pypi: HTSeq | Projects | Ecosyste.ms: Papers

10.1186/s12864-017-3677-7

Transcriptomic profiling of two Pak Choi varieties with contrasting anthocyanin contents provides an insight into structural and regulatory genes in anthocyanin biosynthetic pathway
Cited by: 23
Author(s): Lu Zhang, Bin Xu, Tao Wu, Yongqiang Yang, Lu Fan, M. X. Wen, J. X. Sui
Software Mentions: 2
Published: over 9 years ago

10.7554/eLife.19942

Genome-wide identification of neuronal activity-regulated genes in Drosophila
Cited by: 67
Author(s): Chen Xiao, Reazur Rahman, Fang Guo, Michael Rosbash
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41422-020-0314-9

Elimination of senescent cells by β-galactosidase-targeted prodrug attenuates inflammation and restores physical function in aged mice
Cited by: 154
Author(s): Yusheng Cai, Huanhuan Zhou, Yinhua Zhu, Qi Sun, Yin Ji, Anqi Xue, Yuting Wang, Wenhan Chen, Xiaomei Yu, Longteng Wang, Han Chen, Cheng Li, Tuoping Luo, Hongkui Deng
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-021-07376-w

Activation of metabolic and stress responses during subtoxic expression of the type I toxin hok in Erwinia amylovora
Cited by: 4
Author(s): Jingyu Peng, Lindsay R. Triplett, George W. Sundin
Software Mentions: 2
Published: over 5 years ago

10.15252/emmm.202013560

A positive feedback loop between mTORC1 and cathelicidin promotes skin inflammation in rosacea
Cited by: 31
Author(s): Zhili Deng, Mengting Chen, Yingzi Liu, San Xu, Yuyan Ouyang, Wei Shi, Dan Jian, Ben Wang, Fangfen Liu, Jinmao Li, Shi Qian, Qinqin Peng, Ke Sha, Wenqin Xiao, Tangxiele Liu, Yiya Zhang, Hongbing Zhang, Qian Wang, Lun‐Quan Sun, Hongfu Xie, Ji Li
Software Mentions: 2
Published: over 5 years ago

10.15252/embr.201947789

Dynamic expression of tRNA‐derived small RNAs define cellular states
Cited by: 89
Author(s): Srikar Krishna, Daniel Yim, Vairavan Lakshmanan, Varsha Tirumalai, Judice L.Y. Koh, Jung Eun Park, Jit Kong Cheong, Joo-Leng Low, Michelle Gek Liang Lim, Siu Kwan Sze, P. V. Shivaprasad, Akash Gulyani, Srikala Raghavan, Dasaradhi Palakodeti, Ramanuj DasGupta
Software Mentions: 2
Published: over 7 years ago

10.15252/embr.201949224

<scp>LGR</scp> 5 controls extracellular matrix production by stem cells in the developing intestine
Cited by: 17
Author(s): Valeria Fernàndez Vallone, Morgane Leprovots, Didac Ribatallada-Soriano, Romain Gerbier, Anne Lefort, Frédérick Libert, Gilbert Vassart, Marie-Isabelle Garcia
Software Mentions: 2
Published: over 6 years ago

10.15252/embr.201847379

<scp>IL</scp> ‐7‐dependent compositional changes within the γδ T cell pool in lymph nodes during ageing lead to an unbalanced anti‐tumour response
Cited by: 35
Author(s): Hung-Chang Chen, Nils Eling, Celia P. Martínez-Jiménez, L. M. O'Brien, Valentina Carbonaro, John C. Marioni, Duncan T. Odom
Software Mentions: 2
Published: about 7 years ago

10.1186/s12864-017-3984-z

Proteomic and transcriptomic studies of HBV-associated liver fibrosis of an AAV-HBV-infected mouse model
Cited by: 19
Author(s): Fangming Kan, Lei Ye, Tao Yan, Jiaqi Cao, Jianhua Zheng, Wuping Li
Software Mentions: 2
Published: about 9 years ago

10.15252/embr.202050219

Loss of <scp>TMEM</scp> 106B and <scp>PGRN</scp> leads to severe lysosomal abnormalities and neurodegeneration in mice
Cited by: 45
Author(s): Tuancheng Feng, Shuyi Mai, Jenn Marie Roscoe, Rory R Sheng, Mohammed Ullah, Junke Zhang, Isabel Iscol Katz, Haiyuan Yu, Wenjun Xiong, Fenghua Hu
Software Mentions: 2
Published: about 6 years ago

10.7554/eLife.39381

Zygotic gene activation in the chicken occurs in two waves, the first involving only maternally derived genes
Cited by: 12
Author(s): Young Sun Hwang, Minseok Seo, Sang Kyung Kim, Sohyun Bang, Heebal Kim, Jae Yong Han
Software Mentions: 2
Published: almost 8 years ago

10.18632/oncotarget.15381

Runx1 stabilizes the mammary epithelial cell phenotype and prevents epithelial to mesenchymal transition
Cited by: 51
Author(s): Deli Hong, Terri L. Messier, Coralee E. Tye, Jason R. Dobson, Andrew J. Fritz, Kenneth R. Sikora, Gillian Browne, Janet L. Stein, Jane B. Lian
Software Mentions: 2
Published: over 9 years ago

10.1093/eep/dvab008

Combined exposure to polychlorinated biphenyls and high-fat diet modifies the global epitranscriptomic landscape in mouse liver.
Cited by: 12
Author(s): Carolyn M. Klinge, Kellianne M. Piell, Belinda J. Petri, Liqing He, Xiang Zhang, Jianmin Pan, N. Shesh, Kalina Andreeva, Eric C. Rouchka, Banrida Wahlang, Juliane I. Beier, Matthew C. Cave
Software Mentions: 2
Published: over 5 years ago

10.1111/1462-2920.14881

The false smut pathogen Ustilaginoidea virens requires rice stamens for false smut ball formation
Cited by: 34
Author(s): Jing Fan, Jie Liu, Zhiyou Gong, Peizhou Xu, Xiao-Hong Hu, Jinlong Wu, Guo‐Bang Li, Juan Yang, Yuqiu Wang, Yufeng Zhou, Shuangcheng Li, Li Wang, Xiao-Qiong Chen, Min He, Zhao Jun, Yan Li, Ya-Lin Huang, Dongwei Hu, Xiaoyun Wu, Ping Li, Wenming Wang
Software Mentions: 2
Published: almost 7 years ago

10.1186/s40793-021-00378-x

Genome-wide gene expression changes of Pseudomonas veronii 1YdBTEX2 during bioaugmentation in polluted soils
Cited by: 2
Author(s): Marian Morales, Vladimir Sentchilo, Noushin Hadadi, Jan Roelof van der Meer
Software Mentions: 2
Published: over 5 years ago

10.1002/em.22020

Transcriptional profiling of the mouse hippocampus supports an NMDAR‐mediated neurotoxic mode of action for benzo[a]pyrene
Cited by: 14
Author(s): Nikolai L. Chepelev, Alexandra S. Long, Wayne J. Bowers, Remi Gagné, Andrew Williams, Byron Kuo, David H. Phillips, Volker M. Arlt, Paul A. White, Carole L. Yauk
Software Mentions: 2
Published: over 10 years ago

10.1186/s13072-018-0232-y

Non-canonical Drosophila X chromosome dosage compensation and repressive topologically associated domains
Cited by: 7
Author(s): Hangnoh Lee, Brian Oliver
Software Mentions: 2
Published: almost 8 years ago

10.1186/s13072-019-0289-2

Disruption of nuclear speckles reduces chromatin interactions in active compartments
Cited by: 39
Author(s): Shibin Hu, Pin Lv, Zixiang Yan, Bo Wen
Software Mentions: 2
Published: about 7 years ago

10.1111/ejn.14534

Transcriptional profiling aligned with in situ expression image analysis reveals mosaically expressed molecular markers for <scp>GABA</scp> neuron sub‐groups in the ventral tegmental area
Cited by: 16
Author(s): Eleanor J. Paul, Kyoko Tossell, Mark A. Ungless
Software Mentions: 2
Published: about 7 years ago

10.1186/s12864-016-2597-2

The compact genome of the plant pathogen Plasmodiophora brassicae is adapted to intracellular interactions with host Brassica spp
Cited by: 98
Author(s): Stephen A. Rolfe, Stephen E. Strelkov, Matthew G. Links, Wayne E. Clarke, Stephen J. Robinson, Mohammad Djavaheri, Robert Malinowski, Parham Haddadi, Sateesh Kagale, Isobel A. P. Parkin, Ali Taheri, M. Hossein Borhan
Software Mentions: 2
Published: over 10 years ago

10.1002/evl3.71

Convergent phenotypic evolution of the visual system via different molecular routes: How Neotropical cichlid fishes adapt to novel light environments
Cited by: 33
Author(s): Andreas Härer, Axel Meyer, Julián Torres‐Dowdall
Software Mentions: 2
Published: about 8 years ago

10.1016/j.exphem.2019.07.003

Expanded potential stem cell media as a tool to study human developmental hematopoiesis in vitro
Cited by: 7
Author(s): Adam C. Wilkinson, David Ryan, Iwo Kuciński, Wei Wang, Jian Yang, Sonia Nestorowa, Evangelia Diamanti, Jason C.H. Tsang, Juexuan Wang, Lia S. Campos, Fengtang Yang, Beiyuan Fu, Nicola K. Wilson, Pentao Liu, Berthold Göttgens
Software Mentions: 2
Published: about 7 years ago

10.12688/f1000research.8382.2

Closing gaps between open software and public data in a hackathon setting: User-centered software prototyping
Cited by: 12
Author(s): Ben Busby, Matthew Lesko, August, January Hackathon participants, Lisa Federer
Software Mentions: 2
Published: over 10 years ago

10.1186/s12864-015-2283-9

Genome-wide transcriptome analyses of developing seeds from low and normal phytic acid soybean lines
Cited by: 16
Author(s): Neelam Redekar, R. M. Biyashev, Roderick V. Jensen, Richard F. Helm, Elizabeth A. Grabau, M. A. Saghai Maroof
Software Mentions: 2
Published: almost 11 years ago

10.1186/s12864-015-1527-z

RNA-Seq versus oligonucleotide array assessment of dose-dependent TCDD-elicited hepatic gene expression in mice
Cited by: 30
Author(s): Rance Nault, Kelly A. Fader, Tim Zacharewski
Software Mentions: 2
Published: over 11 years ago

10.1186/s12864-018-4769-8

RNA-Seq Meta-analysis identifies genes in skeletal muscle associated with gain and intake across a multi-season study of crossbred beef steers
Cited by: 21
Author(s): Brittney N Keel, C. M. Zarek, J. W. Keele, L. A. Kuehn, W. M. Snelling, W. T. Oliver, H. C. Freetly, A. K. Lindholm‐Perry
Software Mentions: 2
Published: over 8 years ago

10.18632/oncotarget.15237

Metabolic heterogeneity signature of primary treatment-naïve prostate cancer
Cited by: 16
Author(s): Dong Lin, Susan Ettinger, Sifeng Qu, Hui Xue, Noushin Nabavi, Si‐Sun Choi, Robert H. Bell, Fan Mo, Anne Haegert, Peter W. Gout, Neil Fleshner, Martin Gleave, Michael Pollak, Colin C. Collins, Yuzhuo Wang
Software Mentions: 2
Published: over 9 years ago

10.3389/fbioe.2020.00832

A New Method to Obtain the Complete Genome Sequence of Multiple-Component Circular ssDNA Viruses by Transcriptome Analysis
Cited by: 1
Author(s): Nana Yu, Yuliang Zhang, Jianhua Wang, Zhixin Liu
Software Mentions: 2
Published: about 6 years ago

10.3389/fbioe.2020.00668

Identification and Analysis of p53-Regulated Enhancers in Hepatic Carcinoma
Cited by: 5
Author(s): Yin Zhang, Mingming Qian, Fei Tang, Qingqing Huang, Wenzhu Wang, Yanjing Li, Zhi Xue Li, Bei-Ping Li, Zheng-Liang Qiu, Junjie Yue, Zhiyun Guo
Software Mentions: 2
Published: over 6 years ago

10.3389/fcell.2014.00054

Comparative transcriptomics and metabolomics in a rhesus macaque drug administration study
Cited by: 16
Author(s): Kevin J. Lee, Weiwei Yin, Dalia Arafat, Yan Tang, Karan Uppal, ViLinh Tran, Mónica Cabrera-Mora, Stacey A. Lapp, Alberto Moreno, Esmeralda V. S. Meyer, Jeremy D. DeBarry, Suman B. Pakala, Vishal Nayak, Jessica C. Kissinger, Dean P. Jones, Mary R. Galinski, Mark P. Styczynski, Greg Gibson
Software Mentions: 2
Published: almost 12 years ago

10.18632/aging.102694

MTDH promotes metastasis of clear cell renal cell carcinoma by activating SND1-mediated ERK signaling and epithelial-mesenchymal transition
Cited by: 13
Author(s): Anbang He, Shiming He, Cong Huang, Zhicong Chen, Yucai Wu, Yanqing Gong, Xuesong Li, Liqun Zhou
Software Mentions: 2
Published: over 6 years ago

10.3389/fcell.2018.00047

Transcriptomic Profiling of Zebrafish Hair Cells Using RiboTag
Cited by: 26
Author(s): Maggie S. Matern, Alisha Beirl, Yoko Ogawa, Yang Song, Nikhil Paladugu, Katie S. Kindt, Ronna Hertzano
Software Mentions: 2
Published: over 8 years ago

10.1186/s12864-015-1506-4

Sexually dimorphic gene expression emerges with embryonic genome activation and is dynamic throughout development
Cited by: 87
Author(s): Robert Lowe, Carolina Gemma, Vardhman K. Rakyan, Michelle L. Holland
Software Mentions: 2
Published: over 11 years ago

10.3389/fcell.2020.00432

Induced Pluripotent Stem Cells Derived From Two Idiopathic Azoospermia Patients Display Compromised Differentiation Potential for Primordial Germ Cell Fate
Cited by: 11
Author(s): Fang Fang, Zili Li, Qian Zhao, Zhen Ye, Xiuli Gu, Feng Pan, Honggang Li, Wenpei Xiang
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-018-4602-4

New insight into the mechanism underlying the silk gland biological process by knocking out fibroin heavy chain in the silkworm
Cited by: 15
Author(s): Yong Cui, Yanan Zhu, Youping Lin, Lei Chen, Qili Feng, Wen Wang, Hui Xiang
Software Mentions: 2
Published: over 8 years ago

10.1186/s12864-016-3022-6

Transcriptome responses to temperature, water availability and photoperiod are conserved among mature trees of two divergent Douglas-fir provenances from a coastal and an interior habitat
Cited by: 24
Author(s): Moritz Hess, Henning Wildhagen, Laura Verena Junker, Ingo Ensminger
Software Mentions: 2
Published: about 10 years ago

10.3389/fcell.2020.572459

Transferrin Receptor Functionally Marks Thermogenic Adipocytes
Cited by: 9
Author(s): Jin Qiu, Zhi Yong Zhang, Sainan Wang, Yanru Chen, Caizhi Liu, Sainan Xu, Dongmei Wang, Jiping Su, Mengshan Ni, Jian Yu, Xiangdi Cui, Lu Ma, Tianhui Hu, Yepeng Hu, Xuejiang Gu, Xinran Ma, Jiqiu Wang, Lingyan Xu
Software Mentions: 2
Published: almost 6 years ago

10.3389/fcell.2020.00231

Abnormal Cerebellar Development Is Involved in Dystonia-Like Behaviors and Motor Dysfunction of Autistic BTBR Mice
Cited by: 23
Author(s): Rui Xiao, Hongyu Zhong, Xin Li, Yuanyuan Ma, Ruiyu Zhang, Lian Wang, Zhenle Zang, Xiaotang Fan
Software Mentions: 2
Published: over 6 years ago

10.3389/fcell.2021.688128

Toxocara canis Infection Alters lncRNA and mRNA Expression Profiles of Dog Bone Marrow
Cited by: 5
Author(s): Wen-Bin Zheng, Yang Zou, Qing Liu, Min Hu, Hany M. Elsheikha, Xing Zhu
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2020.616706

Identification of the Myogenetic Oligodeoxynucleotides (myoDNs) That Promote Differentiation of Skeletal Muscle Myoblasts by Targeting Nucleolin
Cited by: 11
Author(s): Sayaka Shinji, Koji Umezawa, Yuma Nihashi, Shun‐ichi Nakamura, Takeshi Shimosato, Tomohide Takaya
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2020.00751

Sex-Dependent RNA Editing and N6-adenosine RNA Methylation Profiling in the Gonads of a Fish, the Olive Flounder (Paralichthys olivaceus)
Cited by: 12
Author(s): Limin Wang, Zhihao Wu, Congcong Zou, Suzhe Liang, Yuxia Zou, Yan Liu, Feng You
Software Mentions: 2
Published: about 6 years ago

10.3389/fcell.2021.651655

Histone Lysine Methyltransferase SETD2 Regulates Coronary Vascular Development in Embryonic Mouse Hearts
Cited by: 8
Author(s): Fengling Chen, Jiewen Chen, Hong Wang, Huayuan Tang, Lei Huang, Shijia Wang, Xinru Wang, Xi Fang, Jie Liu, Li Li, Kunfu Ouyang, Zhen Han
Software Mentions: 2
Published: over 5 years ago

10.1002/advs.202002602

Protein Arginine Methyltransferase PRMT5 Regulates Fatty Acid Metabolism and Lipid Droplet Biogenesis in White Adipose Tissues
Cited by: 20
Author(s): Zhihao Jia, Yue Feng, Xiyue Chen, Narayanan Narayanan, Jiamin Qiu, Sabriya A. Syed, Anthony N. Imbalzano, Meng Deng, Peng Yu, Chang‐Deng Hu, Shihuan Kuang
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12864-020-07109-5

A holistic view of mouse enhancer architectures reveals analogous pleiotropic effects and correlation with human disease
Cited by: 1
Author(s): Siddharth Sethi, Ilya E. Vorontsov, Ivan V. Kulakovskiy, Simon Greenaway, John A. Williams, Vsevolod J. Makeev, Steve Brown, Michelle Simon, Ann‐Marie Mallon
Software Mentions: 2
Published: almost 6 years ago

10.3389/fcimb.2020.00122

Comparative Genomic and Transcriptomic Analyses of Mycobacterium kansasii Subtypes Provide New Insights Into Their Pathogenicity and Taxonomy
Cited by: 10
Author(s): Qingtian Guan, Roy Ummels, Fathia Ben Rached, Yara Alzahid, Mohammad Shoaib Amini, Sabir A. Adroub, Jakko van Ingen, Wilbert Bitter, Abdallah Abdallah, Arnab Pain
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-018-4644-7

Comparative transcriptome analysis of hypothalamus-regulated feed intake induced by exogenous visfatin in chicks
Cited by: 14
Author(s): Zhuanjian Li, Xuelian Liu, Panpan Zhang, Ruili Han, Guirong Sun, Ruirui Jiang, Yanbin Wang, Xiaojun Liu, Wenya Li, Xiangtao Kang, Yadong Tian
Software Mentions: 2
Published: over 8 years ago

10.3389/fcimb.2017.00452

Increased Expression of a MicroRNA Correlates with Anthelmintic Resistance in Parasitic Nematodes
Cited by: 19
Author(s): Victoria Gillan, Kirsty Maitland, Roz Laing, Henry Y. Gu, Neil D. Marks, Alan D. Winter, David J. Bartley, Alison A. Morrison, Philip Skuce, Andrew M. Rezansoff, John S. Gilleard, Axel Martinelli, Collette Britton, Eileen Devaney
Software Mentions: 2
Published: almost 9 years ago

10.3389/fcimb.2019.00017

RNA-Seq Revealed Expression of Many Novel Genes Associated With Leishmania donovani Persistence and Clearance in the Host Macrophage
Cited by: 27
Author(s): Mohammad Shadab, Sonali Das, Anindyajit Banerjee, Roma Sinha, Mohammad Asad, Mohd Kamran, Mithun Maji, Baijayanti Jha, Makaraju Deepthi, Manoharan Kumar, Abhishek Tripathi, Bipin Kumar, Saikat Chakrabarti, Nahid Ali
Software Mentions: 2
Published: over 7 years ago

10.3389/fncel.2017.00033

Huntingtin Is Required for Neural But Not Cardiac/Pancreatic Progenitor Differentiation of Mouse Embryonic Stem Cells In vitro
Cited by: 4
Author(s): Man Shan Yu, Naoko Tanese
Software Mentions: 2
Published: over 9 years ago

10.3389/fendo.2021.631680

Integrated Whole-Exome and Transcriptome Sequencing of Sporadic Parathyroid Adenoma
Cited by: 10
Author(s): Ya Hu, Xiang Zhang, Ou Wang, Ming Cui, Xiaobin Li, Mengyi Wang, Surong Hua, Quan Liao
Software Mentions: 2
Published: over 5 years ago

10.3389/fendo.2021.722487

Fluid Secretion by Malpighian Tubules of Rhodnius prolixus: Neuroendocrine Control With New Insights From a Transcriptome Analysis
Cited by: 11
Author(s): Ian Orchard, Jimena Leyria, Areej N. Al-Dailami, Angela B. Lange
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.44392

A de novo evolved gene in the house mouse regulates female pregnancy cycles
Cited by: 31
Author(s): Chen Xie, Cemalettin Bekpen, Sven Künzel, Maryam Keshavarz, Rebecca Krebs-Wheaton, Neva Škrabar, Kristian K. Ullrich, Diethard Tautz
Software Mentions: 2
Published: about 7 years ago

10.3389/fendo.2019.00438

Analytical Verification Performance of Afirma Genomic Sequencing Classifier in the Diagnosis of Cytologically Indeterminate Thyroid Nodules
Cited by: 18
Author(s): Yangyang Hao, Yoonha Choi, Joshua E. Babiarz, Richard T. Kloos, Giulia C. Kennedy, Jing Huang, P. Sean Walsh
Software Mentions: 2
Published: about 7 years ago

10.3389/fgene.2017.00176

Coupling Seq-BSA and RNA-Seq Analyses Reveal the Molecular Pathway and Genes Associated with Heading Type in Chinese Cabbage
Cited by: 25
Author(s): Aiqin Gu, Meng Chen, YueQi Chen, Lai Wei, Hui Dong, Yin Lu, Yanhua Wang, Xueping Chen, Zhao Jian-jun, Shuxing Shen
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12864-018-5246-0

Putative chemosensory receptors are differentially expressed in the sensory organs of male and female crown-of-thorns starfish, Acanthaster planci
Cited by: 8
Author(s): Rebecca E. Roberts, Daniel Powell, Tianfang Wang, Mike Hall, Cherie A. Motti, Scott F. Cummins
Software Mentions: 2
Published: almost 8 years ago

10.3389/fgene.2020.562434

Systematic Prioritization of Candidate Genes in Disease Loci Identifies TRAFD1 as a Master Regulator of IFNγ Signaling in Celiac Disease
Cited by: 14
Author(s): Adriaan van der Graaf, Maria M. Zorro, Annique Claringbould, Urmo Võsa, Raúl Aguirre-Gamboa, Chan Li, Joram Mooiweer, Isis Ricaño-Ponce, Z Borek, Frits Koning, Yvonne Kooy–Winkelaar, Ludvig M. Sollid, Shuo‐Wang Qiao, Vinod Kumar, Yang Li, Lude Franke, Sebo Withoff, Cisca Wijmenga, Serena Sanna, Iris Jonkers
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2020.603920

QTL Analysis and Fine Mapping of a Major QTL Conferring Kernel Size in Maize (Zea mays)
Cited by: 13
Author(s): Guiying Wang, Yanming Zhao, Wenbo Mao, Xiaojie Ma, Chengfu Su
Software Mentions: 2
Published: almost 6 years ago

10.3389/fgene.2019.00915

Long Read Single-Molecule Real-Time Sequencing Elucidates Transcriptome-Wide Heterogeneity and Complexity in Esophageal Squamous Cells
Cited by: 12
Author(s): Yin-Wei Cheng, Yunmei Chen, Qianqian Zhao, Xing Zhao, Wu Yu, Danze Chen, Lian‐Di Liao, Chen Yang, Qian Yang, Li–Yan Xu, En‐Min Li, Jianzhen Xu
Software Mentions: 2
Published: almost 7 years ago

10.3389/fgene.2021.666897

Scale Drop Disease Virus (SDDV) and Lates calcarifer Herpes Virus (LCHV) Coinfection Downregulate Immune-Relevant Pathways and Cause Splenic and Kidney Necrosis in Barramundi Under Commercial Farming Conditions
Cited by: 16
Author(s): Jose A. Domingos, Xueyan Shen, Celestine Terence, Saengchan Senapin, Ha Thanh Dong, Marie R. Tan, Susan Gibson-Kueh, Dean R. Jerry
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2018.00369

Multi-Tissue Transcriptome Profiling of North American Derived Atlantic Salmon
Cited by: 11
Author(s): Amin R. Mohamed, Hilary King, Bradley S. Evans, Antônio Reverter, James W. Kijas
Software Mentions: 2
Published: about 8 years ago

10.3389/fgene.2020.592042

YTHDF2 Inhibits Gastric Cancer Cell Growth by Regulating FOXC2 Signaling Pathway
Cited by: 25
Author(s): Xudong Shen, Kui Zhao, Liming Xu, Guangfeng Cheng, Jian-Hong Zhu, Lei Gan, Yongyou Wu, Zhixiang Zhuang
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2019.01275

Comparative Transcriptome Analysis Reveals Key Pathways and Hub Genes in Rapeseed During the Early Stage of Plasmodiophora brassicae Infection
Cited by: 27
Author(s): Lixia Li, Ying Long, Hao Li, Xiaoming Wu
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2021.622751

Transcriptome Analysis of Ovarian Follicles Reveals Potential Pivotal Genes Associated With Increased and Decreased Rates of Chicken Egg Production
Cited by: 15
Author(s): Xiaoxia Chen, Xue Sun, Ignatius Musenge Chimbaka, Ning Qin, Xiaoxing Xu, Simushi Liswaniso, Rong Xu, J. M. Gonzalez
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2019.00891

Novel Y-Chromosome Long Non-Coding RNAs Expressed in Human Male CNS During Early Development
Cited by: 7
Author(s): Martin M. Johansson, Philipp Pottmeier, Pascalina Suciu, Tauseef Ahmad, Ammar Zaghlool, Jonatan Halvardson, Elisabeth Darj, Lars Feuk, Christiane Peuckert, Elena Jazin
Software Mentions: 2
Published: about 7 years ago

10.18632/oncotarget.16109

Model-based unsupervised learning informs metformin-induced cell-migration inhibition through an AMPK-independent mechanism in breast cancer
Cited by: 12
Author(s): Arjun P. Athreya, Krishna R. Kalari, Junmei Cairns, A Gaglio, Quin F. Wills, Nifang Niu, Richard Weinshilboum, Ravishankar K. Iyer, Liewei Wang
Software Mentions: 2
Published: over 9 years ago

10.1186/s12864-017-3532-x

Transcriptome profile of rat genes in injured spinal cord at different stages by RNA-sequencing
Cited by: 63
Author(s): Lingling Shi, Nan Zhang, Xiaoming Xie, Yue-Juan Chen, Rui Wang, Lin Shen, Jiansheng Zhou, Jianguo Hu, He‐Zuo Lü
Software Mentions: 2
Published: over 9 years ago

10.3389/fgene.2018.00415

Overexpression of Chicken IRF7 Increased Viral Replication and Programmed Cell Death to the Avian Influenza Virus Infection Through TGF-Beta/FoxO Signaling Axis in DF-1
Cited by: 9
Author(s): T.H. Kim, Huaijun Zhou
Software Mentions: 2
Published: about 8 years ago

10.3389/fgene.2020.613162

Gene Expression Changes and Associated Pathways Involved in the Progression of Prostate Cancer Advanced Stages
Cited by: 12
Author(s): Elena A. Pudova, George S. Krasnov, Anastasiya A. Kobelyatskaya, М. В. Савватеева, Maria S. Fedorova, Vladislav Pavlov, K. M. Nyushko, А. Д. Каприн, B. Ya. Alekseev, Trofimov D.Yu. Trofimov, Г. Т. Сухих, Anastasiya V. Snezhkina, Anna V. Kudryavtseva
Software Mentions: 2
Published: over 5 years ago

10.1002/advs.202002831

PADI2‐Catalyzed MEK1 Citrullination Activates ERK1/2 and Promotes IGF2BP1‐Mediated SOX2 mRNA Stability in Endometrial Cancer
Cited by: 33
Author(s): Tong-Chun Xue, Xiaoqiu Liu, Mei Zhang, E Qiukai, Shuting Liu, Maosheng Zou, Ying Liu, Zhengliang Ma, Yu Han, Paul R. Thompson, Xuesen Zhang
Software Mentions: 2
Published: over 5 years ago

10.3389/fgene.2019.00559

Transcriptome Responses to Dexamethasone Depending on Dose and Glucocorticoid Receptor Sensitivity in the Liver
Cited by: 13
Author(s): Eduard Muráni, Nares Trakooljul, Frieder Hadlich, Siriluck Ponsuksili, Klaus Wimmers
Software Mentions: 2
Published: over 7 years ago

10.3389/fgene.2018.00402

Ethanol-Induced Behavioral Sensitization Alters the Synaptic Transcriptome and Exon Utilization in DBA/2J Mice
Cited by: 8
Author(s): Megan A. O’Brien, Rory M. Weston, Nihar U. Sheth, Steven Bradley, John W. Bigbee, Ashutosh Kumar Pandey, Robert W. Williams, Jennifer T. Wolstenholme, Michael F. Miles
Software Mentions: 2
Published: about 8 years ago

10.1186/s12864-018-5215-7

Dynamic transcriptomes of resistant and susceptible peach lines after infestation by green peach aphids (Myzus persicae Sülzer) reveal defence responses controlled by the Rm3 locus
Cited by: 18
Author(s): Liang Niu, Lei Pan, Wenfang Zeng, Zhenhua Lü, Guochao Cui, Fan Meili, Qiang Xu, Zhiqiang Wang, Guohuai Li
Software Mentions: 2
Published: almost 8 years ago

10.1186/1471-2164-15-825

Genes and signaling networks regulated during zebrafish optic vesicle morphogenesis
Cited by: 24
Author(s): Jun Yin, Maria E Morrissey, Lisa Shine, Ciarán Kennedy, Desmond G. Higgins, Breandán N Kennedy
Software Mentions: 2
Published: about 12 years ago

10.3389/fgene.2021.698046

Whole Transcriptome Analysis Revealed a Stress Response to Deep Underground Environment Conditions in Chinese Hamster V79 Lung Fibroblast Cells
Cited by: 5
Author(s): Lei Duan, Hongying Jiang, Jifeng Liu, Yilin Liu, Tengfei Ma, Yike Xie, Sheng Wang, Juan Cheng, Jian Zou, Jiang Wu, Shixi Liu, Mingzhong Gao, Weimin Liu, Heping Xie
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.18904

Oxytocin improves behavioral and electrophysiological deficits in a novel Shank3-deficient rat
Cited by: 112
Author(s): Hala Harony‐Nicolas, Maya Kay, Johann du Hoffmann, Matthew Klein, Ozlem Bozdagi-Gunal, Mohammed Riad, Nikolaos P. Daskalakis, Sankalp Sonar, Pablo E. Castillo, Patrick R. Hof, Matthew L. Shapiro, Mark G. Baxter, Shlomo Wagner, Joseph D. Buxbaum
Software Mentions: 2
Published: over 9 years ago

10.7554/eLife.03189

The transcriptional response to tumorigenic polarity loss in Drosophila
Cited by: 100
Author(s): Brandon D. Bunker, Tittu Thomas Nellimoottil, Ryan M. Boileau, Anne-Kathrin Classen, David Bilder
Software Mentions: 2
Published: over 11 years ago

10.3389/fgene.2020.00460

Impact of DNA Demethylases on the DNA Methylation and Transcription of Arabidopsis NLR Genes
Cited by: 10
Author(s): Weiwen Kong, Xue Xia, Qianqian Wang, Liwei Liu, Shengwei Zhang, Li Ding, Aixin Liu, Honggui La
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.52549

c-Maf restrains T-bet-driven programming of CCR6-negative group 3 innate lymphoid cells
Cited by: 20
Author(s): Caroline Tizian, Annette Lahmann, Oliver Hölsken, Catalina Cosovanu, Michael Kofoed-Branzk, Frederik Heinrich, Mir‐Farzin Mashreghi, Andrey Kruglov, Andreas Diefenbach, Christian Neumann
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2020.575237

Plant-Based Diets Induce Transcriptomic Changes in Muscle of Zebrafish and Atlantic Salmon
Cited by: 5
Author(s): Anusha K. S. Dhanasiri, Amritha Johny, Xi Xue, Gerd Marit Berge, André Sture Bogevik, Matthew L. Rise, Christiane Kruse Fæste, Jorge M. O. Fernandes
Software Mentions: 2
Published: almost 6 years ago

10.3389/fimmu.2020.563473

Lymphocyte-Specific Biomarkers Associated With Preterm Birth and Bronchopulmonary Dysplasia
Cited by: 11
Author(s): Soumyaroop Bhattacharya, Jared A. Mereness, Andrea Baran, Ravi S. Misra, Derick R. Peterson, Richard M. Ryan, Anne Marie Reynolds, Gloria S. Pryhuber, Thomas J. Mariani
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.63512

Promoter-specific changes in initiation, elongation, and homeostasis of histone H3 acetylation during CBP/p300 inhibition
Cited by: 22
Author(s): Emily Hsu, Nathan R. Zemke, Arnold Berk
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-021-07400-z

Genome-wide identification and gene-editing of pigment transporter genes in the swallowtail butterfly Papilio xuthus
Cited by: 6
Author(s): Guichun Liu, Wei Liu, Ruoping Zhao, Jinwu He, Zhiwei Dong, Lei Chen, Wenting Wan, Zhou Chang, Wen Wang, Xueyan Li
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.20059

MEF2C regulates cortical inhibitory and excitatory synapses and behaviors relevant to neurodevelopmental disorders
Cited by: 134
Author(s): Adam J. Harrington, Aram Raissi, Kacey Rajkovich, Stefano Berto, Jaswinder Kumar, Gemma Molinaro, Jonathan Raduazzo, Yuhong Guo, Kris Loerwald, Genevieve Konopka, Kimberly M. Huber, Christopher W. Cowan
Software Mentions: 2
Published: almost 10 years ago

10.3389/fimmu.2018.01403

Transcriptome Analysis of Bronchoalveolar Lavage Fluid From Children With Mycoplasma pneumoniae Pneumonia Reveals Natural Killer and T Cell-Proliferation Responses
Cited by: 23
Author(s): Man Gao, Way Kuo, Mengxuan Yang, Fanzheng Meng, Ruipeng Lu, Huadong Zhuang, Genhong Cheng, Xiaosong Wang
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2018.00035

TGF-β-Induced CD8+CD103+ Regulatory T Cells Show Potent Therapeutic Effect on Chronic Graft-versus-Host Disease Lupus by Suppressing B Cells
Cited by: 41
Author(s): Haowen Zhong, Ya Liu, Zhenjian Xu, Peifeng Liang, Hui Yang, Xiao Zhang, Jun Zhao, Junzhen Chen, Sha Fu, Ying Tang, Jun Lv, Julie Wang, Nancy J. Olsen, Anping Xu, Song Guo Zheng
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2021.627926

uhrf1 and dnmt1 Loss Induces an Immune Response in Zebrafish Livers Due to Viral Mimicry by Transposable Elements
Cited by: 14
Author(s): Elena Magnani, Filippo Macchi, Bhavani P. Madakashira, Chi Zhang, Fatima AlAydaroos, Kirsten C. Sadler
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-15-911

Extensive stage-regulation of translation revealed by ribosome profiling of Trypanosoma brucei
Cited by: 113
Author(s): Bryan C. Jensen, Gowthaman Ramasamy, Elton J. R. Vasconcelos, Nicholas T. Ingolia, Peter J. Myler, Marilyn Parsons
Software Mentions: 2
Published: almost 12 years ago

10.3389/fimmu.2016.00450

Immunosenescence-Related Transcriptomic and Immunologic Changes in Older Individuals Following Influenza Vaccination
Cited by: 31
Author(s): Richard B. Kennedy, Inna G. Ovsyannikova, Iana H. Haralambieva, Ann L. Oberg, Michael T. Zimmermann, Diane E. Grill, Gregory A. Poland
Software Mentions: 2
Published: almost 10 years ago

10.7554/eLife.31347

The asymmetrically segregating lncRNA cherub is required for transforming stem cells into malignant cells
Cited by: 26
Author(s): Lisa Landskron, Victoria Steinmann, François Bonnay, Thomas R Burkard, Jonas Steinmann, Ilka Reichardt, Heike Harzer, Anne-Sophie Laurenson, Heinrich Reichert, Juergen A. Knoblich
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2021.701656

The Transcriptomic Profile of Monocytes from Patients With Sjögren’s Syndrome Is Associated With Inflammatory Parameters and Is Mimicked by Circulating Mediators
Cited by: 11
Author(s): Ana P Lopes, Cornelis P. J. Bekker, Maarten R Hillen, Sofie L M Blokland, Anneline C. Hinrichs, Aridaman Pandit, Aike A. Kruize, Timothy R D J Radstake, Joël A G van Roon
Software Mentions: 2
Published: about 5 years ago

10.3389/fimmu.2021.743030

NOX2-Deficient Neutrophils Facilitate Joint Inflammation Through Higher Pro-Inflammatory and Weakened Immune Checkpoint Activities
Cited by: 7
Author(s): Yi‐Chu Liao, Szu‐Yu Wu, Ya‐Fang Huang, Pei‐Chi Lo, Tzu‐Yi Chan, Chih-An Chen, Chun-Hsin Wu, Che-Chia Hsu, Chia Liang Yen, Peng Chen, Chi‐Chang Shieh
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.59328

Heterogeneous somatostatin-expressing neuron population in mouse ventral tegmental area
Cited by: 9
Author(s): Elina Nagaeva, Ivan Zubarev, Carolina Bengtsson Gonzales, Mikko Forss, Kasra Nikouei, Elena de Miguel, Lauri Elsilä, Anni‐Maija Lindén, Jens Hjerling-Leffler, George J Augustine, Esa R. Korpi
Software Mentions: 2
Published: about 6 years ago

10.3389/fimmu.2019.01640

Severe Heterotopic Ossification in the Skeletal Muscle and Endothelial Cells Recruitment to Chondrogenesis Are Enhanced by Monocyte/Macrophage Depletion
Cited by: 18
Author(s): Mario Tirone, Anna Giovenzana, Arianna Vallone, Paola Zordan, Martina Sormani, Pier Andrea Nicolosi, Raffaela Meneveri, C. Gigliotti, Antonello E. Spinelli, Renata Bocciardi, Roberto Ravazzolo, Ingrid Cifola, Silvia Brunelli
Software Mentions: 2
Published: about 7 years ago

10.3389/fimmu.2020.00408

Retinoic Acid Exerts Disease Stage-Dependent Effects on Pristane-Induced Lupus
Cited by: 14
Author(s): Leila Abdelhamid, Xavier Cabana-Puig, Brianna Swartwout, Jiyoung Lee, Song Li, Sha Sun, Yaqi Li, A. Catharine Ross, Thomas E. Cecere, Tanya LeRoith, Stephen R. Werre, Haifeng Wang, Christopher M. Reilly, Xin Luo
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2017.00625

Phase II Study of Adjuvant Immunotherapy with the CSF-470 Vaccine Plus Bacillus Calmette–Guerin Plus Recombinant Human Granulocyte Macrophage-Colony Stimulating Factor vs Medium-Dose Interferon Alpha 2B in Stages IIB, IIC, and III Cutaneous Melanoma Patients: A Single Institution, Randomized Study
Cited by: 20
Author(s): José Mordoh, María Betina Pampena, Mariana Aris, Paula A. Blanco, Mónica E. Lombardo, Erika M. Von Euw, Soledad Mac Keon, Michelle Yépez Crow, Alicia Bravo, Juan Manuel O’Connor, Ana Gabriela Orlando, Franco Ramello, Estrella Mariel Levy, María Marcela Barrio
Software Mentions: 2
Published: over 9 years ago

10.3389/fimmu.2016.00228

Mucosal Regulatory T Cells and T Helper 17 Cells in HIV-Associated Immune Activation
Cited by: 34
Author(s): Pushpa Pandiyan, Souheil Antoine Younes, Susan Pereira Ribeiro, Aarthi Talla, David McDonald, Natarajan Bhaskaran, Alan D. Levine, Aaron Weinberg, Rafick Pierre Sékaly
Software Mentions: 2
Published: over 10 years ago

10.3389/fimmu.2017.01342

Early Events of the Reaction Elicited by CSF-470 Melanoma Vaccine Plus Adjuvants: An In Vitro Analysis of Immune Recruitment and Cytokine Release
Cited by: 3
Author(s): María Betina Pampena, María Marcela Barrio, Estefanía Paula Juliá, Paula A. Blanco, Erika M. Von Euw, José Mordoh, Estrella Mariel Levy
Software Mentions: 2
Published: almost 9 years ago

10.3389/fimmu.2017.00765

Intact CD100–CD72 Interaction Necessary for TCR-Induced T Cell Proliferation
Cited by: 19
Author(s): Xiaojun Jiang, Niklas K. Björkström, Espen Melum
Software Mentions: 2
Published: over 9 years ago

10.3390/ijms16047976

RNA Sequencing Identifies Upregulated Kyphoscoliosis Peptidase and Phosphatidic Acid Signaling Pathways in Muscle Hypertrophy Generated by Transgenic Expression of Myostatin Propeptide
Cited by: 16
Author(s): Yuanxin Miao, Jinzeng Yang, Zhong Xu, Jing Lü, Shuhong Zhao, Xinyun Li
Software Mentions: 2
Published: over 11 years ago

10.1186/s12864-020-07059-y

SWI/SNF complexes act through CBP-1 histone acetyltransferase to regulate acute functional tolerance to alcohol
Cited by: 5
Author(s): Laura D. Mathies, Jonathan H. Lindsay, Amal P. Handal, GinaMari G. Blackwell, Andrew G. Davies, Jill C. Bettinger
Software Mentions: 2
Published: about 6 years ago

Projects: pypi: HTSeq

Science Score: 65/100

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Papers Mentioning HTSeq 3,071