pypi: HTSeq | Projects | Ecosyste.ms: Papers

10.1186/s13046-018-0977-y

STON2 negatively modulates stem-like properties in ovarian cancer cells via DNMT1/MUC1 pathway
Cited by: 21
Author(s): Shanshan Xu, Yongfang Yue, Songfa Zhang, Caiyun Zhou, Xiaodong Cheng, Xing Xie, Xinyu Wang, Weiguo Lü
Software Mentions: 3
Published: almost 8 years ago

10.26508/lsa.201800082

Mitochondrial ubiquinone–mediated longevity is marked by reduced cytoplasmic mRNA translation
Cited by: 12
Author(s): Marte Molenaars, Georges E. Janssens, Toon Santermans, Marco Lezzerini, Rob Jelier, Alyson W. MacInnes, Riekelt H. Houtkooper
Software Mentions: 3
Published: about 8 years ago

10.1186/s13046-018-0859-3

Chemotherapy-induced niche perturbs hematopoietic reconstitution in B-cell acute lymphoblastic leukemia
Cited by: 15
Author(s): Chao Tang, Minghao Li, Yali Chen, Huiying Sun, Shengli Liu, Weiwei Zheng, Meng-Yi Zhang, Hui Li, Wei Fu, Wenjun Zhang, Aibin Liang, Zhonghua Tang, Dengli Hong, Bin‐Bing S. Zhou, Cai-Wen Duan
Software Mentions: 3
Published: about 8 years ago

10.26508/lsa.202000678

RNA exosome mutations in pontocerebellar hypoplasia alter ribosome biogenesis and p53 levels
Cited by: 16
Author(s): Juliane S. Müller, D T Burns, Helen Griffin, Graeme Raymond Wells, Romance A Zendah, Benjamin Munro, Claudia Schneider, Rita Horvath
Software Mentions: 3
Published: over 6 years ago

10.26508/lsa.202000645

Integrin α3β1 in hair bulge stem cells modulates CCN2 expression and promotes skin tumorigenesis
Cited by: 5
Author(s): Veronika Ramovs, Ana Krotenberg Garcia, Ji‐Ying Song, Iris de Rink, Maaike Kreft, Roel Goldschmeding, Arnoud Sonnenberg
Software Mentions: 3
Published: over 6 years ago

10.1186/s12936-015-1081-9

UTR introns, antisense RNA and differentially spliced transcripts between Plasmodium yoelii subspecies
Cited by: 13
Author(s): Jian Li, Baowei Cai, Yanwei Qi, Wenting Zhao, Jianwen Liu, Rui-Xue Xu, Qiuxiang Pang, Zhi‐Yong Tao, Liu Hong, Shengfa Liu, Maarten Leerkes, Mariam Quiñones, Xin-zhuan Su
Software Mentions: 3
Published: almost 11 years ago

10.1007/s00335-016-9663-6

Genome characterization of the selected long- and short-sleep mouse lines
Cited by: 4
Author(s): Robin D. Dowell, Aaron Odell, Phillip A. Richmond, Daniel Malmer, Eitan Halper-Stromberg, Beth Bennett, Colin Larson, Sonia M. Leach, Richard A. Radcliffe
Software Mentions: 3
Published: about 10 years ago

10.7150/ijbs.56152

MLKL inhibits intestinal tumorigenesis by suppressing STAT3 signaling pathway
Cited by: 11
Author(s): Qun Zhao, Xinran Cheng, Jian Guo, Yunbo Bi, Li Qing Kuang, Jianhua Ren, Jing Zhong, Longrui Pan, Xudong Zhang, Yang Guo, Yongqiang Liu, S. Jin, Yan Tan, Yu Lei
Software Mentions: 3
Published: almost 6 years ago

10.1111/1751-7915.13863

Transcriptome analysis reveals the roles of nitrogen metabolism and sedoheptulose bisphosphatase pathway in methanol‐dependent growth of Corynebacterium glutamicum
Cited by: 4
Author(s): Liwen Fan, Yu Wang, Jin Qian, Ning Gao, Zhihui Zhang, Xiaomeng Ni, Letian Sun, Qianqian Yuan, Ping Zheng, Jibin Sun
Software Mentions: 3
Published: over 5 years ago

10.1186/s12934-015-0377-3

Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1)
Cited by: 102
Author(s): Andrea De La Torre, Aisha Metivier, Frances Chu, Lieve M.L. Laurens, David A. C. Beck, Philip T. Pienkos, Mary E. Lidstrom, Marina G. Kalyuzhnaya
Software Mentions: 3
Published: almost 11 years ago

10.1038/s41396-018-0331-6

The soil organic matter decomposition mechanisms in ectomycorrhizal fungi are tuned for liberating soil organic nitrogen
Cited by: 105
Author(s): César Nicolás, Tomas Martin-Bertelsen, Dimitrios Floudas, Johan Bentzer, Mark M. Smits, Tomas Johansson, Carl Troein, Per Persson, Anders Tunlid
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12967-020-02417-6

Overview of distinct 5-methylcytosine profiles of messenger RNA in human hepatocellular carcinoma and paired adjacent non-tumor tissues
Cited by: 36
Author(s): Qiyao Zhang, Qingyuan Zheng, Xiao Yu, Yuting He, Wenzhi Guo
Software Mentions: 3
Published: over 6 years ago

10.18632/oncotarget.13239

Whole-exome and transcriptome sequencing of refractory diffuse large B-cell lymphoma
Cited by: 37
Author(s): Ha Young Park, Seungbok Lee, Hae Young Yoo, Seok Jin Kim, Won Seog Kim, Jong‐Il Kim, Young Hyeh Ko
Software Mentions: 3
Published: about 10 years ago

10.18632/aging.103682

Transcriptomic analysis reveals gender differences in gene expression profiling of the hypothalamus of rhesus macaque with aging
Cited by: 1
Author(s): Yong Fan, Congru Li, Wendi Pei, Tao Tan, Rong Li, Jie Qiao, Yang Yu
Software Mentions: 3
Published: about 6 years ago

10.1099/mic.0.000550

Whole genome transcriptomics reveals global effects including up-regulation of Francisella pathogenicity island gene expression during active stringent response in the highly virulent Francisella tularensis subsp. tularensis SCHU S4
Cited by: 11
Author(s): Amber L. Murch, Paul Skipp, Peter L. Roach, Petra C. F. Oyston
Software Mentions: 3
Published: about 9 years ago

10.1128/mSystems.00364-20

Escherichia coli Has a Unique Transcriptional Program in Long-Term Stationary Phase Allowing Identification of Genes Important for Survival
Cited by: 11
Author(s): Karin E. Kram, Autumn Henderson, Steven E. Finkel
Software Mentions: 3
Published: about 6 years ago

10.1128/mSystems.00587-19

The Signal and the Noise: Characteristics of Antisense RNA in Complex Microbial Communities
Cited by: 2
Author(s): Thomas Yssing Michaelsen, Jakob Brandt, Caitlin M. Singleton, Rasmus Hansen Kirkegaard, Johanna Wiesinger, Nicola Segata, Mads Albertsen
Software Mentions: 3
Published: over 6 years ago

10.3390/microorganisms8071068

In vitro Edwardsiella piscicida CK108 Transcriptome Profiles with Subinhibitory Concentrations of Phenol and Formalin Reveal New Insights into Bacterial Pathogenesis Mechanisms
Cited by: 8
Author(s): Ju Bin Yoon, Sungmin Hwang, Se-Won Baek, Seung-Ki Lee, Woo Young Bang, Ki Hwan Moon
Software Mentions: 3
Published: over 6 years ago

10.3390/microorganisms8050707

Transcriptome Analysis of Gene Expression in Dermacoccus abyssi HZAU 226 under Lysozyme Stress
Cited by: 7
Author(s): Xinshuai Zhang, Yao Ruan, Wukang Liu, Qian Chen, Lihong Gu, Aizhen Guo
Software Mentions: 3
Published: over 6 years ago

10.3390/microorganisms9020382

Bacillus amyloliquefaciens TL Downregulates the Ileal Expression of Genes Involved in Immune Responses in Broiler Chickens to Improve Growth Performance
Cited by: 7
Author(s): Yuxuan Hong, Cheng Yang, Leluo Guan, Zutao Zhou, Xiaowen Li, Deshi Shi, Yufei Xiao
Software Mentions: 3
Published: over 5 years ago

10.3390/microorganisms9030656

Cranberry Proanthocyanidins and Dietary Oligosaccharides Synergistically Modulate Lactobacillus plantarum Physiology
Cited by: 7
Author(s): Ezgi Özcan, Michelle R Rozycki, David A. Sela
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-019-5763-5

Banana (Musa acuminata) transcriptome profiling in response to rhizobacteria: Bacillus amyloliquefaciens Bs006 and Pseudomonas fluorescens Ps006
Cited by: 27
Author(s): Rocío M. Gamez, Fernando Rodríguez, Newton Medeiros Vidal, Sandra Ramírez, Roberto Vera Alvarez, David Landsman, Leonardo Mariño-Ramírez
Software Mentions: 3
Published: over 7 years ago

10.1128/mSystems.00040-18

Heterotroph Interactions Alter Prochlorococcus Transcriptome Dynamics during Extended Periods of Darkness
Cited by: 28
Author(s): Steven J. Biller, Allison Coe, Sara E. Roggensack, Sallie W. Chisholm
Software Mentions: 3
Published: over 8 years ago

10.1093/molbev/msab131

Diverse Molecular Mechanisms Contribute to Differential Expression of Human Duplicated Genes
Cited by: 9
Author(s): Colin J. Shew, Paulina Carmona-Mora, Daniela C. Soto, Mira Mastoras, Elizabeth S. Roberts, Joseph Rosas, Dhriti Jagannathan, Gulhan Kaya, Henriette O’Geen, Megan Y. Dennis
Software Mentions: 3
Published: over 5 years ago

10.3390/ani9080523

Global Mapping of H3K4 Trimethylation (H3K4me3) and Transcriptome Analysis Reveal Genes Involved in the Response to Epidemic Diarrhea Virus Infections in Pigs
Cited by: 12
Author(s): Haifei Wang, Yang Li, Huan Qu, Hanping Feng, Shenglong Wu, Wenbin Bao
Software Mentions: 3
Published: over 7 years ago

10.1186/s12943-019-0977-3

MiR155 sensitized B-lymphoma cells to anti-PD-L1 antibody via PD-1/PD-L1-mediated lymphoma cell interaction with CD8+T cells
Cited by: 60
Author(s): Zhong Zheng, Rui Sun, Hongzheng Zhao, Di Fu, Hui Zhong, Xiang‐Qin Weng, Bin Qu, Yan Zhao, Li Wang, Wei‐Li Zhao
Software Mentions: 3
Published: over 7 years ago

10.1016/j.mcpro.2021.100092

The C-Mannosylome of Human Induced Pluripotent Stem Cells Implies a Role for ADAMTS16 C-Mannosylation in Eye Development
Cited by: 7
Author(s): Karsten Cirksena, Hermann J. Hütte, Aleksandra Shcherbakova, Thomas Thumberger, Roman Sakson, Stefan Weiß, Lars Riff Jensen, Alina Friedrich, Daniel Todt, Andreas W. Kuß, Thomas Ruppert, Joachim Wittbrodt, Hans Bakker, Falk F. R. Buettner
Software Mentions: 3
Published: almost 6 years ago

10.1128/mSphere.00650-21

RNase III and RNase E Influence Posttranscriptional Regulatory Networks Involved in Virulence Factor Production, Metabolism, and Regulatory RNA Processing in Bordetella pertussis
Cited by: 3
Author(s): Gyles Ifill, Travis M. Blimkie, Ahwon Lee, George A. Mackie, Qing Chen, Scott Stibitz, Robert E. W. Hancock, Rachel C. Fernandez
Software Mentions: 3
Published: about 5 years ago

10.1128/mSphere.00028-18

Dal81 Regulates Expression of Arginine Metabolism Genes in Candida parapsilosis
Cited by: 9
Author(s): Siobhán A. Turner, Qinxi Ma, Mihaela Ola, Kontxi Martinez de San Vicente, Geraldine Butler
Software Mentions: 3
Published: over 8 years ago

10.1128/mBio.01642-21

Identification of Group A Streptococcus Genes Directly Regulated by CsrRS and Novel Intermediate Regulators
Cited by: 9
Author(s): Meredith B. Finn, Kathryn M. Ramsey, Simon L. Dove, Michael R. Wessels
Software Mentions: 3
Published: about 5 years ago

10.1128/mBio.03457-20

The Transcription Factor Pdr802 Regulates Titan Cell Formation and Pathogenicity of Cryptococcus neoformans
Cited by: 10
Author(s): Júlia Catarina Vieira Reuwsaat, Daniel Paiva Agustinho, Heryk Motta, Andrew L. Chang, Holly Brown, Michael R. Brent, Lívia Kmetzsch, Tamara L. Doering
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-020-07108-6

Genome-wide analysis and prediction of genes involved in the biosynthesis of polysaccharides and bioactive secondary metabolites in high-temperature-tolerant wild Flammulina filiformis
Cited by: 12
Author(s): Juan Chen, Jiamei Li, Yanjing Tang, Ke Ma, Bing Li, Zhiai Xu, Xiaobin Liu, Yang Li, Zhu‐Liang Yang, Weinan Xu, Baogui Xie, Hongwei Liu, Shunxing Guo
Software Mentions: 3
Published: about 6 years ago

10.1016/j.molmet.2021.101231

Adhesion receptor ADGRG2/GPR64 is in the GI-tract selectively expressed in mature intestinal tuft cells
Cited by: 9
Author(s): Kaare V. Grunddal, Sarah Tonack, Kristoffer L. Egerod, Jonatan J Thompson, Natalia Petersen, Maja S. Engelstoft, Constance Vagne, Céline Keime, Gérard Gradwohl, Stefan Offermanns, Thue W. Schwartz
Software Mentions: 3
Published: about 5 years ago

10.1111/mmi.12345

The <scp>APSES</scp> transcription factor <scp>Efg</scp>1 is a global regulator that controls morphogenesis and biofilm formation in <scp>C</scp>andida parapsilosis
Cited by: 42
Author(s): Leona A. Connolly, Alessandro Riccombeni, Zsuzsana Grózer, Linda Holland, Denise B. Lynch, David R. Andes, Attila Gácser, Geraldine Butler
Software Mentions: 3
Published: about 13 years ago

10.1186/s13024-019-0335-3

Microglia affect α-synuclein cell-to-cell transfer in a mouse model of Parkinson’s disease
Cited by: 117
Author(s): Sonia George, Nolwen L. Rey, Trevor Tyson, Corinne R. Esquibel, Lindsay Meyerdirk, Emily Schulz, Steven Pierce, Amanda R. Burmeister, Zachary Madaj, Jennifer A. Steiner, Martha L. Escobar Galvis, Lena Brundin, Patrik Brundin
Software Mentions: 3
Published: about 7 years ago

10.1186/s12864-019-5842-7

Transcriptional reprogramming caused by the geminivirus Tomato yellow leaf curl virus in local or systemic infections in Nicotiana benthamiana
Cited by: 23
Author(s): Mengshi Wu, Xue Ding, Xing Fu, Rosa Lozano‐Durán
Software Mentions: 3
Published: over 7 years ago

10.1186/s13024-016-0133-0

Spinal cord injury induces astroglial conversion towards neuronal lineage
Cited by: 36
Author(s): Harun N. Noristani, Jean Charles Sabourin, Hassan Boukhaddaoui, Emilie Chan-Seng, Yannick Nicolas Gerber, Florence E. Perrin
Software Mentions: 3
Published: about 10 years ago

10.1002/1878-0261.12797

Optimized low‐dose combinatorial drug treatment boosts selectivity and efficacy of colorectal carcinoma treatment
Cited by: 19
Author(s): Marloes Zoetemelk, George M. Ramzy, Magdalena Rausch, Thibaud Koessler, Judy R. van Beijnum, Andrea Weiss, Valentin Mieville, Sander R. Piersma, Richard R. de Haas, Céline Delucinge-Vivier, Axel Andrès, Christian Toso, Alex A. Henneman, Simone Ragusa, Tatiana V. Petrova, Mylène Docquier, Thomas McKee, Connie R. Jiménez, Youssef Daali, Arjan W. Griffioen, Laura Rubbia‐Brandt, Pierre‐Yves Dietrich, Patrycja Nowak-Śliwińska
Software Mentions: 3
Published: about 6 years ago

10.1002/1878-0261.12525

Negative regulation of miR‐1275 by H3K27me3 is critical for glial induction of glioblastoma cells
Cited by: 12
Author(s): Jialuo Mai, Jiayu Gu, Ying Liu, Xincheng Liu, Ke Sai, Zhijie Chen, Wanjun Lu, Xiaozhi Yang, Jingyi Wang, Cui Guo, Shenghua Sun, Fan Xing, Longxiang Sheng, Bingzheng Lu, Zhu Zhu, Hongjiaqi Sun, Dongdong Xue, Yuan Lin, Jing Cai, Yaqian Tan, Chuntao Li, Wei Yin, Lin Cao, Ying Ouyang, Pengxin Qiu, Xingwen Su, Yan Gao, Jiankai Liang, Wenbo Zhu
Software Mentions: 3
Published: over 7 years ago

10.1111/mpp.12877

Show me your secret(ed) weapons: a multifaceted approach reveals a wide arsenal of type III‐secreted effectors in the cucurbit pathogenic bacterium Acidovorax citrulli and novel effectors in the Acidovorax genus
Cited by: 26
Author(s): Irene Jiménez‐Guerrero, Francisco Pérez‐Montaño, Gustavo Mateus da Silva, Naama Wagner, Dafna Shkedy, Mei Zhao, Lorena Pizarro, Maya Bar, R. R. Walcott, Guido Sessa, Tal Pupko, Saul Burdman
Software Mentions: 3
Published: about 7 years ago

10.1111/mpp.12429

Transcriptional reprogramming underpins enhanced plant growth promotion by the biocontrol fungus Trichoderma hamatum GD12 during antagonistic interactions with Sclerotinia sclerotiorum in soil
Cited by: 30
Author(s): Sophie Shaw, Kate Le Cocq, Konrad Paszkiewicz, Karen Moore, Rebecca Winsbury, Marta de Torres Zabala, David J. Studholme, Deborah Salmon, Christopher R. Thornton, Murray Grant
Software Mentions: 3
Published: over 10 years ago

10.1186/s12864-015-2215-8

Transcriptomes of post-mitotic neurons identify the usage of alternative pathways during adult and embryonic neuronal differentiation
Cited by: 13
Author(s): Alexandra Tallafuß, Meghan W. Kelly, Dan Gibson, Peter Batzel, Kate V. Karfilis, Jonathan A. Eisen, Kryn Stankunas, John H. Postlethwait, Philip Washbourne
Software Mentions: 3
Published: almost 11 years ago

10.15252/msb.20167461

Genetic circuit characterization and debugging using <scp>RNA</scp> ‐seq
Cited by: 74
Author(s): Thomas E. Gorochowski, Amin Espah Borujeni, Yong‐Jin Park, Alec A. K. Nielsen, Jing Zhang, Bryan S. Der, D. Benjamin Gordon, Christopher A. Voigt
Software Mentions: 3
Published: about 9 years ago

10.1186/s13567-018-0546-6

RNA-Seq based transcriptome of whole blood from immunocompetent pigs (Sus scrofa) experimentally infected with Mycoplasma suis strain Illinois
Cited by: 14
Author(s): Naíla Cannes do Nascimento, Ana M. S. Guimarães, Andrea Pires dos Santos, Yuefeng Chu, Lucas Miranda Marques, Joanne B. Messick
Software Mentions: 3
Published: over 8 years ago

10.1186/s13567-018-0545-7

Comparative liver transcriptome analysis in ducklings infected with duck hepatitis A virus 3 (DHAV-3) at 12 and 48 hours post-infection through RNA-seq
Cited by: 11
Author(s): Xuelian Zhang, Chen Cao, Yue Liu, Haihui Qi, Wenjing Zhang, Chunxue Hao, Haotian Chen, Qi Zhang, Wenlong Zhang, Mingchun Gao, Junwei Wang, Bo Ma
Software Mentions: 3
Published: over 8 years ago

10.18632/oncotarget.12218

Silencing of Profilin-1 suppresses cell adhesion and tumor growth via predicted alterations in integrin and Ca2+ signaling in T24M-based bladder cancer models
Cited by: 18
Author(s): Maria Frantzi, Zoi Klimou, Manousos Makridakis, Jérôme Zoidakis, Agnieszka Latosinska, Daniel Borràs, Bart Janssen, Ioanna Giannopoulou, Vasiliki Lygirou, Andreas C. Lazaris, Nicholas P. Anagnou, Harald Mischak, Maria G. Roubelakis, Antonia Vlahou
Software Mentions: 3
Published: about 10 years ago

10.1186/s12985-018-1044-1

Transcriptome analysis of Nicotiana benthamiana infected by Tobacco curly shoot virus
Cited by: 35
Author(s): Ke Li, Gentu Wu, Mingjun Li, Mingge Ma, Jie Du, Miao Sun, Xianchao Sun, Ling Qing
Software Mentions: 3
Published: about 8 years ago

10.1080/21505594.2020.1839231

A new regulator in the crossroads of oxidative stress resistance and virulence in Candida glabrata: The transcription factor CgTog1
Cited by: 5
Author(s): Pedro Pais, Susana Vagueiro, Dalila Mil‐Homens, Andreia I. Pimenta, Romeu Viana, Michiyo Okamoto, Hiroji Chibana, Arsénio M. Fialho, Miguel C. Teixeira
Software Mentions: 3
Published: about 6 years ago

10.1186/1471-2164-15-570

Comparing reference-based RNA-Seq mapping methods for non-human primate data
Cited by: 33
Author(s): Ashlee M. Benjamin, Marshall Nichols, Thomas W. Burke, Geoffrey S. Ginsburg, Joseph E. Lucas
Software Mentions: 3
Published: almost 13 years ago

10.1128/mBio.02262-19

Establishment of Chronic Typhoid Infection in a Mouse Carriage Model Involves a Type 2 Immune Shift and T and B Cell Recruitment to the Gallbladder
Cited by: 12
Author(s): Juan F. González, Jonathan R. Kurtz, David L. Bauer, Regan Hitt, James Fitch, Amy Wetzel, Krista La Perle, Peter White, James B. McLachlan, John S. Gunn
Software Mentions: 3
Published: about 7 years ago

10.3390/v11090793

Comparison of Transcriptome Differences in Soybean Response to Soybean Mosaic Virus under Normal Light and in the Shade
Cited by: 19
Author(s): Lei Zhang, Jing Shang, Wenming Wang, Junbo Du, Kai Li, Xiaoling Wu, Yu Liu, Chunyan Liu, Muhammad Ibrahim Khaskheli, Wenyu Yang
Software Mentions: 3
Published: about 7 years ago

10.1128/mBio.02818-18

Cdk8 and Ssn801 Regulate Oxidative Stress Resistance and Virulence in Cryptococcus neoformans
Cited by: 9
Author(s): Andrew L. Chang, Yiming Kang, Tamara L. Doering
Software Mentions: 3
Published: over 7 years ago

10.1186/s12864-020-6682-1

Transcriptomic diversity in seedling roots of European flint maize in response to cold
Cited by: 13
Author(s): Felix P. Frey, Marion Pitz, Chris‐Carolin Schön, Frank Hochholdinger
Software Mentions: 3
Published: over 6 years ago

10.1186/1471-2164-15-1031

Differential gene expression and alternative splicing in insect immune specificity
Cited by: 38
Author(s): Carolyn Riddell, Juan David Lobaton Garces, Sally Adams, Seth M. Barribeau, David Twell, Eamonn B. Mallon
Software Mentions: 3
Published: almost 12 years ago

10.3390/v13081603

Characterization of the SARS-CoV-2 Host Response in Primary Human Airway Epithelial Cells from Aged Individuals
Cited by: 9
Author(s): Subramaniyan Bharathiraja, Jason L. Larabee, Manish Bodas, Andrew R. Moore, Anthony W. G. Burgett, Dean A. Myers, Constantin Georgescu, Jonathan D. Wren, James F. Papin, Matthew S. Walters
Software Mentions: 3
Published: about 5 years ago

10.3390/v13091834

The MAPK/ERK Pathway and the Role of DUSP1 in JCPyV Infection of Primary Astrocytes
Cited by: 4
Author(s): Michael Wilczek, Francesca J. Armstrong, Remi P. Geohegan, Colleen L. Mayberry, Jeanne K. DuShane, Benjamin L. King, Melissa S. Maginnis
Software Mentions: 3
Published: about 5 years ago

10.1128/JVI.00969-19

Differentiation into an Effector Memory Phenotype Potentiates HIV-1 Latency Reversal in CD4+T Cells
Cited by: 67
Author(s): Deanna A. Kulpa, Aarthi Talla, Jessica H. Brehm, Susan Pereira Ribeiro, Sally Yuan, Anne-Gaelle Bebin-Blackwell, Michael D. Miller, Richard Barnard, Steven G. Deeks, Daria J. Hazuda, Nicolas Chomont, Rafick‐Pierre Sékaly
Software Mentions: 3
Published: almost 7 years ago

10.1186/s13071-019-3650-1

Evaluation of dynamic developmental processes and the molecular basis of the high body fat percentage of different proglottid types of Moniezia expansa
Cited by: 8
Author(s): Yi Liu, Zhengrong Wang, Shuai Pang, Wenjuan Zhao, Lichao Kang, Yanyan Zhang, Hui Zhang, Jingquan Yang, Zhixin Wang, Pingping Lu, Mengfei Xu, Weiyi Wang, Xiaochen Bo, Zhenzhen Li
Software Mentions: 3
Published: over 7 years ago

10.1186/s13071-021-04915-y

Comparative analysis of the transcriptional responses of five Leishmania species to trivalent antimony
Cited by: 2
Author(s): Julián Medina, Lissa Cruz-Saavedra, Luz Helena Patiño, Marina Muñoz, Juan David Ramírez
Software Mentions: 3
Published: about 5 years ago

10.1186/s12864-015-2157-1

Transcriptome profiling of a spirodiclofen susceptible and resistant strain of the European red mite Panonychus ulmi using strand-specific RNA-seq
Cited by: 51
Author(s): Sabina Bajda, Wannes Dermauw, Robert Greenhalgh, Ralf Nauen, Luc Tirry, Richard M. Clark, Thomas Van Leeuwen
Software Mentions: 3
Published: almost 11 years ago

10.1186/s13071-017-2326-y

Differential gene expression in Anopheles stephensi following infection with drug-resistant Plasmodium yoelii
Cited by: 4
Author(s): Jingru Zhang, Jiacheng Huang, Feng Zhu, Jian Zhang
Software Mentions: 3
Published: about 9 years ago

10.1128/mBio.01683-18

Treatment of Human Glioblastoma with a Live Attenuated Zika Virus Vaccine Candidate
Cited by: 70
Author(s): Qi Chen, Jin Wu, Qing Ye, Feng Ma, Qing Zhu, Yan Wu, Chao Shan, Xuping Xie, Dapei Li, Xiaoyan Zhan, Chunfeng Li, Xiao Feng Li, Xiaoxia Qin, Tongyang Zhao, Haitao Wu, Pei Yong Shi, Jianghong Man, Qi Cheng
Software Mentions: 3
Published: about 8 years ago

10.1186/s12864-016-2967-9

Genome-wide identification of potato long intergenic noncoding RNAs responsive to Pectobacterium carotovorum subspecies brasiliense infection
Cited by: 44
Author(s): Stanford Kwenda, Paul R. J. Birch, Lucy N. Moleleki
Software Mentions: 3
Published: over 10 years ago

10.1128/mBio.02217-17

Deregulation of HDAC5 by Viral Interferon Regulatory Factor 3 Plays an Essential Role in Kaposi's Sarcoma-Associated Herpesvirus-Induced Lymphangiogenesis
Cited by: 15
Author(s): Hye‐Ra Lee, Fan Li, Un Yung Choi, Hye Ryun Yu, Grace M. Aldrovandi, Pinghui Feng, Shou‐Jiang Gao, Young‐Kwon Hong, Jae U. Jung
Software Mentions: 3
Published: over 8 years ago

10.18632/aging.101485

Regulatory RNA binding proteins contribute to the transcriptome-wide splicing alterations in human cellular senescence
Cited by: 13
Author(s): Qiongye Dong, Lei Wei, Michael Q. Zhang, Xiaowo Wang
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-021-07516-2

Mitochondrial genotype alters the impact of rapamycin on the transcriptional response to nutrients in Drosophila
Cited by: 7
Author(s): John Santiago, Joan M. Boylan, Faye A Lemieux, Philip A. Gruppuso, Jennifer Sanders, David M. Rand
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-020-6549-5

Transcriptome profiles of Quercus rubra responding to increased O3 stress
Cited by: 10
Author(s): Nourolah Soltani, Teo Best, Dantria Grace, Christen Nelms, Ketia L. Shumaker, Jeanne Romero‐Severson, Daniela Moses, Stephan C. Schuster, Margaret Staton, John E. Carlson, Kimberly D. Gwinn
Software Mentions: 3
Published: over 6 years ago

10.7717/peerj.10671

RNA sequencing analysis of FGF2-responsive transcriptome in skin fibroblasts
Cited by: 4
Author(s): Bingcheng Wu, Xinjie Tang, Zhaoping Zhou, Hong-Lin Ke, Shao Tang, Ronghu Ke
Software Mentions: 3
Published: almost 6 years ago

10.7717/peerj.3631

RNA-seq reveals more consistent reference genes for gene expression studies in human non-melanoma skin cancers
Cited by: 34
Author(s): Van L.T. Hoang, Lisa Tom, Xiu-Cheng Quek, Jean-Marie Tan, Elizabeth Payne, Lynlee L. Lin, Sudipta Sinnya, Anthony P. Raphael, Duncan Lambie, Ian H. Frazer, Marcel E. Dinger, H. Peter Soyer, Tarl W. Prow
Software Mentions: 3
Published: about 9 years ago

10.1186/s12864-016-3203-3

Functional variants of human papillomavirus type 16 demonstrate host genome integration and transcriptional alterations corresponding to their unique cancer epidemiology
Cited by: 33
Author(s): Robert Jackson, Bruce A. Rosa, Sonia Lameiras, Sean Cuninghame, Josee Bernard, Wely B. Floriano, Paul F. Lambert, Alain Nicolas, Ingeborg Zehbe
Software Mentions: 3
Published: about 10 years ago

10.1002/advs.201902040

Deubiquitylase OTUD6B Governs pVHL Stability in an Enzyme‐Independent Manner and Suppresses Hepatocellular Carcinoma Metastasis
Cited by: 27
Author(s): Xinxin Liu, Xiaoli Zhang, Zhiqiang Peng, Chunnan Li, Ze Wang, Chanjuan Wang, Zhikang Deng, Bo Wu, Yu Cui, Zhanxin Wang, Chun-Ping Chu, Ming‐Hua Zheng, Lingqiang Zhang
Software Mentions: 3
Published: over 6 years ago

10.1128/mBio.00029-17

The Transcriptome ofLeishmania majorDevelopmental Stages in Their Natural Sand Fly Vector
Cited by: 72
Author(s): Ehud Inbar, V. K. Hughitt, Laura A. L. Dillon, Kashinath Ghosh, Najib M. El-Sayed, David L. Sacks
Software Mentions: 3
Published: over 9 years ago

10.7717/peerj.4466

Global analysis of A-to-I RNA editing reveals association with common disease variants
Cited by: 20
Author(s): Oscar Franzén, Raili Ermel, Katyayani Sukhavasi, Rajeev Jain, Anamika Jain, Christer Betsholtz, Chiara Giannarelli, Jason C. Kovacic, Arno Ruusalepp, Josefin Skogsberg, Ke Hao, Eric E. Schadt, Johan Björkegren
Software Mentions: 3
Published: over 8 years ago

10.7717/peerj.11919

The whole-genome and expression profile analysis of WRKY and RGAs in Dactylis glomerata showed that DG6C02319.1 and DgWRKYs may cooperate in the immunity against rust
Cited by: 4
Author(s): Juncai Ren, Jialing Hu, Ailing Zhang, Shuping Ren, Tingting Jing, Xiaoshan Wang, Min Sun, Linkai Huang, Bing Zeng
Software Mentions: 3
Published: about 5 years ago

10.1186/s12864-018-5345-y

Gene co-expression networks associated with carcass traits reveal new pathways for muscle and fat deposition in Nelore cattle
Cited by: 30
Author(s): Bárbara Silva-Vignato, Luiz Lehmann Coutinho, Mirele Daiana Poleti, A. S. M. César, Cristina Tschorny Moncau, Luciana Correia de Almeida Regitano, J. C. C. Balieiro
Software Mentions: 3
Published: almost 8 years ago

10.1186/s12864-020-6512-5

Transcriptomic response to three osmotic stresses in gills of hybrid tilapia (Oreochromis mossambicus female × O. urolepis hornorum male)
Cited by: 44
Author(s): Huanhuan Su, Dongmei Ma, Hai‐Lei Zhu, Zhigang Liu, Fengying Gao
Software Mentions: 3
Published: almost 7 years ago

10.1186/1471-2164-15-960

Lassa and Marburg viruses elicit distinct host transcriptional responses early after infection
Cited by: 27
Author(s): Ignacio Caballero, Judy Yen, Lisa E. Hensley, Anna N. Honko, Arthur J. Goff, John H. Connor
Software Mentions: 3
Published: almost 13 years ago

10.1038/tp.2016.284

Early onset of inflammation during ontogeny of bipolar disorder: the NLRP2 inflammasome gene distinctly differentiates between patients and healthy controls in the transition between iPS cell and neural stem cell stages
Cited by: 30
Author(s): Dzeneta Vizlin‐Hodzic, Qiwei Zhai, Sebastian Illes, Kristoffer Södersten, Katarina Truvé, Toshima Z. Parris, Praveen K. Sobhan, Susanne Salmela, Subazini Thankaswamy Kosalai, Chandrasekhar Kanduri, Joakim Strandberg, Henrik Seth, Thomas Olsson Bontell, Eric Hanse, Hans Ǻgren, Keiko Funa
Software Mentions: 3
Published: almost 10 years ago

10.3390/ani11030628

Dissecting the Gene Expression Networks Associated with Variations in the Major Components of the Fatty Acid Semimembranosus Muscle Profile in Large White Heavy Pigs
Cited by: 8
Author(s): Martina Zappaterra, Silvia Gioiosa, Giovanni Chillemi, Paolo Zambonelli, Roberta Davoli
Software Mentions: 3
Published: over 5 years ago

10.1038/tp.2017.37

Modeling anorexia nervosa: transcriptional insights from human iPSC-derived neurons
Cited by: 21
Author(s): Priscilla D. Negraes, Fernanda R. Cugola, Roberto H. Herai, Cleber A. Trujillo, Alexandre S. Cristino, Thanathom Chailangkarn, Alysson R. Muotri, Vikas Duvvuri
Software Mentions: 3
Published: over 9 years ago

10.1186/s12864-020-06805-6

Gene coexpression network analysis and tissue-specific profiling of gene expression in jute (Corchorus capsularis L.)
Cited by: 7
Author(s): Zemao Yang, Zhigang Dai, Xiaojun Chen, Dongwei Xie, Qing Tang, Chaohua Cheng, Ying Xu, Canhui Deng, Chan Lee, Jiquan Chen
Software Mentions: 3
Published: over 6 years ago

10.3390/toxins12090566

Mechanisms of Tolerance and Resistance to Chlorhexidine in Clinical Strains of Klebsiella pneumoniae Producers of Carbapenemase: Role of New Type II Toxin-Antitoxin System, PemIK
Cited by: 14
Author(s): Inés Bleriot, Lucía Blasco, Mercedes Delgado-Valverde, Ana Gual de Torella, Antón Ambroa, Laura Fernández-García, María López, Jesús Oteo, Thomas K. Wood, Álvaro Pascual, Germán Bou, Felipe Fernández-Cuenca, María Tomás
Software Mentions: 3
Published: about 6 years ago

10.3390/toxins9060184

Screening of Deoxynivalenol Producing Strains and Elucidation of Possible Toxigenic Molecular Mechanism
Cited by: 13
Author(s): Xizhong Zheng, Xiaoli Zhang, Lina Zhao, Maurice Tibiru Apaliya, Qiya Yang, Wei Sun, Xiaoyun Zhang, Hongyin Zhang
Software Mentions: 3
Published: over 9 years ago

10.1016/j.toxrep.2019.11.014

The impact of particulate matter (PM2.5) on skin barrier revealed by transcriptome analysis: Focusing on cholesterol metabolism
Cited by: 21
Author(s): Zhengzheng Liao, Jing Nie, Peng Sun
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12864-020-6477-4

Transcriptome profiling of laser-captured germ cells and functional characterization of zbtb40 during 17alpha-methyltestosterone-induced spermatogenesis in orange-spotted grouper (Epinephelus coioides)
Cited by: 12
Author(s): Xi Wu, Yang Yang, Chaoyue Zhong, Yin Guo, Shuisheng Li, Haoran Lin, Xiaochun Liu
Software Mentions: 3
Published: almost 7 years ago

10.14814/phy2.13019

Effect of energy restriction and physical exercise intervention on phenotypic flexibility as examined by transcriptomics analyses of mRNA from adipose tissue and whole body magnetic resonance imaging
Cited by: 19
Author(s): Sindre Lee, Frode Norheim, Torgrim M. Langleite, Hans Jørgen Noreng, Trygve H. Storås, Lydia A. Afman, Gary Frost, Jimmy D. Bell, E. Louise Thomas, Kristoffer Jensen Kolnes, Daniel S. Tangen, Hans Kristian Stadheim, Gregor D. Gilfillan, Hanne Løvdal Gulseth, Kåre I. Birkeland, Jørgen Jensen, Christian A. Drevon, Torgeir Holen
Software Mentions: 3
Published: about 10 years ago

10.1111/pbi.12910

Up‐regulation of Gh<scp>TT</scp>2‐3A in cotton fibres during secondary wall thickening results in brown fibres with improved quality
Cited by: 45
Author(s): Qian Yan, Yi Wang, Qian Li, Zhengsheng Zhang, Hui Ding, Yue Zhang, Housheng Liu, Ming Luo, Dexin Liu, Song Wu, Haifeng Liu, Dan Yao, Xufen Ouyang, Yaohua Li, Xin Li, Yan Pei, Yazhong Xiao
Software Mentions: 3
Published: over 8 years ago

10.1111/pbi.13637

ZmbHLH124 identified in maize recombinant inbred lines contributes to drought tolerance in crops
Cited by: 8
Author(s): Shaowei Wei, Xia R, Chengxuan Chen, Xiaoling Shang, Fengyong Ge, Huimin Wei, Huabang Chen, Yaorong Wu, Qi Xie
Software Mentions: 3
Published: over 5 years ago

10.1111/pbi.13499

The celery genome sequence reveals sequential paleo‐polyploidizations, karyotype evolution and resistance gene reduction in apiales
Cited by: 55
Author(s): Xiaoming Song, Pengchuan Sun, Jiaqing Yuan, Ke Gong, Nan Li, Fanbo Meng, Zhikang Zhang, Xinyu Li, Jingjing Hu, Jinpeng Wang, Qing Yang, Beibei Jiao, Fulei Nie, Tao Liu, Wei Chen, Shuyan Feng, Qiaoying Pei, Tong Yu, Xi Kang, Wei Zhao, Chunlin Cui, Ying Yu, Tong Wu, Lanxing Shan, Man Liu, Zhiji Qin, Hao Lin, Rajeev K. Varshney, Xiuqing Li, Andrew H. Paterson, Xiyin Wang
Software Mentions: 3
Published: almost 6 years ago

10.1111/pbi.13246

Genome‐wide expression quantitative trait locus analysis in a recombinant inbred line population for trait dissection in peanut
Cited by: 14
Author(s): Li Huang, Xia Liu, Manish K. Pandey, Xiaoping Ren, Haiwen Chen, Xiaomeng Xue, Nian Liu, Dongxin Huai, Yuning Chen, Xiaojing Zhou, Huaiyong Luo, Weigang Chen, Yong Lei, Kede Liu, Yingjie Xiao, Rajeev K. Varshney, Boshou Liao, Huifang Jiang
Software Mentions: 3
Published: about 7 years ago

10.1111/pbi.13007

A Ma10 gene encoding P‐type <scp>ATP</scp>ase is involved in fruit organic acid accumulation in apple
Cited by: 54
Author(s): Baiquan Ma, Liao Liao, Ting Fang, Qian Peng, Collins Ogutu, Hui Zhou, Fengwang Ma, Yuepeng Han
Software Mentions: 3
Published: about 8 years ago

10.1186/s12864-021-07407-6

High-pressure processing-induced transcriptome response during recovery of Listeria monocytogenes
Cited by: 14
Author(s): Ilhan Cem Duru, Florentina Ionela Bucur, Margarita Andreevskaya, Bahareh Nikparvar, Anne Ylinen, Leontina Grigore‐Gurgu, Tone Mari Rode, Peter Crauwels, Pia Laine, Lars Paulín, Trond Løvdal, Christian U. Riedel, Nadav Bar, Daniela Borda, Anca Loana Nicolau, Petri Auvinen
Software Mentions: 3
Published: over 5 years ago

10.1002/pld3.56

Waterlogging affects plant morphology and the expression of key genes in tef ( Eragrostis tef )
Cited by: 21
Author(s): Gina Cannarozzi, Annett Weichert, Mirjam Schnell, Celia Ruiz, Svenja Bossard, Regula Blösch, Sonia Plaza-Wüthrich, Solomon Chanyalew, Kebebew Assefa, Zerihun Tadele
Software Mentions: 3
Published: over 8 years ago

10.1002/pld3.326

slim shady is a novel allele of PHYTOCHROME B present in the T‐DNA line SALK_015201
Cited by: 5
Author(s): Linkan Dash, Robert E. McEwan, Christian Montes, Ludvin Mejia, Justin W. Walley, Brian P. Dilkes, Dior R. Kelley
Software Mentions: 3
Published: over 5 years ago

10.1002/pld3.92

Transcriptomic analysis of sweet potato under dehydration stress identifies candidate genes for drought tolerance
Cited by: 18
Author(s): Kin H. Lau, Mariana Herrera, Emily Crisovan, Shan Wu, Zhangjun Fei, Muhammad Awais Khan, C. Robin Buell, Dorcus C. Gemenet
Software Mentions: 3
Published: about 8 years ago

10.1186/s12864-019-6437-z

Anti-masculinization induced by aromatase inhibitors in adult female zebrafish
Cited by: 8
Author(s): Ciyong Lu, Li Wang, Qingqing Cheng, Yi‐Xuan Tu, Zifeng Yang, Runze Li, Zhihui Luo, Zhenxia Chen
Software Mentions: 3
Published: almost 7 years ago

10.1002/pld3.154

Network‐based feature selection reveals substructures of gene modules responding to salt stress in rice
Cited by: 13
Author(s): Qian Du, Malachy T. Campbell, Huihui Yu, Kan Liu, Harkamal Walia, Chi Zhang, Chi Zhang
Software Mentions: 3
Published: over 7 years ago

10.1111/tpj.14417

Poplar carbohydrate‐active enzymes: whole‐genome annotation and functional analyses based on <scp>RNA</scp> expression data
Cited by: 29
Author(s): Vikash Kumar, Matthieu Hainaut, Nicolas Delhomme, Chanaka Mannapperuma, Peter Immerzeel, Nathaniel R. Street, Bernard Henrissat, Ewa J. Mellerowicz
Software Mentions: 3
Published: over 7 years ago

10.3390/plants10010103

Gene and Metabolite Integration Analysis through Transcriptome and Metabolome Brings New Insight into Heat Stress Tolerance in Potato (Solanum tuberosum L.)
Cited by: 10
Author(s): Bailin Liu, Lingshuang Kong, Yu Zhang, Yuncheng Liao
Software Mentions: 3
Published: almost 6 years ago

10.7150/thno.47525

Transcriptomic analysis identifies a tumor subtype mRNA classifier for invasive non-functioning pituitary neuroendocrine tumor diagnostics
Cited by: 9
Author(s): Xinjie Bao, Gengchao Wang, Shan Yu, Jian Sun, Li He, Hua-Lu Zhao, Yupo Ma, Fang Wang, Xiaoshuang Wang, Renzhi Wang, Jia Yu
Software Mentions: 3
Published: almost 6 years ago

Projects: pypi: HTSeq

Science Score: 65/100

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Papers Mentioning HTSeq 3,071