cran: STAR | Projects | Ecosyste.ms: Papers

10.18632/oncotarget.22159

Regulatory T cells characterized by low Id3 expression are highly suppressive and accumulate during chronic infection
Cited by: 7
Author(s): Katharina S. Rauch, Miriam Hils, Alexandra J. Menner, Mikael Sigvardsson, Susana Minguet, Peter Aichele, Christian Schachtrup, Christian Schachtrup
Software Mentions: 2
Published: about 7 years ago

10.7554/eLife.49551

Ribosome biogenesis restricts innate immune responses to virus infection and DNA
Cited by: 49
Author(s): Christopher Bianco, Ian Mohr
Software Mentions: 2
Published: almost 5 years ago

10.7554/eLife.54782

Epigenetic regulation of Wnt7b expression by the cis-acting long noncoding RNA Lnc-Rewind in muscle stem cells
Cited by: 17
Author(s): Andrea Cipriano, Martina Macino, Giulia Buonaiuto, Tiziana Santini, Beatrice Biferali, Giovanna Peruzzi, Alessio Colantoni, Chiara Mozzetta, Monica Ballarino
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12859-021-04263-9

Computational comparison of common event-based differential splicing tools: practical considerations for laboratory researchers
Cited by: 10
Author(s): Ittai B. Muller, Stijn Meijers, Peter Kampstra, Steven van Dijk, Michel van Elswijk, Marry Lin, Anna Wojtuszkiewicz, Gerrit Jansen, Robert de Jonge, Jacqueline Cloos
Software Mentions: 2
Published: over 3 years ago

10.18632/oncotarget.22867

Genomic landscape of colitis-associated cancer indicates the impact of chronic inflammation and its stratification by mutations in the Wnt signaling
Cited by: 32
Author(s): Masashi Fujita, Nagahide Matsubara, Ikuo Matsuda, Kazuhiro Maejima, Ayako Oosawa, Tomoki Yamano, Akihiro Fujimoto, Mayuko Furuta, Kaoru Nakano, Aya Oku‐Sasaki, Hiroko Tanaka, Yuichi Shiraishi, Raúl Nicolás Mateos, Kenta Nakai, Satoru Miyano, Naohiro Tomita, Seiichi Hirota, Hiroki Ikeuchi, Hidewaki Nakagawa
Software Mentions: 2
Published: almost 7 years ago

10.7554/eLife.21592

Mitochondrial respiratory gene expression is suppressed in many cancers
Cited by: 96
Author(s): Ed Reznik, Qingguo Wang, Konnor La, Nikolaus Schultz, Chris Sander
Software Mentions: 2
Published: almost 8 years ago

10.7554/eLife.34114

Transcriptomic analyses reveal rhythmic and CLOCK-driven pathways in human skeletal muscle
Cited by: 81
Author(s): Laurent Perrin, Ursula Loizides‐Mangold, Stéphanie Chanon, Cédric Gobet, Nicolas Hulo, Laura Isenegger, Benjamin D. Weger, Eugenia Migliavacca, Aline Charpagne, James A. Betts, Jean–Philippe Walhin, Iain Templeman, Keith Stokes, Dylan Thompson, Kostas Tsintzas, M. Robert, Cédric Howald, Howard Riezman, Jérôme N. Feige, Leonidas G. Karagounis, Jeanne D. Johnston, Emmanouil T. Dermitzakis, Frédéric Gachon, Étienne Lefai, Charna Dibner
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.38389

Importance of miRNA stability and alternative primary miRNA isoforms in gene regulation during Drosophila development
Cited by: 31
Author(s): Liqun Zhou, Mandy Yu Theng Lim, Prameet Kaur, Abil Saj, Diane Bortolamiol-Bécet, Vikneswaran Gopal, Nicholas S. Tolwinski, Greg Tucker‐Kellogg, Katsutomo Okamura
Software Mentions: 2
Published: over 6 years ago

10.1186/s40478-021-01239-x

Microglial transcriptome analysis in the rNLS8 mouse model of TDP-43 proteinopathy reveals discrete expression profiles associated with neurodegenerative progression and recovery
Cited by: 20
Author(s): Mandana Hunter, Krista Spiller, Myrna A. Dominique, Hong Xu, Francis W. Hunter, Terry Fang, Rebecca G. Canter, Christopher J. Roberts, Richard M. Ransohoff, John Q. Trojanowski, Virginia M.‐Y. Lee
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0195893

A20 regulates canonical wnt-signaling through an interaction with RIPK4
Cited by: 8
Author(s): Brooke N. Nakamura, Alison Glazier, Michael G. Kattah, Bao Duong, Yulin Jia, Daniel Campo, Ling Shao
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.44057

Dynamic enhancer partitioning instructs activation of a growth-related gene during exit from naïve pluripotency
Cited by: 8
Author(s): Maxim V. C. Greenberg, Aurélie Teissandier, Marius Walter, Daan Noordermeer, Déborah Bourc’his
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0224835

Metformin strongly affects transcriptome of peripheral blood cells in healthy individuals
Cited by: 19
Author(s): Monta Ustinova, Ivars Silamiķelis, Ineta Kalniņa, Laura Ansone, Vita Rovīte, Ilze Elbere, Ilze Radoviča-Spalviņa, Dāvids Fridmanis, Ekaterina Aladyeva, Ilze Konrāde, Valdis Pīrāgs, Jānis Kloviņš
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0229170

CD20 is dispensable for B-cell receptor signaling but is required for proper actin polymerization, adhesion and migration of malignant B cells
Cited by: 13
Author(s): Veronika Kozlová, Aneta Ledererová, Adriana Ladungová, Helena Peschelová, Pavlína Janovská, Aleksander Ślusarczyk, J Domagała, Pavel Kopcil, Viera Vakulová, Jan Oppelt, Vı́tězslav Bryja, Michael Doubek, Jiřı́ Mayer, Šárka Pospı́šilová, Michal Šmída
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0194485

Expression profiling of disease progression in canine model of Duchenne muscular dystrophy
Cited by: 16
Author(s): Candice Brinkmeyer-Langford, Candice P. Chu, Cynthia Balog-Alvarez, Xue Yu, James J. Cai, Mary B. Nabity, Joe N. Kornegay
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0171221

PI3Kδ inhibitor idelalisib in combination with BTK inhibitor ONO/GS-4059 in diffuse large B cell lymphoma with acquired resistance to PI3Kδ and BTK inhibitors
Cited by: 43
Author(s): Anella Yahiaoui, Sarah Meadows, Rick Sorensen, Zhi-Hua Cui, Kathleen Keegan, Robert Brockett, Guang Chen, Christophe Quéva, Li Li, Stacey Tannheimer
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0174575

Halvade-RNA: Parallel variant calling from transcriptomic data using MapReduce
Cited by: 15
Author(s): Dries Decap, Joke Reumers, Charlotte Herzeel, Pascal Costanza, Jan Fostier
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0249658

Koala cathelicidin PhciCath5 has antimicrobial activity, including against Chlamydia pecorum
Cited by: 5
Author(s): Emma Peel, Yuanyuan Cheng, Julianne T. Djordjevic, Denis O’Meally, Mark S. Thomas, Michael Kuhn, Tania C. Sorrell, Wilhelmina M. Huston, Katherine Belov
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0255085

Identification of conserved transcriptome features between humans and Drosophila in the aging brain utilizing machine learning on combined data from the NIH Sequence Read Archive
Cited by: 0
Author(s): J. L. Webb, Simon M. Moe, Andrew Bolstad, Elizabeth McNeill
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-017-1890-7

Identification and characterization of conserved lncRNAs in human and rat brain
Cited by: 20
Author(s): Dan Li, Mary Qu Yang
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0246615

Deciphering the transcriptomic regulation of heat stress responses in Nothofagus pumilio
Cited by: 4
Author(s): Maximiliano Estravis-Barcalá, Katrin Heer, Paula Marchelli, Birgit Ziegenhagen, María Verónica Arana, Nicolás Bellora
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers13051067

Dive into Single, Seek Out Multiple: Probing Cancer Metastases via Single-Cell Sequencing and Imaging Techniques
Cited by: 3
Author(s): Shang Su, Xiaohong Li
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers12061603

A Novel JAK1 Mutant Breast Implant-Associated Anaplastic Large Cell Lymphoma Patient-Derived Xenograft Fostering Pre-Clinical Discoveries
Cited by: 11
Author(s): Danilo Fiore, Luca Vincenzo Cappelli, Paul Zumbo, Jude M. Phillip, Zhaoqi Liu, Shuhua Cheng, Liron Yoffe, Paola Ghione, Federica Maggio, Ahmet Doğan, Inna Khodos, Elisa de Stanchina, Joseph Casano, Clarisse Kayembe, Wayne Tam, Doron Betel, Robin Foà, Leandro Cerchietti, Raúl Rabadán, Steven M. Horwitz, David M. Weinstock, Giorgio Inghirami
Software Mentions: 2
Published: over 4 years ago

10.3390/cancers11020208

ORAI1 and ORAI3 in Breast Cancer Molecular Subtypes and the Identification of ORAI3 as a Hypoxia Sensitive Gene and a Regulator of Hypoxia Responses
Cited by: 42
Author(s): Iman Azimi, Michael J. G. Milevskiy, Silke B. Chalmers, Kunsala T. D. S. Yapa, Mélanie Robitaille, Christopher Henry, Gregory J. Baillie, Erik W. Thompson, Sarah J. Roberts‐Thomson, Gregory R. Monteith
Software Mentions: 2
Published: almost 6 years ago

10.3390/cancers13092045

Targeting Cancer Stem Cells with Differentiation Agents as an Alternative to Genotoxic Chemotherapy for the Treatment of Malignant Testicular Germ Cell Tumors
Cited by: 5
Author(s): Amanda R. Loehr, Timothy M. Pierpont, Eric Gelsleichter, Anabella Maria D Galang, Irma Fernández, Elizabeth S. Moore, Matthew Z Guo, Andrew D. Miller, Robert S. Weiss
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers11030402

Identification of Targetable Lesions in Anaplastic Thyroid Cancer by Genome Profiling
Cited by: 29
Author(s): Naveen Ravi, Minjun Yang, Sigurdur Gretarsson, Caroline Jansson, Nektaria Mylona, Saskia Sydow, Eleanor Luise Woodward, Lars Ekblad, Johan Wennerberg, Kajsa Paulsson
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.44667

Astrocyte morphogenesis is dependent on BDNF signaling via astrocytic TrkB.T1
Cited by: 92
Author(s): Leanne M. Holt, Raymundo Hernandez, Natasha L. Pacheco, Beatriz Torres Ceja, Muhannah Hossain, Michelle L. Olsen
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0210404

Screening human cell lines for viral infections applying RNA-Seq data analysis
Cited by: 13
Author(s): Cord C. Uphoff, Claudia Pommerenke, Sabine A. Denkmann, Hans G. Drexler
Software Mentions: 2
Published: almost 6 years ago

10.3390/cancers11020190

Intratumoural Heterogeneity Underlies Distinct Therapy Responses and Treatment Resistance in Glioblastoma
Cited by: 36
Author(s): Seçkin Akgül, Ann‐Marie Patch, Rochelle C.J. D’Souza, Pamela Mukhopadhyay, Kátia Nones, Sarah Kempe, Stephen H. Kazakoff, Rosalind L. Jeffree, Brett W. Stringer, John V. Pearson, Nicola Waddell, Bryan W. Day
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0054848

A Phylogeny of Birds Based on Over 1,500 Loci Collected by Target Enrichment and High-Throughput Sequencing
Cited by: 290
Author(s): John E. McCormack, Michael Harvey, Brant C. Faircloth, Nicholas G. Crawford, Travis C. Glenn, Robb T. Brumfield
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0220101

Enhanced efficacy of sitravatinib in metastatic models of antiangiogenic therapy resistance
Cited by: 20
Author(s): Melissa Dolan, Michalis Mastri, Amanda Tracz, James G. Christensen, Gurkamal S. Chatta, John M.L. Ebos
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0176675

Optimized approach for Ion Proton RNA sequencing reveals details of RNA splicing and editing features of the transcriptome
Cited by: 13
Author(s): Roger B. Brown, Nathaniel J. Madrid, Hideaki Suzuki, Scott A. Ness
Software Mentions: 2
Published: over 7 years ago

10.3390/cancers13061472

Persistent Inflammatory Stimulation Drives the Conversion of MSCs to Inflammatory CAFs That Promote Pro-Metastatic Characteristics in Breast Cancer Cells
Cited by: 17
Author(s): Linor Rubinstein-Achiasaf, Dina Morein, Hagar Ben-Yaakov, Yulia Liubomirski, Tsipi Meshel, Eti Elbaz, Orly Dorot, Edward Pichinuk, Michael Gershovits, Miguel Weil, Adit Ben‐Baruch
Software Mentions: 2
Published: over 3 years ago

10.7554/eLife.16955

mRNA poly(A)-tail changes specified by deadenylation broadly reshape translation in Drosophila oocytes and early embryos
Cited by: 125
Author(s): Stephen W. Eichhorn, Alexander O. Subtelny, Iva Kronja, Jamie C. Kwasnieski, Terry L. Orr‐Weaver, David P. Bartel
Software Mentions: 2
Published: over 8 years ago

10.1186/s12859-021-03991-2

lncEvo: automated identification and conservation study of long noncoding RNAs
Cited by: 8
Author(s): Oleksii Bryzghalov, Izabela Makałowska, Michał Wojciech Szcześniak
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0136764

Impact of Genomics Platform and Statistical Filtering on Transcriptional Benchmark Doses (BMD) and Multiple Approaches for Selection of Chemical Point of Departure (PoD)
Cited by: 43
Author(s): Anna Francina Webster, Nikolai L. Chepelev, Rémi Gagné, Byron Kuo, Leslie Recio, Andrew Williams, Carole L. Yauk
Software Mentions: 2
Published: over 9 years ago

10.3390/cancers13092037

Functional Genomic Analyses of the 21q22.3 Locus Identifying Functional Variants and Candidate Gene YBEY for Breast Cancer Risk
Cited by: 2
Author(s): Chris Shidal, Xiang Shu, Jie Wu, Jifeng Wang, Shuya Huang, Jirong Long, Joshua A. Bauer, Jie Ping, Xingyi Guo, Zheng Wang, Qiuyin Cai
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-019-2996-x

Magic-BLAST, an accurate RNA-seq aligner for long and short reads
Cited by: 178
Author(s): Grzegorz M. Boratyn, Jean Thierry‐Mieg, Danielle Thierry-Mieg, Ben Busby, Thomas Madden
Software Mentions: 2
Published: over 5 years ago

10.3390/cancers12102784

Efficient Propagation of Circulating Tumor Cells: A First Step for Probing Tumor Metastasis
Cited by: 14
Author(s): Xiao Jian-yun, Joseph R. McGill, Kelly P. Stanton, Joshua D. Kassner, Sujata Maiti Choudhury, Richard Schlegel, Zuben E. Sauna, Paula R. Pohlmann, Seema Agarwal
Software Mentions: 2
Published: about 4 years ago

10.1186/s12859-015-0849-9

The diagnostic application of RNA sequencing in patients with thyroid cancer: an analysis of 851 variants and 133 fusions in 524 genes
Cited by: 31
Author(s): Moraima Pagan, Richard T. Kloos, Chu-Fang Lin, Kevin Travers, Hajime Matsuzaki, Edward Tom, Su Yeon Kim, Michael Y. Wong, Andrew C. Stewart, Jing Huang, P. Sean Walsh, R. J. Monroe, Giulia C. Kennedy
Software Mentions: 2
Published: almost 9 years ago

10.3390/cancers13061475

Clinical Features and Multiplatform Molecular Analysis Assist in Understanding Patient Response to Anti-PD-1/PD-L1 in Renal Cell Carcinoma
Cited by: 10
Author(s): Eileen Shiuan, Anupama Reddy, Stephanie O. Dudzinski, Aaron R. Lim, Ayaka Sugiura, Rachel Hongo, Kirsten Young, Xian De Liu, Christof C. Smith, Jamye F. O’Neal, Kimberly B. Dahlman, Renee McAlister, Beiru Chen, Kristen Ruma, Nathan Roscoe, Jehovana Orozco Bender, Joolz Ward, Ju Young Kim, Christine Vaupel, Jennifer Bordeaux, Shridar Ganesan, Tina Mayer, Gregory Riedlinger, Benjamin G. Vincent, Nancy B. Davis, Scott M. Haake, Jeffrey C. Rathmell, Eric Jonasch, Brian I. Rini, W. Kimryn Rathmell, Kathryn E. Beckermann
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0182568

Genome-wide identification of autosomal genes with allelic imbalance of chromatin state
Cited by: 7
Author(s): Andrej J. Savol, Peggy I. Wang, Yongho Jeon, David Colognori, E. Yildirim, Stefan F. Pinter, Bernhard Payer, Jeannie T. Lee, Ruslan I. Sadreyev
Software Mentions: 2
Published: over 7 years ago

10.3390/cancers13123055

Dual Role of Integrin Alpha-6 in Glioblastoma: Supporting Stemness in Proneural Stem-Like Cells While Inducing Radioresistance in Mesenchymal Stem-Like Cells
Cited by: 7
Author(s): Elisabetta Stanzani, Leire Pedrosa, G Bourmeau, Océane Anezo, Aleix Noguera‐Castells, Anna Esteve‐Codina, Lorena Passoni, Michela Matteoli, Núria de la Iglesia, Giorgio Seano, Fina Martínez‐Soler, Avelina Tortosa
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers11020181

Cord-Blood-Stem-Cell-Derived Conventional Dendritic Cells Specifically Originate from CD115-Expressing Precursors
Cited by: 10
Author(s): Maud Plantinga, Colin de Haar, Ester Dünnebach, Denise A. M. H. van den Beemt, Kitty W.M. Bloemenkamp, Michal Mokrý, Jaap Jan Boelens, Stefan Nierkens
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12859-018-2129-y

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
Cited by: 1,247
Author(s): Chao Zhang, Maryam Rabiee, Erfan Sayyari, Siavash Mirarab
Software Mentions: 2
Published: over 6 years ago

10.1186/s12859-016-0881-4

PTESFinder: a computational method to identify post-transcriptional exon shuffling (PTES) events
Cited by: 40
Author(s): Osagie Izuogu, Abd A. Alhasan, Hani M. Al-Afghani, Mauro Santibanez‐Koref, David J. Elliott, Michael S. Jackson
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0100883

A GPBAR1 (TGR5) Small Molecule Agonist Shows Specific Inhibitory Effects on Myeloid Cell Activation In Vitro and Reduces Experimental Autoimmune Encephalitis (EAE) In Vivo
Cited by: 51
Author(s): Nuruddeen D. Lewis, Lori Patnaude, Josephine Pelletier, Donald Souza, Susan Lukas, Jim King, Jonathan D. Hill, Dimitria E. Stefanopoulos, Kelli R. Ryan, Sudha Desai, Donna Skow, Stefan G. Kauschke, Andre Broermann, Daniel Kuzmich, Christian Harcken, Eugene R. Hickey, Louise K. Modis
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0206379

De novo transcriptome based on next-generation sequencing reveals candidate genes with sex-specific expression in Arapaima gigas (Schinz, 1822), an ancient Amazonian freshwater fish
Cited by: 12
Author(s): Luciana Watanabe, Fátima Gomes, João L.S.G. Vianez, Márcio Roberto Teixeira Nunes, Jedson Ferreira Cardoso, Clayton Pereira da Silva de Lima, Horácio Schneider, Iracilda Sampaio
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0197123

Anti-angiogenic VEGFAxxxb transcripts are not expressed in the medio-basal hypothalamus of the seasonal sheep
Cited by: 10
Author(s): Didier Lomet, Benoît Piégu, Shona H. Wood, Hugues Dardente
Software Mentions: 2
Published: over 6 years ago

10.3390/cancers13153871

Substance P Antagonism as a Novel Therapeutic Option to Enhance Efficacy of Cisplatin in Triple Negative Breast Cancer and Protect PC12 Cells against Cisplatin-Induced Oxidative Stress and Apoptosis
Cited by: 8
Author(s): Emma Rodrı́guez, Guangsheng Pei, Sang T. Kim, Alexis German, Prema Robinson
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers13164199

Selective Targeting of Class I Histone Deacetylases in a Model of Human Osteosarcoma
Cited by: 4
Author(s): Haydee M. Torres, Ashley M. VanCleave, Mykayla L Vollmer, Dakota L Callahan, Austyn Smithback, Josephine M Conn, Tania Rodezno-Antunes, Zili Gao, Yuxia Cao, Yohannes Afeworki Tecleab, Jianning Tao
Software Mentions: 2
Published: over 3 years ago

10.5713/ajas.18.0533

Comparison of characteristics of long noncoding RNA in Hanwoo according to sex
Cited by: 0
Author(s): Jae-Ho Choi, Kyeong Hye Won, Seung‐Woo Son, Donghyun Shin, Jae-Don Oh
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.47870

Altered gating of Kv1.4 in the nucleus accumbens suppresses motivation for reward
Cited by: 7
Author(s): Bernadette O’Donovan, Adewale Adeluyi, E. L. Anderson, Robert D. Cole, Jill Turner, Pavel I. Ortinski
Software Mentions: 2
Published: about 5 years ago

10.3390/cancers12051219

Novel Gene Fusions in Glioblastoma Tumor Tissue and Matched Patient Plasma
Cited by: 10
Author(s): Lan Wang, Anudeep Yekula, Koushik Muralidharan, Julia L. Small, Zachary S. Rosh, Keiko M. Kang, Bob S. Carter, Leonora Balaj
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0233789

Sevoflurane depletes macrophages from the melanoma microenvironment
Cited by: 7
Author(s): Isabella Sztwiertnia, Judith Schenz, Katharina Bomans, Dominik Schaack, Johanna Ohnesorge, Sandra Tamulyte, Markus Weigand, Florian Uhle
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0177708

The Agassiz’s desert tortoise genome provides a resource for the conservation of a threatened species
Cited by: 31
Author(s): Marc Tollis, Dale F. DeNardo, John A. Cornelius, Greer A. Dolby, Taylor Edwards, Brian T. Henen, Alice E. Karl, Robert W. Murphy
Software Mentions: 2
Published: over 7 years ago

10.3390/cancers12040788

Dysregulated Pyrimidine Biosynthesis Contributes to 5-FU Resistance in SCLC Patient-Derived Organoids but Response to a Novel Polymeric Fluoropyrimidine, CF10
Cited by: 13
Author(s): William H. Gmeiner, Lance D. Miller, Jeff W. Chou, Anthony Dominijanni, Lysette Mutkus, Frank C. Marini, Jimmy Ruiz, Travis Dotson, Karl W. Thomas, Graham Parks, Christina Bellinger
Software Mentions: 2
Published: over 4 years ago

10.3390/cancers13050957

Bifidobacterium Strain-Specific Enhances the Efficacy of Cancer Therapeutics in Tumor-Bearing Mice
Cited by: 23
Author(s): Young‐In Yoon, Gihyeon Kim, Bu‐Nam Jeon, Sungsoon Fang, Hansoo Park
Software Mentions: 2
Published: almost 4 years ago

10.1186/s13075-021-02477-z

Periostin loss-of-function protects mice from post-traumatic and age-related osteoarthritis
Cited by: 18
Author(s): Mukundan Attur, Xin Duan, Lei Cai, Tianzhen Han, Weili Zhang, Eric Tycksen, Jonathan Samuels, Robert H. Brophy, Steven B. Abramson, Muhammad Farooq
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0227522

Expression and function of voltage gated proton channels (Hv1) in MDA-MB-231 cells
Cited by: 12
Author(s): Dan J. Bare, Vladimir V. Cherny, Thomas E. DeCoursey, Abde M. Abukhdeir, Deri Morgan
Software Mentions: 2
Published: over 4 years ago

10.3390/cancers12102919

Aberrantly Expressed RECQL4 Helicase Supports Proliferation and Drug Resistance of Human Glioma Cells and Glioma Stem Cells
Cited by: 11
Author(s): Sylwia Król, Agnieszka Kaczmarczyk, Kamil Wojnicki, Bartosz Wojtaś, Bartłomiej Gielniewski, Wiesława Grajkowska, Katarzyna Kotulska, Cezary Szczylik, Ryszard Czepko, Mariusz Banach, Wojciech Kaspera, Wojciech Szopa, Andrzej Marchel, Tomasz Czernicki, Bożena Kamińska
Software Mentions: 2
Published: about 4 years ago

10.3390/cancers12092668

A Human Organoid Model of Aggressive Hepatoblastoma for Disease Modeling and Drug Testing
Cited by: 32
Author(s): James A. Saltsman, William J. Hammond, Nicole J.C. Narayan, David Requena, Helmuth Gehart, Gadi Lalazar, Michael P. LaQuaglia, Hans Clevers, Sanford M. Simon
Software Mentions: 2
Published: about 4 years ago

10.3390/cancers12051169

All-Trans Retinoic Acid Stimulates Viral Mimicry, Interferon Responses and Antigen Presentation in Breast-Cancer Cells
Cited by: 13
Author(s): Marco Bolis, Gabriela Paroni, Maddalena Fratelli, Arianna Vallerga, Luca Guarrera, Adriana Zanetti, Mami Kurosaki, S. Garattini, Maurizio Giannı̀, Monica Lupi, Linda Pattini, Maria Monica Barzago, Mineko Terao, Enrico Garattini
Software Mentions: 2
Published: over 4 years ago

10.3390/cancers13164111

Molecular Changes Induced in Melanoma by Cell Culturing in 3D Alginate Hydrogels
Cited by: 3
Author(s): Melanie Kappelmann‐Fenzl, Steven K. Schmidt, Stefan Fischer, Rafael Schmid, Lisa Lämmerhirt, Lena Fischer, Stefan Schrüfer, Ingo Thievessen, Dirk W. Schubert, Alexander Matthies, Rainer Detsch, Aldo R. Boccaccını, Andreas Arkudas, Annika Kengelbach‐Weigand, Anja–Katrin Bosserhoff
Software Mentions: 2
Published: over 3 years ago

10.7554/eLife.25637

RNA-dependent chromatin association of transcription elongation factors and Pol II CTD kinases
Cited by: 49
Author(s): Sofia Battaglia, Michael Lidschreiber, Carlo Baejen, Phillipp Torkler, Seychelle M. Vos, Patrick Cramer
Software Mentions: 2
Published: over 7 years ago

10.7554/eLife.63092

Subcellular sequencing of single neurons reveals the dendritic transcriptome of GABAergic interneurons
Cited by: 42
Author(s): Julio Pérez, Susanne tom Dieck, Beatriz Alvarez‐Castelao, Georgi Tushev, I.C.W. Chan, Erin M. Schuman
Software Mentions: 2
Published: almost 4 years ago

10.1186/s13075-020-02349-y

T helper cells in synovial fluid of patients with rheumatoid arthritis primarily have a Th1 and a CXCR3+Th2 phenotype
Cited by: 28
Author(s): Jonathan Aldridge, Anna-Karin Hultgård Ekwall, Linda Mark, Beatrice Bergström, Kerstin Andersson, Inger Gjertsson, Anna‐Carin Lundell, Anna Rudin
Software Mentions: 2
Published: about 4 years ago

10.3390/cancers13061433

Epigenetic Mechanisms Are Involved in the Oncogenic Properties of ZNF518B in Colorectal Cancer
Cited by: 3
Author(s): Francisco Gimeno-Valiente, Ángela L. Riffo‐Campos, Luís Torres, Noelia Tarazona, Gerardo López-Rodas, Luís Franco, Josefa Castillo
Software Mentions: 2
Published: over 3 years ago

10.3390/cancers13112654

Deep Learning Improves Pancreatic Cancer Diagnosis Using RNA-Based Variants
Cited by: 6
Author(s): Ali Al-Fatlawi, Negin Malekian, Sebastián A. García, Andreas Henschel, Ilwook Kim, Andreas Dahl, Beatrix Jahnke, Peter J. Bailey, Sarah Naomi Bolz, Anna R. Poetsch, Sandra Mahler, Robert Grützmann, Christian Pilarsky, Michael Schroeder
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0190086

MiR-34a regulates the invasive capacity of canine osteosarcoma cell lines
Cited by: 25
Author(s): Carmen López, Peter Y. Yu, Xiaoli Zhang, Ayse Selen Yilmaz, Cheryl A. London, Joelle M. Fenger
Software Mentions: 2
Published: almost 7 years ago

10.3390/cancers11010069

Functional Assessment for Clinical Use of Serum-Free Adapted NK-92 Cells
Cited by: 19
Author(s): Michael Chrobok, Carin Dahlberg, Ece Canan Sayitoğlu, Vladimir Beljanski, Hareth Nahi, Mari Gilljam, Birgitta Stellan, Tolga Sütlü, Adil Doğanay Duru, Evren Alici
Software Mentions: 2
Published: almost 6 years ago

10.3390/cancers13102473

Exploring the Complementarity of Pancreatic Ductal Adenocarcinoma Preclinical Models
Cited by: 5
Author(s): Owen Hoare, Nicolás A. Fraunhoffer, Abdessamad El-Kaoutari, Odile Gayet, Martin Bigonnet, Julie Roques, Rémy Nicolle, Colin McGuckin, Nico Forraz, Emilie Sohier, Laurie Tonon, Pauline Wajda, Sandrine Boyault, Valéry Attignon, Séverine Tabone–Eglinger, Sandrine Barbier, Caroline Mignard, Olivier Duchamp, Juan Iovanna, Nelson Dusetti
Software Mentions: 2
Published: over 3 years ago

10.1186/s13075-020-02289-7

Widespread regulation of gene expression by glucocorticoids in chondrocytes from patients with osteoarthritis as determined by RNA-Seq
Cited by: 20
Author(s): Antti Pemmari, Tiina Leppänen, Mari Hämäläinen, Teemu Moilanen, Katriina Vuolteenaho, Eeva Moilanen
Software Mentions: 2
Published: about 4 years ago

10.3390/cancers12010073

Inhibition of Rho-Associated Kinase Suppresses Medulloblastoma Growth
Cited by: 8
Author(s): Cecilia Dyberg, Teodora Andonova, Thale Kristin Olsen, Bertha Brodin, Marcel Kool, Per Kogner, John Inge Johnsen, Malin Wickström
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0204967

Loss of murine Paneth cell function alters the immature intestinal microbiome and mimics changes seen in neonatal necrotizing enterocolitis
Cited by: 48
Author(s): Shiloh R. Lueschow, Jessica E. Stumphy, Huiyu Gong, Stacy L. Kern, Timothy G. Elgin, Mark A. Underwood, Karen M. Kalanetra, David A. Mills, Melissa H. Wong, David K. Meyerholz, Misty Good, Steven J. McElroy
Software Mentions: 2
Published: about 6 years ago

10.18632/oncotarget.24341

Methotrexate sensitizes drug-resistant metastatic melanoma cells to <i>BRAF</i> V600E inhibitors dabrafenib and encorafenib
Cited by: 8
Author(s): Kayleigh C. Ross, Kevin F Chin, Dae-Hwan Kim, Christopher D. Marion, Timothy Yen, Vikram Bhattacharjee
Software Mentions: 2
Published: almost 7 years ago

10.3390/cancers13122954

Combination of Epithelial Growth Factor Receptor Blockers and CDK4/6 Inhibitor for Nasopharyngeal Carcinoma Treatment
Cited by: 4
Author(s): Hsin‐Pai Li, Chenyang Huang, Kar‐Wai Lui, Yin‐Kai Chao, Chun‐Nan Yeh, Li‐Yu Lee, Yen‐Lin Huang, Tsan-Shiun Lin, Yung‐Chia Kuo, Minghui Huang, Yi‐Ting Lai, Yuan-Ming Yeh, Hsien-Chi Fan, An-Chi Lin, Jason Chia‐Hsun Hsieh, Kai‐Ping Chang, Chien‐Tai Lin, Hung-Ming Wang, Yu‐Sun Chang, Cheng‐Lung Hsu
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0191033

Epigenome comparisons reveal linkage between gene expression and postnatal remodeling of chromatin domain topology
Cited by: 0
Author(s): Bruce H. Howard, Tazuko H. Hirai, Valya R. Russanova
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0108095

High-Resolution Transcriptome Analysis with Long-Read RNA Sequencing
Cited by: 42
Author(s): Hyunghoon Cho, Joe R. Davis, Xin Li, Kevin S. Smith, Alexis Battle, Stephen B. Montgomery
Software Mentions: 2
Published: about 10 years ago

10.1016/j.cell.2020.05.018

An Autonomous Oscillation Times and Executes Centriole Biogenesis
Cited by: 27
Author(s): Mustafa G. Aydogan, Thomas L. Steinacker, Mohammad Mofatteh, Zachary M. Wilmott, Felix Zhou, Lisa Gartenmann, Alan Wainman, Saroj Saurya, Zsofia A. Novak, Siu‐Shing Wong, Alain Goriely, Michael A. Boemo, Jordan W. Raff
Software Mentions: 2
Published: over 4 years ago

10.1016/j.cell.2019.01.018

Excessive Cell Growth Causes Cytoplasm Dilution And Contributes to Senescence
Cited by: 311
Author(s): Gabriel E. Neurohr, Rachel Terry, Jette Lengefeld, Megan Bonney, Gregory Brittingham, Fabien Moretto, Teemu P. Miettinen, Laura Pontano Vaites, Luis M. Soares, João A. Paulo, J. Wade Harper, Stephen Buratowski, Scott R. Manalis, Folkert J. van Werven, Liam J. Holt, Angelika Amon
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.cell.2020.03.055

MorphoSeq: Full Single-Cell Transcriptome Dynamics Up to Gastrulation in a Chordate
Cited by: 36
Author(s): Hanna L. Sladitschek, Ulla-Maj Fiúza, Dinko Pavlinic, Vladimı́r Beneš, Lars Hufnagel, Pierre Neveu
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0201822

RNA variant identification discrepancy among splice-aware alignment algorithms
Cited by: 7
Author(s): Ji Hyung Hong, Yoon Ho Ko, Keunsoo Kang
Software Mentions: 2
Published: over 6 years ago

10.18632/oncotarget.24422

Human tripartite motif protein 52 is required for cell context-dependent proliferation
Cited by: 11
Author(s): Stefan Benke, Benedikt Agerer, Linda Haas, Martin Stöger, Alexander Lercher, Lisa Gabler, Izabella Kiss, Sara Scinicariello, Walter Berger, Andréas Bergthaler, Anna C. Obenauf, Gijs A. Versteeg
Software Mentions: 2
Published: almost 7 years ago

10.1016/j.cell.2021.06.033

Genome-wide gene expression tuning reveals diverse vulnerabilities of M. tuberculosis
Cited by: 110
Author(s): Barbara Bosch, Michael A. DeJesus, Nicholas C. Poulton, Wenzhu Zhang, Curtis A. Engelhart, Anisha Zaveri, Sophie Lavalette, Nadine Ruecker, Carolina Trujillo, Joshua B. Wallach, Shuqi Li, Sabine Ehrt, Brian T. Chait, Dirk Schnappinger, Jeremy M. Rock
Software Mentions: 2
Published: over 3 years ago

10.1186/s13075-018-1578-z

Integrative analysis reveals CD38 as a therapeutic target for plasma cell-rich pre-disease and established rheumatoid arthritis and systemic lupus erythematosus
Cited by: 76
Author(s): Suzanne Cole, Alice M. Walsh, Xiaoli Yin, Mihir D. Wechalekar, Malcolm D. Smith, Susanna Proudman, Douglas J. Veale, Ursula Fearon, Costantino Pitzalis, Frances Humby, Michèle Bombardieri, Amy Axel, Homer Adams, Christopher Chiu, Michael Sharp, John Alvarez, I.E. Anderson, Loui Madakamutil, Sunil Nagpal, Yanxia Guo
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.53159

FoxO suppresses endoplasmic reticulum stress to inhibit growth of Tsc1-deficient tissues under nutrient restriction
Cited by: 4
Author(s): Avantika Gupta, Hugo Stocker
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0146114

Influence of Familial Renal Glycosuria Due to Mutations in the SLC5A2 Gene on Changes in Glucose Tolerance over Time
Cited by: 23
Author(s): Emilia Ottosson-Laakso, Tiinamaija Tuomi, Björn Forsén, Monika Gullström, Per‐Henrik Groop, Leif Groop, Petter Vikman
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0175367

Nicotinic alpha 7 receptor expression and modulation of the lung epithelial response to lipopolysaccharide
Cited by: 26
Author(s): Lorise C. Gahring, Elizabeth J. Myers, Diane M. Dunn, Robert B. Weiss, Scott W. Rogers
Software Mentions: 2
Published: over 7 years ago

10.1016/j.cell.2017.09.043

Multiscale 3D Genome Rewiring during Mouse Neural Development
Cited by: 968
Author(s): Boyan Bonev, Netta Mendelson Cohen, Quentin Szabo, Lauriane Fritsch, Giorgio L. Papadopoulos, Yaniv Lubling, Xiaole Xu, Xiaodan Lv, Jean‐Philippe Hugnot, Amos Tanay, Giacomo Cavalli
Software Mentions: 2
Published: about 7 years ago

10.1016/j.cell.2021.04.005

A stony coral cell atlas illuminates the molecular and cellular basis of coral symbiosis, calcification, and immunity
Cited by: 87
Author(s): Shani Levy, Anamaria Elek, Xavier Grau‐Bové, Simón Menéndez-Bravo, Marta Iglesias, Amos Tanay, Tali Mass, Arnau Sebé-Pedrós
Software Mentions: 2
Published: over 3 years ago

10.1016/j.cell.2020.10.015

A Dynamic 6,000-Year Genetic History of Eurasia’s Eastern Steppe
Cited by: 109
Author(s): Choongwon Jeong, Ke Wang, Shevan Wilkin, William Taylor, Bryan K. Miller, Jan Bemmann, Raphaela Stahl, Chelsea Chiovelli, Florian Knolle, Sodnom Ulziibayar, Dorjpurev Khatanbaatar, Diimaajav Erdenebaatar, Ulambayar Erdenebat, Ayudai Ochir, Ganbold Ankhsanaa, Chuluunkhuu Vanchigdash, Battuga Ochir, Chuluunbat Munkhbayar, Dashtseveg Tumen, Alexey A. Kovalev, Nikolay Kradin, Bilikto A. Bazarov, D. A. Miyagashev, Prokopiy B. Konovalov, Elena Zhambaltarova, Alicia R. Ventresca Miller, Wolfgang Haak, Stephan Schiffels, Johannes Krause, Nicole Boivin, Erdene Myagmar, Jessica Hendy, Christina Warinner
Software Mentions: 2
Published: about 4 years ago

10.1016/j.cell.2019.11.039

Saltatory Conduction along Myelinated Axons Involves a Periaxonal Nanocircuit
Cited by: 104
Author(s): Charles C.H. Cohen, Marko Popović, Jan Klooster, Miguel Weil, Wiebke Möbius, Klaus‐Armin Nave, Maarten H. P. Kole
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0209694

Macrophages attenuate the transcription of CYP1A1 in breast tumor cells and enhance their proliferation
Cited by: 6
Author(s): Sofia Winslow, Anica Scholz, Peter Rappl, Thilo F. Brauß, Claudia Mertens, Michaela Jung, Andreas Weigert, Bernhard Brüne, Tobias Schmid
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.cell.2020.08.008

The Polygenic and Monogenic Basis of Blood Traits and Diseases
Cited by: 325
Author(s): Dragana Vuckovic, Erik L. Bao, Parsa Akbari, Caleb A. Lareau, Abdou Mousas, Tao Jiang, Ming-Huei Chen, Laura M. Raffield, Manuel Tardáguila, Jennifer E. Huffman, Scott C. Ritchie, Karyn Mégy, Hannes Ponstingl, Christopher J. Penkett, Patrick K. Albers, Emilie M. Wigdor, Saori Sakaue, Arden Moscati, Regina Manansala, Ken Sin Lo, Huijun Qian, Masato Akiyama, Traci M. Bartz, Yoav Ben‐Shlomo, Andrew D Beswick, Jette Bork-Jensen, Erwin P. Böttinger, Jennifer A. Brody, Frank J.A. van Rooij, Kumaraswamy Naidu Chitrala, Peter W.F. Wilson, Hélène Choquet, John Danesh, Emanuele Di Angelantonio, Niki Dimou, Jingzhong Ding, Paul Elliott, Tõnu Esko, Michele K. Evans, Stephan B. Felix, James S. Floyd, Linda Broer, Niels Grarup, Michael H. Guo, Qi Guo, Andreas Greinacher, Jeff Haessler, Torben Hansen, Joanna M. M. Howson, Wei Huang, Eric Jorgenson, Tim Kacprowski, Mika Kähönen, Yoichiro Kamatani, Masahiro Kanai, Savita Karthikeyan, Fotios Koskeridis, Leslie A. Lange, Terho Lehtimäki, Allan Linneberg, Yongmei Liu, Leo-Pekka Lyytikäinen, Ani Manichaikul, Koichi Matsuda, Karen L. Mohlke, Nina Mononen, Yoshinori Murakami, Girish N. Nadkarni, Kjell Nikus, Nathan Pankratz, Oluf Pedersen, Michael Preuss, Bruce M. Psaty, Olli T. Raitakari, Stephen S. Rich, Blanca Rodriguez, Jonathan D. Rosen, Jerome I. Rotter, Petra Schubert, Cassandra N. Spracklen, Praveen Surendran, Hua Tang, Jean‐Claude Tardif, Mohsen Ghanbari, Uwe Völker, Henry Völzke, Nicholas A. Watkins, Stefan Weiß, VA Million Veteran Program, Na Cai, Kousik Kundu, Stephen Watt, Klaudia Walter, Alan B. Zonderman, Kelly Cho, Yun Li, Ruth J.F. Loos, Julian C. Knight, Michel Georges, Oliver Stegle, Εvangelos Εvangelou, Yukinori Okada, David Roberts, Michael Inouye, Andrew D. Johnson, Paul L. Auer, William Astle, Alexander P. Reiner, Adam S. Butterworth, Willem H. Ouwehand, Guillaume Lettre, Vijay G. Sankaran, Nicole Soranzo
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0223980

Dysregulation of macrophage development and phenotype in diabetic human macrophages can be rescued by Hoxa3 protein transduction
Cited by: 17
Author(s): Salma Saleh Alrdahe, Hadeel Al Sadoun, Tanja Torbica, Edward A. McKenzie, Frank L. Bowling, Andrew J.M. Boulton, Kimberly A. Mace
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.42434

Distinct mesoderm migration phenotypes in extra-embryonic and embryonic regions of the early mouse embryo
Cited by: 58
Author(s): Bechara Saykali, Navrita Mathiah, Wallis Nahaboo, Marie-Lucie Racu, Latifa Hammou, Matthieu Defrance, Isabelle Migeotte
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0171435

A novel RNA sequencing data analysis method for cell line authentication
Cited by: 24
Author(s): Erik Fasterius, Cinzia Raso, Susan Kennedy, Nora Rauch, Per Lundin, Walter Kölch, Mathias Uhlén, Cristina Al‐Khalili Szigyarto
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0244407

A science impact framework to measure impact beyond journal metrics
Cited by: 7
Author(s): Mary D. Ari, John K. Iskander, John Jairo Araujo, Christine Casey, John J. Kools, Bin Chen, Robert Swain, Miriam Kelly, Tanja Popović
Software Mentions: 2
Published: almost 4 years ago

10.1371/journal.pone.0176768

Induction of endogenous retroelements as a potential mechanism for mouse-specific drug-induced carcinogenicity
Cited by: 3
Author(s): Timothy Coskran, Zhijie Jiang, James E. Klaunig, Dixie L. Mager, Leslie Obert, Andrew W. Robertson, Nicholas F. Tsinoremas, Zemin Wang, Mark Gosink
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0202305

Bioinformatic characterisation of the effector repertoire of the strawberry pathogen Phytophthora cactorum
Cited by: 30
Author(s): Andrew D. Armitage, Erik Lysøe, Charlotte F. Nellist, Laura Lewis, Liliana Cano, Richard J. Harrison, May Bente Brurberg
Software Mentions: 2
Published: about 6 years ago

Projects: cran: STAR

Papers Mentioning STAR 5,759