pypi: HTSeq | Projects | Ecosyste.ms: Papers

10.3389/fncel.2020.599152

Intrinsically Self-renewing Neuroprogenitors From the A/J Mouse Spiral Ganglion as Virtually Unlimited Source of Mature Auditory Neurons
Cited by: 7
Author(s): Francis Rousset, Vivianne Beatrix Christina Kokje, Rebecca Sipione, Dominik Schmidbauer, German Nacher-Soler, Sten Ilmjärv, Marta Coelho, Stefan Fink, François Voruz, Antoun El Chemaly, Antoine Marteyn, Hubert Löwenheim, Karl‐Heinz Krause, Marcus Müller, Rudolf Glückert, Pascal Senn
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-018-29604-2

ICAM1 expression is induced by proinflammatory cytokines and associated with TLS formation in aggressive breast cancer subtypes
Cited by: 63
Author(s): Stine Figenschau, Erik Knutsen, Ilona Urbárová, Christopher Graham Fenton, B. Elston, Maria Perander, Elin Mortensen, Kristin Andreassen Fenton
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-016-2401-3

Comparative genome-wide transcriptome analysis of Vitis vinifera responses to adapted and non-adapted strains of two-spotted spider mite, Tetranyhus urticae
Cited by: 39
Author(s): José Díaz-Riquelme, Vladimir Zhurov, Cristina Rioja, Ignacio Pérez-Moreno, Rafael Torres‐Pérez, Jérôme Grimplet, Pablo Carbonell‐Bejerano, Sabina Bajda, Thomas Van Leeuwen, José M. Martínez‐Zapater, Miodrag Grbić, Vojislava Grbić
Software Mentions: 3
Published: almost 11 years ago

10.1186/s12864-016-3170-8

Numerous genetic loci identified for drought tolerance in the maize nested association mapping populations
Cited by: 52
Author(s): Chunhui Li, Bo Sun, Yongxiang Li, Cheng Liu, Xun Wu, Dengfeng Zhang, Yunsu Shi, Yi Song, Edward S. Buckler, Zhiwu Zhang, Tianyu Wang, Yu Liu
Software Mentions: 3
Published: about 10 years ago

10.1038/s41598-018-26902-7

Airway brushing as a new experimental methodology to detect airway gene expression signatures in mouse lung squamous cell carcinoma
Cited by: 5
Author(s): Jing Pan, Donghai Xiong, Qi Zhang, Éva Szabó, Mark Steven Miller, Ronald A. Lubet, Yian Wang, Ming You
Software Mentions: 3
Published: over 8 years ago

10.3389/fendo.2019.00676

Sleep Deprivation Alters the Pituitary Stress Transcriptome in Male and Female Mice
Cited by: 6
Author(s): Mario G. Oyola, Elizabeth A. Shupe, Anthony R. Soltis, Gauthaman Sukumar, Marcelo Páez-Pereda, Darwin O. Larco, Matthew D. Wilkerson, Stephen W. Rothwell, Clifton L. Dalgard, T. John Wu
Software Mentions: 3
Published: about 7 years ago

10.3389/fendo.2017.00373

Prepubertal Ovariectomy Exaggerates Adult Affective Behaviors and Alters the Hippocampal Transcriptome in a Genetic Rat Model of Depression
Cited by: 8
Author(s): Neha Raghavan, Hao Chen, Matthew J. Schipma, Wendy Luo, Sam Chung, Lei Wang, Eva E. Redei
Software Mentions: 3
Published: almost 9 years ago

10.1007/s10482-018-1040-x

Deciphering the trophic interaction between Akkermansia muciniphila and the butyrogenic gut commensal Anaerostipes caccae using a metatranscriptomic approach
Cited by: 83
Author(s): Loo Wee Chia, Bastian Hornung, Steven Aalvink, Peter J. Schaap, Willem M. de Vos, Jan Knol, Clara Belzer
Software Mentions: 3
Published: over 8 years ago

10.3389/fgene.2020.00352

Identification and Analysis of Dysfunctional Genes and Pathways in CD8+ T Cells of Non-Small Cell Lung Cancer Based on RNA Sequencing
Cited by: 5
Author(s): Xuefang Tao, Xiaotang Wu, Tao Huang, Deguang Mu
Software Mentions: 3
Published: over 6 years ago

10.3390/ijms21176036

Transcriptomic Analysis of Short-Term Salt Stress Response in Watermelon Seedlings
Cited by: 21
Author(s): Qiushuo Song, M. S. Joshi, Vijay Joshi
Software Mentions: 3
Published: about 6 years ago

10.3389/fgene.2021.655900

Genome-Wide DNA Methylation and Transcriptome Analyses Reveal Epigenetic and Genetic Mechanisms Underlying Sex Maintenance of Adult Chinese Alligator
Cited by: 4
Author(s): Jianqing Lin, Jun Yu, Li Sun, Sheng‐Guo Fang
Software Mentions: 3
Published: over 5 years ago

10.3389/fgene.2020.567262

A Recently Formed Triploid Cardamine insueta Inherits Leaf Vivipary and Submergence Tolerance Traits of Parents
Cited by: 5
Author(s): Jianqiang Sun, Rie Shimizu‐Inatsugi, Hugo Hofhuis, Kentaro Shimizu, Angela Hay, Kentaro Shimizu, Jun Sese
Software Mentions: 3
Published: about 6 years ago

10.1186/s12864-018-5021-2

Long non-coding RNAs potentially function synergistically in the cellular reprogramming of SCNT embryos
Cited by: 20
Author(s): Fengrui Wu, Yong Liu, Qingqing Wu, Dengkun Li, Ling Zhang, Xiaoqing Wu, Rong Wang, Di Zhang, Shaorong Gao, Wenyong Li
Software Mentions: 3
Published: about 8 years ago

10.3389/fgene.2019.00117

RNA-Seq of Liver From Pigs Divergent in Feed Efficiency Highlights Shifts in Macronutrient Metabolism, Hepatic Growth and Immune Response
Cited by: 35
Author(s): Justyna Horodyska, Ruth M. Hamill, Henry Reyer, Nares Trakooljul, Peadar G. Lawlor, Ursula M. McCormack, Klaus Wimmers
Software Mentions: 3
Published: over 7 years ago

10.3389/fgene.2020.00722

Identification of Gene Modules and Hub Genes Involved in Mastitis Development Using a Systems Biology Approach
Cited by: 36
Author(s): Mohammad Reza Bakhtiarizadeh, Shabnam Mirzaei, Milad Norouzi, Negin Sheybani, Mohammad Sadegh Vafaei Sadi
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-26156-3

Identification of the miRNAome of early mesoderm progenitor cells and cardiomyocytes derived from human pluripotent stem cells
Cited by: 16
Author(s): Ximena Garate, Alejandro La Greca, Gabriel Neiman, Carolina Blüguermann, Natalia Lucía Santín Velazque, Lucía Moro, Carlos Luzzani, María Élida Scassa, Gustavo Sevlever, Leonardo Romorini, Santiago Gabriel Miriuka
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-016-3052-0

The green ash transcriptome and identification of genes responding to abiotic and biotic stresses
Cited by: 29
Author(s): Thomas Lane, Teodora Best, Nicole Zembower, Jack Davitt, Nathan Henry, Yi Xu, Jennifer Koch, Haiying Liang, John J. McGraw, Stephan C. Schuster, Donghwan Shim, Mark V. Coggeshall, John E. Carlson, Margaret Staton
Software Mentions: 3
Published: about 10 years ago

10.3389/fgene.2019.00592

miRNome Reveals New Insights Into the Molecular Biology of Field Cancerization in Gastric Cancer
Cited by: 15
Author(s): Adenilson Leão Pereira, Fabiano Cordeiro Moreira, Tatiana Vinasco-Sandoval, Adenard Cunha, Amanda Ferreira Vidal, Ândrea Ribeiro-dos-Santos, Pablo Pinto, Leandro Magalhães, Mônica Baraúna de Assumpção, Sâmia Demachki, Sidney Emanuel Batista dos Santos, Paulo Pimentel de Assumpção, Ândrea Ribeiro‐dos‐Santos
Software Mentions: 3
Published: over 7 years ago

10.3389/fgene.2018.00297

Using Supervised Learning Methods for Gene Selection in RNA-Seq Case-Control Studies
Cited by: 34
Author(s): Stéphane Wenric, Ruhollah Shemirani
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-018-4542-z

Global analysis of primary mesenchyme cell cis-regulatory modules by chromatin accessibility profiling
Cited by: 31
Author(s): Tanvi Shashikant, Jian Ming Khor, Charles A. Ettensohn
Software Mentions: 3
Published: over 8 years ago

10.1186/s12864-018-5197-5

Re-programming of Pseudomonas syringae pv. actinidiae gene expression during early stages of infection of kiwifruit
Cited by: 40
Author(s): Peter A. McAtee, Lara Brian, Ben Curran, Otto van der Linden, Niels J. Nieuwenhuizen, Xiuyin Chen, Rebecca A. Henry-Kirk, Erin A. Stroud, Simona Nardozza, Jay Jayaraman, Erik H. A. Rikkerink, Cris Print, Andrew C. Allan, Matthew D. Templeton
Software Mentions: 3
Published: almost 8 years ago

10.3390/ijms21124404

Platelet-Released Growth Factors and Platelet-Rich Fibrin Induce Expression of Factors Involved in Extracellular Matrix Organization in Human Keratinocytes
Cited by: 11
Author(s): Andreas Bayer, Bernard Wijaya, Lena Möbus, Franziska Rademacher, Meno Rodewald, Mersedeh Tohidnezhad, Thomas Pufe, D. Drücke, Regine Gläser, Jürgen Harder
Software Mentions: 3
Published: over 6 years ago

10.1186/s12864-021-07884-9

Deploying new generation sequencing for the study of flesh color depletion in Atlantic Salmon (Salmo salar)
Cited by: 7
Author(s): Thu Thi Minh Vo, Tuan V. Nguyen, Gianluca Amoroso, Tomer Ventura, Abigail Elizur
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-019-5525-4

Polygenic and sex specific architecture for two maturation traits in farmed Atlantic salmon
Cited by: 22
Author(s): Amin R. Mohamed, Klara L. Verbyla, Hawlader Abdullah Al-Mamun, Sean McWilliam, Bradley S. Evans, Hilary King, Peter D. Kube, James W. Kijas
Software Mentions: 3
Published: over 7 years ago

10.3389/fmicb.2019.02514

Cell-Wall-Degrading Enzymes Required for Virulence in the Host Selective Toxin-Producing Necrotroph Alternaria alternata of Citrus
Cited by: 46
Author(s): Hongshen Ma, Bin Zhang, Yunpeng Gai, Xuepeng Sun, Kuang‐Ren Chung, Hongye Li
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12864-021-07426-3

Transcriptome analysis of the transdifferentiation of canine BMSCs into insulin producing cells
Cited by: 2
Author(s): Jinglu Wang, Pengxiu Dai, Tong Zou, Yangou Lv, Wen Zhao, Xinke Zhang, Yihua Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s12864-016-2976-8

Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.)
Cited by: 28
Author(s): Kathleen M. Martin, Jugpreet Singh, John H. Hill, Steven A. Whitham, Steven B. Cannon
Software Mentions: 3
Published: over 10 years ago

10.1038/s41598-018-24425-9

A Novel S100A8/A9 Induced Fingerprint of Mesenchymal Stem Cells associated with Enhanced Wound Healing
Cited by: 22
Author(s): Abhijit Basu, Sadaf Munir, Medhanie Mulaw, Karmveer Singh, Diana Crişan, Anca Sindrilaru, Nicolai Treiber, Meinhard Wlaschek, Markus Huber‐Lang, Florian Gebhard, Karin Scharffetter‐Kochanek
Software Mentions: 3
Published: over 8 years ago

10.3390/ijms21113870

Time-course Transcriptome of Parageobacillus thermoglucosidasius DSM 6285 Grown in the Presence of Carbon Monoxide and Air
Cited by: 5
Author(s): Habibu Aliyu, Teresa Mohr, Don A. Cowan, Pieter De Maayer, Anke Neumann
Software Mentions: 3
Published: over 6 years ago

10.1038/s41598-018-20057-1

Ribosome Incorporation into Somatic Cells Promotes Lineage Transdifferentiation towards Multipotency
Cited by: 17
Author(s): Naofumi Ito, K. Katoh, Hiroko Kushige, Yutaka Saitô, Terumasa Umemoto, Yu Matsuzaki, Hiroshi Kanazawa, Daiki Kobayashi, Minami Soga, Takumi Era, Nobuhito Araki, Yasuhide Furuta, Toshio Suda, Yasuyuki S. Kida, Kunimasa Ohta
Software Mentions: 3
Published: almost 9 years ago

10.3390/ijms21020426

Dynamic Transcriptome Analysis Reveals Uncharacterized Complex Regulatory Pathway Underlying Dose IBA-Induced Embryogenic Redifferentiation in Cotton
Cited by: 7
Author(s): Yuhang Fan, Xiaoman Yu, Huihui Guo, Junmei Wei, Haixia Guo, Li Zhang, Fanchang Zeng
Software Mentions: 3
Published: almost 7 years ago

10.3389/fmicb.2021.725403

The Perception of Rhizosphere Bacterial Communication Signals Leads to Transcriptome Reprogramming in Lysobacter capsici AZ78, a Plant Beneficial Bacterium
Cited by: 1
Author(s): Ana Bejarano, Michele Perazzolli, I. Pertot, Gerardo Puopolo
Software Mentions: 3
Published: about 5 years ago

10.3389/fmicb.2021.681911

Effect of Temperature on Metronidazole Resistance in Helicobacter pylori
Cited by: 8
Author(s): Meiliang Gong, Yan Han, Xuning Wang, Hai Tao, Fansen Meng, Baicun Hou, Benjamin B. Sun, Gangshi Wang
Software Mentions: 3
Published: over 5 years ago

10.3389/fmicb.2017.01695

AR-13, a Celecoxib Derivative, Directly Kills Francisella In Vitro and Aids Clearance and Mouse Survival In Vivo
Cited by: 4
Author(s): Ky V. Hoang, Haley E. Adcox, James Fitch, David Gordon, Heather M. Curry, Larry S. Schlesinger, Peter White, John S. Gunn
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-017-17000-1

Modulation of Immune Signaling and Metabolism Highlights Host and Fungal Transcriptional Responses in Mouse Models of Invasive Pulmonary Aspergillosis
Cited by: 25
Author(s): Shiv D. Kale, Tariq Ayubi, Dawoon Chung, Nuria Tubau-Juni, Andrew Leber, Ha X. Dang, Saikumar Karyala, Raquel Hontecillas, Christopher B. Lawrence, Robert A. Cramer, Josep Bassaganya‐Riera
Software Mentions: 3
Published: almost 9 years ago

10.18632/oncotarget.8338

Upregulation of long intergenic noncoding RNA 00673 promotes tumor proliferation via LSD1 interaction and repression of NCALD in non-small-cell lung cancer
Cited by: 59
Author(s): Xuefei Shi, Chenhui Ma, Qingqing Zhu, Dongmei Yuan, Ming Sun, Xiaoling Gu, Guannan Wu, Tangfeng Lv, Yong Song
Software Mentions: 3
Published: over 10 years ago

10.1186/1471-2164-14-872

Sequencing the transcriptome of milk production: milk trumps mammary tissue
Cited by: 43
Author(s): Danielle G. Lemay, Russell C. Hovey, Stella R. Hartono, Katie Hinde, Jennifer T. Smilowitz, Frank Ventimiglia, Kimberli A. Schmidt, Joyce W.S. Lee, Alma Islas‐Trejo, Pedro Ivo Silva, Ian F Korf, Juan F. Medrano, Peter A. Barry, J. Bruce German
Software Mentions: 3
Published: almost 14 years ago

10.3389/fmicb.2017.02683

Desert Dust as a Source of Iron to the Globally Important Diazotroph Trichodesmium
Cited by: 19
Author(s): Despo Polyviou, Alison J. Baylay, Andrew Hitchcock, Julie Robidart, C. Mark Moore, Thomas S. Bibby
Software Mentions: 3
Published: almost 9 years ago

10.3389/fmicb.2016.00636

Transcriptomic Analysis Reveals Adaptive Responses of an Enterobacteriaceae Strain LSJC7 to Arsenic Exposure
Cited by: 17
Author(s): Yingjiao Zhang, Songcan Chen, Xiuli Hao, Jian‐Qiang Su, Xudong Xue, Yu Yan, Yan Zhu, Jun Ye
Software Mentions: 3
Published: over 10 years ago

10.1186/s12864-018-5033-y

Immunomodulatory effects of heat stress and lipopolysaccharide on the bursal transcriptome in two distinct chicken lines
Cited by: 34
Author(s): Melissa S. Monson, Angelica G. Van Goor, C. M. Ashwell, Michael E. Persia, Max F. Rothschild, Carl J. Schmidt, Susan J. Lamont
Software Mentions: 3
Published: about 8 years ago

10.3389/fmicb.2017.00716

Effects of Inhibitors on the Transcriptional Profiling of Gluconobater oxydans NL71 Genes after Biooxidation of Xylose into Xylonate
Cited by: 16
Author(s): Yuanyuan Miao, Yi Shen, Yong Xu
Software Mentions: 3
Published: over 9 years ago

10.1002/advs.202002135

Engineered Plant‐Based Nanocellulose Hydrogel for Small Intestinal Organoid Growth
Cited by: 31
Author(s): Rodrigo Curvello, Genevieve Kerr, Diana Micati, Wing Man Chan, Vikram Singh Raghuwanshi, Joseph Rosenbluh, Helen E. Abud, Gil Garnier
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-017-16550-8

Rare non-coding variants are associated with plasma lipid traits in a founder population
Cited by: 19
Author(s): Catherine Igartua, Sahar V. Mozaffari, Dan L. Nicolae, Carole Ober
Software Mentions: 3
Published: almost 9 years ago

10.3389/fmicb.2019.02064

Immediate Effects of Ammonia Shock on Transcription and Composition of a Biogas Reactor Microbiome
Cited by: 16
Author(s): Martin Fischer, Andrea Ulbricht, Sven C. Neulinger, Sarah Refai, Kati Waßmann, Sven Künzel, Ruth A. Schmitz
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-017-15145-7

Comparison of Transcriptomic Platforms for Analysis of Whole Blood from Ebola-Infected Cynomolgus Macaques
Cited by: 28
Author(s): Emily Speranza, Louis A. Altamura, Kirsten A. Kulcsar, Sandra L. Bixler, Cynthia A. Rossi, Randal J. Schoepp, Elyse R. Nagle, William Aguilar, Christina E. Douglas, Korey L. Delp, Timothy D. Minogue, Gustavo Palacios, Arthur J. Goff, John H. Connor
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-017-14083-8

Profiling of miRNAs and target genes related to cystogenesis in ADPKD mouse models
Cited by: 32
Author(s): Yu Mi Woo, Do Yeon Kim, Nam Jin Koo, Yong Min Kim, Sun Young Lee, Je Yeong Ko, Yubin Shin, Bo Hye Kim, Hyowon Mun, Seonju Choi, Eun Ji Lee, Jeong Oh Shin, Eun Young Park, Jinwoong Bok, Jong Hoon Park
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-017-11304-y

Dynamic Changes in the Splenic Transcriptome of Chickens during the Early Infection and Progress of Marek’s Disease
Cited by: 5
Author(s): Di Lu, Maikun Teng, Huawei Li, Huizhen Li, Shenglin Ma, Pengwei Zhao, Xiujie Li, Ruiguang Deng, Gaiping Zhang, Jun Luo
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-017-10376-0

Genomic and transcriptomic analyses reveal differential regulation of diverse terpenoid and polyketides secondary metabolites in Hericium erinaceus
Cited by: 28
Author(s): Juan Chen, Zhiai Xu, Yan Yang, Yong Xing, Qi Zhang, Jia Mei Li, Ke Ma, Hong Wei Liu, Shun Guo
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-017-10648-9

Genome-wide DNA methylation and transcriptome analyses reveal genes involved in immune responses of pig peripheral blood mononuclear cells to poly I:C
Cited by: 31
Author(s): Haifei Wang, Jiying Wang, Chao Ning, Xianrui Zheng, Jinlian Fu, Aiguo Wang, Qin Zhang, Jianfeng Liu
Software Mentions: 3
Published: about 9 years ago

10.3389/fmicb.2017.01830

A Laboratory Methodology for Dual RNA-Sequencing of Bacteria and their Host Cells In Vitro
Cited by: 18
Author(s): J. Wallis Marsh, Michael S. Humphrys, Garry Myers
Software Mentions: 3
Published: about 9 years ago

10.1038/s41598-017-08239-9

The Candida albicans HIR histone chaperone regulates the yeast-to-hyphae transition by controlling the sensitivity to morphogenesis signals
Cited by: 17
Author(s): Sabrina Jenull, Michael Tscherner, Megha Gulati, Clarissa J. Nobile, Neeraj Chauhan, Karl Kuchler
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.ppat.1008660

Identification of oncolytic vaccinia restriction factors in canine high-grade mammary tumor cells using single-cell transcriptomics
Cited by: 3
Author(s): Béatrice Cambien, Kévin Lebrigand, Alberto Baeri, Nicolas Nottet, Catherine Compin, Audrey Lamit, Olivier Ferraris, Christophe N. Peyrefitte, Virginie Magnone, Jérôme Henriques, Laure‐Emmanuelle Zaragosi, Sophie Giorgetti‐Peraldi, Fréd́eric Bost, Marine Gautier-Isola, Roger Rezzonico, Pascal Barbry, Robert Barthel, Bernard Mari, Georges Vassaux
Software Mentions: 3
Published: about 6 years ago

10.3389/fmicb.2015.00569

RNA-Seq analysis of isolate- and growth phase-specific differences in the global transcriptomes of enteropathogenic Escherichia coli prototype isolates
Cited by: 27
Author(s): Tracy H. Hazen, Sean C. Daugherty, Amol C. Shetty, Anup Mahurkar, Owen White, James B. Kaper, David A. Rasko
Software Mentions: 3
Published: over 11 years ago

10.1186/s12859-016-0956-2

Trimming of sequence reads alters RNA-Seq gene expression estimates
Cited by: 128
Author(s): Claire Williams, Alyssa Baccarella, Jay Z. Parrish, Charles C. Kim
Software Mentions: 3
Published: over 10 years ago

10.3389/fmicb.2018.01261

Transcriptional Regulation of Cysteine and Methionine Metabolism in Lactobacillus paracasei FAM18149
Cited by: 17
Author(s): Daniel Wüthrich, Claudia Wenzel, Tharmatha Bavan, Rémy Bruggmann, Hélène Berthoud, Stefan Irmler
Software Mentions: 3
Published: over 8 years ago

10.1371/journal.ppat.1008781

Gene expression network analyses during infection with virulent and avirulent Trypanosoma cruzi strains unveil a role for fibroblasts in neutrophil recruitment and activation
Cited by: 8
Author(s): Antônio Edson Rocha Oliveira, Milton Pereira, Ashton T. Belew, Ludmila Rodrigues Pinto Ferreira, Larissa M. N. Pereira, Eula G. A. Neves, Maria do Carmo Pereira Nunes, Barbara A. Burleigh, Walderez Ornelas Dutra, Najib M. El-Sayed, Ricardo T. Gazzinelli, Santuza Maria Ribeiro Teixeira
Software Mentions: 3
Published: about 6 years ago

10.3389/fmicb.2015.01199

A detailed view of the intracellular transcriptome of Listeria monocytogenes in murine macrophages using RNA-seq
Cited by: 23
Author(s): Tilman Schultze, Rolf Hilker, Gopala Krishna Mannala, Katrin Gentil, Markus Weigel, Neda Farmani, Anita Windhorst, Alexander Goesmann, Trinad Chakraborty, Torsten Hain
Software Mentions: 3
Published: about 11 years ago

10.3389/fmicb.2020.01978

Sound Vibration-Triggered Epigenetic Modulation Induces Plant Root Immunity Against Ralstonia solanacearum
Cited by: 7
Author(s): Jihye Jung, Seon‐Kyu Kim, Sung‐Hee Jung, Mi‐Jeong Jeong, Choong-Min Ryu
Software Mentions: 3
Published: about 6 years ago

10.3389/fnmol.2017.00090

RNA-Seq Analysis of Microglia Reveals Time-Dependent Activation of Specific Genetic Programs following Spinal Cord Injury
Cited by: 52
Author(s): Harun N. Noristani, Yannick Nicolas Gerber, Jean-Charles Sabourin, Marine Le Corre, Nicolas Lonjon, Nadine Mestre‐Francés, Hélène Hirbec, Florence E. Perrin
Software Mentions: 3
Published: over 9 years ago

10.3389/fnmol.2017.00275

Divergence in Morris Water Maze-Based Cognitive Performance under Chronic Stress Is Associated with the Hippocampal Whole Transcriptomic Modification in Mice
Cited by: 19
Author(s): Soo Yeon Jung, Milene Brownlow, Matteo Pellegrini, Ryan Jankord
Software Mentions: 3
Published: about 9 years ago

10.3389/fneur.2015.00045

Long Non-Coding RNA Expression during Aging in the Human Subependymal Zone
Cited by: 37
Author(s): Guy Barry, Boris Guennewig, Samantha J. Fung, Dominik C. Kaczorowski, Cynthia Shannon Weickert
Software Mentions: 3
Published: over 11 years ago

10.3389/fneur.2020.00091

A Moderate Blast Exposure Results in Dysregulated Gene Network Activity Related to Cell Death, Survival, Structure, and Metabolism
Cited by: 6
Author(s): Katie A. Edwards, Vida Motamedi, Nicole Danielle Osier, Hyung-Suk Kim, Sijung Yun, Young-Eun Cho, Chen Lai, Kristine C. Dell, Walter Carr, Peter B. Walker, Stephen T. Ahlers, Matthew L. LoPresti, Angela M Yarnell, Anna Tschiffley, Jessica Gill
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.ppat.1008397

Distinct epigenomic and transcriptomic modifications associated with Wolbachia-mediated asexuality
Cited by: 15
Author(s): Xin Wu, Amelia R.I. Lindsey, Paramita Chatterjee, John H. Werren, Richard Stouthamer, Soojin V. Yi
Software Mentions: 3
Published: over 6 years ago

10.3389/fnins.2020.580524

miRNA Alterations Elicit Pathways Involved in Memory Decline and Synaptic Function in the Hippocampus of Aged Tg4-42 Mice
Cited by: 5
Author(s): Yvonne Bouter, Tim Kacprowski, Fanny L M Rößler, Lars Riff Jensen, Andreas W. Kuß, Thomas A. Bayer
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.ppat.1008079

P200 family protein IFI204 negatively regulates type I interferon responses by targeting IRF7 in nucleus
Cited by: 22
Author(s): Liu Cao, Yanxi Ji, Lanyi Zeng, Qianyun Liu, Zhen Zhang, Shuting Guo, Xiaolong Guo, Yunguang Tong, Xiaolu Zhao, Chunmei Li, Yu Chen, Deyin Guo
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.ppat.1008035

Phytoplasma SAP11 effector destabilization of TCP transcription factors differentially impact development and defence of Arabidopsis versus maize
Cited by: 35
Author(s): Pascal Pecher, Gabriele Moro, Maria Cristina Canale, Sylvain Capdevielle, Archana Archana, Allyson M. MacLean, Akiko Sugio, Chih-Horng Kuo, João Roberto Spotti Lopes, Saskia A. Hogenhout
Software Mentions: 3
Published: about 7 years ago

10.3389/fnins.2019.01324

A Targeted Gene Panel That Covers Coding, Non-coding and Short Tandem Repeat Regions Improves the Diagnosis of Patients With Neurodegenerative Diseases
Cited by: 4
Author(s): Allen Chi Shing Yu, Aldrin Kay-Yuen Yim, Anna Chan, Liz Y P Yuen, Wing Chi Au, Timothy Cheng, Xiao Lin, Jing‐Woei Li, Larry Wl Chan, Vincent Chung Tong Mok, Ting-Fung Chan, Ho Yin Chan
Software Mentions: 3
Published: almost 7 years ago

10.1186/s12870-017-1188-y

Physiological and transcriptomic responses in the seed coat of field-grown soybean (Glycine max L. Merr.) to abiotic stress
Cited by: 25
Author(s): Courtney P. Leisner, Craig R. Yendrek, Elizabeth A. Ainsworth
Software Mentions: 3
Published: almost 9 years ago

10.1371/journal.ppat.1007397

The RNA helicase DDX3X is an essential mediator of innate antimicrobial immunity
Cited by: 59
Author(s): Daniel Szappanos, Roland Tschismarov, Thomas Perlot, Sandra Westermayer, Katrin Fischer, Ekaterini Platanitis, Fabian Kallinger, Maria Novatchkova, Caroline Lassnig, Mathias Müller, Veronika Sexl, Keiryn L. Bennett, Michelle Foong-Sobis, Josef Penninger, Thomas Decker
Software Mentions: 3
Published: almost 8 years ago

10.3389/fonc.2020.00215

A Novel Long Non-coding RNA, MSTRG.51053.2 Regulates Cisplatin Resistance by Sponging the miR-432-5p in Non-small Cell Lung Cancer Cells
Cited by: 24
Author(s): Jie Zhang, Chuanqin Xu, Y Gao, Yi Wang, Zongli Ding, Yueming Zhang, Wenyi Shen, Yulong Zheng, Yufeng Wan
Software Mentions: 3
Published: over 6 years ago

10.3389/fonc.2021.712041

RhoC Modulates Cell Junctions and Type I Interferon Response in Aggressive Breast Cancers
Cited by: 3
Author(s): Hannah Abraham, Peter Ulintz, Laura Goo, Joel A. Yates, Andrew C. Little, Liwei Bao, Zhifen Wu, Sofía D. Merajver
Software Mentions: 3
Published: about 5 years ago

10.3389/fonc.2020.586567

Multi-Lineage BCR-ABL Expression in Philadelphia Chromosome-Positive Acute Lymphoblastic Leukemia Is Associated With Improved Prognosis but No Specific Molecular Features
Cited by: 5
Author(s): Satoshi Nishiwaki, Jeong Hui Kim, Masafumi Ito, Matsuyoshi Maeda, Yusuke Okuno, Daisuke Koyama, Yukiyasu Ozawa, Masaharu Gunji, Masahide Osaki, Kazuo Kïtamura, Yoko Ushijima, Yuichi Ishikawa, Koichi Miyamura, Isamu Sugiura, Hitoshi Kiyoi
Software Mentions: 3
Published: about 6 years ago

10.1186/s12870-021-02825-w

Transcriptional and proteomic insights into phytotoxic activity of interspecific potato hybrids with low glycoalkaloid contents
Cited by: 5
Author(s): Katarzyna Szajko, Jarosław Ciekot, Iwona Wasilewicz‐Flis, Waldemar Marczewski, Dorota Sołtys‐Kalina
Software Mentions: 3
Published: almost 6 years ago

10.3389/fphar.2021.750352

Quinacrine Has Preferential Anticancer Effects on Mesothelioma Cells With Inactivating NF2 Mutations
Cited by: 3
Author(s): Derek B. Oien, Sayantani Sarkar Bhattacharya, Jeremy Chien, Julian R. Molina, Viji Shridhar
Software Mentions: 3
Published: about 5 years ago

10.1186/s12870-019-1802-2

Transcript analyses reveal a comprehensive role of abscisic acid in modulating fruit ripening in Chinese jujube
Cited by: 8
Author(s): Zhang Zhong, C.K. Kang, Shuyi Zhang, Xingang Li
Software Mentions: 3
Published: over 7 years ago

10.1371/journal.ppat.1006026

Transcriptomic Analysis Implicates the p53 Signaling Pathway in the Establishment of HIV-1 Latency in Central Memory CD4 T Cells in an In Vitro Model
Cited by: 25
Author(s): Cory H. White, Bastiaan Moesker, Nadejda Beliakova-Bethell, Laura J. Martins, Celsa A. Spina, David M. Margolis, Douglas D. Richman, Vicente Planelles, Alberto Bosque, Christopher H. Woelk
Software Mentions: 3
Published: almost 10 years ago

10.1371/journal.ppat.1004365

Comparative Phenotypic Analysis of the Major Fungal Pathogens Candida parapsilosis and Candida albicans
Cited by: 100
Author(s): Linda Holland, Markus Schröder, Siobhán A. Turner, Heather T. Taff, David R. Andes, Zsuzsanna Grózer, Attila Gácser, Lauren Ames, Ken Haynes, Desmond G. Higgins, Geraldine Butler
Software Mentions: 3
Published: about 12 years ago

10.3389/fphar.2019.00330

Alkylaminophenol Induces G1/S Phase Cell Cycle Arrest in Glioblastoma Cells Through p53 and Cyclin-Dependent Kinase Signaling Pathway
Cited by: 40
Author(s): Phuong L. Doan, Aliyu Musa, Nuno R. Candeias, Frank Emmert‐Streib, Olli Yli‐Harja, Meenakshisundaram Kandhavelu
Software Mentions: 3
Published: over 7 years ago

10.1093/jxb/erx219

Transcriptomic and metabolomics responses to elevated cell wall invertase activity during tomato fruit set
Cited by: 36
Author(s): Lei Ru, Sonia Osorio, Lu Wang, Alisdair R. Fernie, John W. Patrick, Yong‐Ling Ruan
Software Mentions: 3
Published: over 9 years ago

10.1093/jxb/erw021

Copy number variation of a gene cluster encoding endopolygalacturonase mediates flesh texture and stone adhesion in peach
Cited by: 62
Author(s): Chao Gu, Lu Wang, Wei Wang, Hui Zhou, Baiquan Ma, Hongyu Zheng, Ting Fang, Collins Ogutu, Sornkanok Vimolmangkang, Yuepeng Han
Software Mentions: 3
Published: almost 11 years ago

10.12688/gatesopenres.13172.2

Whole blood genome-wide transcriptome profiling and metagenomics next-generation sequencing in young infants with suspected sepsis in a low-and middle-income country: A study protocol
Cited by: 1
Author(s): Constantin R. Popescu, Bentry Tembo, Rhoda Chifisi, Miranda M.M. Cavanagh, Ahwon Lee, Blessings Chiluzi, Emily J. Ciccone, Gerald Tegha, Esther Alonso-Prieto, Jennifer Claydon, Dustin Dunsmuir, Michael A. Irvine, Guy A. Dumont, J. Mark Ansermino, Matthew O. Wiens, Jonathan J. Juliano, Niranjan Kissoon, Tisungane Mvalo, Norman Lufesi, Msandeni Chiume-Kayuni, Pascal M. Lavoie
Software Mentions: 3
Published: almost 6 years ago

10.1210/clinem/dgz306

Arterial Wall Inflammation and Increased Hematopoietic Activity in Patients With Primary Aldosteronism
Cited by: 24
Author(s): Charlotte D C C van der Heijden, E. Smeets, Erik H.J.G. Aarntzen, Marlies P. Noz, Houshang Monajemi, Simone Kersten, Charlotte Kaffa, Alexander Hoischen, Jaap Deinum, Leo A. B. Joosten, Mihai G. Netea, Niels P. Riksen
Software Mentions: 3
Published: almost 7 years ago

10.3390/genes8100269

The Plasticizer Bisphenol A Perturbs the Hepatic Epigenome: A Systems Level Analysis of the miRNome
Cited by: 27
Author(s): Ludivine Renaud, Willian A. da Silveira, E. Starr Hazard, Jonathan Simpson, Silvia Falcinelli, Dongjun Chung, Oliana Carnevali, Gary Hardiman
Software Mentions: 3
Published: about 9 years ago

10.1111/jcmm.15897

LncRNA ARAP1‐AS2 promotes high glucose‐induced human proximal tubular cell injury via persistent transactivation of the EGFR by interacting with ARAP1
Cited by: 15
Author(s): Xin Li, Kui Tian, Song Wen, Lu Lu Li, Li‐Yan Xu, Xin Zhu, Cong Xiao Zhang, Nan Liu, Xu Wang, Qiu Ling Fan
Software Mentions: 3
Published: about 6 years ago

10.7150/jca.59348

Long non-coding RNA RP4-694A7.2 Promotes Hepatocellular Carcinoma Cell Proliferation and Metastasis through the Regulation of PSAT1
Cited by: 5
Author(s): Yaoxin Fan, Lin Wang, Yang Ding, Qiuju Sheng, Chong Zhang, Yanwei Li, Chao Han, Bao-Liang Lu, Xiao-guang Dou
Software Mentions: 3
Published: almost 6 years ago

10.3390/genes9080373

Insights into Avian Incomplete Dosage Compensation: Sex-Biased Gene Expression Coevolves with Sex Chromosome Degeneration in the Common Whitethroat
Cited by: 12
Author(s): Hanna Sigeman, Suvi Ponnikas, Elin Videvall, Hongkai Zhang, Pallavi Chauhan, Sara Naurin, Bengt Hansson
Software Mentions: 3
Published: over 8 years ago

10.1186/s12870-015-0468-7

Specific pools of endogenous peptides are present in gametophore, protonema, and protoplast cells of the moss Physcomitrella patens
Cited by: 37
Author(s): Igor Fesenko, Georgij Arapidi, Alexander Skripnikov, Dmitry Alexeev, Elena S. Kostryukova, Alexander I. Manolov, Ilya Altukhov, Regina Khazigaleeva, A. V. Seredina, Sergey I. Kovalchuk, Rustam H. Ziganshin, В. Г. Згода, Svetlana E. Novikova, Tatiana A. Semashko, D. K. Slizhikova, Vasilij V Ptushenko, A. Yu. Gorbachev, Vadim M. Govorun, В. Т. Иванов
Software Mentions: 3
Published: almost 12 years ago

10.3390/ijms20184593

Identification and Expression Analysis of GRAS Transcription Factors to Elucidate Candidate Genes Related to Stolons, Fruit Ripening and Abiotic Stresses in Woodland Strawberry (Fragaria vesca)
Cited by: 16
Author(s): Hong Chen, Huihui Li, Xiaoyan Lu, Longzheng Chen, Jing Liu, Hongmiao Wu
Software Mentions: 3
Published: about 7 years ago

10.7150/jca.51591

Increased Expression of <i>KNSTRN</i> in Lung Adenocarcinoma Predicts Poor Prognosis: A Bioinformatics Analysis Based on TCGA Data
Cited by: 11
Author(s): Pengbo Deng, Rongrong Zhou, Jinghui Zhang, Liming Cao
Software Mentions: 3
Published: almost 6 years ago

10.3390/ijms20184498

Genome-Wide Expression Profiling of Genes Associated with the Lr47-Mediated Wheat Resistance to Leaf Rust (Puccinia triticina)
Cited by: 14
Author(s): Jiaojiao Wu, Jing Gao, Weishuai Bi, Jianjun Zhao, Xiaoyan Yu, Zaifeng Li, Daqun Liu, Bo Liu, Xiaodong Wang
Software Mentions: 3
Published: about 7 years ago

10.3390/genes10080606

Transcriptomic Analysis of the Influence of Methanol Assimilation on the Gene Expression in the Recombinant Pichia pastoris Producing Hirudin Variant 3
Cited by: 8
Author(s): Tao Li, Jian-Gang Ma, Zehua Xu, Shuang Wang, Nan Wang, Shulin Shao, Wei Yang, Lin Huang, Yihan Liu
Software Mentions: 3
Published: about 7 years ago

10.3390/genes10080589

Breed, Diet, and Interaction Effects on Adipose Tissue Transcriptome in Iberian and Duroc Pigs Fed Different Energy Sources
Cited by: 27
Author(s): Rita Benítez, Nares Trakooljul, Yolanda Núñez, B. Isabel, Eduard Muráni, E. de Mercado, E. Gómez-Izquierdo, Juan García‐Casco, C. J. López‐Bote, Klaus Wimmers, Cristina Óvilo
Software Mentions: 3
Published: over 7 years ago

10.1186/s12929-021-00718-6

HCV eradication with IFN-based therapy does not completely restore gene expression in PBMCs from HIV/HCV-coinfected patients
Cited by: 4
Author(s): Óscar Brochado, Isidoro Martı́nez, Juan Berenguer, Luz María Medrano, Juan González-García, María Ángeles Jiménez-Sousa, Ana Carrero, Víctor Hontañón, Jordi Navarro, Josep M. Guardiola, Amanda Fernández‐Rodríguez, Salvador Resino
Software Mentions: 3
Published: over 5 years ago

10.1074/jbc.RA119.010302

Gcn5 and Esa1 function as histone crotonyltransferases to regulate crotonylation-dependent transcription
Cited by: 51
Author(s): Leonie Kollenstart, Anton J.L. de Groot, George M.C. Janssen, Xue Cheng, Kees Vreeken, Fabrizio Martino, Jacques Côté, Peter A. van Veelen, Haico van Attikum
Software Mentions: 3
Published: almost 7 years ago

10.1186/s40104-021-00577-z

The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs
Cited by: 15
Author(s): Jin Yue, Xinhua Hou, Xin Liu, Ligang Wang, Hongmei Gao, Fuping Zhao, Lisong Shi, Liangyu Shi, Yan Hua, Tianyu Deng, Jianfei Gong, Lixian Wang, Longchao Zhang
Software Mentions: 3
Published: over 5 years ago

10.1172/jci.insight.146364

Deficient adaptation to centrosome duplication defects in neural progenitors causes microcephaly and subcortical heterotopias
Cited by: 11
Author(s): José González‐Martínez, Andrzej Cwetsch, Diego Martínez-Alonso, Luis R. López-Sainz, Jorge Almagro, Anna Melati, Jesus Omar Gomez, Manuel Pérez‐Martínez, Diego Megı́as, Jasminka Boskovic, Javier Gilabert-Juan, Osvaldo Graña‐Castro, Alessandra Pierani, Axel Behrens, Sagrario Ortega, Marcos Malumbres
Software Mentions: 3
Published: about 5 years ago

10.3390/ijms20112735

Transcription Profiles Reveal the Regulatory Synthesis of Phenols during the Development of Lotus Rhizome (Nelumbo nucifera Gaertn)
Cited by: 13
Author(s): Ting Min, Yinqiu Bao, Baixue Zhou, Yang Yi, Limei Wang, Wenfu Hou, Youwei Ai, Hongxun Wang
Software Mentions: 3
Published: over 7 years ago

10.3390/genes11050519

Dynamic Transcriptome Analysis Reveals Uncharacterized Complex Regulatory Pathway Underlying Genotype-Recalcitrant Somatic Embryogenesis Transdifferentiation in Cotton
Cited by: 10
Author(s): Huihui Guo, Haixia Guo, Li Zhang, Yijie Fan, Jianfei Wu, Zhengmin Tang, Yao Zhang, Yuhang Fan, Fanchang Zeng
Software Mentions: 3
Published: over 6 years ago

10.3390/genes11090991

Escherichia coli Increases its ATP Concentration in Weakly Acidic Environments Principally through the Glycolytic Pathway
Cited by: 20
Author(s): Wenbin Zhang, Xin Chen, Wei Sun, Tao Nie, Natalie Quanquin, Yirong Sun
Software Mentions: 3
Published: about 6 years ago

10.3390/genes11091067

Liver Transcriptome Responses to Heat Stress and Newcastle Disease Virus Infection in Genetically Distinct Chicken Inbred Lines
Cited by: 12
Author(s): Ying Wang, Perot Saelao, Colin Kern, Sihua Jin, Rodrigo A. Gallardo, T. Ross Kelly, Jack Dekkers, Susan J. Lamont, Huaijun Zhou
Software Mentions: 3
Published: about 6 years ago

Projects: pypi: HTSeq

Science Score: 65/100

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Papers Mentioning HTSeq 3,071