pypi: HTSeq | Projects | Ecosyste.ms: Papers

10.3390/genes10090725

A Transcriptome Analysis Identifies Biological Pathways and Candidate Genes for Feed Efficiency in DLY Pigs
Cited by: 9
Author(s): Xingwang Wang, Shaoyun Li, Jie Wu, Rongrong Ding, Jianping Quan, Enqin Zheng, Jie Yang, Zhenfang Wu
Software Mentions: 4
Published: about 7 years ago

10.1186/1471-2164-15-845

Identification and functional analysis of long non-coding RNAs in mouse cleavage stage embryonic development based on single cell transcriptome data
Cited by: 66
Author(s): Kunshan Zhang, Kefei Huang, Yuan Luo, Siguang Li
Software Mentions: 4
Published: about 12 years ago

10.3390/genes10100823

Dissecting the Genome-Wide Evolution and Function of R2R3-MYB Transcription Factor Family in Rosa chinensis
Cited by: 13
Author(s): Yu Han, Jiayao Yu, Tao Zhao, Tangren Cheng, Jia Wang, Weiru Yang, Huitang Pan, Qixiang Zhang
Software Mentions: 4
Published: about 7 years ago

10.1186/s12864-018-5146-3

Cell-type specific RNA-Seq reveals novel roles and regulatory programs for terminally differentiated Dictyostelium cells
Cited by: 18
Author(s): Koryu Kin, Gillian Forbes, Andrew Cassidy, Pauline Schaap
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0244038

Rapid nucleus-scale reorganization of chromatin in neurons enables transcriptional adaptation for memory consolidation
Cited by: 9
Author(s): Manuel Peter, Dominik F. Aschauer, Renata Rose, Anne Sinning, Florian Grössl, Dominic Kargl, Klaus Kraitsy, Thomas R Burkard, Heiko J. Luhmann, Wulf Haubensak, Simon Rumpel
Software Mentions: 4
Published: over 5 years ago

10.1186/s12864-016-2801-4

RNA-Seq analysis of Gtf2ird1 knockout epidermal tissue provides potential insights into molecular mechanisms underpinning Williams-Beuren syndrome
Cited by: 8
Author(s): Susan M. Corley, Cesar P Canales, Paulina Carmona-Mora, Veronica Mendoza-Reinosa, Annemiek Beverdam, Edna C. Hardeman, Marc R. Wilkins, Steve Palmer
Software Mentions: 4
Published: over 10 years ago

10.1186/s12864-019-5835-6

West Nile virus infection and interferon alpha treatment alter the spectrum and the levels of coding and noncoding host RNAs secreted in extracellular vesicles
Cited by: 20
Author(s): Andrii Slonchak, Brian Clarke, Jason M. Mackenzie, Alberto A. Amarilla, Yin Xiang Setoh, Alexander A. Khromykh
Software Mentions: 4
Published: over 7 years ago

10.1002/advs.202000938

Atlas of Musculoskeletal Stem Cells with the Soft and Hard Tissue Differentiation Architecture
Cited by: 7
Author(s): Zi Yin, Junxin Lin, Ruojin Yan, Richun Liu, Mengfei Liu, Bo Zhou, Wenyan Zhou, An Chen, Yangwu Chen, Yin Hu, Chunmei Fan, Kun Zhao, Bowen Wu, Xiaohui Zou, Jin Zhang, Ahmed El-Hashash, Xiao Chen
Software Mentions: 4
Published: about 6 years ago

10.3390/genes11050472

Comparative Transcriptomic Analysis to Identify the Genes Related to Delayed Gland Morphogenesis in Gossypium bickii
Cited by: 7
Author(s): Mushtaque Ali, Hongyan Cheng, Mahtab Soomro, Shuyan Li, Muhammad Tufail, Mian Faisal Nazir, Feng Xu, Youping Zhang, Dongyun Zuo, Limin Lv, Qiaolian Wang, Guoli Song
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0215986

Characterization of the transcriptome of Haloferax volcanii, grown under four different conditions, with mixed RNA-Seq
Cited by: 27
Author(s): Sebastian Laaß, Vivian Monzon, Jana Kliemt, M Hammelmann, Friedhelm Pfeiffer, Konrad U. Förstner, Jörg Soppa
Software Mentions: 4
Published: over 7 years ago

10.3390/genes8030090

Rapid Sampling of Escherichia coli After Changing Oxygen Conditions Reveals Transcriptional Dynamics
Cited by: 17
Author(s): Joachim von Wulffen, Andreas Ulmer, Günter Jäger, Oliver Sawodny, Ronny Feuer
Software Mentions: 4
Published: over 9 years ago

10.3390/genes9120574

A Two-Cohort RNA-seq Study Reveals Changes in Endometrial and Blood miRNome in Fertile and Infertile Women
Cited by: 25
Author(s): Kadri Rekker, Signe Altmäe, Marina Suhorutshenko, Maire Peters, Juan F. Martínez-Blanch, Francisco M. Codoñer, Felipe Vilella, Carlos Simón, Andres Salumets, Agne Velthut-Meikas
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0141225

A catalogue of novel bovine long noncoding RNA across 18 tissues
Cited by: 76
Author(s): Lambros T. Koufariotis, Yi‐Ping Phoebe Chen, Amanda J. Chamberlain, Christy Vander Jagt, Ben J. Hayes
Software Mentions: 4
Published: about 11 years ago

10.1371/journal.pone.0256148

RNA-sequencing of AVPV and ARH reveals vastly different temporal and transcriptomic responses to estradiol in the female rat hypothalamus
Cited by: 5
Author(s): Margaret A. Mohr, Angela Wong, Gauthaman Sukumar, Clifton L. Dalgard, Weizhe Hong, Tao Wu, Ye Wu, Paul E. Micevych
Software Mentions: 4
Published: about 5 years ago

10.3390/genes9120579

Integrated Proteomic and Transcriptomic Analysis of Differential Expression of Chicken Lung Tissue in Response to NDV Infection during Heat Stress
Cited by: 19
Author(s): Perot Saelao, Ying Wang, Ganrea Chanthavixay, Vivian M. Yu, Rodrigo A. Gallardo, Jack C. M. Dekkers, Susan J. Lamont, T. Ross Kelly, Huaijun Zhou
Software Mentions: 4
Published: almost 8 years ago

10.1371/journal.pone.0228933

Transcriptomic analysis to elucidate the response of honeybees (Hymenoptera: Apidae) to amitraz treatment
Cited by: 5
Author(s): Ye Liang, Peng Liu, Tengfei Shi, Wang AnRan, Yujie Zhu, Lai Li, Linsheng Yu
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0240183

Transcriptome analysis revealed misregulated gene expression in blastoderms of interspecific chicken and Japanese quail F1 hybrids
Cited by: 0
Author(s): Satoshi Ishishita, Shoji Tatsumoto, Keiji Kinoshita, Mitsuo Nunome, Takayuki Suzuki, Yasuhiro Go, Yoichi Matsuda
Software Mentions: 4
Published: about 6 years ago

10.1534/g3.120.401824

A Novel Mapping Strategy Utilizing Mouse Chromosome Substitution Strains Identifies Multiple Epistatic Interactions That Regulate Complex Traits
Cited by: 3
Author(s): Anna Miller, Anlu Chen, Jacquelaine Bartlett, Li Wang, Scott M. Williams, David A. Buchner
Software Mentions: 4
Published: almost 6 years ago

10.1186/s12864-016-2694-2

RNA-Seq following PCR-based sorting reveals rare cell transcriptional signatures
Cited by: 21
Author(s): Maurizio Pellegrino, Adam Sciambi, Jamie Yates, Joshua D. Mast, Charles Silver, Dennis J. Eastburn
Software Mentions: 4
Published: over 10 years ago

10.1186/s12864-016-2925-6

Comparative transcriptome profiling of resistant and susceptible rice genotypes in response to the seedborne pathogen Fusarium fujikuroi
Cited by: 74
Author(s): S. Matić, Paolo Bagnaresi, Chiara Biselli, Luigi Orrù, Greice Amaral Carneiro, Ilenia Siciliano, Giampiero Valè, M. L. Gullino, D. Spadaro
Software Mentions: 4
Published: over 10 years ago

10.1371/journal.pone.0216679

Seasonal adaptations of the hypothalamo-neurohypophyseal system of the dromedary camel
Cited by: 8
Author(s): Fatma Zohra Djazouli Alim, Elena V. Romanova, Yea Ling Tay, Ahmad Yamin bin Abdul Rahman, Kok‐Gan Chan, Kar‐Wai Hong, Mark F. Rogers, Bruce R. Southey, Michael Greenwood, André Souza Mecawi, Mohammad Rais Mustafa, Nicole Mahy, Colin Campbell, José Antunes‐Rodrigues, Jonathan V. Sweedler, David Murphy, Charles C.T. Hindmarch
Software Mentions: 4
Published: over 7 years ago

10.1186/s12864-015-1767-y

Experimental validation of methods for differential gene expression analysis and sample pooling in RNA-seq
Cited by: 132
Author(s): Anto P. Rajkumar, Per Qvist, Ross Lazarus, Francesco Lescai, Jia Ju, Mette Nyegaard, Ole Mors, Anders D. Børglum, Qibin Li, Jane H. Christensen
Software Mentions: 4
Published: over 11 years ago

10.1186/s12864-017-3563-3

Transcriptomic dynamics of breast cancer progression in the MMTV-PyMT mouse model
Cited by: 30
Author(s): Ying Cai, Rubén Nogales-Cadenas, Quanwei Zhang, Jhih Rong Lin, Wen Zhang, Kelly O’Brien, Cristina Montagna, Zhengdong D. Zhang
Software Mentions: 4
Published: over 9 years ago

10.1186/s12859-015-0834-3

MixChIP: a probabilistic method for cell type specific protein-DNA binding analysis
Cited by: 1
Author(s): Sini Rautio, Harri Lähdesmäki
Software Mentions: 4
Published: almost 11 years ago

10.1534/g3.119.400777

rmtA-Dependent Transcriptome and Its Role in Secondary Metabolism, Environmental Stress, and Virulence inAspergillus flavus
Cited by: 5
Author(s): Timothy Satterlee, Sarah Entwistle, Yanbin Yin, J. W. Cary, Matthew D. Lebar, Liliana Losada, Ana M. Calvo
Software Mentions: 4
Published: almost 7 years ago

10.1093/g3journal/jkaa042

Genetic mapping and transcriptomic characterization of a new fuzzless-tufted cottonseed mutant
Cited by: 2
Author(s): Qian Zhu, Warwick N. Stiller, Philippe Moncuquet, Stuart Gordon, Yuman Yuan, Scott Barnes, Iain W. Wilson
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0226057

Estrogen receptor β exerts tumor suppressive effects in prostate cancer through repression of androgen receptor activity
Cited by: 16
Author(s): Surendra Chaurasiya, Scott Widmann, Cindy Botero, Chin-Yo Lin, Jan‐Åke Gustafsson, Anders Ström
Software Mentions: 4
Published: over 6 years ago

10.1534/g3.119.400070

Long-Term Conservation of Ohnologs Through Partial Tetrasomy Following Whole-Genome Duplication in Salmonidae
Cited by: 24
Author(s): Matthew A. Campbell, Matthew C. Hale, Garrett J. McKinney, Krista M. Nichols, Devon E. Pearse
Software Mentions: 4
Published: over 7 years ago

10.1186/s12864-020-6613-1

Genome-wide analysis reveals molecular convergence underlying domestication in 7 bird and mammals
Cited by: 11
Author(s): Yali Hou, Furong Qi, Xue Bai, Tong Ren, Xu Shen, Qing Chu, Xiquan Zhang, Xuemei Lu
Software Mentions: 4
Published: over 6 years ago

10.1186/s12864-016-3345-3

TRPM2 SNP genotype previously associated with susceptibility to Rhodococcus equi pneumonia in Quarter Horse foals displays differential gene expression identified using RNA-Seq
Cited by: 6
Author(s): Cole M. McQueen, Canaan Whitfield-Cargile, Kranti Konganti, Glenn P. Blodgett, Scott V. Dindot, Noah D. Cohen
Software Mentions: 4
Published: almost 10 years ago

10.1111/tpj.15250

The chemical compound ‘Heatin’ stimulates hypocotyl elongation and interferes with the Arabidopsis NIT1‐subfamily of nitrilases
Cited by: 7
Author(s): Lennard van der Woude, Markus Piotrowski, Gruson Klaasse, Judith K Paulus, Daniel Krahn, Sabrina Ninck, Farnusch Kaschani, Markus Kaiser, Ondřej Novák, Karin Ljung, Suzanne Bulder, Marcel van Verk, L. Basten Snoek, Martijn Fiers, Nathaniel I. Martin, R.A.L. van der Hoorn, Stéphanie Robert, Sjef Smeekens, Martijn van Zanten
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0243911

The pharmacodynamic and differential gene expression analysis of PPAR α/δ agonist GFT505 in CDAHFD-induced NASH model
Cited by: 12
Author(s): Linfu Liu, Chuang Liu, Menglong Zhao, Qianru Zhang, Ying Lu, Ping Liu, Hua Yang, Jinliang Yang, Xiaoxin Chen, Yuqin Yao
Software Mentions: 4
Published: almost 6 years ago

10.1534/g3.119.400757

Machine Learning Enables High-Throughput Phenotyping for Analyses of the Genetic Architecture of Bulliform Cell Patterning in Maize
Cited by: 9
Author(s): Pengfei Qiao, Lin Meng, Miguel Vasquez, Susanne Matschi, James Chamness, Matheus Baseggio, Laurie G. Smith, Mert R. Sabuncu, Michael A. Gore, Michael J. Scanlon
Software Mentions: 4
Published: almost 7 years ago

10.1093/g3journal/jkaa070

Application of an optimized annotation pipeline to the Cryptococcus deuterogattii genome reveals dynamic primary metabolic gene clusters and genomic impact of RNAi loss
Cited by: 15
Author(s): Patrícia Aline Gröhs Ferrareze, Corinne Maufrais, Rodrigo Silva Araujo Streit, Shelby Priest, Christina A. Cuomo, Joseph Heitman, Charley Christian Staats, Guilhem Janbon
Software Mentions: 4
Published: almost 6 years ago

10.3390/genes11070789

Transcriptional Profiling of Normal, Stenotic, and Regurgitant Human Aortic Valves
Cited by: 13
Author(s): Christina L. Greene, Kevin J Jaatinen, Hanjay Wang, Tiffany Koyano, Mary Sheridan Bilbao, Y. Joseph Woo
Software Mentions: 4
Published: over 6 years ago

10.1534/g3.115.020016

Transcriptomic Features of Bovine Blastocysts Derived by Somatic Cell Nuclear Transfer
Cited by: 20
Author(s): Byungkuk Min, Sunwha Cho, Jung Sun Park, Yun-Gyeong Lee, Namshin Kim, Yong‐Kook Kang
Software Mentions: 4
Published: almost 11 years ago

10.1186/s12864-015-2115-y

Five omic technologies are concordant in differentiating the biochemical characteristics of the berries of five grapevine (Vitis vinifera L.) cultivars
Cited by: 36
Author(s): Ryan Ghan, Steven C. Van Sluyter, Uri Hochberg, Asfaw Degu, Daniel Hopper, Richard L. Tillet, Karen Schlauch, Paul A. Haynes, Aaron Fait, Grant R. Cramer
Software Mentions: 4
Published: almost 11 years ago

10.1534/g3.113.009514

Genomics of CpG Methylation in Developing and Developed Zebrafish
Cited by: 40
Author(s): David McGaughey, Hatice Özel Abaan, Ryan M. Miller, Peter Kropp, Lawrence C. Brody
Software Mentions: 4
Published: over 12 years ago

10.1534/g3.114.013508

De Novo Assembly and Annotation of the Transcriptome of the Agricultural Weed Ipomoea purpurea Uncovers Gene Expression Changes Associated with Herbicide Resistance
Cited by: 41
Author(s): Trent A Leslie, Regina S. Baucom
Software Mentions: 4
Published: about 12 years ago

10.1534/g3.115.021550

Joint Transcriptomic and Metabolomic Analyses Reveal Changes in the Primary Metabolism and Imbalances in the Subgenome Orchestration in the Bread Wheat Molecular Response toFusarium graminearum
Cited by: 33
Author(s): Thomas Nußbaumer, Benedikt Warth, Sapna Sharma, Christian Ametz, Christoph Bueschl, Alexandra Parich, Matthias Pfeifer, Gerald Siegwart, Barbara Steiner, Marc Lemmens, Rainer Schuhmacher, Hermann Buerstmayr, Klaus Mayer, Karl G. Kugler, Wolfgang Schweiger
Software Mentions: 4
Published: almost 11 years ago

10.1080/21505594.2020.1806665

Tobacco Hornworm (Manduca sexta) caterpillars as a novel host model for the study of fungal virulence and drug efficacy
Cited by: 9
Author(s): Naomi Lyons, Isabel Softley, Andrew Balfour, Carolyn Williamson, Heath O’Brien, Amol Shetty, Vincent M. Bruno, Stephanie Diezmann
Software Mentions: 4
Published: about 6 years ago

10.3389/fpls.2018.00272

Ethylene-Related Gene Expression Networks in Wood Formation
Cited by: 34
Author(s): Carolin Seyfferth, Bernard A. Wessels, Soile Jokipii-Lukkari, Björn Sundberg, Nicolas Delhomme, Judith Felten, Hannele Tuominen
Software Mentions: 4
Published: over 8 years ago

10.3389/fpls.2021.630243

Identification of Key Gene Networks Associated With Cell Wall Components Leading to Flesh Firmness in Watermelon
Cited by: 11
Author(s): Muhammad Anees, Lei Gao, Muhammad Umer, Pingli Yuan, Huiling Zhu, Xingrong Lu, Nan He, Chengsheng Gong, Mohamed Omar Kaseb, Shengjie Zhao, Wenge Liu
Software Mentions: 4
Published: over 5 years ago

10.3389/fpls.2018.01222

Generalist and Specialist Mite Herbivores Induce Similar Defense Responses in Maize and Barley but Differ in Susceptibility to Benzoxazinoids
Cited by: 35
Author(s): Huyen Bui, Robert Greenhalgh, Alice Ruckert, Gunbharpur S. Gill, Sarah Lee, Ricardo A. Ramirez, Richard M. Clark
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0050986

RNA-Seq vs Dual- and Single-Channel Microarray Data: Sensitivity Analysis for Differential Expression and Clustering
Cited by: 73
Author(s): Alina Sîrbu, Gráinne Kerr, Martin Crane, Heather J. Ruskin
Software Mentions: 4
Published: almost 14 years ago

10.3389/fpls.2020.574982

Metabolic, Enzymatic Activity, and Transcriptomic Analysis Reveals the Mechanism Underlying the Lack of Characteristic Floral Scent in Apricot Mei Varieties
Cited by: 6
Author(s): Fei Bao, Tengxun Zhang, Anqi Ding, Aiqin Ding, Weiru Yang, Jia Wang, Tangren Cheng, Qixiang Zhang
Software Mentions: 4
Published: about 6 years ago

10.3389/fpls.2020.588846

Genome-Wide Identification of Populus Malectin/Malectin-Like Domain-Containing Proteins and Expression Analyses Reveal Novel Candidates for Signaling and Regulation of Wood Development
Cited by: 8
Author(s): Vikash Kumar, Evgeniy N. Donev, Félix Barbut, Sunita Kushwah, Chanaka Mannapperuma, János Urbancsok, Ewa J. Mellerowicz
Software Mentions: 4
Published: almost 6 years ago

10.1093/function/zqaa004

The Mechanism of High-Output Cardiac Hypertrophy Arising From Potassium Channel Gain-of-Function in Cantú Syndrome
Cited by: 17
Author(s): Conor McClenaghan, Yan Huang, Scot J. Matkovich, Attila Kovács, Carla J. Weinheimer, Ronald A. Perez, Thomas J. Broekelmann, Theresa Harter, Jin-Moo Lee, Marı́a S. Remedi, Colin G. Nichols
Software Mentions: 4
Published: almost 7 years ago

10.3389/fpls.2020.589005

Elucidation of the miR164c-Guided Gene/Protein Interaction Network Controlling Seed Vigor in Rice
Cited by: 5
Author(s): Kerui Huang, Shiqi Zhou, Kaimin Shen, Yan Zhou, Feng Wang, Xiaocheng Jiang
Software Mentions: 4
Published: almost 6 years ago

10.1371/journal.pone.0191564

Study of formation of green eggshell color in ducks through global gene expression
Cited by: 4
Author(s): Fa Xu, Ang Li, Jing Lan, Yue Ming Wang, Mengmeng Yan, Sen Lian, Xu Wu
Software Mentions: 4
Published: almost 9 years ago

10.1186/s13075-015-0677-3

Use of RNA sequencing to evaluate rheumatic disease patients
Cited by: 23
Author(s): Ευγενία Γιαννοπούλου, Olivier Elemento, Lionel B. Ivashkiv
Software Mentions: 4
Published: over 11 years ago

10.3389/fpls.2020.00180

Distinctive Gene Expression Patterns Define Endodormancy to Ecodormancy Transition in Apricot and Peach
Cited by: 32
Author(s): Jiali Yu, Anna O. Conrad, Véronique Decroocq, Tetyana Zhebentyayeva, Daniel E. Williams, Dennis Bennett, Guillaume Roch, Jean Marc Audergon, Christopher Dardick, Zongrang Liu, Albert G. Abbott, Margaret Staton
Software Mentions: 4
Published: over 6 years ago

10.1186/s12864-016-3390-y

LPS-induced modules of co-expressed genes in equine peripheral blood mononuclear cells
Cited by: 11
Author(s): Alicja Pacholewska, Eliane Marti, Tosso Leeb, Vidhya Jagannathan, Vinzenz Gerber
Software Mentions: 4
Published: almost 10 years ago

10.1186/s12864-019-6204-1

Transcriptome profiling of ‘Kyoho’ grape at different stages of berry development following 5-azaC treatment
Cited by: 7
Author(s): Da‐Long Guo, Qiong Li, Xiao-Ru Ji, Zhenguang Wang, Yi‐He Yu
Software Mentions: 4
Published: about 7 years ago

10.3389/fpls.2016.01661

The Physcomitrella patens Chloroplast Proteome Changes in Response to Protoplastation
Cited by: 13
Author(s): Igor Fesenko, A. V. Seredina, Georgij Arapidi, Vasily V. Ptushenko, Anatoly S. Urban, Ivan Butenko, Sergey I. Kovalchuk, Konstantin Babalyan, Andrey Knyazev, Regina Khazigaleeva, Elena N. Pushkova, Nikolay Anikanov, В. Т. Иванов, Vadim M. Govorun
Software Mentions: 4
Published: about 10 years ago

10.1371/journal.pone.0192383

Adaptability of the Saccharomyces cerevisiae yeasts to wine fermentation conditions relies on their strong ability to consume nitrogen
Cited by: 40
Author(s): Claire Brice, Francisco A. Cubillos, Sylvie Dequin, Carole Camarasa, Claudio Martı́nez
Software Mentions: 4
Published: over 8 years ago

10.1186/s12864-018-5265-x

Corn dried distillers grains with solubles (cDDGS) in the diet of pigs change the expression of adipose genes that are potential therapeutic targets in metabolic and cardiovascular diseases
Cited by: 6
Author(s): Maria Oczkowicz, Tomasz Szmatoła, Małgorzata Świątkiewicz, Klaudia Pawlina-Tyszko, Artur Gurgul, Tomasz Ząbek
Software Mentions: 4
Published: almost 8 years ago

10.1186/s12864-017-4359-1

A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
Cited by: 19
Author(s): Jialiang Yang, Jacob Hagen, Kalyani V. P. Guntur, Kimaada Allette, Sarah Schuyler, Jyoti Ranjan, Francesca Petralia, Stéphane Gesta, Robert Sebra, Milind Mahajan, Bin Zhang, Jun Zhu, Sander M. Houten, Andrew Kasarskis, Vivek K. Vishnudas, Viatcheslav R. Akmaev, Rangaprasad Sarangarajan, Niven R. Narain, Eric E. Schadt, Carmen Argmann, Zhidong Tu
Software Mentions: 4
Published: almost 9 years ago

10.3389/fphys.2021.616055

Phenotypic Changes in T Cell and Macrophage Subtypes in Perivascular Adipose Tissues Precede High-Fat Diet-Induced Hypertension
Cited by: 6
Author(s): Ramya Kumar, Yongliang Yang, Andres Contreras, Hannah Garver, Sudin Bhattacharya, Gregory D. Fink, Cheryl E. Rockwell, Stephanie W. Watts
Software Mentions: 4
Published: over 5 years ago

10.3389/fpls.2020.00551

Glycosyltransferase-Like RSE1 Negatively Regulates Leaf Senescence Through Salicylic Acid Signaling in Arabidopsis
Cited by: 8
Author(s): Seulbee Lee, Myung‐Hee Kim, Jae Ho Lee, Jieun Jeon, June M. Kwak, Yun Ju Kim
Software Mentions: 4
Published: over 6 years ago

10.3389/fonc.2020.573318

PHF20 Promotes Glioblastoma Cell Malignancies Through a WISP1/BGN-Dependent Pathway
Cited by: 6
Author(s): Qianquan Ma, Wenyong Long, Changsheng Xing, Chongming Jiang, Jun Su, Helen Y. Wang, Qing Liu, Rong Fu Wang
Software Mentions: 4
Published: about 6 years ago

10.3389/fnins.2016.00390

Bidirectional Expression of Metabolic, Structural, and Immune Pathways in Early Myopia and Hyperopia
Cited by: 31
Author(s): Nina Riddell, Loretta Giummarra, Nathan E. Hall, Sheila G. Crewther
Software Mentions: 4
Published: about 10 years ago

10.3389/fnins.2021.639527

Cell-Type-Specific Gene Modules Related to the Regional Homogeneity of Spontaneous Brain Activity and Their Associations With Common Brain Disorders
Cited by: 5
Author(s): Junlin Shen, Bing‐Bing Yang, Zhonghua Xie, Heng Wu, Zhanye Zheng, Jianhua Wang, Ping Wang, Peng Zhang, Wei Li, Zhaoxiang Ye, Chunshui Yu
Software Mentions: 4
Published: over 5 years ago

10.3389/fonc.2020.556497

Landscape of N6-Methyladenosine Modification Patterns in Human Ameloblastoma
Cited by: 19
Author(s): Xing Niu, Jun Xu, Jinwen Liu, Lijie Chen, Xue Qin, Ming Zhong
Software Mentions: 4
Published: about 6 years ago

10.3389/fphar.2019.00126

Making Sense of the Epigenome Using Data Integration Approaches
Cited by: 46
Author(s): Emma Cazaly, Joseph Saad, Wenyu Wang, Caroline A. Heckman, Miina Ollikainen, Jing Tang
Software Mentions: 4
Published: over 7 years ago

10.3389/fnins.2021.671249

Multi-Dimensional Transcriptome Analysis Reveals Modulation of Cholesterol Metabolism as Highly Integrated Response to Brain Injury
Cited by: 7
Author(s): Victor Gourain, Olivier Armant, Luisa Lübke, Nicolas Diotel, Sepand Rastegar, Uwe Strähle
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0088950

Widespread FRA1-Dependent Control of Mesenchymal Transdifferentiation Programs in Colorectal Cancer Cells
Cited by: 68
Author(s): Jeannine Diesch, Elaine Sanij, Omer Gilan, Christopher G. Love, Hoanh Tran, Nicholas I. Fleming, Jason Ellul, Amalia Marcia, Izhak Haviv, Richard B. Pearson, Eugene Tulchinsky, John M. Mariadason, Oliver M. Sieber, Ross D. Hannan, Amardeep S. Dhillon
Software Mentions: 4
Published: over 12 years ago

10.1002/1878-0261.12982

CDX2 expression in the hematopoietic lineage promotes leukemogenesis via TGFβ inhibition
Cited by: 6
Author(s): Anne Galland, Victor Gourain, Karima Habbas, Yonca Güler, Elisabeth Martin, Claudine Ebel, Manuela Tavian, Laurent Vallat, Marie‐Pierre Chenard, Laurent Mauvieux, Jean–Noël Freund, Isabelle Duluc, Claire Domon‐Dell
Software Mentions: 4
Published: over 5 years ago

10.3389/fnmol.2017.00340

Cell Type-Specific mRNA Dysregulation in Hippocampal CA1 Pyramidal Neurons of the Fragile X Syndrome Mouse Model
Cited by: 32
Author(s): Laura Ceolin, Nathalie Bouquier, Jihane Vitre-Boubaker, Stéphanie Rialle, Dany Séverac, Emmanuel Valjent, Julie Perroy, Emma Puighermanal
Software Mentions: 4
Published: about 9 years ago

10.3389/fphar.2021.618773

Combination of Ginsenosides Rb2 and Rg3 Promotes Angiogenic Phenotype of Human Endothelial Cells via PI3K/Akt and MAPK/ERK Pathways
Cited by: 12
Author(s): Ran Joo Choi, Siti Zuraidah Mohamad Zobir, Benjamin Alexander-Dann, Naomi L. Sharma, Kenneth L. Marcella, Brian Lam, Giles S.H. Yeo, Guoqing Zhang, Tai-Ping Fan, Andreas Bender
Software Mentions: 4
Published: over 5 years ago

10.1186/s13024-018-0303-3

Inhibition of monocyte-like cell extravasation protects from neurodegeneration in DBA/2J glaucoma
Cited by: 44
Author(s): Pete A. Williams, Catherine E. Braine, Krishnakumar Kizhatil, Nicole E. Foxworth, Nicholas G. Tolman, Jeffrey M. Harder, R. Scott, Gregory L. Sousa, Alyssa Panitch, Gareth R. Howell, Simon W. M. John
Software Mentions: 4
Published: almost 8 years ago

10.3389/fmicb.2019.01975

Functional Genomic Analyses of Exopolysaccharide-Producing Streptococcus thermophilus ASCC 1275 in Response to Milk Fermentation Conditions
Cited by: 8
Author(s): Qinglong Wu, Hung Chu, Aparna Padmanabhan, Nagendra P. Shah
Software Mentions: 4
Published: about 7 years ago

10.3389/fmolb.2020.605623

Long Non-coding RNA BTG3-7:1 and JUND Co-regulate C21ORF91 to Promote Triple-Negative Breast Cancer Progress
Cited by: 0
Author(s): Dan Zheng, Xiujing He, Ting Luo, Xiaorong Zhong, Hong Zheng, Jiqiao Yang, Yanchu Li, Jing Jing
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2021.644540

Motor Stereotypic Behavior Was Associated With Immune Response in Macaques: Insight From Transcriptome and Gut Microbiota Analysis
Cited by: 3
Author(s): Xuan Pan, Fangyuan Liu, Yang Song, Hongrun Wang, Lingyun Wang, Hong Qiu, Megan Price, Jing Li
Software Mentions: 4
Published: over 5 years ago

10.1111/mmi.12977

<scp>K</scp>dm<scp>A</scp>, a histone<scp>H</scp>3 demethylase with bipartite function, differentially regulates primary and secondary metabolism in<scp>A</scp>spergillus nidulans
Cited by: 41
Author(s): Agnieszka Gacek‐Matthews, Luke M. Noble, Clemens Gruber, Harald Berger, Michael Sulyok, Ana T. Marcos, Joseph Strauss, Alex Andrianopoulos
Software Mentions: 4
Published: over 11 years ago

10.3389/fmicb.2017.00261

Insights into Dynamic Polymicrobial Synergy Revealed by Time-Coursed RNA-Seq
Cited by: 27
Author(s): Erik L. Hendrickson, David A. C. Beck, Daniel P. Miller, Qian Wang, Marvin Whiteley, Richard J. Lamont, Murray Hackett
Software Mentions: 4
Published: over 9 years ago

10.3389/fmicb.2020.00410

Transcriptional Responses of Dictyostelium discoideum Exposed to Different Classes of Bacteria
Cited by: 9
Author(s): Otmane Lamrabet, Astrid Melotti, Frédéric Burdet, Nabil Hanna, Jackie Perrin, Jahn Nitschke, Marco Pagni, Hubert Hilbi, Thierry Soldati, Pierre Cosson
Software Mentions: 4
Published: over 6 years ago

10.3389/fnmol.2018.00178

Stable STIM1 Knockdown in Self-Renewing Human Neural Precursors Promotes Premature Neural Differentiation
Cited by: 21
Author(s): Renjitha Gopurappilly, Bipan Kumar Deb, Pragnya Chakraborty, Gaiti Hasan
Software Mentions: 4
Published: over 8 years ago

10.1016/j.molmet.2020.101078

Wnt/β-catenin signaling regulates adipose tissue lipogenesis and adipocyte-specific loss is rigorously defended by neighboring stromal-vascular cells
Cited by: 44
Author(s): Devika P. Bagchi, Akira Nishii, Ziru Li, Jennifer B. DelProposto, Callie A.S. Corsa, Hiroyuki Mori, Julie Hardij, Brian S. Learman, Carey N. Lumeng, Ormond A. MacDougald
Software Mentions: 4
Published: almost 6 years ago

10.3389/fmicb.2021.736411

Transcriptomic Analysis of Pediococcus pentosaceus Reveals Carbohydrate Metabolic Dynamics Under Lactic Acid Stress
Cited by: 2
Author(s): Dong Han, Qiaojuan Yan, Jun Li, Zhengqiang Jiang, Shanchao Yang
Software Mentions: 4
Published: about 5 years ago

10.1186/s12864-016-3306-x

Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content
Cited by: 40
Author(s): Aline Silva Mello Cesar, Luciana Correia de Almeida Regitano, Mirele Daiana Poleti, Sónia C. S. Andrade, P. C. Tizioto, P. S. N. Oliveira, Andrezza Maria Felício, Michele Lopes do Nascimento, Amália Saturnino Chaves, Dante Pazzanese Duarte Lanna, R. R. Túllio, R. T. Nassu, James E. Koltes, Eric R. Fritz-Waters, Gérson Barreto Mourão, Adhemar Zerlotini-Neto, James M. Reecy, Luiz Lehmann Coutinho
Software Mentions: 4
Published: almost 10 years ago

10.1371/journal.pone.0163344

Differing Alterations of Two Esca Associated Fungi, Phaeoacremonium aleophilum and Phaeomoniella chlamydospora on Transcriptomic Level, to Co-Cultured Vitis vinifera L. calli
Cited by: 6
Author(s): Jochen Fischer, Stéphane Compant, Romain Pierron, Markus Gorfer, Alban Jacques, Eckhard Thines, Harald Berger
Software Mentions: 4
Published: about 10 years ago

10.1186/s12862-017-1103-z

De novo assembling and primary analysis of genome and transcriptome of gray whale Eschrichtius robustus
Cited by: 11
Author(s): Alexey Moskalev, Anna V. Kudryavtseva, Alexander S. Graphodatsky, Violetta R. Beklemisheva, Natalia A. Serdyukova, Konstantin V. Krutovsky, Vadim V. Sharov, Ivan V. Kulakovskiy, Andrey S. Lando, Artem S. Kasianov, Dmitry A. Kuzmin, Yuliya A. Putintseva, Sergey Feranchuk, Mikhail Shaposhnikov, Vadim E. Fraifeld, Dmitri Toren, А. В. Снежкина, Vasily Sitnik
Software Mentions: 4
Published: almost 9 years ago

10.1186/s10020-019-0102-5

Gut microbiota promote the inflammatory response in the pathogenesis of systemic lupus erythematosus
Cited by: 68
Author(s): Yinglong Ma, Xiaoxue Xu, Mengtao Li, Jun Cai, Qiang Wang, Haitao Niu
Software Mentions: 4
Published: over 7 years ago

10.1371/journal.pone.0210672

Identification of new regulators through transcriptome analysis that regulate anthocyanin biosynthesis in apple leaves at low temperatures
Cited by: 28
Author(s): Tingting Song, Keting Li, Ting Wu, Yi Wang, Xinzhong Zhang, Xuefeng Xu, Yuncong Yao, Zhenhai Han
Software Mentions: 4
Published: almost 8 years ago

10.3389/fpls.2021.664250

New Insights Into Lignification via Network and Multi-Omics Analyses of Arogenate Dehydratase Knock-Out Mutants in Arabidopsis thaliana
Cited by: 1
Author(s): Kim Hixson, Joaquim V. Marques, Jason P. Wendler, Jason McDermott, Karl K. Weitz, Therese RW Clauss, Matthew E. Monroe, Ronald J. Moore, Joseph N. Brown, Mary Lipton, Callum J. Bell, Ljiljana Paša‐Tolić, Laurence Davin, Norman Lewis
Software Mentions: 4
Published: over 5 years ago

10.3389/fmicb.2020.01628

Networking and Specificity-Changing DNA Methyltransferases in Helicobacter pylori
Cited by: 9
Author(s): Hirokazu Yano, Zobaidul Alam, Emiko Rimbara, Tomoko Shibata, Masaki Fukuyo, Yoshikazu Furuta, Tomoaki Nishiyama, Shuji Shigenobu, Mitsuyasu Hasebe, Atsushi Toyoda, Yutaka Suzuki, Sumio Sugano, Keigo Shibayama, Ichizo Kobayashi
Software Mentions: 4
Published: over 6 years ago

10.3389/fmicb.2018.01551

Concerted Metabolic Shifts Give New Insights Into the Syntrophic Mechanism Between Propionate-Fermenting Pelotomaculum thermopropionicum and Hydrogenotrophic Methanocella conradii
Cited by: 22
Author(s): Pengfei Liu, Yahai Lu
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0177739

Transcriptome profiling revealed novel transcriptional regulators in maize responses to Ostrinia furnacalis and jasmonic acid
Cited by: 15
Author(s): Wang Hai, Shengyan Li, Shouzhen Teng, Haisheng Liang, Hongjia Xin, Hongjiang Gao, Dafang Huang, Zhihong Lang
Software Mentions: 4
Published: over 9 years ago

10.14202/vetworld.2018.1203-1209

An innovative approach to predict immune-associated genes mutually targeted by cow and human milk microRNAs expression profiles
Cited by: 6
Author(s): Kaj Chokeshaiusaha, Thanida Sananmuang, Denis Puthier, Catherine Nguyen
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0199902

Annotation, classification, genomic organization and expression of the Vitis vinifera CYPome
Cited by: 8
Author(s): Tina Ilc, Gautier Arista, Raquel Tavares, Nicolas Navrot, Éric Duchêne, Amandine Velt, Frédéric Choulet, Etienne Paux, Marc Fischer, David R. Nelson, Philippe Hugueney, Danièle Werck‐Reichhart, Camille Rustenholz
Software Mentions: 4
Published: over 8 years ago

10.3389/fimmu.2018.02533

Adenosinergic Signaling Alters Natural Killer Cell Functional Responses
Cited by: 72
Author(s): Andrea M. Chambers, Jiao Wang, Kyle B. Lupo, Hao Yu, Nadia A. Lanman, Sandro Matosevic
Software Mentions: 4
Published: about 8 years ago

10.3389/fmicb.2019.01862

Catabolism of Alkylphenols in Rhodococcus via a Meta-Cleavage Pathway Associated With Genomic Islands
Cited by: 14
Author(s): David J. Levy‐Booth, Morgan M. Fetherolf, Gordon R. Stewart, Jiu Liu, Lindsay D. Eltis, William W. Mohn
Software Mentions: 4
Published: about 7 years ago

10.3389/fnmol.2017.00419

Ribosomal Protein S6 Phosphorylation Is Involved in Novelty-Induced Locomotion, Synaptic Plasticity and mRNA Translation
Cited by: 27
Author(s): Emma Puighermanal, Anne Biever, Vincent Pascoli, Su Melser, Marine Pratlong, Laura Cutando, Stéphanie Rialle, Dany Séverac, Jihane Boubaker-Vitre, Oded Meyuhas, Giovanni Marsicano, Christian Lüscher, Emmanuel Valjent
Software Mentions: 4
Published: almost 9 years ago

10.31557/APJCP.2020.21.9.2593

Transcriptome Related to Avoiding Immune Destruction in Nasopharyngeal Cancer in Indonesian Patients Using Next-Generation Sequencing
Cited by: 2
Author(s): Risky Hiskia Poluan, Digdo Sudigyo, Gisti Rahmawati, Dicka Wahyu Setiasari, Salsabila Luthfi Sesotyosari, Tirta Wardana, Indwiani Astuti, Didik Setyo Heriyanto, Sagung Rai Indrasari, Cita Herawati, FNU Afiahayati, Sofia Mubarika Haryana
Software Mentions: 4
Published: about 6 years ago

10.3389/fphys.2019.01226

Integrative Analysis of miRNA and mRNA Expression Profiles Associated With Human Atrial Aging
Cited by: 12
Author(s): Yan Yao, Chen‐Xi Jiang, Fan Wang, Han Yan, Deyong Long, Jinghua Zhao, Jiangang Wang, Chunxiao Zhang, Yang Li, Xiao-Li Tian, Qing Kenneth Wang, Gang Wu, Zhihui Zhang
Software Mentions: 4
Published: about 7 years ago

10.1534/g3.119.400152

Early Developmental Stress Affects Subsequent Gene Expression Response to an Acute Stress in Atlantic Salmon: An Approach for Creating Robust Fish for Aquaculture?
Cited by: 23
Author(s): Nick Robinson, Hanne Johnsen, Hooman K. Moghadam, Øivind Andersen, Helge Tveiten
Software Mentions: 4
Published: over 7 years ago

10.3390/genes11080881

Transcriptomic Analysis Revealed the Common and Divergent Responses of Maize Seedling Leaves to Cold and Heat Stresses
Cited by: 24
Author(s): Yongsheng Li, Xingrong Wang, Yue Li, Yanjun Zhang, Zuowang Gou, Xusheng Qi, Jinlin Zhang
Software Mentions: 4
Published: over 6 years ago

10.1371/journal.pone.0244556

Pathways of calcium regulation, electron transport, and mitochondrial protein translation are molecular signatures of susceptibility to recurrent exertional rhabdomyolysis in Thoroughbred racehorses
Cited by: 6
Author(s): Kennedy Aldrich, Deborah Velez‐Irizarry, Clara Fenger, Melissa Schott, Stephanie J. Valberg
Software Mentions: 4
Published: over 5 years ago

10.1371/journal.pone.0141910

Union Exon Based Approach for RNA-Seq Gene Quantification: To Be or Not to Be?
Cited by: 25
Author(s): Shanrong Zhao, Li Xi, Baohong Zhang
Software Mentions: 4
Published: almost 11 years ago

Projects: pypi: HTSeq

Science Score: 65/100

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Papers Mentioning HTSeq 3,071