pypi: browser | Projects | Ecosyste.ms: Papers

10.1111/1751-7915.12135

Microbial strain collections and information
Cited by: 3
Author(s): Lawrence P. Wackett
Software Mentions: 1
Published: over 12 years ago

Open access to sequence: Browsing the Pichia pastoris genome
Cited by: 54
Author(s): Diethard Mattanovich, Nico Callewaert, Pierre Rouzé, Yao‐Cheng Lin, Alexandra B. Graf, Andréas Redl, Petra Tiels, Brigitte Gasser, Kristof De Schutter
Software Mentions: 1
Published: almost 18 years ago

10.1186/2042-5783-2-9

Bioinformatic identification of Mycobacterium tuberculosis proteins likely to target host cell mitochondria: virulence factors?
Cited by: 21
Author(s): María Maximina Bertha Moreno-Altamirano, Iris Selene Paredes-González, Clara Espitia, Mauricio Santiago-Maldonado, Rogelio Hernández-Pando, Francisco Javier Sánchez‐García
Software Mentions: 1
Published: almost 14 years ago

10.17912/micropub.biology.000339

Software Mentions: 1

10.1186/1759-8753-3-15

Cell type-specific termination of transcription by transposable element sequences
Cited by: 21
Author(s): Andrew B. Conley, I. King Jordan
Software Mentions: 1
Published: almost 15 years ago

10.1186/s13100-018-0135-2

Phylogenomic analysis reveals splicing as a mechanism of parallel evolution of non-canonical SVAs in hominine primates
Cited by: 6
Author(s): Annette Damert
Software Mentions: 1
Published: about 8 years ago

10.1186/s13100-020-00222-y

LINE-1 ORF1p does not determine substrate preference for human/orangutan SVA and gibbon LAVA
Cited by: 1
Author(s): Annette Damert
Software Mentions: 1
Published: over 6 years ago

10.1186/2040-2392-5-5

Identification of rare DNA sequence variants in high-risk autism families and their prevalence in a large case/control population
Cited by: 32
Author(s): Nori Matsunami, Charles H. Hensel, Lisa Baird, Jeff Stevens, Brith Otterud, Tami Leppert, Tena Varvil, Dexter Hadley, Joseph T. Glessner, Renata Pellegrino, Cecilia Kim, Kelly Thomas, Fengxiang Wang, F. George Otieno, Karen S. Ho, G. Bryce Christensen, Dongying Li, Rytis Prekeris, Christophe G Lambert, Hákon Hákonarson, M. Leppert
Software Mentions: 1
Published: almost 13 years ago

10.1186/s13229-017-0171-7

Critical region within 22q11.2 linked to higher rate of autism spectrum disorder
Cited by: 31
Author(s): Caitlin C. Clements, Tara L. Wenger, Alisa Zoltowski, Jennifer R. Bertollo, Judith S. Miller, Ashley de Marchena, Lauren Mitteer, John C. Carey, Benjamin E. Yerys, Elaine H. Zackai, Beverly S. Emanuel, Donna M. McDonald‐McGinn
Software Mentions: 1
Published: about 9 years ago

10.1186/2040-2392-4-8

Whole-genome sequencing in an autism multiplex family
Cited by: 73
Author(s): Lingling Shi, Xu Zhang, Ryan Golhar, F. George Otieno, Mingze He, Cuiping Hou, Cecilia Kim, Brendan J. Keating, Gholson J. Lyon, Kai Wang, Hákon Hákonarson
Software Mentions: 1
Published: over 13 years ago

10.1093/molbev/msv172

hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets: Fig. 1.
Cited by: 55
Author(s): Colin MacLean, Neil Chue Hong, James Prendergast
Software Mentions: 1
Published: over 11 years ago

10.1093/molbev/msv265

Comparative Genomics Identifies Epidermal Proteins Associated with the Evolution of the Turtle Shell
Cited by: 43
Author(s): Karin Brigit Holthaus, Bettina Strasser, Wolfgang Sipos, Heiko A. Schmidt, Veronika Mlitz, Supawadee Sukseree, Anton Weissenbacher, Erwin Tschachler, Lorenzo Alibardi, Leopold Eckhart
Software Mentions: 1
Published: almost 11 years ago

10.1186/s13041-020-00595-4

Identification of a novel Shank2 transcriptional variant in Shank2 knockout mouse model of autism spectrum disorder
Cited by: 8
Author(s): Yong Seok Lee, Nam Kyung Yu, Jeewan Chun, Jung Eun Yang, Chae Seok Lim, Hyopil Kim, Gaeun Park, Jin A Lee, Kyung-Min Lee, Bong Kiun Kaang, Jae Hyung Lee
Software Mentions: 1
Published: over 6 years ago

10.1186/1756-6606-4-14

Identification of a novel intronic enhancer responsible for the transcriptional regulation of musashi1 in neural stem/progenitor cells
Cited by: 23
Author(s): S. Kawase, Toshio Imai, Chikako Miyauchi-Hara, Kunio Yaguchi, Yoshinori Nishimoto, Shin Ichi Fukami, Yuji Matsuzaki, Atsushi Miyawaki, Shigeyoshi Itohara, Hideyuki Okano
Software Mentions: 1
Published: over 15 years ago

10.1186/s12943-020-01277-4

The PVT1 lncRNA is a novel epigenetic enhancer of MYC, and a promising risk-stratification biomarker in colorectal cancer
Cited by: 51
Author(s): Kunitoshi Shigeyasu, Shusuke Toden, Tomohiro Ozawa, Takatoshi Matsuyama, Takeshi Nagasaka, Toshiaki Ishikawa, Debashis Sahoo, Pradipta Ghosh, Hiroyuki Uetake, Toshiyoshi Fujiwara, Ajay Goel
Software Mentions: 1
Published: about 6 years ago

10.1186/1476-4598-13-120

A novel approach to identify driver genes involved in androgen-independent prostate cancer
Cited by: 44
Author(s): Ellyn N. Schinke, Victor M. Bii, Arun Kumar Nalla, Dustin T. Rae, Laura Tedrick, Gary G. Meadows, Grant D. Trobridge
Software Mentions: 1
Published: over 12 years ago

10.1016/j.molcel.2015.01.011

BRCA1 Recruitment to Transcriptional Pause Sites Is Required for R-Loop-Driven DNA Damage Repair
Cited by: 342
Author(s): Elodie Hatchi, Konstantina Skourti-Stathaki, Steffen Ventz, Luca Pinello, Angela Yen, Kinga Kamieniarz-Gdula, Stoil D. Dimitrov, Shailja Pathania, Kristine McKinney, Matthew L. Eaton, M Kellis, Sarah J. Hill, Giovanni Parmigiani, Nick J. Proudfoot, David M. Livingston
Software Mentions: 1
Published: almost 12 years ago

10.1007/s11010-021-04103-7

Evidence of synergism among three genetic variants in a patient with LMNA-related lipodystrophy and amyotrophic lateral sclerosis leading to a remarkable nuclear phenotype
Cited by: 3
Author(s): Kathryn Volkening, Sali M.K. Farhan, Jennifer L. Kao, Cheryl Leystra-Lantz, Lee Cyn Ang, Adam D. McIntyre, Jian Wang, Robert A. Hegele, Michael J. Strong
Software Mentions: 1
Published: over 5 years ago

10.1186/s40348-020-00102-8

Nup133 and ERα mediate the differential effects of hyperoxia-induced damage in male and female OPCs
Cited by: 7
Author(s): Donna Elizabeth Sunny, Elke Hammer, Sebastian Strempel, Christy Joseph, Himanshu Manchanda, Till Ittermann, Stephanie Hübner, Frank Ulrich Weiß, Uwe Völker, Matthias Heckmann
Software Mentions: 1
Published: about 6 years ago

10.1074/mcp.RA117.000155

Detection of Proteome Diversity Resulted from Alternative Splicing is Limited by Trypsin Cleavage Specificity
Cited by: 68
Author(s): Xiaojing Wang, Simona G. Codreanu, Bo Wen, Kai Li, Matthew Chambers, D.C. Liebler, Bing Zhang
Software Mentions: 1
Published: over 8 years ago

10.1186/s13039-016-0266-4

Genome wide array-CGH and qPCR analysis for the identification of genome defects in Williams’ syndrome patients in Saudi Arabia
Cited by: 5
Author(s): Ibtessam R Hussein, Afaf Magbooli, Etimad Huwait, Adeel G. Chaudhary, Rima S Bader, Mamdooh Gari, Fai T. Ashgan, Maha Mohsin Al-Quaiti, Adel M. Abuzenadah, Mohammed Al‐Qahtani
Software Mentions: 1
Published: over 10 years ago

10.1186/s13039-017-0311-y

Molecular cytogenetic characterisation of a novel de novo ring chromosome 6 involving a terminal 6p deletion and terminal 6q duplication in the different arms of the same chromosome
Cited by: 10
Author(s): Nikolai Paul Pace, Frideriki Maggouta, Melissa Twigden, Isabella Borg
Software Mentions: 1
Published: over 9 years ago

10.1186/s13039-021-00554-1

Terminal 10q26.12 deletion is associated with neonatal asymmetric crying facies syndrome: a case report and literature review
Cited by: 0
Author(s): Qinghong Li, Chunmei Sun, Jinzhen Guo, Zhang Wen, Liping Zhang
Software Mentions: 1
Published: over 5 years ago

10.1186/s13039-020-00510-5

Non-classical 1p36 deletion in a patient with Duane retraction syndrome: case report and literature review
Cited by: 2
Author(s): Emiy Yokoyama, Camilo E. Villarroel, Sinhué Diaz, Victoria del Castillo, Patricia Pérez-Vera, Consuelo Salas-Labadía, S Gómez, Reneé Barreda, Bertha Molina, Sara Frías
Software Mentions: 1
Published: about 6 years ago

10.1186/s13039-015-0153-4

High rates of submicroscopic aberrations in karyotypically normal acute lymphoblastic leukemia
Cited by: 16
Author(s): Moneeb A.K. Othman, Joana B. Melo, Isabel M. Carreira, Martina Rinčić, Anita Glaser, Beata Grygalewicz, Bernd Gruhn, Kathleen Wilhelm, Katharina Rittscher, Britta Meyer, Maria Luíza Macedo Silva, Terezinha de Jesus Marques Salles, Thomas Liehr
Software Mentions: 1
Published: over 11 years ago

10.1186/s13039-017-0308-6

Incidence of the 22q11.2 deletion in a large cohort of miscarriage samples
Cited by: 25
Author(s): Melissa Maisenbacher, Katrina Merrion, B. Pettersen, Michael Young, Kiyoung Paik, Sushma Iyengar, Stephanie Kareht, Styrmir Sigurjonsson, Zachary Demko, Kimberly Martin
Software Mentions: 1
Published: over 9 years ago

10.1186/1755-8166-1-11

Chromosomal assignment of canine THADA gene to CFA 10q25
Cited by: 3
Author(s): Jan T. Soller, Claudia Beuing, Hugo Murua Escobar, Susanne Winkler, Nicola Reimann-Berg, Norbert Drieschner, G. Dolf, C. Schelling, Ingo Nolte, Jörn Bullerdiek
Software Mentions: 1
Published: over 18 years ago

10.1186/s13039-014-0075-6

Investigation of selected genomic deletions and duplications in a cohort of 338 patients presenting with syndromic obesity by multiplex ligation-dependent probe amplification using synthetic probes
Cited by: 10
Author(s): Carla Sustek D’Angelo, Monica Castro Varela, Cláudia Irene Emílio de Castro, Chong Kim, Débora Romeo Bertola, Charles Marques Lourenço, Ana Beatriz Alvarez Perez, Célia Priszkulnik Koiffmann
Software Mentions: 1
Published: about 12 years ago

10.1186/1755-8166-4-3

Evidence-based genomic diagnosis characterized chromosomal and cryptic imbalances in 30 elderly patients with myelodysplastic syndrome and acute myeloid leukemia
Cited by: 35
Author(s): Renu Bajaj, Feifei Xu, Bixia Xiang, Katherine Wilcox, Autumn DiAdamo, Rachana A. Kumar, Alexandra Pietraszkiewicz, Stephanie Halene, Peining Li
Software Mentions: 1
Published: almost 16 years ago

10.3390/molecules23092191

ELF3, ELF5, EHF and SPDEF Transcription Factors in Tissue Homeostasis and Cancer
Cited by: 68
Author(s): Ian Y. Luk, Camilla M. Reehorst, John M. Mariadason
Software Mentions: 1
Published: about 8 years ago

10.3390/molecules191118721

Methanolic Extracts of Solieria robusta Inhibits Proliferation of Oral Cancer Ca9-22 Cells via Apoptosis and Oxidative Stress
Cited by: 36
Author(s): Y. Albert Yen, Ammad Ahmad Farooqı, Kun-Tzu Li, Ghazala Butt, Jen‐Yang Tang, Chang‐Yi Wu, Yuan-Bin Cheng, Ming‐Feng Hou, Hsueh‐Wei Chang
Software Mentions: 1
Published: almost 12 years ago

10.1002/mgg3.1086

Haploinsufficiency of the FOXA2 associated with a complex clinical phenotype
Cited by: 5
Author(s): Idris Mohammed, Sara Al‐Khawaga, David Bohanna, Abdusamea Shabani, Faiyaz Ahmad Khan, Donald R. Love, Zafar Nawaz, Khalid Hussain
Software Mentions: 1
Published: over 6 years ago

10.1002/mgg3.107

Diagnosis of an imprinted‐gene syndrome by a novel bioinformatics analysis of whole‐genome sequences from a family trio
Cited by: 13
Author(s): Dale L. Bodian, Benjamin D. Solomon, Alina Khromykh, Dzung C. Thach, Ramaswamy K. Iyer, Kathleen Link, Robin Baker, Rajiv Baveja, Joseph G. Vockley, John E. Niederhuber
Software Mentions: 1
Published: about 12 years ago

10.1002/mgg3.1300

Reclassification of genetic variants in children with long QT syndrome
Cited by: 13
Author(s): Dominik S. Westphal, Tobias Burkard, Alexander Moscu‐Gregor, Roman Gebauer, Gabriele Hessling, Cordula M. Wolf
Software Mentions: 1
Published: over 6 years ago

10.1002/mgg3.295

Pitfalls in genetic testing: a case of a SNP in primer-annealing region leading to allele dropout in BRCA1
Cited by: 10
Author(s): Felipe Cavalcanti Carneiro da Silva, Giovana Tardin Torrezan, Rafael Canfield Brianese, Raquel Stabellini
Software Mentions: 1
Published: over 9 years ago

10.1002/mgg3.61

<scp>CTSC</scp>and Papillon–Lefèvre syndrome: detection of recurrent mutations in<scp>H</scp>ungarian patients, a review of published variants and database update
Cited by: 47
Author(s): Nikoletta Nagy, Péter Vályi, Zsanett Csoma, Adrienn Sulák, Kornélia Tripolszki, Katalin Farkas, Ekaterine Paschali, Ferenc Papp, László Tóth, Beáta Fábos, Lajos Kemény, Katalin Nagy, Márta Széll
Software Mentions: 1
Published: almost 13 years ago

10.1007/s12035-018-1444-7

FOXG1 Regulates PRKAR2B Transcriptionally and Posttranscriptionally via miR200 in the Adult Hippocampus
Cited by: 18
Author(s): Stefan Weise, G Arumugam, Alejandro Villarreal, Pavankumar Videm, Stefanie Heidrich, Nils Nebel, Verónica I. Dumit, Farahnaz Sananbenesi, Viktoria Reimann, Madeline Craske, Oliver Schilling, Wolfgang R. Hess, André Fischer, Rolf Backofen, Tanja Vogel
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41380-018-0210-6

Identification of ADHD risk genes in extended pedigrees by combining linkage analysis and whole-exome sequencing
Cited by: 15
Author(s): Jordi Corominas, Marieke Klein, Tetyana Zayats, Olga Rivero, Georg C. Ziegler, Marc Pauper, Kornelia Neveling, Geert Poelmans, Charline Jansch, Evgeniy Svirin, Julia Geißler, Heike Weber, Andreas Reif, Alejandro Arias Vásquez, Tessel E. Galesloot, Lambertus A. Kiemeney, Jan K. Buitelaar, Josep Antoni Ramos-Quiroga, Bru Cormand, Marta Ribasés, Kristian Hveem, Maiken Elvestad Gabrielsen, Per Hoffmann, Sven Cichon, Jan Haavik, Stefan Johansson, Christian Jacob, Marcel Romanos, Barbara Franke, Klaus‐Peter Lesch
Software Mentions: 1
Published: about 8 years ago

10.1038/s41380-019-0561-7

The Netrin-1/DCC guidance system: dopamine pathway maturation and psychiatric disorders emerging in adolescence
Cited by: 53
Author(s): Daniel E. Vosberg, Marco Leyton, Cecilia Flores
Software Mentions: 1
Published: about 7 years ago

10.1038/s41380-019-0440-2

Circadian glucocorticoid oscillations preserve a population of adult hippocampal neural stem cells in the aging brain
Cited by: 48
Author(s): Marijn Schouten, Pascal Bielefeld, Laura García-Corzo, Emma M.J. Passchier, Simona Gradari, Tassilo Jungenitz, Meritxell Pons-Espinal, Elias Gebara, Soraya Martín‐Suárez, Paul J. Lucassen, Helga E. de Vries, José Luís Trejo, Stephan W. Schwarzacher, Davide De Pietri Tonelli, Nicolas Toni, Helena Mira, Juan M. Encinas, Carlos P. Fitzsimons
Software Mentions: 1
Published: over 7 years ago

10.1038/mp.2013.68

708 Common and 2010 rare DISC1 locus variants identified in 1542 subjects: analysis for association with psychiatric disorder and cognitive traits
Cited by: 52
Author(s): Pippa A. Thomson, Jennifer Parla, Allan F. McRae, Melissa Kramer, Kamna Ramakrishnan, Jingjing Yao, Dinesh C. Soares, Shane McCarthy, Stewart W. Morris, Lorna Cardone, Stephen P. Cass, Elena Ghiban, William Hennah, Kathryn Evans, Daniella Rebolini, J. Kirsty Millar, Sarah E. Harris, John M. Starr, Donald J. MacIntyre, Andrew M. McIntosh, James D. Watson, Ian J. Deary, Peter M. Visscher, Douglas Blackwood, W. Richard McCombie, David J. Porteous
Software Mentions: 1
Published: over 13 years ago

10.1038/mtm.2014.55

Pigtailed macaques as a model to study long-term safety of lentivirus vector-mediated gene therapy for hemoglobinopathies
Cited by: 11
Author(s): Hans–Peter Kiem, Paritha Arumugam, Christopher R. Burtner, Catherine Fox, Brian C. Beard, Phillip Dexheimer, Jennifer E. Adair, Punam Malik
Software Mentions: 1
Published: almost 13 years ago

10.1016/j.omto.2021.05.013

METTL3 increases cisplatin chemosensitivity of cervical cancer cells via downregulation of the activity of RAGE
Cited by: 16
Author(s): Ruyi Li, Yizuo Song, Xin Chen, Maoping Chu, Zhi-wei Wang, Xueqiong Zhu
Software Mentions: 1
Published: about 5 years ago

10.1186/s13567-016-0363-8

Chicken interferome: avian interferon-stimulated genes identified by microarray and RNA-seq of primary chick embryo fibroblasts treated with a chicken type I interferon (IFN-α)
Cited by: 38
Author(s): Efstathios S. Giotis, Rebecca Robey, Natalie G. Skinner, Christopher Tomlinson, Stephen Goodbourn, Michael A. Skinner
Software Mentions: 1
Published: over 10 years ago

10.1186/1743-422X-7-262

Genome-wide analysis of host-chromosome binding sites for Epstein-Barr Virus Nuclear Antigen 1 (EBNA1)
Cited by: 74
Author(s): Fang Lü, Priyankara Wikramasinghe, Julie Norseen, Kevin Tsai, Pu Wang, Louise C. Showe, Ramana V. Davuluri, Paul M. Lieberman
Software Mentions: 1
Published: about 16 years ago

10.1186/1743-422X-10-73

Cellular phosphoinositides and the maturation of bluetongue virus, a non-enveloped capsid virus
Cited by: 10
Author(s): Bishnupriya Bhattacharya, Polly Roy
Software Mentions: 1
Published: over 13 years ago

10.1186/s12985-018-0922-x

MicroRNA transcriptome analysis of porcine vital organ responses to immunosuppressive porcine cytomegalovirus infection
Cited by: 7
Author(s): Xiao Liu, Haoche Wei, Shan Liao, Jian‐Heng Ye, Ling Zhu, Zhinan Xu
Software Mentions: 1
Published: almost 9 years ago

10.1016/j.virol.2015.10.026

Rabbit CD200R binds host CD200 but not CD200-like proteins from poxviruses
Cited by: 10
Author(s): Munir Akkaya, L.S. Kwong, Erdem Akkaya, Deborah Hatherley, A. Neil Barclay
Software Mentions: 1
Published: almost 11 years ago

10.3390/v5030998

Discovering Host Genes Involved in the Infection by the Tomato Yellow Leaf Curl Virus Complex and in the Establishment of Resistance to the Virus Using Tobacco Rattle Virus-based Post Transcriptional Gene Silencing
Cited by: 37
Author(s): Henryk Czosnek, Assaf Eybishtz, Dagan Sade, Rena Gorovits, Iris Sobol, Eduardo R. Bejarano, Tábata Rosas-Díaz, Rosa Lozano‐Durán
Software Mentions: 1
Published: over 13 years ago

10.3390/v9040080

Protein-Coding Genes’ Retrocopies and Their Functions
Cited by: 56
Author(s): Magdalena Regina Kubiak, Izabela Makałowska
Software Mentions: 1
Published: over 9 years ago

10.3390/v9080210

Viral Ubiquitin Ligase Stimulates Selective Host MicroRNA Expression by Targeting ZEB Transcriptional Repressors
Cited by: 13
Author(s): Gabriel Lutz, Igor Jurak, Eui‐Tae Kim, Ju Youn Kim, Michael Hackenberg, Andrew M. Leader, Michelle L. Stoller, Donna M. Fekete, Matthew D. Weitzman, Donald M. Coen, Angus C. Wilson
Software Mentions: 1
Published: over 9 years ago

10.1186/s42492-019-0040-7

Painting image browser applying an associate-rule-aware multidimensional data visualization technique
Cited by: 3
Author(s): Ayaka Kaneko, Akiko Komatsu, Takayuki Itoh, Florence Ying Wang
Software Mentions: 1
Published: almost 7 years ago

10.12688/wellcomeopenres.15126.2

Variant calling on the GRCh38 assembly with the data from phase three of the 1000 Genomes Project
Cited by: 62
Author(s): Ernesto Lowy-Gallego, Susan Fairley, Xiangqun Zheng-Bradley, Magali Ruffier, Laura Clarke, Paul Flicek
Software Mentions: 1
Published: almost 7 years ago

10.3897/zookeys.150.2248

Data standards, sense and stability: Scratchpads, the ICZN and ZooBank
Cited by: 0
Author(s): Edward Baker, Ellinor Michel
Software Mentions: 1
Published: almost 15 years ago

10.1186/s40851-017-0071-x

An efficient system for homology-dependent targeted gene integration in medaka (Oryzias latipes)
Cited by: 29
Author(s): Yu Murakami, Satoshi Ansai, Akari Yonemura, Masato Kinoshita
Software Mentions: 1
Published: over 9 years ago

10.3390/pathogens10050552

Occurrence of Legionella spp. in Man-Made Water Sources: Isolates Distribution and Phylogenetic Characterization in the Emilia-Romagna Region
Cited by: 9
Author(s): Marta Mazzotta, Silvano Salaris, Maria Rosaria Pascale, Luna Girolamini, Sandra Cristino
Software Mentions: 1
Published: over 5 years ago

10.7717/peerj.7558

The sugarcane mitochondrial genome: assembly, phylogenetics and transcriptomics
Cited by: 13
Author(s): Dyfed Lloyd Evans, Thandekile Thandiwe Hlongwane, Suvarna Joshi, Diego Mauricio Riaño-Pachón
Software Mentions: 1
Published: about 7 years ago

10.7717/peerj.639

Associating disease-related genetic variants in intergenic regions to the genes they impact
Cited by: 22
Author(s): Geoff Macintyre, Antonio Jimeno-Yepes, Cheng Soon Ong, Karin Verspoor
Software Mentions: 1
Published: about 12 years ago

10.7717/peerj.10312

Evolutionary analysis of chloroplast tRNA of Gymnosperm revealed the novel structural variation and evolutionary aspect
Cited by: 4
Author(s): Tingting Zhang, Yi-Kun Hou, Ting Yang, Shu-Ya Zhang, Ming Yue, Jianni Liu, Zhong-Hu Li
Software Mentions: 1
Published: almost 6 years ago

10.1007/s11095-017-2130-6

Network Reconstruction Reveals that Valproic Acid Activates Neurogenic Transcriptional Programs in Adult Brain Following Traumatic Injury
Cited by: 24
Author(s): Gerald A. Higgins, Patrick E. Georgoff, Vahagn C. Nikolian, Ari Allyn-Feuer, Brian Pauls, Richard Higgins, Hasan E. Alam
Software Mentions: 1
Published: over 9 years ago

10.1098/rstb.2009.0219

Genome-wide scans for footprints of natural selection
Cited by: 294
Author(s): Tarás K. Oleksyk, Michael W. Smith, Stephen J. O’Brien
Software Mentions: 1
Published: almost 17 years ago

10.1098/rstb.2020.0157

MolluscDB: a genome and transcriptome database for molluscs
Cited by: 13
Author(s): Carlos Caurcel, Dominik R. Laetsch, Richard Challis, Sujai Kumar, Karim Gharbi, Mark Blaxter
Software Mentions: 1
Published: over 5 years ago

10.1111/pbi.13014

Molecular tools enabling pennycress (Thlaspi arvense) as a model plant and oilseed cash cover crop
Cited by: 70
Author(s): Michaela McGinn, Winthrop B. Phippen, Ratan Chopra, Sunil Bansal, Brice A. Jarvis, Mary E. Phippen, Kevin M. Dorn, Maliheh Esfahanian, Tara J. Nazarenus, Edgar B. Cahoon, Timothy P. Durrett, M. David Marks, John C. Sedbrook
Software Mentions: 1
Published: about 8 years ago

10.1007/s00299-014-1666-8

OsABCG15 encodes a membrane protein that plays an important role in anther cuticle and pollen exine formation in rice
Cited by: 49
Author(s): Lina Wu, Yusheng Guan, Zigang Wu, Kun Yang, Jun Lv, Richard Converse, Huang Yuanxin, Jin-Xiong MaoJ. Mao, Yong Zhao, Zhongwei Wang, Min HengQi, Dongyang Kan, Yi Zhang
Software Mentions: 1
Published: about 12 years ago

10.1002/pld3.8

CoGe LoadExp+: A web‐based suite that integrates next‐generation sequencing data analysis workflows and visualization
Cited by: 20
Author(s): Jeffrey W. Grover, Matthew Bomhoff, Sean Davey, Brian D. Gregory, Rebecca A. Mosher, Eric Lyons
Software Mentions: 1
Published: over 9 years ago

10.3390/plants8100406

The Plant NF-Y DNA Matrix In Vitro and In Vivo
Cited by: 6
Author(s): Nerina Gnesutta, Matteo Chiara, Andrea Bernardini, Matteo Balestra, David S. Horner, Roberto Mantovani
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pbio.3000684

Precise genomic mapping of 5-hydroxymethylcytosine via covalent tether-directed sequencing
Cited by: 12
Author(s): Povilas Gibas, Milda Narmontė, Zdislav Staševskij, Juozas Gordevičius, Saulius Klimašauskas, Edita Kriukienė
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pbio.3001045

Signatures of host–pathogen evolutionary conflict reveal MISTR—A conserved MItochondrial STress Response network
Cited by: 17
Author(s): Mahsa Sorouri, Tyron Chang, Palmy R. Jesudhasan, Chelsea Pinkham, Nels C. Elde, Dustin C. Hancks
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pbio.2003067

Spliced integrated retrotransposed element (SpIRE) formation in the human genome
Cited by: 10
Author(s): Peter A. Larson, John B. Moldovan, Naveen Jasti, Jeffrey M. Kidd, Christine R. Beck, John V. Moran
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pbio.1001890

A Novel Nodal Enhancer Dependent on Pluripotency Factors and Smad2/3 Signaling Conditions a Regulatory Switch During Epiblast Maturation
Cited by: 42
Author(s): Costis Papanayotou, Ataaillah Benhaddou, Anne Camus, Aitana Perea-Gómez, Alice Jouneau, Valérie Mezger, Francina Langa, Sascha Ott, Délara Sabéran‐Djoneidi, Jérôme Collignon
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pbio.2005595

Heterochromatin delays CRISPR-Cas9 mutagenesis but does not influence the outcome of mutagenic DNA repair
Cited by: 71
Author(s): Eirini M. Kallimasioti-Pazi, Keerthi Thelakkad Chathoth, Gillian C.A. Taylor, Alison Meynert, Tracy Ballinger, Martijn J. E. Kelder, Sébastien Lalevée, Ildem Sanli, Robert Feil, Andrew J. Wood
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pcbi.1000988

Systematic Inference of Copy-Number Genotypes from Personal Genome Sequencing Data Reveals Extensive Olfactory Receptor Gene Content Diversity
Cited by: 58
Author(s): Sebastian M. Waszak, Yehudit Hasin, Thomas Zichner, Tsviya Olender, Ifat Keydar, Miriam Khen, Adrian M. Stütz, Andreas Schlattl, Doron Lancet, Jan O. Korbel
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pcbi.1003951

The HIV Mutation Browser: A Resource for Human Immunodeficiency Virus Mutagenesis and Polymorphism Data
Cited by: 24
Author(s): Norman E. Davey, Venkata Satagopam, Salvador Santiago-Mozos, Carlos Villacorta-Martín, Tanmay A. M. Bharat, Reinhard Schneider, John Briggs
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pcbi.1001020

Assessing Computational Methods of Cis-Regulatory Module Prediction
Cited by: 69
Author(s): Jing Su, Sarah A. Teichmann, Thomas A. Down
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pcbi.0030137

Evolutionary History of Mammalian Transposons Determined by Genome-Wide Defragmentation
Cited by: 109
Author(s): Joti Giordano, Yongchao Ge, Yevgeniy Gelfand, György Abrusán, Gary Benson, Peter E. Warburton
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pcbi.1003075

Computational Assessment of the Cooperativity between RNA Binding Proteins and MicroRNAs in Transcript Decay
Cited by: 30
Author(s): Peng Jiang, Mona Singh, Hilary A. Coller
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pcbi.0040038

Modeling an Evolutionary Conserved Circadian Cis-Element
Cited by: 30
Author(s): Éric R. Paquet, Guillaume Rey, Félix Naef
Software Mentions: 1
Published: over 18 years ago

10.1371/journal.pgen.1008268

The Airn lncRNA does not require any DNA elements within its locus to silence distant imprinted genes
Cited by: 34
Author(s): Daniel Andergassen, Markus Muckenhuber, Philipp C. Bammer, Tomasz M. Kuliński, Hans-Christian Theussl, Takahiko Shimizu, Josef Penninger, Florian M. Pauler, Quanah J. Hudson
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pgen.1004343

Transcriptional Control of Steroid Biosynthesis Genes in the Drosophila Prothoracic Gland by Ventral Veins Lacking and Knirps
Cited by: 45
Author(s): E. Thomas Danielsen, Morten E. Moeller, Elad Dorry, Tatsuya Komura-Kawa, Yoshinori Fujimoto, Jesper T. Troelsen, Rachel Herder, Michael B. O’Connor, Ryusuke Niwa, Kim Rewitz
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pgen.1000867

Association of the OCA2 Polymorphism His615Arg with Melanin Content in East Asian Populations: Further Evidence of Convergent Evolution of Skin Pigmentation
Cited by: 110
Author(s): Melissa Edwards, Abigail W. Bigham, Jinze Tan, Shilin Li, Agnes Gozdzik, Kelley Ross, Jin Li, Esteban J. Parra
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pgen.1002388

Identification of a Genomic Reservoir for New TRIM Genes in Primate Genomes
Cited by: 98
Author(s): Kyudong Han, Dianne I. Lou, Sara L. Sawyer
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pgen.1006380

Coordinately Co-opted Multiple Transposable Elements Constitute an Enhancer for wnt5a Expression in the Mammalian Secondary Palate
Cited by: 45
Author(s): Hidenori Nishihara, Naoki Kobayashi, Chiharu Kimura-Yoshida, Kuo Yan, Olga Bormuth, Qiong Ding, Akiko Nakanishi, Takeshi Sasaki, Mika Hirakawa, Kenta Sumiyama, Yasuhide Furuta, Victor Tarabykin, Isao Matsuo, Norihiro Okada
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pgen.1000193

Novel Mutations in TARDBP (TDP-43) in Patients with Familial Amyotrophic Lateral Sclerosis
Cited by: 405
Author(s): Nicola J. Rutherford, Yongjie Zhang, Matt Baker, Jennifer Gass, NiCole A. Finch, Yafei Xu, Heather Stewart, Brendan J. Kelley, Karen M. Kuntz, Richard Crook, Jemeen Sreedharan, Caroline Vance, Eric J. Sorenson, Carol F. Lippa, Eileen H. Bigio, Daniel H. Geschwind, David S. Knopman, Hiroshi Mitsumoto, Ronald C. Petersen, Neil R. Cashman, Mike Hutton, Christopher E. Shaw, Kevin B. Boylan, Bradley F. Boeve, Neill R. Graff‐Radford, Zbigniew K. Wszołek, Richard J. Caselli, Dennis W. Dickson, Ian R. Mackenzie, Leonard Petrucelli, Rosa Rademakers
Software Mentions: 1
Published: about 18 years ago

10.1371/journal.pgen.0030020

A Screen for Retrotransposed Imprinted Genes Reveals an Association between X Chromosome Homology and Maternal Germ-Line Methylation
Cited by: 108
Author(s): Andrew J. Wood, Roland G. Roberts, David Gabriel Monk, Gudrun E. Moore, Reiner Schulz, Rebecca J. Oakey
Software Mentions: 1
Published: almost 20 years ago

10.1371/journal.pgen.0030090

Localizing Recent Adaptive Evolution in the Human Genome
Cited by: 456
Author(s): Scott Williamson, Melissa J. Hubisz, Andrew G. Clark, Bret A. Payseur, Carlos D. Bustamante, Rasmus Nielsen
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pgen.1002882

Genetics and Regulatory Impact of Alternative Polyadenylation in Human B-Lymphoblastoid Cells
Cited by: 48
Author(s): Oh Kyu Yoon, Tiffany Y. Hsu, Joo Hyun Im, Rachel B. Brem
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pgen.1002396

Targeted Proteolysis of Plectin Isoform 1a Accounts for Hemidesmosome Dysfunction in Mice Mimicking the Dominant Skin Blistering Disease EBS-Ogna
Cited by: 56
Author(s): Gernot Walko, Nevena Vukasinovic, Karin Groß, Ilse Fischer, Sabrina Sibitz, Peter Fuchs, Siegfried Reipert, Ute Jungwirth, Walter Berger, Ulrich Salzer, Oliviero Carugo, Maria J. Castañón, Gerhard Wiche
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pgen.1003504

The Majority of Primate-Specific Regulatory Sequences Are Derived from Transposable Elements
Cited by: 290
Author(s): Pierre-Étienne Jacques, Justin Jeyakani, Guillaume Bourque
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pgen.1000195

Missense Mutation in Exon 2 of SLC36A1 Responsible for Champagne Dilution in Horses
Cited by: 53
Author(s): Deborah Cook, Samantha A. Brooks, Rebecca R. Bellone, Ernest Bailey
Software Mentions: 1
Published: about 18 years ago

10.1371/journal.pgen.0030086

Arabidopsis TFL2/LHP1 Specifically Associates with Genes Marked by Trimethylation of Histone H3 Lysine 27
Cited by: 538
Author(s): Franziska Turck, François Roudier, Sara Farrona, Marie‐Laure Martin‐Magniette, Elodie Guillaume, Nicolas Buisine, Séverine Gagnot, Robert A. Martienssen, George Coupland, Vincent Colot
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pgen.1005451

Strong Selective Sweeps on the X Chromosome in the Human-Chimpanzee Ancestor Explain Its Low Divergence
Cited by: 55
Author(s): Julien Y. Dutheil, Kasper Munch, Kiwoong Nam, Thomas Mailund, Mikkel H. Schierup
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1006751

Semaphorin-1a prevents Drosophila olfactory projection neuron dendrites from mis-targeting into select antennal lobe regions
Cited by: 8
Author(s): Hung‐Chang Shen, Sao-Yu Chu, Tsai-Chi Hsu, Chun-Han Wang, I-Ya Lin, Hung–Hsiang Yu
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pgen.1004933

hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells
Cited by: 61
Author(s): Peter J. Thompson, Vered Dulberg, Kyung Mee Moon, Leonard J. Foster, Carol Chen, Mehdi Karimi, Matthew C. Lorincz
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pgen.1004958

Tissue-Specific Effects of Genetic and Epigenetic Variation on Gene Regulation and Splicing
Cited by: 180
Author(s): María Gutiérrez‐Arcelus, Halit Ongen, Tuuli Lappalainen, Stephen B. Montgomery, Alfonso Buil, Alisa Yurovsky, Julien Bryois, Ismaël Padioleau, Luciana Romano, Alexandra Planchon, Emilie Falconnet, Deborah Bielser, Maryline Gagnebin, Thomas Giger, Christelle Borel, Audrey Letourneau, Periklis Makrythanasis, Michel Guipponi, Corinne Gehrig, Stylianos E. Antonarakis, Emmanouil T. Dermitzakis
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pgen.1003895

ALS-Associated FUS Mutations Result in Compromised FUS Alternative Splicing and Autoregulation
Cited by: 160
Author(s): Yueqin Zhou, Songyan Liu, Guodong Liu, Arzu Öztürk, Geoffrey Hicks
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pgen.0030127

Divergent Evolution of Human p53 Binding Sites: Cell Cycle Versus Apoptosis
Cited by: 93
Author(s): Monica M. Horvath, Xuting Wang, Michael A. Resnick, Douglas A. Bell
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pgen.1000522

Disease-Causing 7.4 kb Cis-Regulatory Deletion Disrupting Conserved Non-Coding Sequences and Their Interaction with the FOXL2 Promotor: Implications for Mutation Screening
Cited by: 83
Author(s): Barbara D′haene, Catia Attanasio, Diane Beysen, Josée Dostie, Edmond G. Lemire, Philippe Bouchard, Michael Field, K. Jones, Birgit Lorenz, Björn Menten, Karen Buysse, Filip Pattyn, Marc Friedli, Catherine Ucla, Colette Rossier, Carine Wyss, Frank Speleman, Anne De Paepe, Job Dekker, Stylianos E. Antonarakis, Elfride De Baere
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pgen.1003489

Female Bias in Rhox6 and 9 Regulation by the Histone Demethylase KDM6A
Cited by: 40
Author(s): Joel B. Berletch, Xinxian Deng, Di Kim Nguyen, Christine M. Distèche
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pgen.1004257

A LINE-1 Insertion in DLX6 Is Responsible for Cleft Palate and Mandibular Abnormalities in a Canine Model of Pierre Robin Sequence
Cited by: 49
Author(s): Zena Wolf, Elizabeth J. Leslie, Boaz Arzi, Kartika Jayashankar, Nili Karmi, Zhong‐Lin Jia, Douglas J. Rowland, Amy Young, Noa Safra, Sliskovic Saundra, Jeffrey C. Murray, Claire M. Wade, Danika L. Bannasch
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pgen.1004498

Microsatellite Interruptions Stabilize Primate Genomes and Exist as Population-Specific Single Nucleotide Polymorphisms within Individual Human Genomes
Cited by: 26
Author(s): Guruprasad Ananda, Suzanne E. Hile, Amanda Breski, Yanli Wang, Yogeshwar D. Kelkar, Kateryna D. Makova, Kristin A. Eckert
Software Mentions: 1
Published: over 12 years ago

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