pypi: browser | Projects | Ecosyste.ms: Papers

10.1038/sdata.2018.235

De novo assembly and annotation of three Leptosphaeria genomes using Oxford Nanopore MinION sequencing
Cited by: 50
Author(s): Fabien Dutreux, Corinne Da Silva, Léo d'Agata, Arnaud Couloux, Benjamin Istace, Nicolas Lapalu, Arnaud Lemainque, Juliette Linglin, Benjamin Noël, Patrick Wincker, Corinne Cruaud, Thierry Rouxel, Marie‐Hélène Balesdent, Jean‐Marc Aury
Software Mentions: 2
Published: almost 8 years ago

10.1007/s13238-017-0497-0

Antisense transcription regulates the expression of sense gene via alternative polyadenylation
Cited by: 3
Author(s): Ting Shen, Huan Li, Yifan Song, Jun Yao, Moonsik Han, Ming Yu, Gang Wei, Ting Ni
Software Mentions: 2
Published: almost 9 years ago

10.18632/oncotarget.14150

AML associated oncofusion proteins PML-RARA, AML1-ETO and CBFB-MYH11 target RUNX/ETS-factor binding sites to modulate H3ac levels and drive leukemogenesis
Cited by: 23
Author(s): Abhishek A. Singh, Amit Mandoli, K.H.M. Prange, Marko Laakso, Joost H.A. Martens
Software Mentions: 2
Published: almost 10 years ago

10.1093/jxb/eraa550

Abundance of metalloprotease FtsH12 modulates chloroplast development in Arabidopsis thaliana
Cited by: 16
Author(s): Kati Mielke, Raik Wagner, Laxmi S. Mishra, Fatih Demir, Andreas Perrar, Pitter F. Huesgen, Christiane Funk
Software Mentions: 2
Published: almost 6 years ago

10.3390/jcm9061672

Association Analysis of TP53 rs1042522, MDM2 rs2279744, rs3730485, MDM4 rs4245739 Variants and Acute Myeloid Leukemia Susceptibility, Risk Stratification Scores, and Clinical Features: An Exploratory Study
Cited by: 6
Author(s): Florin Tripon, Mihaela Iancu, Adrian P. Trifa, George Andrei Crauciuc, Alina Bogliş, Beáta Balla, Adriana S Cosma, Delia Dima, Marcela Cândea, Erzsébet Lázár, Laura Jimbu, Claudia Bănescu
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2018.00965

Whole-Genome Analysis of Three Yeast Strains Used for Production of Sherry-Like Wines Revealed Genetic Traits Specific to Flor Yeasts
Cited by: 25
Author(s): M. A. Eldarov, Alexey V. Beletsky, Tatiana N. Tanashchuk, Svetlana A. Kishkovskaya, Nikolai V. Ravin, Andrey V. Mardanov
Software Mentions: 2
Published: over 8 years ago

10.1098/rsob.160197

SBE6: a novel long-range enhancer involved in driving sonic hedgehog expression in neural progenitor cells
Cited by: 15
Author(s): Nezha S. Benabdallah, Philippe Gautier, Betül Hekimoglu-Balkan, Laura A. Lettice, Shipra Bhatia, Wendy A. Bickmore
Software Mentions: 2
Published: almost 10 years ago

10.1089/cmb.2018.0199

INDEX-db: The Indian Exome Reference Database (Phase I)
Cited by: 11
Author(s): Parvez Ahmed, More Rp, Biju Viswanath, Sanjeev Jain, Rao Ms, Odity Mukherjee
Software Mentions: 2
Published: over 7 years ago

10.18632/oncotarget.17107

Epigenetic silencing of triple negative breast cancer hallmarks by Withaferin A
Cited by: 49
Author(s): Katarzyna Szarc vel Szic, Ken Declerck, René A. J. Crans, Jolien Diddens, David Scherf, Clarissa Gerhäuser, Wim Vanden Berghe
Software Mentions: 2
Published: over 9 years ago

10.3390/genes11121486

citSATdb: Genome-Wide Simple Sequence Repeat (SSR) Marker Database of Citrus Species for Germplasm Characterization and Crop Improvement
Cited by: 8
Author(s): Naveen Duhan, Manish Meshram, Cristian D Loaiza, Rakesh Kaundal
Software Mentions: 2
Published: almost 6 years ago

10.3389/fgene.2018.00025

Analysis of Parent-of-Origin Effects on the X Chromosome in Asian and European Orofacial Cleft Triads Identifies Associations with DMD, FGF13, EGFL6, and Additional Loci at Xp22.2
Cited by: 8
Author(s): Øivind Skare, Rolv Terje Lie, Øystein Ariansen Haaland, Miriam Gjerdevik, Julia Romanowska, Håkon K. Gjessing, Astanand Jugessur
Software Mentions: 2
Published: over 8 years ago

10.1002/jrsm.1408

“statcheck”: Automatically detect statistical reporting inconsistencies to increase reproducibility of <scp>meta‐analyses</scp>
Cited by: 9
Author(s): Michèle B. Nuijten, Joshua R. Polanin
Software Mentions: 2
Published: over 6 years ago

10.1534/g3.112.003194

Microarray-Based Capture of Novel Expressed Cell Type–Specific Transfrags (CoNECT) to Annotate Tissue-Specific Transcription in Drosophila melanogaster
Cited by: 0
Author(s): Xiaojing Hong, Harshavardhan Doddapaneni, Josep M. Comeron, Matthew J. Rodesch, Heather A. Halvensleben, Chung Yi Nien, F. Bolei, Raghu Metpally, Todd Richmond, Thomas Albert, J. Robert Manak
Software Mentions: 2
Published: about 14 years ago

10.3389/fpls.2017.02218

Nictaba Homologs from Arabidopsis thaliana Are Involved in Plant Stress Responses
Cited by: 13
Author(s): Lore Eggermont, Karolina Stefanowicz, Els J. M. Van Damme
Software Mentions: 2
Published: over 8 years ago

10.3389/fgene.2018.00214

Screening of the LAMB2, WT1, NPHS1, and NPHS2 Genes in Pediatric Nephrotic Syndrome
Cited by: 6
Author(s): Aiysha Abid, Saba Shahid, Madiha Shakoor, Ali Lanewala, Seema Hashmi, Shagufta Khaliq
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2015.00616

Bad News: Analysis of the Quality of Information on Influenza Prevention Returned by Google in English and Italian
Cited by: 21
Author(s): Ali Maki, Roger Evans, Pietro Ghezzi
Software Mentions: 2
Published: almost 11 years ago

10.1155/2020/1783564

Association of Peroxisome Proliferator-Activated Receptors (PPARs) with Diabetic Retinopathy in Human and Animal Models: Analysis of the Literature and Genome Browsers
Cited by: 4
Author(s): Špela Tajnšek, Danijel Petrovič, Mojca Globočnik Petrovič, Tanja Kunej
Software Mentions: 2
Published: over 6 years ago

10.1186/2041-1480-2-S2-S3

HyQue: evaluating hypotheses using Semantic Web technologies
Cited by: 33
Author(s): Alison Callahan, Michel Dumontier, Nigam H. Shah
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.ppat.1009796

Cytomegalovirus late transcription factor target sequence diversity orchestrates viral early to late transcription
Cited by: 12
Author(s): Ming Li, Qiaolin Hu, Geoffrey S Collins, Mrutyunjaya Parida, Christopher B. Ball, David H. Price, Jeffery L. Meier
Software Mentions: 2
Published: about 5 years ago

10.1038/srep25954

CNV analysis in Chinese children of mental retardation highlights a sex differentiation in parental contribution to de novo and inherited mutational burdens
Cited by: 19
Author(s): Binbin Wang, Taoyun Ji, Xueya Zhou, Jing Wang, Xi Wang, Jingmin Wang, Dandan Zhu, Xuejun Zhang, Pak C. Sham, Xuegong Zhang, Xu Ma, Yuwu Jiang
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.ppat.1009615

A parasitoid wasp of Drosophila employs preemptive and reactive strategies to deplete its host’s blood cells
Cited by: 6
Author(s): Johnny R. Ramroop, Mary Ellen Heavner, Zubaidul H. Razzak, Shubha Govind
Software Mentions: 2
Published: over 5 years ago

10.3390/genes5041115

Next-Generation Sequencing of Genomic DNA Fragments Bound to a Transcription Factor in Vitro Reveals Its Regulatory Potential
Cited by: 18
Author(s): Y. Kurihara, Yuko Makita, Mika Kawashima, Hidefumi Hamasaki, Yoshiharu Y. Yamamoto, Minami Matsui
Software Mentions: 2
Published: almost 12 years ago

10.1038/srep32348

Alu-miRNA interactions modulate transcript isoform diversity in stress response and reveal signatures of positive selection
Cited by: 20
Author(s): Rajesh Pandey, Aniket Bhattacharya, Vivek Bhardwaj, Vineet Jha, Amit Kumar Mandal, Mitali Mukerji
Software Mentions: 2
Published: about 10 years ago

10.1128/JVI.00919-14

Unfixed Endogenous Retroviral Insertions in the Human Population
Cited by: 110
Author(s): Emanuele Marchi, Alexander Kanapin, Gkikas Magiorkinis, Robert Belshaw
Software Mentions: 2
Published: about 12 years ago

10.1016/j.heliyon.2020.e05243

Fast, easy, cheap, robust and safe method of analysis of Sudan dyes in chilli pepper powder
Cited by: 5
Author(s): Joseph Kweku Adjei, Vigil Ahormegah, Alex Kissi Boateng, Harry Kwaku Megbenu, Samuel Asiedu Owusu
Software Mentions: 2
Published: about 6 years ago

10.1038/srep33779

SMAR1 binds to T(C/G) repeat and inhibits tumor progression by regulating miR-371-373 cluster
Cited by: 12
Author(s): Jinumary Mathai, Smriti Mittal, Aftab Alam, Payal Ranade, Devraj Mogare, Sonal Patel, Smita Saxena, Suvankar Ghorai, Abhijeet Kulkarni, Samit Chattopadhyay
Software Mentions: 2
Published: about 10 years ago

10.3389/fgene.2015.00167

An interpretive review of selective sweep studies in Bos taurus cattle populations: identification of unique and shared selection signals across breeds
Cited by: 56
Author(s): Beatriz Gutiérrez-Gil, Juan José Arranz, Pamela Wiener
Software Mentions: 2
Published: over 11 years ago

10.1186/s13326-016-0053-5

Using Semantic Web technologies for the generation of domain-specific templates to support clinical study metadata standards
Cited by: 7
Author(s): Guoqian Jiang, Julie Evans, Cory M. Endle, Harold R. Solbrig, Christopher G. Chute
Software Mentions: 2
Published: over 10 years ago

10.3389/fmolb.2021.668402

Expression and Prognostic Value of MCM Family Genes in Osteosarcoma
Cited by: 12
Author(s): Jian Zhou, Mingyong Wang, Zhen Zhou, Wanchun Wang, Juan Duan, Gen Sheng Wu
Software Mentions: 2
Published: over 5 years ago

10.3390/ht9020008

DMETTM Genotyping: Tools for Biomarkers Discovery in the Era of Precision Medicine
Cited by: 11
Author(s): Giuseppe Agapito, Marzia Settino, Francesca Scionti, Emanuela Altomare, Pietro Hiram Guzzi, Pierfrancesco Tassone, Pierosandro Tagliaferri, Mario Cannataro, Mariamena Arbitrio, Maria Teresa Di Martino
Software Mentions: 2
Published: over 6 years ago

10.1038/srep41598

Genome-wide Regulatory Roles of the C2H2-type Zinc Finger Protein ZNF764 on the Glucocorticoid Receptor
Cited by: 14
Author(s): Abeer A. Fadda, Najeeb Syed, Rafah Mackeh, Anna Papadopoulou, Shigeru Suzuki, Puthen V. Jithesh, Tomoshige Kino
Software Mentions: 2
Published: over 9 years ago

10.1038/srep41474

Genome-wide DNA methylation reprogramming in response to inorganic arsenic links inhibition of CTCF binding, DNMT expression and cellular transformation
Cited by: 29
Author(s): Matthew Rea, Meredith Eckstein, Rebekah Eleazer, Caroline N. Smith, Yvonne Fondufe‐Mittendorf
Software Mentions: 2
Published: over 9 years ago

10.3389/fgene.2020.00766

Systematic Analysis of Differential H3K27me3 and H3K4me3 Deposition in Callus and Seedling Reveals the Epigenetic Regulatory Mechanisms Involved in Callus Formation in Rice
Cited by: 12
Author(s): Nannan Zhao, Kang Zhang, Chunchao Wang, Hengyu Yan, Yue Liu, Wenying Xu, Zhen Su
Software Mentions: 2
Published: about 6 years ago

10.1038/s41438-018-0078-2

PGD: Pineapple Genomics Database
Cited by: 22
Author(s): Huimin Xu, Qingyi Yu, Yan Shi, Xiuting Hua, Haibao Tang, Long Yang, Ray Ming, Jisen Zhang
Software Mentions: 2
Published: about 8 years ago

10.3389/fnmol.2017.00279

Dysregulation of Alternative Poly-adenylation as a Potential Player in Autism Spectrum Disorder
Cited by: 14
Author(s): Krzysztof J. Szkop, Peter I. C. Cooke, Joanne A. Humphries, Viktoria Kalna, David S. Moss, Eugene F. Schuster, Irene Nobeli
Software Mentions: 2
Published: about 9 years ago

10.1038/s41438-020-0336-y

Thermal-responsive genetic and epigenetic regulation of DAM cluster controlling dormancy and chilling requirement in peach floral buds
Cited by: 38
Author(s): Hong Zhu, Pao‐Yang Chen, Silin Zhong, Chris Dardick, Ann M. Callahan, Yong-Qiang An, Steve van Knocker, Yingzhen Yang, Gan-Yuan Zhong, Albert G. Abbott, Zongrang Liu
Software Mentions: 2
Published: about 6 years ago

10.3390/genes7030011

Genome-Wide Identification and Characterization of Long Non-Coding RNAs from Mulberry (Morus notabilis) RNA-seq Data
Cited by: 35
Author(s): Xin Song, Liang Sun, Haitao Luo, Qingguo Ma, Yi Zhao, Dong Pei
Software Mentions: 2
Published: over 10 years ago

10.1038/s41598-017-14336-6

Unravelling pathways downstream Sox6 induction in K562 erythroid cells by proteomic analysis
Cited by: 6
Author(s): Gloria Barbarani, Antonella Ronchi, Margherita Ruoppolo, Lucia Santorelli, Robert S. Steinfelder, Sudharshan Elangovan, Cristina Fugazza, Marianna Caterino
Software Mentions: 2
Published: almost 9 years ago

10.3389/fgene.2017.00042

Characterization of X-Chromosome Gene Expression in Bovine Blastocysts Derived by In vitro Fertilization and Somatic Cell Nuclear Transfer
Cited by: 10
Author(s): Byungkuk Min, Jung Sun Park, Kyuheum Jeon, Yong‐Kook Kang
Software Mentions: 2
Published: over 9 years ago

10.1111/jcmm.14104

Genetic variant in miR‐21 binding sites is associated with colorectal cancer risk
Cited by: 6
Author(s): Le Xie, Shuwei Li, Jing Jin, Lei He, Kaili Xu, Lingjun Zhu, Mulong Du, Yanqing Liu, Haiyan Chu, Zhengdong Zhang, Meilin Wang, Danni Shi, Dongying Gu, Min Ni
Software Mentions: 2
Published: almost 8 years ago

10.3390/genes8010014

mRNA Expression and DNA Methylation Analysis of Serotonin Receptor 2A (HTR2A) in the Human Schizophrenic Brain
Cited by: 29
Author(s): Sern-Yih Cheah, Bruce R. Lawford, Ross McD. Young, Charles P. Morris, Joanne Voisey
Software Mentions: 2
Published: almost 10 years ago

10.18632/oncotarget.25536

Prostate cancer susceptibility gene HIST1H1A is a modulator of androgen receptor signaling and epithelial to mesenchymal transition
Cited by: 6
Author(s): Kendra A. Williams, Minnkyong Lee, Jean M. Winter, Derek Gildea, Carla Calagua, Natasha Curry, Jens Lichtenberg, Huihui Ye, Nigel P.S. Crawford
Software Mentions: 2
Published: over 8 years ago

10.1038/sdata.2017.112

FANTOM5 CAGE profiles of human and mouse samples
Cited by: 169
Author(s): Shuhei Noguchi, Takahiro Arakawa, Shiro Fukuda, Masaaki Furuno, Akira Hasegawa, Fumi Hori, Sachi Ishikawa-Kato, Kaoru Kaida, Ai Kaiho, Mutsumi Kanamori-Katayama, Tsugumi Kawashima, Miki Kojima, Atsutaka Kubosaki, Ri Ichiroh Manabe, Mitsuyoshi Murata, Sayaka Nagao-Sato, Kenichi Nakazato, Noriko Ninomiya, Hiromi Nishiyori-Sueki, Shohei Noma, Eri Saijyo, Akiko Saka, Mizuho Sakai, Christophe Simon, Naoki Suzuki, Michihira Tagami, Shoko Watanabe, Shigehiro Yoshida, Peter Arner, Richard Axton, Magda Babina, J Kenneth Baillie, Timothy C. Barnett, Anthony G Beckhouse, Antje Blumenthal, Beatrice Bodega, Alessandro Bonetti, James Briggs, Frank Brombacher, Ailsa J Carlisle, Hans Clevers, Carrie A. Davis, Michael Detmar, Taeko Dohi, B. Albert S. Edge, Matthias Edinger, Anna Ehrlund, Karl Ekwall, Mitsuhiro Endoh, Hideki Enomoto, Afsaneh Eslami, Michela Fagiolini, Lynsey Fairbairn, Mary C. Farach-Carson, Geoffrey J. Faulkner, Carmelo Ferrai, Malcolm E Fisher, Lesley M. Forrester, Rie Fujita, Jun Furusawa, Teunis B. H. Geijtenbeek, T Gingeras, Daniel Goldowitz, Sven Guhl, Reto Guler, Stefano Gustincich, Thomas Ha, Masahide Hamaguchi, Mitsuko Hara, Yuki Hasegawa, Meenhard Herlyn, Peter Heutink, Kelly J Hitchens, David Hume, Tomokatsu Ikawa, Yuri Ishizu, Chieko Kai, Hiroshi Kawamoto, Yuki I. Kawamura, Judith S. Kempfle, Tony J. Kenna, Juha Kere, Levon M. Khachigian, Toshio Kitamura, Sarah Klein, S. Peter Klinken, Alan J. Knox, Soichi Kojima, Haruhiko Koseki, Shigeo Koyasu, Weon-Ju Lee, Andreas Lennartsson, Alan Mackay‐Sim, Niklas Mejhert, Yosuke Mizuno, Hiromasa Morikawa, Mitsuru Morimoto, Kazuyo Moro, Kelly J. Morris, Hozumi Motohashi, Christine L. Mummery, Yutaka Nakachi, Fumio Nakahara, Toshiyuki Nakamura, Yukio Nakamura, Tomohiro Nozaki, Soichi Ogishima, Naganari Ohkura, Hiroshi Ohno, Mitsuhiro Ohshima, Mariko Okada‐Hatakeyama, Yasushi Okazaki, Valerio Orlando, Dmitry A. Ovchinnikov, Robert Passier, Margaret Patrikakis, Ana Pombo, Swati Pradhan-Bhatt, Xian Qin, Michael Rehli, Patrizia Rizzu, Sugata Roy, Antti Sajantila, Shimon Sakaguchi, Hiroki Sato, Hironori Satoh, Suzana Savvi, Alka Saxena, Christian Schmidl, Claudio Schneider, Gundula Schulze‐Tanzil, Anita Schwegmann, Guojun Sheng, Jay W. Shin, Daisuke Sugiyama, Takaaki Sugiyama, Kim M. Summers, Naoko Takahashi, Jun Takai, Hiroshi Tanaka, Hideki Tatsukawa, Andru Tomoiu, Hiroo Toyoda, Marcvande Wetering, Linda Berg, Roberto Verardo, Dipti Vijayan, Christine A. Wells, Louise N. Winteringham, Ernst J. Wolvetang, Yoko Yamaguchi, Masayuki Yamamoto, Chiyo Yanagi-Mizuochi, Misako Yoneda, Yohei Yonekura, Peter G. Zhang, S. Zucchelli, Imad Abugessaisa, Peter Arner, Jayson Harshbarger, Atsushi Kondo, Timo Lassmann, Marina Lizio, Serkan Sahin, Thierry Sengstag, Jessica Severin, Hisashi Shimoji, Masanori Suzuki, Harukazu Suzuki, Jun Kawai, Naoto Kondo, Masayoshi Itoh, Carsten O. Daub, Takeya Kasukawa, Hideya Kawaji, Piero Carninci, Alistair R.R. Forrest, Yoshihide Hayashizaki
Software Mentions: 2
Published: about 9 years ago

10.1186/1745-7580-2-4

Cited by: 42
Author(s): Emily Wong, Lauren J. Young, Anthony T. Papenfuss, Katherine Belov
Software Mentions: 2
Published: almost 21 years ago

10.1016/j.isci.2020.101741

The PWWP2A Histone Deacetylase Complex Represses Intragenic Spurious Transcription Initiation in mESCs
Cited by: 8
Author(s): Guifeng Wei, Neil Brockdorff, Tianyi Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1186/1471-2164-15-619

Metabolic pathways for the whole community
Cited by: 51
Author(s): Niels W. Hanson, Kishori M. Konwar, Alyse K. Hawley, Tomer Altman, Peter D. Karp, Steven J. Hallam
Software Mentions: 2
Published: about 12 years ago

10.3390/life11040340

Cross-Validation of Next-Generation Sequencing Technologies for Diagnosis of Chromosomal Mosaicism and Segmental Aneuploidies in Preimplantation Embryos Model
Cited by: 6
Author(s): Anıl Biricik, Ettore Cotroneo, Maria Giulia Minasi, Pierfrancesco Greco, Sara Bono, Matteo Surdo, Federica Lecciso, Mariateresa Sessa, Francesco Fiorentino, Francesca Spinella, Ermanno Greco
Software Mentions: 2
Published: over 5 years ago

10.1186/gb-2006-7-s1-s9

Cited by: 59
Author(s): Jonathan Allen, William H. Majoros, Mihaela Pertea, Steven L. Salzberg
Software Mentions: 2
Published: almost 21 years ago

10.1186/gb-2008-9-12-r170

FitSNPs: highly differentially expressed genes are more likely to have variants associated with disease
Cited by: 75
Author(s): Rongrong Chen, Alex Morgan, Joel T. Dudley, Tarangini Deshpande, Li Li, Keiichi Kodama, An‐Jen Chiang, Atul J. Butte
Software Mentions: 2
Published: almost 19 years ago

10.1186/s12711-020-0528-9

pCADD: SNV prioritisation in Sus scrofa
Cited by: 16
Author(s): Christian Groß, Martijn F.L. Derks, Hendrik Jan Megens, Mirte Bosse, M.A.M. Groenen, Marcel J. T. Reinders, Dick de Ridder
Software Mentions: 2
Published: over 6 years ago

10.1534/genetics.115.185363

Novel Intronic RNA Structures Contribute to Maintenance of Phenotype in Saccharomyces cerevisiae
Cited by: 27
Author(s): Katarzyna B. Hooks, Samina Naseeb, Steven J. Parker, Sam Griffiths-Jones, Daniela Delneri
Software Mentions: 2
Published: over 10 years ago

10.1002/dvg.22963

Transcriptional regulation of the proto‐oncogeneZfp521by SPI1 (PU.1) and HOXC13
Cited by: 11
Author(s): Ming Yu, Salma Aldallal, Latifa Al‐Haj, Shiraj Panjwani, Akina S. McCartney, Sarah Edwards, Pooja Manjunath, Catherine Walker, Alexander Awgulewitsch, Kathryn E. Hentges
Software Mentions: 2
Published: about 10 years ago

10.1186/gb-2006-7-7-r58

Cited by: 22
Author(s): Matthew D. Wilkerson, Shannon D. Schlueter, Volker Brendel
Software Mentions: 2
Published: almost 21 years ago

10.3390/genes12060870

Age Prediction of Human Based on DNA Methylation by Blood Tissues
Cited by: 5
Author(s): Jiansheng Zhang, Hongli Fu, Yan Xu
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2164-14-84

An integrated approach to characterize transcription factor and microRNA regulatory networks involved in Schwann cell response to peripheral nerve injury
Cited by: 34
Author(s): Li‐Wei Chang, Andreu Viader, Nobish Varghese, Jacqueline E. Payton, Jeffrey Milbrandt, Rakesh Nagarajan
Software Mentions: 2
Published: over 13 years ago

10.3390/genes12081249

Proof of Gene Doping in a Mouse Model with a Human Erythropoietin Gene Transferred Using an Adenoviral Vector
Cited by: 7
Author(s): Takehito Sugasawa, Takuro Nakano, Shin‐ichiro Fujita, Yuki Matsumoto, Genki Ishihara, Kai Aoki, Koki Yanazawa, S. Ono, Shinsuke Tamai, Lev Manevich, Hiroshi Ueda, Noriyo Ishibashi, Kenshirou Tamai, Yasuharu Kanki, Yasuko Yoshida, Koichi Watanabe, Tohru Takemasa, Yasushi Kawakami, Kazuhiro Takekoshi
Software Mentions: 2
Published: about 5 years ago

10.1186/1475-2867-5-29

Epigenetic inactivation and aberrant transcription of CSMD1 in squamous cell carcinoma cell lines
Cited by: 29
Author(s): Toni M. Richter, Benton D. Tong, Steven B. Scholnick
Software Mentions: 2
Published: about 21 years ago

10.1186/s12915-019-0702-0

Genome sequencing of evolved aspergilli populations reveals robust genomes, transversions in A. flavus, and sexual aberrancy in non-homologous end-joining mutants
Cited by: 18
Author(s): Isidro Álvarez‐Escribano, Christoph Sasse, Jin Woo Bok, Hyunsoo Na, Mojgan Amirebrahimi, Anna Lipzen, Wendy Schackwitz, Joel Martin, Kerrie Barry, Gabriel Gutiérrez, Sara Cea-Sánchez, Ana T. Marcos, Igor V. Grigoriev, Nancy P. Keller, Gerhard H. Braus, David Cánovas
Software Mentions: 2
Published: almost 7 years ago

10.3390/genes12020221

Evaluation of OpenArray™ as a Genotyping Method for Forensic DNA Phenotyping and Human Identification
Cited by: 7
Author(s): Michele Reni, Giulio Puleri, Valeria Errichiello, L Manzo, Laura Luzzi, Saverio Potenza, Claudia Strafella, Cristina Peconi, Fabio Nicastro, Valerio Caputo, Emiliano Giardina
Software Mentions: 2
Published: over 5 years ago

10.3390/genes12091388

A Recurrent De Novo Terminal Duplication of 14q32 in Korean Siblings Associated with Developmental Delay and Intellectual Disability, Growth Retardation, Facial Dysmorphism, and Cerebral Infarction: A Case Report and Literature Review
Cited by: 2
Author(s): Ji Yoon Han, Joonhong Park
Software Mentions: 2
Published: about 5 years ago

10.1186/1471-2164-13-394

Convergent and divergent evolution of genomic imprinting in the marsupial Monodelphis domestica
Cited by: 23
Author(s): Radhika Das, Nathan Anderson, Mary Ellen Koran, Jennifer R. Weidman, Tarjei S. Mikkelsen, Michael Kamal, Susan K. Murphy, Kerstin Linblad-Toh, John M. Greally, Randy L. Jirtle
Software Mentions: 2
Published: about 14 years ago

10.18632/genesandcancer.113

Pathway analysis of bladder cancer genome-wide association study identifies novel pathways involved in bladder cancer development
Cited by: 12
Author(s): Meng Chen, Nathaniel Rothman, Yuanqing Ye, Jian Gu, Paul Scheet, Maosheng Huang, David W. Chang, Colin P.N. Dinney, Debra T. Silverman, Jonine D. Figueroa, Stephen J. Chanock, Xifeng Wu
Software Mentions: 2
Published: about 10 years ago

10.3389/fgene.2021.641620

Gene Expression Modification by an Autosomal Inversion Associated With Three Male Mating Morphs
Cited by: 8
Author(s): Jasmine Lopez Loveland, David B. Lank, Clemens Küpper
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-017-3650-5

Comparative and functional genomics of the Lactococcus lactis taxon; insights into evolution and niche adaptation
Cited by: 75
Author(s): Philip Kelleher, Francesca Bottacini, Jennifer Mahony, Kieran N. Kilcawley, Douwe van Sinderen
Software Mentions: 2
Published: over 9 years ago

10.3389/fgene.2017.00170

HOTAIR: A Promising Long Non-coding RNA with Potential Role in Breast Invasive Carcinoma
Cited by: 22
Author(s): Niloofar Avazpour, Mohammadreza Hajjari, Maryam Tahmasebi Birgani
Software Mentions: 2
Published: almost 9 years ago

10.1186/1471-2164-16-S8-S8

Conditional entropy in variation-adjusted windows detects selection signatures associated with expression quantitative trait loci (eQTLs)
Cited by: 3
Author(s): Samuel K. Handelman, Michał Seweryn, Ryan M. Smith, Katherine E. Hartmann, Daqing Wang, Maciej Pietrzak, Andrew D. Johnson, Andrzej Kloczkowski, Wolfgang Sadée
Software Mentions: 2
Published: over 11 years ago

10.3389/fgene.2019.01305

A Pretraining-Retraining Strategy of Deep Learning Improves Cell-Specific Enhancer Predictions
Cited by: 11
Author(s): Xiaohui Niu, Kun Yang, Ge Zhang, Zhiquan Yang, Xuehai Hu
Software Mentions: 2
Published: over 6 years ago

10.3389/fgene.2013.00209

A comprehensive promoter landscape identifies a novel promoter for CD133 in restricted tissues, cancers, and stem cells
Cited by: 9
Author(s): Ramakrishna Sompallae, Oliver Hofmann, Christopher A. Maher, Craig Gedye, Andreas Behren, Morana Vitezic, Carsten O. Daub, Sylvie Devalle, Otávia L. Caballero, Piero Carninci, Yoshihide Hayashizaki, Elizabeth R. Lawlor, Jonathan Cebon, Winston Hide
Software Mentions: 2
Published: almost 14 years ago

10.1038/s41416-020-0907-6

BRD4 promotes metastatic potential in oral squamous cell carcinoma through the epigenetic regulation of the MMP2 gene
Cited by: 12
Author(s): Takaya Yamamoto, Akiyuki Hirosue, Masafumi Nakamoto, Ryoji Yoshida, Junki Sakata, Yuichiro Matsuoka, Katsunobu Kawahara, Yuka Nagao, Masashi Nagata, Nobuhiro Takahashi, Akimitsu Hiraki, Masanori Shinohara, Mitsuyoshi Nakao, Noriko Saitoh, Hideki Nakayama
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-015-1737-4

Cell periphery-related proteins as major genomic targets behind the adaptive evolution of an industrial Saccharomyces cerevisiae strain to combined heat and hydrolysate stress
Cited by: 22
Author(s): Valeria Wallace-Salinas, Daniel P. Brink, Dag Ahrén, Marie-Françoise Gorwa-Grauslund
Software Mentions: 2
Published: about 11 years ago

10.1155/2014/730814

BLAT-Based Comparative Analysis for Transposable Elements: BLATCAT
Cited by: 0
Author(s): Sang-Bum Lee, Sumin Oh, Keunsoo Kang, Kyudong Han
Software Mentions: 2
Published: almost 13 years ago

10.3389/fgene.2013.00092

The Growing Importance of CNVs: New Insights for Detection and Clinical Interpretation
Cited by: 52
Author(s): Armand Valsesia, Aurélien Macé, Sébastien Jacquemont, Jacques S. Beckmann, Zoltán Kutalik
Software Mentions: 2
Published: almost 14 years ago

10.1186/s12864-016-3110-7

Short- and long-term effects of 56Fe irradiation on cognition and hippocampal DNA methylation and gene expression
Cited by: 47
Author(s): Soren Impey, Timothy Jopson, Carl Pelz, Amanuel Tafessu, Fatema Fareh, Damian G. Zuloaga, Tessa Marzulla, Lara Kirstie Riparip, Blair Stewart, Susanna Rosi, Mitchell S. Turker, Jacob Raber
Software Mentions: 2
Published: almost 10 years ago

10.3389/fgene.2019.01190

Whole Genome Resequencing Reveals Selection Signatures Associated With Important Traits in Ethiopian Indigenous Goat Populations
Cited by: 6
Author(s): Haile Berihulay, Yefang Li, Berihu Gebrekidan, Gebremedhin Gebreselassie, Xuexue Liu, Lin Jiang, Yue Ma
Software Mentions: 2
Published: almost 7 years ago

10.1186/gb-2010-11-3-r34

Global and unbiased detection of splice junctions from RNA-seq data
Cited by: 87
Author(s): Adam Ameur, Anna Wetterbom, Lars Feuk, Ulf Gyllensten
Software Mentions: 2
Published: almost 17 years ago

10.1155/2014/893501

AmalgamScope: Merging Annotations Data across the Human Genome
Cited by: 0
Author(s): Georgia Tsiliki, Konstantinos Tsaramirsis, Σοφία Κοσσίδα
Software Mentions: 2
Published: almost 13 years ago

10.1186/s12864-016-2389-8

Cascade: an RNA-seq visualization tool for cancer genomics
Cited by: 2
Author(s): Aaron R. Shifman, Radia Marie Johnson, Brian T. Wilhelm
Software Mentions: 2
Published: over 10 years ago

10.1186/1471-2164-14-477

Genome-wide identification of binding sites for NAC and YABBY transcription factors and co-regulated genes during soybean seedling development by ChIP-Seq and RNA-Seq
Cited by: 64
Author(s): Md. Shamimuzzaman, Lila O. Vodkin
Software Mentions: 2
Published: almost 14 years ago

10.3390/biology9070157

Role of B Cell Lymphoma 2 in the Regulation of Liver Fibrosis in miR-122 Knockout Mice
Cited by: 5
Author(s): Kun-Yu Teng, Juan M. Barajas, Peng Hu, Samson T. Jacob, Kalpana Ghoshal
Software Mentions: 2
Published: about 6 years ago

10.3390/biology1020370

Discovery of Single Nucleotide Polymorphisms in Complex Genomes Using SGSautoSNP
Cited by: 59
Author(s): Michał T. Lorenc, Satomi Hayashi, Jiri Stiller, S. Hong Lee, Sahana Manoli, Pradeep Ruperao, Paul Visendi, Paul J. Berkman, Kaitao Lai, Jacqueline Batley, David Edwards
Software Mentions: 2
Published: about 14 years ago

10.3390/biology10060500

Gene Expression Profiles Associated with Radio-Responsiveness in Locally Advanced Rectal Cancer
Cited by: 9
Author(s): Jeeyong Lee, Joshua Kwon, Dayeon Kim, Misun Park, Kwang‐Seok Kim, In-Hwa Bae, Hyunkyung Kim, Joonseog Kong, Younjoo Kim, Ui-Sup Shin, EunJu Kim
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-017-04642-4

Korean Variant Archive (KOVA): a reference database of genetic variations in the Korean population
Cited by: 56
Author(s): Sang Moon Lee, Jihae Seo, Jinman Park, Jae Yong Nam, Ahyoung Choi, Jason S. Ignatius, Robert Bjornson, Jong Hee Chae, In Jin Jang, Sanghyuk Lee, Woong-Yang Park, Daehyun Baek, Murim Choi
Software Mentions: 2
Published: over 9 years ago

10.3389/fgene.2020.533052

Discovery of Genomic Characteristics and Selection Signatures in Southern Chinese Local Cattle
Cited by: 12
Author(s): Yuqiang Liu, Lingyang Xu, Yang Liu, Guangshan Zhao, Junya Li, Dewu Liu, Yaokun Li
Software Mentions: 2
Published: almost 6 years ago

10.1186/s13293-017-0150-x

Sex chromosomes drive gene expression and regulatory dimorphisms in mouse embryonic stem cells
Cited by: 50
Author(s): Rachael J. Werner, Bryant M. Schultz, Jacklyn Huhn, Jaroslav Jelı́nek, Jozef Madžo, Nora Engel
Software Mentions: 2
Published: about 9 years ago

10.3389/fcell.2021.715674

Decreased m6A Modification of CD34/CD276(B7-H3) Leads to Immune Escape in Colon Cancer
Cited by: 7
Author(s): Yiran Zhou, Haodong Zhou, Jianlin Shi, Aoran Guan, Yankun Zhu, Zhen Hou, Ruhong Li
Software Mentions: 2
Published: about 5 years ago

10.3389/fcell.2021.650344

Genetic Screening Revealed Latent Keratoconus in Asymptomatic Individuals
Cited by: 6
Author(s): Shihao Chen, Xing-Yong Li, Jiajia Jin, Ren‐Juan Shen, Jian-Yang Mao, Feifei Cheng, Zhen‐Ji Chen, Emmanouela Linardaki, Stavroula Voulgaraki, Ioannis M. Aslanides, Zi‐Bing Jin
Software Mentions: 2
Published: over 5 years ago

10.1242/bio.011585

The canonical eIF4E isoform ofC. elegansregulates growth, embryogenesis, and germline sex-determination
Cited by: 8
Author(s): Richard S. Mangio, SarahBeth Votra, David Pruyne
Software Mentions: 2
Published: about 11 years ago

10.1186/1471-2105-11-611

SIDEKICK: Genomic data driven analysis and decision-making framework
Cited by: 4
Author(s): Mark Doderer, Kihoon Yoon, Kay A. Robbins
Software Mentions: 2
Published: almost 16 years ago

10.1186/s12864-019-6087-1

Α de novo 3.8-Mb inversion affecting the EDA and XIST genes in a heterozygous female calf with generalized hypohidrotic ectodermal dysplasia
Cited by: 5
Author(s): Clémentine Escouflaire, Emmanuelle Rebours, Mathieu Charles, Sébastien Orellana, Margarita Cano, Julie Rivière, Cécile Grohs, Hélène Hayes, Aurélien Capitan
Software Mentions: 2
Published: about 7 years ago

10.3389/fcvm.2020.00135

Studies in Zebrafish Demonstrate That CNNM2 and NT5C2 Are Most Likely the Causal Genes at the Blood Pressure-Associated Locus on Human Chromosome 10q24.32
Cited by: 10
Author(s): Krishan Kumar Vishnolia, Celine Hoene, Karim Tarhbalouti, Julian Revenstorff, Zouhair Aherrahrou, Jeanette Erdmann
Software Mentions: 2
Published: about 6 years ago

10.1186/1745-6150-5-67

Evolution of gene regulation of pluripotency - the case for wiki tracks at genome browsers
Cited by: 5
Author(s): Georg Fuellen, Stephan Struckmann
Software Mentions: 2
Published: almost 17 years ago

10.1186/s12859-014-0412-0

Mammalian transcriptional hotspots are enriched for tissue specific enhancers near cell type specific highly expressed genes and are predicted to act as transcriptional activator hubs
Cited by: 10
Author(s): Anagha Joshi
Software Mentions: 2
Published: almost 12 years ago

10.1093/bioinformatics/btt330

Automated design of paralogue ratio test assays for the accurate and rapid typing of copy number variation
Cited by: 9
Author(s): Colin Veal, Hang Xu, Katherine Reekie, Robert C. Free, Robert J. Hardwick, David G. McVey, Anthony J. Brookes, Edward J. Hollox, Chris J. Talbot
Software Mentions: 2
Published: over 13 years ago

10.3389/fcell.2021.682593

Epigenetic Reprogramming Mediated by Maternal Diet Rich in Omega-3 Fatty Acids Protects From Breast Cancer Development in F1 Offspring
Cited by: 13
Author(s): Ata Abbas, Theodore R. Witte, William L. Patterson, Johannes F. Fahrmann, Kai Guo, Junguk Hur, W. Elaine Hardman, Philippe Georgel
Software Mentions: 2
Published: over 5 years ago

10.1093/bioinformatics/bts382

REVEAL--visual eQTL analytics
Cited by: 0
Author(s): Günter Jäger, Florian Battke, Kay Nieselt
Software Mentions: 2
Published: about 14 years ago

10.1038/s41598-017-06351-4

Integrin α6β4 Upregulates Amphiregulin and Epiregulin through Base Excision Repair-Mediated DNA Demethylation and Promotes Genome-wide DNA Hypomethylation
Cited by: 9
Author(s): Brittany L. Carpenter, Jinpeng Liu, Lei Qi, Chi Wang, Kathleen L. O’Connor
Software Mentions: 2
Published: about 9 years ago

10.1096/fj.14-255729

Autocrine androgen action is essential for Leydig cell maturation and function, and protects against late‐onset Leydig cell apoptosis in both mice and men
Cited by: 72
Author(s): Laura O’Hara, Kerry J. McInnes, Ioannis Simitsidellis, Stephanie Morgan, Nina Atanassova, Jolanta Słowikowska-Hilczer, Krzysztof Kula, Maria Szarras‐Czapnik, Louise Milne, Rod T Mitchell, Lee B. Smith
Software Mentions: 2
Published: almost 12 years ago

10.12688/f1000research.2-288.v1

JSim, an open-source modeling system for data analysis
Cited by: 35
Author(s): Erik Butterworth, Bartholomew E. Jardine, Gary M. Raymond, Maxwell Lewis Neal, James B. Bassingthwaighte
Software Mentions: 2
Published: almost 13 years ago

10.1093/femsec/fiy217

Evidence for diversifying selection of genetic regions of encoding putative collagen-like host-adhesive fibers inPasteuria penetrans
Cited by: 6
Author(s): Arohi Srivastava, Sharad Mohan, Tim H. Mauchline, Keith Davies
Software Mentions: 2
Published: almost 8 years ago

10.1093/bioinformatics/btx007

ASCIIGenome: a command line genome browser for console terminals
Cited by: 3
Author(s): Dario Beraldi
Software Mentions: 2
Published: over 9 years ago

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