, Canhui Li, Jing Yi, Yang Yu, Chunxia Lei, Ming Gong
Software Mentions: 1
Published: almost 7 years ago

10.1038/s41419-019-1791-y

Upregulation of SLAMF3 on human T cells is induced by palmitic acid through the STAT5-PI3K/Akt pathway and features the chronic inflammatory profiles of type 2 diabetes
Cited by: 16
Author(s): Tong Zhou, Guixia Wang, Yanan Lyu, Lei Wang, Siyao Zuo, Jun Zou, Lin Sun, Wenjie Zhao, Chang Shu, Yong‐Guang Yang, Zheng Hu
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.9849

Differentially expressed transcripts and associated protein pathways in basilar artery smooth muscle cells of the high-salt intake–induced hypertensive rat
Cited by: 0
Author(s): Junhao Huang, Lesha Zhang, Yang Fang, Wan Jiang, Juan Du, Jiaquan Zhu, Min Hu, Bing Shen
Software Mentions: 1
Published: about 6 years ago

10.1038/s41418-020-00652-4

Efferocytosis potentiates the expression of arachidonate 15-lipoxygenase (ALOX15) in alternatively activated human macrophages through LXR activation
Cited by: 38
Author(s): Ryan G. Snodgrass, Yvonne Benatzy, Tobias Schmid, Dmitry Namgaladze, Malwina Mainka, Nils Helge Schebb, Dieter Lütjohann, Bernhard Brüne
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.tranon.2021.101186

TMEM180 contributes to SW480 human colorectal cancer cell proliferation through intra-cellular metabolic pathways
Cited by: 1
Author(s): Takahiro Anzai, Shinji Saijou, Yoshitsugu Ohnuki, Hiroshi Kurosawa, Masahiro Yasunaga, Yasuhiro Matsumura
Software Mentions: 1
Published: about 5 years ago

10.1186/s12964-019-0448-x

Specific trophoblast transcripts transferred by extracellular vesicles affect gene expression in endometrial epithelial cells and may have a role in embryo-maternal crosstalk
Cited by: 29
Author(s): Masoumeh Eshaghi, Kasun Godakumara, Annika Häling, Freddy Lättekivi, Arina Lavrits, Janeli Viil, Aneta Andronowska, Tamer Nafee, Victoria James, Ülle Jaakma, Andres Salumets, Alireza Fazeli
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12964-020-00648-0

Alpha-1 antitrypsin deficient individuals have circulating extracellular vesicles with profibrogenic cargo
Cited by: 19
Author(s): Nazli Khodayari, Regina Oshins, L. Shannon Holliday, Virginia Clark, Qiang Xiao, George Marek, Borna Mehrad, Mark Brantly
Software Mentions: 1
Published: about 6 years ago

10.1002/cbin.11454

ERO1L promotes NSCLC development by modulating cell cycle‐related molecules
Cited by: 6
Author(s): Xiujuan Shi, Jiawen Wu, Yi Liu, Yuxiong Jiang, Changjiang Zhi, Jue Li
Software Mentions: 1
Published: about 6 years ago

10.3390/ijms21010118

Comparative Proteomic Analysis Reveals the Regulatory Effects of H2S on Salt Tolerance of Mangrove Plant Kandelia obovata
Cited by: 36
Author(s): Yiling Liu, Zhijun Shen, Martín Simón, Huan Li, Dongna Ma, Xike Zhu
Software Mentions: 1
Published: almost 7 years ago

10.3390/cancers11111634

PIK3CA Cooperates with KRAS to Promote MYC Activity and Tumorigenesis via the Bromodomain Protein BRD9
Cited by: 23
Author(s): Catherine Bell, Philipp Raffeiner, Jonathan R. Hart, Peter K. Vogt
Software Mentions: 1
Published: about 7 years ago

10.7717/peerj.4140

Transcriptomic analysis identifies genes and pathways related to myrmecophagy in the Malayan pangolin (Manis javanica)
Cited by: 18
Author(s): Jinge Ma, Linmiao Li, Haiying Jiang, Xiujuan Zhang, Juan Li, Guanyu Li, Lihong Yuan, Jun Wu, Jinping Chen
Software Mentions: 1
Published: almost 9 years ago

10.3390/cancers12061451

RKIP Regulates Differentiation-Related Features in Melanocytic Cells
Cited by: 7
Author(s): Cristina Penas, Aintzane Apraiz, Iraia Muñoa, Yoana Arroyo-Berdugo, Javier Rasero, Pilar Ariadna Ezkurra, Verónica Velasco, Nerea Subirán, Anja‐Katrin Bosserhoff, Santos Alonso, Aintzane Asumendi, María Dolores Boyano
Software Mentions: 1
Published: over 6 years ago

10.3390/cancers13122957

WWOX Loses the Ability to Regulate Oncogenic AP-2γ and Synergizes with Tumor Suppressor AP-2α in High-Grade Bladder Cancer
Cited by: 8
Author(s): Damian Kołat, Żaneta Kałuzińska, Andrzej K. Bednarek, Elżbieta Płuciennik
Software Mentions: 1
Published: over 5 years ago

10.3390/cancers13040715

SWATH-MS Based Proteomic Profiling of Prostate Cancer Cells Reveals Adaptive Molecular Mechanisms in Response to Anti-Androgen Therapy
Cited by: 8
Author(s): Chamikara Liyanage, Adil Malik, Pevindu Abeysinghe, Judith A. Clements, Jyotsna Batra
Software Mentions: 1
Published: over 5 years ago

Projects: bioconductor: edgeR

Science Score: 100/100

Bonuses:

Papers Mentioning edgeR 6,568