bioconductor: preprocessCore | Projects

10.18632/oncotarget.10422

MITF depletion elevates expression levels of ERBB3 receptor and its cognate ligand NRG1-beta in melanoma
Cited by: 11
Author(s): Tine Norman Alver, Timothy J. Lavelle, Ane Sager Longva, Geir Frode Øy, Eivind Hovig, Sigurd Leinæs Bøe
Software Mentions: 2
Published: over 8 years ago

10.1186/gb-2012-13-9-r49

Analysis of variation at transcription factor binding sites in Drosophila and humans
Cited by: 90
Author(s): Mikhail Spivakov, Junaid Akhtar, Pouya Kheradpour, Kathryn Beal, Charles Girardot, Gautier Koscielny, Javier Herrero, M Kellis, Eileen E. M. Furlong, Ewan Birney
Software Mentions: 2
Published: almost 13 years ago

10.7150/jca.44032

Integrating Genomic Data with Transcriptomic Data for Improved Survival Prediction for Adult Diffuse Glioma
Cited by: 4
Author(s): Qi Yang, Yi Xiong, Nian Jiang, Fan-Yuan Zeng, Chunhai Huang, Xuejun Li
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.ppat.1009002

The NS1 protein of the parvovirus MVM Aids in the localization of the viral genome to cellular sites of DNA damage
Cited by: 20
Author(s): Kinjal Majumder, Maria Boftsi, Fawn B. Whittle, Juexin Wang, Matthew S. Fuller, Trupti Joshi, David J. Pintel
Software Mentions: 2
Published: almost 4 years ago

10.1038/srep45332

Activation of ERK1/2 Causes Pazopanib Resistance via Downregulation of DUSP6 in Synovial Sarcoma Cells
Cited by: 9
Author(s): Nobuhiko Yokoyama, Tomoya Matsunobu, Yoshihiro Matsumoto, Jun Ichi Fukushi, Makoto Endo, Masakazu Hatano, Akira Nabeshima, Sunao Fukushima, Seiji Okada, Yukihide Iwamoto
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-017-14440-7

Dysregulated gene expressions of MEX3D, FOS and BCL2 in human induced-neuronal (iN) cells from NF1 patients: a pilot study
Cited by: 12
Author(s): Noriyuki Sagata, Takahiro A. Kato, Shin-ichi Kano, Masahiro Ohgidani, Norihiro Shimokawa, Mina Sato-Kasai, Kohei Hayakawa, Nobuki Kuwano, Ana Wilson, Koko Ishizuka, Shiori Kato, Takeshi Nakahara, Makiko Nakahara-Kido, Daiki Setoyama, Yasunari Sakai, Shouichi Ohga, Masutaka Furue, Akira Sawa, Shigenobu Kanba
Software Mentions: 2
Published: almost 7 years ago

10.1186/s12967-020-02456-z

A modular framework for the development of targeted Covid-19 blood transcript profiling panels
Cited by: 11
Author(s): Darawan Rinchai, Basirudeen Syed Ahamed Kabeer, Mohammed Toufiq, Zohreh Tatari-Calderone, Sara Deola, Tobias Brummaier, Mathieu Garand, Ricardo Garcia Branco, Nicole Baldwin, Mohamed Alfaki, Matthew C. Altman, Alberto Ballestrero, Matteo Bassetti, Gabriele Zoppoli, Andrea De Maria, Benjamin Tang, Davide Bedognetti, Damien Chaussabel
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-021-89037-2

Expression of VEGFA-mRNA in classical and MSX2-mRNA in non-classical monocytes in patients with spondyloarthritis is associated with peripheral arthritis
Cited by: 0
Author(s): Małgorzata Stec, Michał Seweryn, Mariusz Korkosz, Zofia Guła, Rafał Szatanek, Kazimierz Węglarczyk, Magdalena Rutkowska-Zapała, Marzena Lenart, Marcin Czepiel, Jarosław Czyż, Jarosław Baran, Anna Gruca, Kamila Wojnar-Lasoń, Paweł Wołkow, Maciej Siedlar
Software Mentions: 2
Published: over 3 years ago

10.1128/mBio.02118-17

Translation Stress Positively Regulates MscL-Dependent Excretion of Cytoplasmic Proteins
Cited by: 17
Author(s): Rosa Morra, Francesco Del Carratore, Howbeer Muhamadali, Luminita Gabriela Horga, Samantha Halliwell, Royston Goodacre, Rainer Breitling, Neil Dixon
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms19103043

Secondary Unconjugated Bile Acids Induce Hepatic Stellate Cell Activation
Cited by: 16
Author(s): Kunihiro Saga, Yukio Iwashita, Shinya Hidano, Yuiko Aso, Kenji Isaka, Yasutoshi Kido, Kazuhiro Tada, Hiroomi Takayama, Takashi Masuda, Teijiro Hirashita, Yuichi Endo, Masayuki Ohta, Takashi Kobayashi, Masafumi Ito
Software Mentions: 2
Published: about 6 years ago

10.1097/MD.0000000000002853

DNA Microarray Analysis of Submandibular Glands in IgG4-Related Disease Indicates a Role for MARCO and Other Innate Immune-Related Proteins
Cited by: 18
Author(s): Miho Ohta, Masafumi Moriyama, Takashi Mitsui, Yuka Gion, Soichi Furukawa, Akihiko Tanaka, Jun Nosuke Hayashida, Masaki Yamauchi, Nozomu Ishiguro, Yurie Mikami, Hiroto Tsuboi, Mana Iizuka‐Koga, Seiji Kawano, Yasuharu Sato, Tamotsu Kiyoshima, Takayuki Sumida, Seiji Nakamura
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.18648

Maintenance of age in human neurons generated by microRNA-based neuronal conversion of fibroblasts
Cited by: 139
Author(s): Christine J. Huh, Bo Zhang, Matheus B. Victor, Sonika Dahiya, Luis Francisco Zirnberger Batista, Steve Horvath, Andrew S. Yoo
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pgen.1009528

3D facial phenotyping by biometric sibling matching used in contemporary genomic methodologies
Cited by: 10
Author(s): Hanne Hoskens, Dongjing Liu, Sahin Naqvi, Myoung Keun Lee, Ryan J. Eller, Karlijne Indencleef, Julie D. White, Jiarui Li, Maarten Larmuseau, Greet Hens, Joanna Wysocka, Susan Walsh, Stephen Richmond, Mark D. Shriver, John R. Shaffer, Hilde Peeters, Seth M. Weinberg, Peter Claes
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0128598

Adaptation of a Bioinformatics Microarray Analysis Workflow for a Toxicogenomic Study in Rainbow Trout
Cited by: 5
Author(s): Sophie Depiereux, Bertrand De Meulder, Eric Bareke, Fabrice Berger, Florence Le Gac, Eric Depiereux, Patrick Kestemont
Software Mentions: 2
Published: about 9 years ago

10.1155/2013/267375

Identification of Lung-Cancer-Related Genes with the Shortest Path Approach in a Protein-Protein Interaction Network
Cited by: 23
Author(s): Biqing Li, Jin You, Chen Lei, Jian Zhang, Ning Zhang, Haipeng Li, Tao Huang, Xiangyin Kong, Yu-Dong Cai
Software Mentions: 2
Published: almost 12 years ago

10.7554/eLife.66155

Post-transcriptional repression of circadian component CLOCK regulates cancer-stemness in murine breast cancer cells
Cited by: 7
Author(s): Takashi Ogino, Naoya Matsumoto, Takahiro Tanaka, Tomohito Tanihara, Hideki Terajima, Hikari Yoshitane, Yoshitaka Fukada, Akito Tsuruta, Satoru Koyanagi, Shigehiro Ohdo
Software Mentions: 2
Published: over 3 years ago

10.1101/mcs.a003434

Personalized prescription of imatinib in recurrent granulosa cell tumor of the ovary: case report
Cited by: 25
Author(s): Elena Poddubskaya, Madina Baranova, Daria Allina, Marina Sekacheva, Lyudmila Makovskaia, Dmitriy E. Kamashev, Maria Suntsova, Viktoria Barbara, Irina N. Kochergina-Nikitskaya, Alexey Aleshin
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0060556

Pharmacometabolomic Approach to Predict QT Prolongation in Guinea Pigs
Cited by: 3
Author(s): Jeong-Hyeon Park, Keumhan Noh, Hae Won Lee, Myung-Seop Lim, Sook Jin Seong, Jae‐Hyun Seo, Eun-Jung Kim, Wonku Kang, Young‐Ran Yoon
Software Mentions: 1
Published: over 11 years ago

10.1186/1471-2164-15-263

A functional screen for copper homeostasis genes identifies a pharmacologically tractable cellular system
Cited by: 22
Author(s): Ulrich Schlecht, Sundari Suresh, Weihong Xu, Ana Aparicio, Angela M. Chu, Michael Proctor, Ronald W. Davis, Curt Scharfe, Robert P. St.Onge
Software Mentions: 1
Published: over 10 years ago

10.1186/s12918-017-0417-1

Systematic identification of an integrative network module during senescence from time-series gene expression
Cited by: 7
Author(s): Chihyun Park, So Jeong Yun, Sangwon Ryu, So‐Young Lee, Young‐Sam Lee, Yoon Yong-Jin, Sang Chul Park
Software Mentions: 1
Published: over 7 years ago

10.1007/s11033-020-06061-7

Mesenchymal glioblastoma-induced mature de-novo vessel formation of vascular endothelial cells in a microfluidic device
Cited by: 11
Author(s): Takeo Amemiya, Nobuhiro Hata, Masahiro Mizoguchi, Ryuji Yokokawa, Yoichiro Kawamura, Ryusuke Hatae, Yuhei Sangatsuda, Daisuke Kuga, Yutaka Fujioka, Kosuke Takigawa, Yojiro Akagi, Koji Yoshimoto, Koji Iihara, Takashi Miura
Software Mentions: 1
Published: almost 4 years ago

10.1038/s41416-018-0253-0

Analysis of cell proliferation and tissue remodelling uncovers a KLF4 activity score associated with poor prognosis in colorectal cancer
Cited by: 11
Author(s): Silvia Halim, Elke Markert, Alexei Vazquez
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.7841

Dietary pterostilbene is a novel MTA1-targeted chemopreventive and therapeutic agent in prostate cancer
Cited by: 51
Author(s): Swati Dhar, Avinash Kumar, Liangfen Zhang, Agnes M. Rimando, Janice M. Lage, Jack R. Lewin, Azeddine Atfi, Xu Zhang, Anait S. Levenson
Software Mentions: 1
Published: over 8 years ago

10.1186/s13148-014-0039-z

DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia
Cited by: 53
Author(s): Jessica Nordlund, Christofer Bäcklin, Vasilios Zachariadis, Lucia Cavelier, Johan Dahlberg, Ingegerd Ivanov Öfverholm, Gisela Barbany, Ann Nordgren, Elin Övernäs, Jonas Abrahamsson, Trond Flægstad, Mats Heyman, Ólafur G. Jónsson, Jukka Kanerva, Rolf Larsson, Josefine Palle, Kjeld Schmiegelow, Mats Gustafsson, Gudmar Lönnerholm, Erik Forestier, Ann‐Christine Syvänen
Software Mentions: 1
Published: over 9 years ago

10.3390/nu9111199

Anserine/Carnosine Supplementation Suppresses the Expression of the Inflammatory Chemokine CCL24 in Peripheral Blood Mononuclear Cells from Elderly People
Cited by: 39
Author(s): Yoshinori Katakura, Mamoru Totsuka, Etsuko Imabayashi, Hiroshi Matsuda, Tatsuhiro Hisatsune
Software Mentions: 1
Published: almost 7 years ago

10.1111/1759-7714.13608

Association of Mps one binder kinase activator 1 ( <scp>MOB1)</scp> expression with poor disease‐free survival in individuals with non‐small cell lung cancer
Cited by: 4
Author(s): Nobutoshi Ando, Kentaro Tanaka, Kenji Otsubo, Gouji Toyokawa, Maako Ide, Eiji Iwama, Hiroyuki Inoue, Kayo Ijichi, Tetsuzo Tagawa, Yoichi Nakanishi
Software Mentions: 1
Published: about 4 years ago

10.1371/journal.pone.0215925

Advertisement of unreceptivity – Perfume modifications of mason bee females (Osmia bicornis and O. cornuta) and a non-existing antiaphrodisiac
Cited by: 12
Author(s): Karsten Seidelmann, Daniel Rolke
Software Mentions: 1
Published: over 5 years ago

10.1186/s13046-016-0322-2

Modulation of anti-cancer drug sensitivity through the regulation of mitochondrial activity by adenylate kinase 4
Cited by: 42
Author(s): Koichi Fujisawa, Shuji Terai, Taro Takami, Naoki Yamamoto, Takahiro Yamasaki, Toshihiko Matsumoto, Kazuhito Yamaguchi, Yuji Owada, Hiroshi Nishina, Takafumi Noma, Isao Sakaida
Software Mentions: 1
Published: over 8 years ago

10.1186/1752-0509-5-197

More than just a metabolic regulator - elucidation and validation of new targets of PdhR in Escherichia coli
Cited by: 35
Author(s): Anna-Katharina Göhler, Öznur Kökpınar, Wolfgang Schmidt‐Heck, Robert Geffers, Reinhard Guthke, Ursula Rinas, Stefan Schuster, Knut Jahreis, Christoph Kaleta
Software Mentions: 1
Published: almost 13 years ago

10.18632/oncotarget.25780

STAT3 is constitutively activated in chronic active Epstein-Barr virus infection and can be a therapeutic target
Cited by: 35
Author(s): Erika Onozawa, Haruna Shibayama, Honami Takada, Ken‐Ichi Imadome, Sho Aoki, Mayumi Yoshimori, Norio Shimizu, Shigeyoshi Fujiwara, Takatoshi Koyama, Osamu Miura, Ayako Arai
Software Mentions: 1
Published: about 6 years ago

10.18632/oncotarget.23700

Acquired resistance to tyrosine kinase inhibitors may be linked with the decreased sensitivity to X-ray irradiation
Cited by: 23
Author(s): Maxim Sorokin, Р. В. Холоденко, Anna Grekhova, Maria Suntsova, Margarita Pustovalova, Natalia Vorobyeva, И. В. Холоденко, Galina Malakhova, Andrew Garazha, Artem Nedoluzhko, Р. Г. Василов, Elena Poddubskaya, Olga Kovalchuk, L.V. Adamyan, Vladimir Prassolov, Daria Allina, Denis Kuzmin, Kirill Ignatev, Andreyan N. Osipov, Anton Buzdin
Software Mentions: 1
Published: almost 7 years ago

10.3389/fphys.2020.604241

Multiple Feature Selection Strategies Identified Novel Cardiac Gene Expression Signature for Heart Failure
Cited by: 7
Author(s): Dan Li, Hong Lin, Luyifei Li
Software Mentions: 1
Published: almost 4 years ago

10.1371/journal.pone.0172348

Elevated GM3 plasma concentration in idiopathic Parkinson’s disease: A lipidomic analysis
Cited by: 65
Author(s): Robin B. Chan, Adler J. Perotte, Bowen Zhou, Christopher Liong, Evan Shorr, Karen Marder, Un Jung Kang, Cheryl Waters, Oren Levy, Yimeng Xu, Hong Bin Shim, Itsik Pe’er, Gilbert Di Paolo, Roy N. Alcalay
Software Mentions: 1
Published: over 7 years ago

10.3389/fphar.2018.01501

Anticancer Activity of the Goat Antimicrobial Peptide ChMAP-28
Cited by: 16
Author(s): Anna A. Emelianova, Denis Kuzmin, Pavel V. Panteleev, Maxim Sorokin, Anton Buzdin, Tatiana V. Ovchinnikova
Software Mentions: 1
Published: almost 6 years ago

10.1186/s40851-019-0127-1

Hydra vulgaris exhibits day-night variation in behavior and gene expression levels
Cited by: 12
Author(s): Hiroyuki J. Kanaya, Yoshitaka Kobayakawa, Tokuo Itoh
Software Mentions: 1
Published: over 5 years ago

10.1186/1476-4598-13-202

The blood-borne miRNA signature of lung cancer patients is independent of histology but influenced by metastases
Cited by: 25
Author(s): Petra Leidinger, Christina Backes, Michael R. Blatt, Andreas Keller, Hanno Huwer, Philipp M. Lepper, Robert Bals, Eckart Meese
Software Mentions: 1
Published: almost 11 years ago

10.3390/insects12090843

Individual Scent-Marks of Nest Entrances in the Solitary Bee, Osmia cornuta (Hymenoptera: Apoidea)
Cited by: 5
Author(s): Konrad Frahnert, Karsten Seidelmann
Software Mentions: 1
Published: about 3 years ago

10.1186/s12885-016-2521-9

New anti-cancer chemicals Ertredin and its derivatives, regulate oxidative phosphorylation and glycolysis and suppress sphere formation in vitro and tumor growth in EGFRvIII-transformed cells
Cited by: 3
Author(s): Saoko Atsumi, Chisato Nosaka, Hayamitsu Adachi, Tomoyuki Kimura, Yoshihiko Kobayashi, Hisashi Takada, Takumi Watanabe, Seigo Ohba, Hiroyuki Inoue, Manabu Kawada, Masakatsu Shibasaki, Masabumi Shibuya
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pgen.1005863

UPF2-Dependent Nonsense-Mediated mRNA Decay Pathway Is Essential for Spermatogenesis by Selectively Eliminating Longer 3'UTR Transcripts
Cited by: 68
Author(s): Jianqiang Bao, Kristoffer Vitting-Seerup, Johannes Waage, Chong Tang, Ying Ge, Bo T. Porse, Wei Yan
Software Mentions: 1
Published: over 8 years ago

10.1186/s12950-017-0168-1

Depletion of club cells attenuates bleomycin-induced lung injury and fibrosis in mice
Cited by: 13
Author(s): Tetsuya Yokoyama, Toyoshi Yanagihara, Kunihiro Suzuki, Naoki Hamada, Kazuya Tsubouchi, Saiko Ogata-Suetsugu, Hironori Mikumo, Chika Ikeda-Harada, Takashige Maeyama, Kazuyoshi Kuwano, Yoichi Nakanishi
Software Mentions: 1
Published: about 7 years ago

10.1186/s12885-016-2744-9

Deferasirox, a novel oral iron chelator, shows antiproliferative activity against pancreatic cancer in vitro and in vivo
Cited by: 37
Author(s): Hirofumi Harima, Seiji Kaino, Taro Takami, Shuhei Shinoda, Toshihiko Matsumoto, Koichi Fujisawa, Naoki Yamamoto, Takahiro Yamasaki, Isao Sakaida
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0081122

Curcumin Intake Affects miRNA Signature in Murine Melanoma with mmu-miR-205-5p Most Significantly Altered
Cited by: 56
Author(s): Indra Navina Dahmke, Christina Backes, Jeannette Rudzitis‐Auth, Matthias W. Laschke, Petra Leidinger, Michael D. Menger, Eckart Meese, Ulrich Mahlknecht
Software Mentions: 1
Published: almost 11 years ago

10.1038/s41598-017-05808-w

RLR-mediated antiviral innate immunity requires oxidative phosphorylation activity
Cited by: 40
Author(s): Takuma Yoshizumi, Hiromi Imamura, Tomohiro Taku, Takahiro Kuroki, Atsushı Kawaguchi, Kaori Ishikawa, Kazuto Nakada, Takumi Koshiba
Software Mentions: 1
Published: about 7 years ago

10.1186/s12864-018-5404-4

RiboTag translatomic profiling of Drosophila oenocytes under aging and induced oxidative stress
Cited by: 33
Author(s): Kerui Huang, Wenhao Chen, Fang Zhu, Patrick Wai Lun Li, Pankaj Kapahi, Hua Bai
Software Mentions: 1
Published: over 5 years ago

10.1038/s41598-017-13683-8

Micro-ribonucleic acids and extracellular vesicles repertoire in the spent culture media is altered in women undergoing In Vitro Fertilization
Cited by: 44
Author(s): Masood Abu‐Halima, Sebastian Häusler, Christina Backes, Tobias Fehlmann, Claudia Staib, Sigrun Nestel, Irina Nazarenko, Eckart Meese, Andreas Keller
Software Mentions: 1
Published: almost 7 years ago

Projects: bioconductor: preprocessCore

Papers Mentioning preprocessCore 146