10.1186/s40694-019-0088-3

Bidirectional histone-gene promoters in Aspergillus: characterization and application for multi-gene expression
Cited by: 13
Author(s): Jakob Kræmmer Haar Rendsvig, Christopher T. Workman, Jakob Blæsbjerg Hoof
Software Mentions: 1
Published: over 6 years ago

10.1534/g3.114.012195

The Functional Significance of Common Polymorphisms in Zinc Finger Transcription Factors
Cited by: 9
Author(s): Sarah H. Lockwood, Anna Guan, Abigail Yu, Chi Zhang, Artem Zykovich, Ian F Korf, Bruce Rannala, David J. Segal
Software Mentions: 1
Published: almost 12 years ago

10.1007/s10120-020-01108-x

HDAC6/HNF4α loop mediated by miR-1 promotes bile acids-induced gastric intestinal metaplasia
Cited by: 13
Author(s): Na Wang, Min Chen, Ni Zhen, Ting Li, Jiaoxia Zeng, Guofang Lu, Jiaojiao Wang, Jian Zhang, Siran Wu
Software Mentions: 1
Published: about 6 years ago

10.3390/genes8010008

Non-Coding RNAs in Lung Cancer: Contribution of Bioinformatics Analysis to the Development of Non-Invasive Diagnostic Tools
Cited by: 23
Author(s): Meik Kunz, Beat Wolf, Harald Schulze, David Atlan, Thorsten Walles, Heike Walles, Thomas Dandekar
Software Mentions: 1
Published: over 9 years ago

10.3390/genes8090233

Predicting Variation of DNA Shape Preferences in Protein-DNA Interaction in Cancer Cells with a New Biophysical Model
Cited by: 4
Author(s): Kirill Batmanov, Junbai Wang
Software Mentions: 1
Published: almost 9 years ago

10.3390/genes10120977

Sp1 Mediates the Constitutive Expression and Repression of the PDSS2 Gene in Lung Cancer Cells
Cited by: 16
Author(s): Lingyu Hu, Quanmei Chen, Ying Wang, Na Zhang, Peixin Meng, Tong Liu, Youquan Bu
Software Mentions: 1
Published: over 6 years ago

10.3390/genes11010111

The Expression of Decidual Protein Induced by Progesterone (DEPP) Is Controlled by Three Distal Consensus Hypoxia Responsive Element (HRE) in Hypoxic Retinal Epithelial Cells
Cited by: 3
Author(s): Katrin Klee, Federica Storti, Jordi Maggi, Vyara Todorova, Duygu Karademir, Wolfgang Berger, Marijana Samardzija, Christian Grimm
Software Mentions: 1
Published: over 6 years ago

10.1186/s12936-016-1578-x

Scaling-up the use of sulfadoxine-pyrimethamine for the preventive treatment of malaria in pregnancy: results and lessons on scalability, costs and programme impact from three local government areas in Sokoto State, Nigeria
Cited by: 15
Author(s): Nosa Orobaton, Anne Austin, Dele Abegunde, Mohammed Ibrahim, Zainab Mohammed, Abdulazeez Jumare, Hakeem Ganiyu, Zwalle Nanbol, Bolaji Fapohunda, K. Beal
Software Mentions: 1
Published: almost 10 years ago

10.3390/genes11040394

The POU Transcription Factor POU-M2 Regulates Vitellogenin Receptor Gene Expression in the Silkworm, Bombyx mori
Cited by: 5
Author(s): Guanghui Shen, Enxiang Chen, Xiaocun Ji, Lina Liu, Jianqiu Liu, Xiaoting Hua, Dan Li, Yingdan Xiao, Qingyou Xia
Software Mentions: 1
Published: over 6 years ago

10.3390/genes12060888

Transcriptional Pausing and Activation at Exons-1 and -2, Respectively, Mediate the MGMT Gene Expression in Human Glioblastoma Cells
Cited by: 0
Author(s): Mohammed A. I. Al‐Obaide, Kalkunte S. Srivenugopal
Software Mentions: 1
Published: about 5 years ago

10.1155/2018/3832850

Development and Validation of Dummies and Human Models Used in Crash Test
Cited by: 19
Author(s): Tao Xu, Xiaoming Sheng, Tianyi Zhang, Huan Liu, Xiao Liang, Aili Ding
Software Mentions: 1
Published: almost 8 years ago

10.1007/s00705-017-3419-9

Complete genome sequences of two novel autographiviruses infecting a bacterium from the Pseudomonas fluorescens group
Cited by: 7
Author(s): Grzegorz Nowicki, Karolina Walkowiak-Nowicka, Agata Zemleduch-Barylska, Anna Mleczko, Patryk Frąckowiak, Natalia Nowaczyk, Emilia Kozdrowska, Jakub Barylski
Software Mentions: 1
Published: about 9 years ago

10.1155/2017/4097425

The Draft Genome of the Non-Host-Associated<i>Methanobrevibacter arboriphilus</i>Strain DH1 Encodes a Large Repertoire of Adhesin-Like Proteins
Cited by: 5
Author(s): Anja Poehlein, Rolf Daniel, Henning Seedorf
Software Mentions: 1
Published: over 9 years ago

10.1186/gb-2007-8-10-r225

Phylogenetic Simulation of Promoter Evolution: Estimation and Modeling of Binding Site Turnover Events and Assessing Their Impact on Alignment Tools
Cited by: 28
Author(s): Weichun Huang, Joseph R. Nevins, Uwe Ohler
Software Mentions: 1
Published: over 19 years ago

10.1186/gb-2007-8-7-r147

Meta-analysis of primary target genes of peroxisome proliferator-activated receptors
Cited by: 72
Author(s): Merja Heinäniemi, J Oskari Uski, Tatjana Degenhardt, Carsten Carlberg
Software Mentions: 1
Published: over 19 years ago

10.1186/gb-2008-9-4-r66

ModuleMiner - improved computational detection of cis-regulatory modules: are there different modes of gene regulation in embryonic development and adult tissues?
Cited by: 35
Author(s): Peter Van Loo, Stein Aerts, Bernard Thienpont, Bart De Moor, Yves Moreau, Peter Marynen
Software Mentions: 1
Published: over 18 years ago

10.1186/1471-2105-14-301

afterParty: turning raw transcriptomes into permanent resources
Cited by: 8
Author(s): Martin O. Jones, Mark Blaxter
Software Mentions: 1
Published: almost 13 years ago

10.1186/gb-2009-10-5-r46

MotifAdjuster: a tool for computational reassessment of transcription factor binding site annotations
Cited by: 5
Author(s): Jens Keilwagen, Jan Baumbach, Thomas A. Kohl, Ivo Große
Software Mentions: 1
Published: over 17 years ago

10.1186/gb-2012-13-8-r70

The mouse DXZ4 homolog retains Ctcf binding and proximity to Pls3 despite substantial organizational differences compared to the primate macrosatellite
Cited by: 36
Author(s): Andrea Harničarová Horáková, J. Mauro Calabrese, Christine R McLaughlin, Deanna C. Tremblay, Terry Magnuson, Brian P. Chadwick
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2105-15-160

A resource-saving collective approach to biomedical semantic role labeling
Cited by: 4
Author(s): Richard Tzong-Han Tsai, Po Ting Lai
Software Mentions: 1
Published: about 12 years ago

10.1186/s12862-015-0380-7

Characterization of fossilized relatives of the White Spot Syndrome Virus in genomes of decapod crustaceans
Cited by: 12
Author(s): Andrey Rozenberg, Philipp Brand, Nicole T. Rivera, Florian Leese, Christoph D. Schubart
Software Mentions: 1
Published: about 11 years ago

10.1186/s12862-017-1078-9

Species-specific genes under selection characterize the co-evolution of slavemaker and host lifestyles
Cited by: 12
Author(s): Barbara Feldmeyer, D. Elsner, Austin Alleman, Susanne Foitzik
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2164-14-178

Deep sequencing for de novo construction of a marine fish (Sparus aurata)transcriptome database with a large coverage of protein-coding transcripts
Cited by: 76
Author(s): Josep Àlvar Calduch-Giner, Azucena Bermejo-Nogales, Laura Benedito-Palos, Itziar Estensoro, Gabriel F. Ballester‐Lozano, Ariadna Sitjà‐Bobadilla, Jaume Pérez‐Sánchez
Software Mentions: 1
Published: over 13 years ago

10.1186/s13059-018-1405-5

Genomic positional conservation identifies topological anchor point RNAs linked to developmental loci
Cited by: 100
Author(s): Paulo Amaral, Tommaso Leonardi, Namshik Han, Emmanuelle Viré, Dennis K. Gascoigne, Raúl Arias‐Carrasco, Magdalena Büscher, Luca Pandolfini, Anda Zhang, Stefano Pluchino, Vinicius Maracaja‐Coutinho, Hidehiko Nakaya, Martin Hemberg, Ramin Shiekhattar, Anton J. Enright, Tony Kouzarides
Software Mentions: 1
Published: over 8 years ago

10.1186/1471-2164-13-406

Deciphering the complex leaf transcriptome of the allotetraploid species Nicotiana tabacum: a phylogenomic perspective
Cited by: 36
Author(s): Aureliano Bombarely, Kieron D. Edwards, Juan Pablo Sanchez-Tamburrino, Lukas A. Mueller
Software Mentions: 1
Published: about 14 years ago

10.1186/1471-2164-12-424

Determination of the melon chloroplast and mitochondrial genome sequences reveals that the largest reported mitochondrial genome in plants contains a significant amount of DNA having a nuclear origin
Cited by: 115
Author(s): Luis Rodríguez‐Moreno, Víctor González, Andrej Benjak, María C. Martí, Pere Puigdomènech, Miguel A. Aranda, Jordi García-Más
Software Mentions: 1
Published: about 15 years ago

10.1186/s12864-018-4454-y

Glutamate synthases from conifers: gene structure and phylogenetic studies
Cited by: 11
Author(s): Ángel García‐Gutiérrez, Francisco M. Cánovas, Concepción Ávila
Software Mentions: 1
Published: over 8 years ago

10.1186/s13059-021-02324-z

G-quadruplexes are transcription factor binding hubs in human chromatin
Cited by: 101
Author(s): Jochen Spiegel, Sergio Martínez Cuesta, Santosh Adhikari, Robert Hänsel‐Hertsch, David Tannahill, Shankar Balasubramanian
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-12-S3-S14

In silico secretome analysis approach for next generation sequencing transcriptomic data
Cited by: 30
Author(s): Gagan Garg, Shoba Ranganathan
Software Mentions: 1
Published: over 15 years ago

10.1186/s12864-017-3955-4

Comparative genomic and phylogenomic analyses of the Bifidobacteriaceae family
Cited by: 72
Author(s): Gabriele Andrea Lugli, Christian Milani, Francesca Turroni, Sabrina Duranti, Leonardo Mancabelli, Marta Mangifesta, Chiara Ferrario, Monica Marianna Modesto, Paola Mattarelli, Jiří Killer, Douwe van Sinderen, Marco Ventura
Software Mentions: 1
Published: about 9 years ago

10.1186/1471-2164-12-629

A pilot study for channel catfish whole genome sequencing and de novo assembly
Cited by: 26
Author(s): Yanliang Jiang, Jianguo Lü, Eric Peatman, Huseyin Kucuktas, Shikai Liu, Shaolin Wang, Fenyong Sun, Zhanjiang Liu
Software Mentions: 1
Published: over 14 years ago

10.1186/1471-2164-15-67

Accelerated evolution of the mitochondrial genome in an alloplasmic line of durum wheat
Cited by: 16
Author(s): Andrzej K. Noyszewski, Farhad Ghavami, Loai M. Alnemer, Afshin Soltani, Yong Gu, Naxin Huo, Steven W. Meinhardt, Penny M.A. Kianian, Shahryar F. Kianian
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2164-15-129

Comparative genomics of unintrogressed Campylobacter coli clades 2 and 3
Cited by: 36
Author(s): Caroline P. A. Skarp-de Haan, Alejandra Culebro, Thomas Schott, Joana Revez, Elke K. H. Schweda, Marja‐Liisa Hänninen, Mirko Rossi
Software Mentions: 1
Published: over 12 years ago

10.1161/JAHA.117.006130

De Novo <i>FGF12</i> (Fibroblast Growth Factor 12) Functional Variation Is Potentially Associated With Idiopathic Ventricular Tachycardia
Cited by: 14
Author(s): Qianqian Li, Yuanyuan Zhao, Gang Wu, Shanshan Chen, Yingchao Zhou, Sisi Li, Ming Zhou, Qian Fan, Jielin Pu, Kui Hong, Xiang Cheng, Qing Kenneth Wang, Xin Tu
Software Mentions: 1
Published: about 9 years ago

10.1007/s13353-018-0473-2

5’-flanking variants of equine casein genes (CSN1S1, CSN1S2, CSN2, CSN3) and their relationship with gene expression and milk composition
Cited by: 10
Author(s): J. Cieślak, Lukasz Wodas, Alicja Borowska, Piotr Pawlak, Grażyna Czyżak-Runowska, Jacek Wójtowski, Kamila Puppel, Beata Kuczyńska, Mariusz Mackowski
Software Mentions: 1
Published: almost 8 years ago

10.1186/1471-2164-15-964

A deep transcriptomic analysis of pod development in the vanilla orchid (Vanilla planifolia)
Cited by: 33
Author(s): Xiaolan Rao, Nick Krom, Yuhong Tang, Thomas Widiez, Daphna Havkin‐Frenkel, Faith C. Belanger, Richard A. Dixon, Fang Chen
Software Mentions: 1
Published: over 12 years ago

10.1016/j.jbc.2021.100272

Runx1 regulates zebrafish neutrophil maturation via synergistic interaction with c-Myb
Cited by: 2
Author(s): Zhibin Huang, Kemin Chen, Yali Chi, Hao Jin, Li Li, Wenqing Zhang, Jin Xu, Yiyue Zhang
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-14-78

Analysis of the leaf transcriptome of Musa acuminata during interaction with Mycosphaerella musicola: gene assembly, annotation and marker development
Cited by: 43
Author(s): M.A.N. Passos, V.O. Cruz, F.L. Emediato, Cristiane C. Teixeira, Vânia Cristina Rennó Azevedo, Ana Cristina Miranda Brasileiro, Édson Perito Amorim, Cláudia Fortes Ferreira, N. F. Martins, Roberto Coiti Togawa, G. J. Pappas Júnior, Orzenil Bonfim da Silva, Robert G. Miller
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2164-11-695

Deep sequencing of New World screw-worm transcripts to discover genes involved in insecticide resistance
Cited by: 33
Author(s): Rumão Batista Nunes de Carvalho, Ana Maria Lima de Azeredo-Espin, Tatiana Teixeira Torres
Software Mentions: 1
Published: over 15 years ago

10.7150/jca.37932

Mesenchymal stem/stromal cells-derived IL-6 promotes nasopharyngeal carcinoma growth and resistance to cisplatin via upregulating CD73 expression
Cited by: 27
Author(s): Jincheng Zeng, Shasha Chen, Caihong Li, Ziyu Ye, Bihua Lin, Yuanxin Liang, Bin Wang, Yan Ma, Xingxing Chai, Xin Zhang, Keyuan Zhou, Qunzhou Zhang, Haitao Zhang
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-14-753

Life based on phosphite: a genome-guided analysis of Desulfotignum phosphitoxidans
Cited by: 34
Author(s): Anja Poehlein, Rolf Daniel, Bernhard Schink, Diliana D. Simeonova
Software Mentions: 1
Published: almost 13 years ago

10.7150/jca.36822

The prognostic value of miRNA-18a-5p in clear cell renal cell carcinoma and its function via the miRNA-18a-5p/HIF1A/PVT1 pathway
Cited by: 9
Author(s): Huan Wang, Zhongyi Li, Zu-Hao Xu, Yuanlei Chen, Zeyi Lu, Danyang Shen, Jinmei Lu, Qiming Zheng, Liya Wang, Liwei Xu, Dingwei Xue, Haiyang Wu, Liqun Xia, Gonghui Li
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.13473

SRR intronic variation inhibits expression of its neighbouring SMG6 gene and protects against temporal lobe epilepsy
Cited by: 5
Author(s): Hua Tao, Xu Zhou, Qian Xie, Zhonghua Ma, Fu-hai Sun, Lili Cui, Yujie Cai, Guoda Ma, Jiawu Fu, Zhou Liu, You Li, Haihong Zhou, Jianghao Zhao, Yanyan Chen, Hui Mai, Ying Chen, Jun Chen, Qi Wei, Chang Sun, Bin Zhao, Keshen Li
Software Mentions: 1
Published: over 8 years ago

10.1186/s12864-015-1981-7

Integration of Ixodes ricinus genome sequencing with transcriptome and proteome annotation of the naïve midgut
Cited by: 37
Author(s): Wibke J. Cramaro, Dominique Revets, Oliver Hunewald, Regina Sinner, Anna L. Reye, Claude P. Muller
Software Mentions: 1
Published: almost 11 years ago

10.1111/jcmm.13932

Long noncoding RNA CASC9/miR-519d/STAT3 positive feedback loop facilitate the glioma tumourigenesis
Cited by: 47
Author(s): Hongjiang Liu, Chen Li, Jian Yang, Yuchen Sun, Shunyao Zhang, Jianhui Yang, Liang Yang, Yuanyu Wang, Baohua Jiao
Software Mentions: 1
Published: almost 8 years ago

10.1111/jcmm.14698

Up‐regulation of ZFAS1 indicates dismal prognosis for cholangiocarcinoma and promotes proliferation and metastasis by modulating USF1 via miR‐296‐5p
Cited by: 15
Author(s): Zhenglong Li, Xingming Jiang, Liyi Huang, Jinglin Li, Daolin Ji, Yi Xu, Kaiming Leng, Yunfu Cui
Software Mentions: 1
Published: almost 7 years ago

10.1111/jcmm.14919

Catechin relieves hypoxia/reoxygenation‐induced myocardial cell apoptosis via down‐regulating lncRNA MIAT
Cited by: 21
Author(s): Cong Li, Yisheng Su, Dazhen Wei, Qian Lü, Dawei Xing, Jialin Pan, Ye Chen, Ming-Yuan Huang
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-015-1294-x

Full genome SNP-based phylogenetic analysis reveals the origin and global spread of Brucella melitensis
Cited by: 66
Author(s): Kian Lam Tan, Yung-Chie Tan, Li-Yen Chang, Kok Wei Lee, Siti Sarah Nor'e, Wai-Yan Yee, Mohd Noor Mat Isa, Faizatul Lela Jafar, Chee-Choong Hoh, Sazaly AbuBakar
Software Mentions: 1
Published: over 11 years ago

10.1186/s12864-019-5713-2

Genomic sequencing of Troides aeacus nucleopolyhedrovirus (TraeNPV) from golden birdwing larvae (Troides aeacus formosanus) to reveal defective Autographa californica NPV genomic features
Cited by: 5
Author(s): Yu-Feng Huang, Tzu-Han Chen, Zih-Ting Chang, Tai-Chuan Wang, Se Jin Lee, Jong Cheol Kim, Jae Soo Kim, King-Wah Chiu, Yu‐Shin Nai
Software Mentions: 1
Published: about 7 years ago

10.1111/jcmm.15113

Down‐regulated lncRNA AGAP2‐AS1 contributes to pre‐eclampsia as a competing endogenous RNA for JDP2 by impairing trophoblastic phenotype
Cited by: 21
Author(s): Yetao Xu, Xi Xia, Ying Jiang, Dan Wu, Sailan Wang, Shilong Fu, Nana Yang, Yuanyuan Zhang, Lichao Sun
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.15217

An upstream open reading frame regulates vasculogenic mimicry of glioma via ZNRD1‐AS1/miR‐499a‐5p/ELF1/EMI1 pathway
Cited by: 15
Author(s): Mo Wang, Chunqing Yang, Xiaobai Liu, Jian Zheng, Yixue Xue, Xuelei Ruan, Shuyuan Shen, Di Wang, Zhen Li, Heng Cai, Yunhui Liu
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.15117

LncRNA HAND2‐AS1 represses cervical cancer progression by interaction with transcription factor E2F4 at the promoter of C16orf74
Cited by: 27
Author(s): Junling Gong, Haiying Fan, Jing Deng, Qiu-Mei Zhang
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.15399

<i>SNHG16</i> / <i>miR‐605‐3p</i> / <i>TRAF6</i> /NF‐κB feedback loop regulates hepatocellular carcinoma metastasis
Cited by: 22
Author(s): Yilin Hu, Ying Feng, Yu‐Yan Chen, Jia‐Zhou Liu, Yang Su, Li Peng, Hua Huang, Qinghui Mao, Handong Wang
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-12-77

Model SNP development for complex genomes based on hexaploid oat using high-throughput 454 sequencing technology
Cited by: 85
Author(s): Rebekah E. Oliver, Gerard R. Lazo, Joseph D. Lutz, Marc Rubenfield, Nicholas A. Tinker, Joseph M. Anderson, Nicole H Wisniewski Morehead, Dinesh Adhikary, Eric N. Jellen, Peter J. Maughan, Gina L Brown Guedira, Shiaoman Chao, Aaron D. Beattie, M. L. Carson, H. W. Rines, D. E. Obert, J. Michael Bonman, Eric W. Jackson
Software Mentions: 1
Published: over 15 years ago

10.1111/jcmm.15373

Long non‐coding RNA SNGH7 Is activated by SP1 and exerts oncogenic properties by interacting with EZH2 in ovarian cancer
Cited by: 16
Author(s): Zhuanli Bai, Yinying Wu, Shengjie Bai, Yanli Yan, Haojing Kang, Wen Ma, Jiangzhou Zhang, Ying Gao, Baojun Hui, Hailin Ma, Rong Li, Xiaozhi Zhang, Juan Ren
Software Mentions: 1
Published: over 6 years ago

10.1111/jcmm.15592

The absence of oestrogen receptor beta disturbs collagen I type deposition during Achilles tendon healing by regulating the IRF5‐CCL3 axis
Cited by: 5
Author(s): Xuting Bian, Tianyao Liu, Mingyu Yang, Chengyi Gu, Gang He, Mei Zhou, Hong Tang, Kang Lu, Fang Lai, Wei Feng, Qiandong Yang, Jan‐Åke Gustafsson, Xiaotang Fan, Kanglai Tang
Software Mentions: 1
Published: about 6 years ago

10.1111/jcmm.15703

<i>Toxoplasma gondii</i> excreted‐secreted antigens suppress Foxp3 promoter activity via a SP1‐dependent mechanism
Cited by: 1
Author(s): Jinling Chen, Jingjing Wang, Xuyang Gao, Dandan Zhu, Liuting Chen, Yinong Duan
Software Mentions: 1
Published: about 6 years ago

10.1111/jcmm.16022

Androgen receptor suppresses vasculogenic mimicry in hepatocellular carcinoma via <i>circRNA7/miRNA7‐5p/VE‐cadherin/Notch4</i> signalling
Cited by: 22
Author(s): Shixiang Bao, Shuai Jin, Chunhua Wang, Peipei Tu, Kongwang Hu, Jing-Tao Lü
Software Mentions: 1
Published: almost 6 years ago

10.1111/jcmm.15954

Phosphorylated STAT3 suppresses microRNA‐19b/1281 to aggravate lung injury in mice with type 2 diabetes mellitus‐associated pulmonary tuberculosis
Cited by: 12
Author(s): Xianhua Wang, Yuefu Lin, Ying Liang, Yankun Yang, Dong Wang, Aer Tai, Shuimiao Wu, Jian Pan
Software Mentions: 1
Published: almost 6 years ago

10.1186/1471-2164-14-227

Identification of genes related to agarwood formation: transcriptome analysis of healthy and wounded tissues of Aquilaria sinensis
Cited by: 104
Author(s): Yunyuan Xu, Zheng Zhang, Mengxi Wang, Jianhe Wei, Hongjiang Chen, Zhi‐Hui Gao, Chun Sui, Hongmei Luo, Xingli Zhang, Yun Yang, Hua Meng, Wenlan Li
Software Mentions: 1
Published: over 13 years ago

10.1186/1471-2164-15-112

Genome-wide transcriptome analysis of Chinese pollination-constant nonastringent persimmon fruit treated with ethanol
Cited by: 37
Author(s): Chun Luo, Qinglin Zhang, Zhitian Luo
Software Mentions: 1
Published: over 12 years ago

10.1111/jcmm.16218

Genetic analysis of the CITED2 gene promoter in isolated and sporadic congenital ventricular septal defects
Cited by: 11
Author(s): Siming Zheng, Huanxin Chen, Xiaocheng Liu, Qin Yang, Guo‐Wei He
Software Mentions: 1
Published: over 5 years ago

10.1111/jcmm.16493

<i>NR4A1</i> knockdown confers hepatoprotection against ischaemia‐reperfusion injury by suppressing TGFβ1 <i>via</i> inhibition of CYR61/NF‐κB in mouse hepatocytes
Cited by: 11
Author(s): Jun Cao, Ting Xu, Can Zhou, Shaochuang Wang, Baofei Jiang, Kun Wu, Long Ma
Software Mentions: 1
Published: over 5 years ago

10.1111/jcmm.16530

miR‐20a/TCF4 axis‐mediated inhibition of hepatocytes proliferation impairs liver regeneration in mice PHx model by regulating CDC2 and CDC6
Cited by: 3
Author(s): Wei Tu, Jin Gong, Jun Song, Dean Tian, Zhijun Wang
Software Mentions: 1
Published: over 5 years ago

10.1186/1471-2164-12-56

Pyrosequencing the transcriptome of the greenhouse whitefly, Trialeurodes vaporariorum reveals multiple transcripts encoding insecticide targets and detoxifying enzymes
Cited by: 99
Author(s): Nikos Karatolos, Yannick Pauchet, Paul Wilkinson, Ritika Chauhan, I. Denholm, Kevin Gorman, David R. Nelson, Chris Bass, Richard H. ffrench-Constant, Martin S. Williamson
Software Mentions: 1
Published: over 15 years ago

10.1111/jcmm.16809

EGR1 promoted anticancer effects of Scutellarin via regulating LINC00857/miR‐150‐5p/c‐Myc in osteosarcoma
Cited by: 4
Author(s): Jian Han, Peng Wang, Xin Xia, Li Zhang, He Zhang, Yu Huang, Xiaodong Li, Wenzhi Zhao, Lu Zhang
Software Mentions: 1
Published: about 5 years ago

10.1186/1471-2164-15-574

Whole genome sequence comparison of vtx2-converting phages from Enteroaggregative Haemorrhagic Escherichia coli strains
Cited by: 14
Author(s): Laura Grande, Valeria Michelacci, Rosangela Tozzoli, P. Ranieri, Antonella Maugliani, Alfredo Caprioli, Stefano Morabito
Software Mentions: 1
Published: over 12 years ago

10.1002/jcp.28564

Activation of the STAT3/microRNA‐21 pathway participates in angiotensin II‐induced angiogenesis
Cited by: 29
Author(s): Liyuan Chen, Xue Wang, Xiaolong Qu, Lina Pan, Zeyang Wang, Yonghui Lu, Houyuan Hu
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-11-559

High-throughput sequencing and analysis of the gill tissue transcriptome from the deep-sea hydrothermal vent mussel Bathymodiolus azoricus
Cited by: 114
Author(s): Raúl Bettencourt, Miguel Pinheiro, Conceição Egas, Paula Fernanda Gomes, Mafalda Afonso, Timothy M. Shank, Ricardo Serrão Santos
Software Mentions: 1
Published: almost 16 years ago

10.3390/jcm7120488

Peroxisome Proliferator-Activated Receptor α Agonist and Its Target Nanog Cooperate to Induce Pluripotency
Cited by: 5
Author(s): Jungwoon Lee, Jinhyuk Lee, Yee Sook Cho
Software Mentions: 1
Published: over 7 years ago

10.1186/1471-2164-11-694

A garter snake transcriptome: pyrosequencing, de novo assembly, and sex-specific differences
Cited by: 59
Author(s): Tonia S. Schwartz, Hongseok Tae, Youngik Yang, Keithanne Mockaitis, John L. Van Hemert, Stephen R. Proulx, Jeong Hyeon Choi, Anne M. Bronikowski
Software Mentions: 1
Published: over 15 years ago

10.3390/jcm9103079

8p11.23 Amplification in Breast Cancer: Molecular Characteristics, Prognosis and Targeted Therapy
Cited by: 14
Author(s): Ioannis A. Voutsadakis
Software Mentions: 1
Published: almost 6 years ago

10.3390/jdb4020015

Functional and Comparative Genomics of Hoxa2 Gene cis-Regulatory Elements: Evidence for Evolutionary Modification of Ancestral Core Element Activity
Cited by: 3
Author(s): Adam Davis, Michael C. Reubens, Edmund J. Stellwag
Software Mentions: 1
Published: over 10 years ago

10.1093/jxb/eraa081

ABAS1 from soybean is a 1R-subtype MYB transcriptional repressor that enhances ABA sensitivity
Cited by: 6
Author(s): Yee-Shan Ku, Meng Ni, Nacira Muñoz, Zhixia Xiao, Annie Wing-Yi Lo, Pei Chen, Man-Wah Li, Ming-Yan Cheung, Min Xie, Hon‐Ming Lam
Software Mentions: 1
Published: over 6 years ago

10.1186/1471-2164-14-294

Sex-biased gene expression in the brown alga Fucus vesiculosus
Cited by: 37
Author(s): Maria João Fernandes Martins, Catarina Mota, Gareth A. Pearson
Software Mentions: 1
Published: over 13 years ago

10.1186/s12864-017-3537-5

Genetic and functional characterisation of the lactococcal P335 phage-host interactions
Cited by: 27
Author(s): Jennifer Mahony, Joana Oliveira, Barry Collins, Laurens Hanemaaijer, Gabriele Andrea Lugli, Horst Neve, Marco Ventura, Thijs R. H. M. Kouwen, Christian Cambillau, Douwe van Sinderen
Software Mentions: 1
Published: over 9 years ago

10.1186/1471-2164-14-787

Genomes of “Spiribacter”, a streamlined, successful halophilic bacterium
Cited by: 40
Author(s): Mario López‐Pérez, Rohit Ghai, María José León, Ángel Rodríguez-Olmos, José Luis Copa-Patiño, Juán Soliveri, Cristina Sánchez‐Porro, António Ventosa, Francisco Rodrı́guez-Valera
Software Mentions: 1
Published: almost 13 years ago

10.1155/2019/2715176

Peroxisome Proliferator-Activated Receptor-<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" id="M1"><mml:mrow><mml:mtext mathvariant="bold">γ</mml:mtext></mml:mrow></mml:math> Antagonizes LOX-1-Mediated Endothelial Injury by Transcriptional Activation of miR-590-5p
Cited by: 9
Author(s): Lei Xu, Gang Zhao, Hong Zhu, Shijun Wang, Aijun Sun, Yunzeng Zou, Junbo Ge
Software Mentions: 1
Published: about 7 years ago

10.1186/1471-2164-12-623

Polyphenism in social insects: insights from a transcriptome-wide analysis of gene expression in the life stages of the key pollinator, Bombus terrestris
Cited by: 61
Author(s): Thomas J. Colgan, James C. Carolan, Stephen Bridgett, Seirian Sumner, Mark Blaxter, Mark J. F. Brown
Software Mentions: 1
Published: over 14 years ago

10.1186/1477-5956-10-S1-S11

Epigenetic functions enriched in transcription factors binding to mouse recombination hotspots
Cited by: 9
Author(s): Min Wu, Chee Keong Kwoh, Teresa M. Przytycka, Jing Li, Jie Zheng
Software Mentions: 1
Published: about 14 years ago

10.1530/REP-19-0540

Estrogen-decreased hsa_circ_0001649 promotes stromal cell invasion in endometriosis
Cited by: 9
Author(s): Qi Li, Na Li, Hengwei Liu, Yu Du, Huaqiang He, Ling Zhang, Yi Liu
Software Mentions: 1
Published: almost 6 years ago

10.1186/1471-2164-15-774

Identification of male-specific amh duplication, sexually differentially expressed genes and microRNAs at early embryonic development of Nile tilapia (Oreochromis niloticus)
Cited by: 96
Author(s): Orly Eshel, Andrey Shirak, Lior Dor, Mark Band, Tatyana Zak, Michal Markovich-Gordon, Vered Chalifa‐Caspi, E. Feldmesser, J. I. Weller, Eyal Seroussi, Gideon Hulata, Ron Maymon
Software Mentions: 1
Published: almost 12 years ago

10.1186/s12284-017-0164-3

Evolutionary relationships and expression analysis of EUL domain proteins in rice (Oryza sativa)
Cited by: 17
Author(s): Kristof De Schutter, Mariya Tsankova Tsaneva, Shubhada Rajabhau Kulkarni, Pierre Rougé, Klaas Vandepoele, Els J.M. Van Damme
Software Mentions: 1
Published: about 9 years ago

10.1186/1471-2164-13-S7-S8

Helminth secretome database (HSD): a collection of helminth excretory/secretory proteins predicted from expressed sequence tags (ESTs)
Cited by: 36
Author(s): Gagan Garg, Shoba Ranganathan
Software Mentions: 1
Published: over 13 years ago

10.1038/srep12650

PPARγ stimulates expression of L-type amino acid and taurine transporters in human placentas: the evidence of PPARγ regulating fetal growth
Cited by: 20
Author(s): Zhaoguang Chen, Ping He, Xiaoying Ding, Ying Huang, Hang Gu, Xin Ni
Software Mentions: 1
Published: about 11 years ago

10.1186/1471-2164-14-211

Genome sequencing of bacteria: sequencing, de novo assembly and rapid analysis using open source tools
Cited by: 42
Author(s): Veljo Kisand, Teresa Lettieri
Software Mentions: 1
Published: over 13 years ago

10.1038/srep19453

Transcription factor NFAT1 controls allergic contact hypersensitivity through regulation of activation induced cell death program
Cited by: 9
Author(s): Ho-Keun Kwon, Gi-Cheon Kim, Ji Sun Hwang, Young Kim, Chang-Suk Chae, Jong Hee Nam, Chang‐Duk Jun, Dipayan Rudra, Charles D. Surh, Sungbin Im
Software Mentions: 1
Published: over 10 years ago

10.1038/s41598-018-24221-5

Pro-inflammatory cytokines activate hypoxia-inducible factor 3α via epigenetic changes in mesenchymal stromal/stem cells
Cited by: 18
Author(s): Francesca Cuomo, Antonietta Coppola, Chiara Botti, Ciro Maione, Amalia Forte, Lucia Scisciola, Giuseppina Liguori, Ilaria Caiafa, Matilde Valeria Ursini, Umberto Galderisi, Marilena Cipollaro, Lucia Altucci, Gilda Cobellis
Software Mentions: 1
Published: over 8 years ago

10.1038/srep24023

Sexually Dimorphic Expression of eGFP Transgene in the Akr1A1 Locus of Mouse Liver Regulated by Sex Hormone-Related Epigenetic Remodeling
Cited by: 8
Author(s): Cheng Wei Lai, Hsiao Ling Chen, Tsung-Neng Tsai, Te Wei Chu, Su‐Hua Yang, Kowit-Yu Chong, Chuan-Mu Chen
Software Mentions: 1
Published: over 10 years ago

10.1038/srep25105

A novel type 2 diabetes risk allele increases the promoter activity of the muscle-specific small ankyrin 1 gene
Cited by: 16
Author(s): Rengna Yan, Shanshan Lai, Yang Yang, Shi H, Zhenming Cai, Vincenzo Sorrentino, Hong Du, Huimei Chen
Software Mentions: 1
Published: over 10 years ago

10.1038/srep27876

Cecropin B Represses CYP3A29 Expression through Activation of the TLR2/4-NF-κB/PXR Signaling Pathway
Cited by: 14
Author(s): Xiaoqiao Zhou, Xiaowen Li, Xiliang Wang, Xiaodong Jin, Deshi Shi, Jun Wang, Dingren Bi
Software Mentions: 1
Published: about 10 years ago

10.1186/s12864-019-5587-3

Genome and proteome of the chlorophyll f-producing cyanobacterium Halomicronema hongdechloris: adaptative proteomic shifts under different light conditions
Cited by: 21
Author(s): Min Chen, Miguel A. Hernández‐Prieto, Patrick C. Loughlin, Yaqiong Li, Robert D. Willows
Software Mentions: 1
Published: over 7 years ago

10.1038/srep30337

Regulation of Tlx3 by Pax6 is required for the restricted expression of Chrnα3 in Cerebellar Granule Neuron progenitors during development
Cited by: 10
Author(s): Thulasi Sheela Divya, Soundararajan Lalitha, Surendran Parvathy, Chandramohan Subashini, Rajendran Sanalkumar, Sivadasan Bindu Dhanesh, Vazhanthodi Abdul Rasheed, Divya Sivaraman, Shubha Tole, Jackson James
Software Mentions: 1
Published: about 10 years ago

10.1186/1471-2164-15-1139

A genome-guided analysis of energy conservation in the thermophilic, cytochrome-free acetogenic bacterium Thermoanaerobacter kivui
Cited by: 55
Author(s): Verena Hess, Anja Poehlein, Marie Charlotte Weghoff, Rolf Daniel, Volker Müller
Software Mentions: 1
Published: over 11 years ago

10.1038/srep34081

Expression profiling of cutaneous squamous cell carcinoma with perineural invasion implicates the p53 pathway in the process
Cited by: 19
Author(s): Timothy A. Warren, Natasa Broit, Jacinta L. Simmons, Carly J. Pierce, Sharad Chawla, Duncan Lambie, Gary Quagliotto, Ian Brown, Peter G. Parsons, Benedict Panizza, Glen M. Boyle
Software Mentions: 1
Published: almost 10 years ago

10.1186/1471-2164-11-242

Finishing genomes with limited resources: lessons from an ensemble of microbial genomes
Cited by: 54
Author(s): Niranjan Nagarajan, Constance E. Cook, MariaPia Di Bonaventura, Hong Ge, Allen L. Richards, Kimberly A. Bishop‐Lilly, Robert DeSalle, Timothy D. Read, Mihai Pop
Software Mentions: 1
Published: over 16 years ago

10.1186/s12864-016-2626-1

The genome and genetics of a high oxidative stress tolerant Serratia sp. LCN16 isolated from the plant parasitic nematode Bursaphelenchus xylophilus
Cited by: 18
Author(s): Cláudia S. L. Vicente, Francisco X. Nascimento, Yoriko Ikuyo, Peter J. A. Cock, Manuel Mota, Koichi Hasegawa
Software Mentions: 1
Published: over 10 years ago

10.1038/srep40668

Identification of a Nuclear Respiratory Factor 1 Recognition Motif in the Apolipoprotein E Variant APOE4 linked to Alzheimer’s Disease
Cited by: 15
Author(s): Anne Urfer-Buchwalder, Roman Urfer
Software Mentions: 1
Published: over 9 years ago

10.1186/s12864-016-2604-7

Consensus pan-genome assembly of the specialised wine bacterium Oenococcus oeni
Cited by: 26
Author(s): Peter R. Sternes, Anthony R. Borneman
Software Mentions: 1
Published: over 10 years ago

10.1186/s12943-015-0485-z

BALR-6 regulates cell growth and cell survival in B-lymphoblastic leukemia
Cited by: 28
Author(s): Norma I. Rodríguez-Malavé, Thilini R. Fernando, Parth Patel, Jorge R. Contreras, Jayanth Kumar Palanichamy, Tiffany Tran, Jaime Anguiano, Michael Davoren, Michael O. Alberti, KimAnh Trang Pioli, Salemiz Sandoval, Gay M. Crooks, Dinesh S. Rao
Software Mentions: 1
Published: over 10 years ago