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  1. Hypothyroidism is a common complex endocrinopathy that typically has an autoimmune etiology, and it affects both humans and dogs. Genetic and environmental factors are both known to play important roles in the...

    Authors: Matteo Bianchi, Nima Rafati, Åsa Karlsson, Eva Murén, Carl-Johan Rubin, Katarina Sundberg, Göran Andersson, Olle Kämpe, Åke Hedhammar, Kerstin Lindblad-Toh and Gerli Rosengren Pielberg

    Citation: BMC Genomics 2020 21:307

    Content type: Research article

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  2. The Weddell Seal (Leptonychotes weddelli) represents a remarkable example of adaptation to diving among marine mammals. This species is capable of diving > 900 m deep and remaining underwater for more than 60 min...

    Authors: Luca Penso-Dolfin, Wilfried Haerty, Allyson Hindle and Federica Di Palma

    Citation: BMC Genomics 2020 21:303

    Content type: Research article

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  3. Piwi-interacting RNAs (piRNAs) have been linked to epigenetic and post-transcriptional gene silencing of retrotransposons in germ line cells, particularly in spermatogenesis. Exosomes are important mediators o...

    Authors: Bo Zhang, Na Zhao, Lei Jia, Jinyuan Che, Xiaoxu He, Kefeng Liu and Baolong Bao

    Citation: BMC Genomics 2020 21:302

    Content type: Research article

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  4. Animal coloration is usually an adaptive attribute, under strong local selection pressures and often diversified among species or populations. The strawberry poison frog (Oophaga pumilio) shows an impressive arra...

    Authors: Ariel Rodríguez, Nicholas I. Mundy, Roberto Ibáñez and Heike Pröhl

    Citation: BMC Genomics 2020 21:301

    Content type: Research article

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  5. Low temperatures decrease the capacity for biomass production and lead to growth retardation up to irreversible cellular damage in modern maize cultivars. European flint landraces are an untapped genetic resou...

    Authors: Felix P. Frey, Marion Pitz, Chris-Carolin Schön and Frank Hochholdinger

    Citation: BMC Genomics 2020 21:300

    Content type: Research article

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  6. Walnut kernels contain a large amount of unsaturated fatty acids, such as linoleic acid and linolenic acid, which are essential fatty acids for humans and have important effects on growth and health. The main ...

    Authors: Kai Liu, Shugang Zhao, Shuang Wang, Hongxia Wang and Zhihua Zhang

    Citation: BMC Genomics 2020 21:299

    Content type: Research article

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  7. Interest in studying the spatial distribution of gene expression in tissues is rapidly increasing. Spatial Transcriptomics is a novel sequencing-based technology that generates high-throughput information on t...

    Authors: Emelie Berglund, Sami Saarenpää, Anders Jemt, Joel Gruselius, Ludvig Larsson, Ludvig Bergenstråhle, Joakim Lundeberg and Stefania Giacomello

    Citation: BMC Genomics 2020 21:298

    Content type: Methodology article

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  8. Opportunistic pathogens are important for clinical practice as they often cause antibiotic-resistant infections. However, little is documented for many emerging opportunistic pathogens and their biological cha...

    Authors: Zhao Zhang, Daixi Li, Xing Shi, Yao Zhai, Yatao Guo, Yali Zheng, Lili Zhao, Yukun He, Yusheng Chen, Zhanwei Wang, Jianrong Su, Yu Kang and Zhancheng Gao

    Citation: BMC Genomics 2020 21:297

    Content type: Research article

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  9. Pseudomonas syringae is an important plant pathogen, which could adapt many different environmental conditions. Under the nutrient-limited and other stress conditions, P. syringae produces nucleotide signal molec...

    Authors: Jun Liu, Menghao Yu, Tiyakhon Chatnaparat, Jae Hoon Lee, Yanli Tian, Baishi Hu and Youfu Zhao

    Citation: BMC Genomics 2020 21:296

    Content type: Research article

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  10. Lycium barbarum and L. ruthenicum have been used as traditional medicinal plants in China and other Asian counties for centuries. However, the molecular mechanisms underlying fruit development and ripening, as we...

    Authors: Cuiping Wang, Yan Dong, Lizhen Zhu, Libin Wang, Li Yan, Mengze Wang, Qiang Zhu, Xiongxiong Nan, Yonghua Li and Jian Li

    Citation: BMC Genomics 2020 21:295

    Content type: Research article

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  11. Improving yield and yield-related traits is the crucial goal in breeding programmes of cereals. Meta-QTL (MQTL) analysis discovers the most stable QTLs regardless of populations genetic background and field tr...

    Authors: Bahman Khahani, Elahe Tavakol, Vahid Shariati and Fabio Fornara

    Citation: BMC Genomics 2020 21:294

    Content type: Research article

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  12. Copy number variation is an important class of genomic variation that has been reported in 75% of the human genome. However, it is underreported in African populations. Copy number variants (CNVs) could have i...

    Authors: Oscar A. Nyangiri, Harry Noyes, Julius Mulindwa, Hamidou Ilboudo, Justin Windingoudi Kabore, Bernardin Ahouty, Mathurin Koffi, Olivier Fataki Asina, Dieudonne Mumba, Elvis Ofon, Gustave Simo, Magambo Phillip Kimuda, John Enyaru, Vincent Pius Alibu, Kelita Kamoto, John Chisi…

    Citation: BMC Genomics 2020 21:289

    Content type: Research article

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  13. The draft genome assemblies produced by new sequencing technologies present important challenges for automatic gene prediction pipelines, leading to less accurate gene models. New benchmark methods are needed ...

    Authors: Nicolas Scalzitti, Anne Jeannin-Girardon, Pierre Collet, Olivier Poch and Julie D. Thompson

    Citation: BMC Genomics 2020 21:293

    Content type: Research article

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  14. Improving feed efficiency is one of the important breeding targets for poultry industry. The aim of current study was to investigate the breast muscle transcriptome data of native chickens divergent for feed e...

    Authors: Lei Yang, Tingting He, Fengliang Xiong, Xianzhen Chen, Xinfeng Fan, Sihua Jin and Zhaoyu Geng

    Citation: BMC Genomics 2020 21:292

    Content type: Research article

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  15. Jatropha curcas, a tropical shrub, is a promising biofuel crop, which produces seeds with high content of oil and protein. To better understand the maturation process of J. curcas seeds and to improve its agronom...

    Authors: Fatemeh Maghuly, Tamás Deák, Klemens Vierlinger, Stephan Pabinger, Hakim Tafer and Margit Laimer

    Citation: BMC Genomics 2020 21:290

    Content type: Research article

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  16. Advances in sequencing technologies have led to the release of reference genomes and annotations for multiple individuals within more well-studied systems. While each of these new genome assemblies shares sign...

    Authors: Patrick J. Monnahan, Jean-Michel Michno, Christine O’Connor, Alex B. Brohammer, Nathan M. Springer, Suzanne E. McGaugh and Candice N. Hirsch

    Citation: BMC Genomics 2020 21:281

    Content type: Methodology article

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  17. The family of NAC proteins (NAM, ATAF1/2, and CUC2) represent a class of large plant-specific transcription factors. However, identification and functional surveys of NAC genes of tomato (Solanum lycopersicum) re...

    Authors: Jian Feng Jin, Zhan Qi Wang, Qi Yu He, Jia Yi Wang, Peng Fei Li, Ji Ming Xu, Shao Jian Zheng, Wei Fan and Jian Li Yang

    Citation: BMC Genomics 2020 21:288

    Content type: Research article

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  18. Recent studies have suggested that the gut microbiota is altered in children with juvenile idiopathic arthritis (JIA). However, age, sex, and body mass index (BMI) were not matched in the previous studies, and...

    Authors: Xubo Qian, Yong-Xin Liu, Xiaohong Ye, Wenjie Zheng, Shaoxia Lv, Miaojun Mo, Jinjing Lin, Wenqin Wang, Weihan Wang, Xianning Zhang and Meiping Lu

    Citation: BMC Genomics 2020 21:286

    Content type: Research article

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  19. Shigella is a Gram-negative facultative intracellular bacterium that causes bacillary dysentery in humans. Shigella invades cells of the colonic mucosa owing to its virulence plasmid-encoded Type 3 Secretion Syst...

    Authors: Ramón Cervantes-Rivera, Sophie Tronnet and Andrea Puhar

    Citation: BMC Genomics 2020 21:285

    Content type: Research article

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  20. Ascorbic acid (Vitamin C, AsA) is an antioxidant metabolite involved in plant development and environmental stimuli. AsA biosynthesis has been well studied in plants, and MIOX is a critical enzyme in plants As...

    Authors: Shoaib Munir, Muhammad Ali Mumtaz, John Kojo Ahiakpa, Genzhong Liu, Weifang Chen, Guolin Zhou, Wei Zheng, Zhibiao Ye and Yuyang Zhang

    Citation: BMC Genomics 2020 21:284

    Content type: Research article

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  21. Histological grade (HG) is commonly adopted as a prognostic factor for ER-positive breast cancer patients. However, HG evaluation methods, such as the pathological Nottingham grading system, are highly subject...

    Authors: Jing Li, Wenbin Jiang, Qirui Liang, Guanghao Liu, Yupeng Dai, Hailong Zheng, Jing Yang, Hao Cai and Guo Zheng

    Citation: BMC Genomics 2020 21:283

    Content type: Research article

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  22. Graph-based reference genomes have become popular as they allow read mapping and follow-up analyses in settings where the exact haplotypes underlying a high-throughput sequencing experiment are not precisely k...

    Authors: Ivar Grytten, Knut D. Rand, Alexander J. Nederbragt and Geir K. Sandve

    Citation: BMC Genomics 2020 21:282

    Content type: Methodology Article

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  23. Phytophthora root rot (PRR) caused by Phytophthora sojae (P. sojae) is one of the most serious limitations to soybean production worldwide. The identification of resistance gene(s) and their incorporation into el...

    Authors: Bingzhi Jiang, Yanbo Cheng, Zhandong Cai, Mu Li, Ze Jiang, Ruirui Ma, Yeshan Yuan, Qiuju Xia and Hai Nian

    Citation: BMC Genomics 2020 21:280

    Content type: Research article

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  24. The apicomplexan parasite Theileria parva causes a livestock disease called East coast fever (ECF), with millions of animals at risk in sub-Saharan East and Southern Africa, the geographic distribution of T. parv...

    Authors: Kyle Tretina, Roger Pelle, Joshua Orvis, Hanzel T. Gotia, Olukemi O. Ifeonu, Priti Kumari, Nicholas C. Palmateer, Shaikh B. A. Iqbal, Lindsay M. Fry, Vishvanath M. Nene, Claudia A. Daubenberger, Richard P. Bishop and Joana C. Silva

    Citation: BMC Genomics 2020 21:279

    Content type: Research article

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  25. Scatophagus argus is a popular farmed fish in several countries of Southeast Asia, including China. Although S. argus has a highly promising economic value, a significant lag of breeding research severely obstruc...

    Authors: Wei Yang, Yaorong Wang, Dongneng Jiang, Changxu Tian, Chunhua Zhu, Guangli Li and Huapu Chen

    Citation: BMC Genomics 2020 21:278

    Content type: Research article

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  26. Spermatogenesis is the process by which germ cells develop into spermatozoa in the testis. Sperm protamines are small, arginine-rich nuclear proteins which replace somatic histones during spermatogenesis, allo...

    Authors: Christian D. Powell, Daniel C. Kirchoff, Jason E. DeRouchey and Hunter N. B. Moseley

    Citation: BMC Genomics 2020 21:277

    Content type: Research Article

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  27. DNA binding with one finger (Dof) transcription factors play important roles in plant growth and abiotic stress responses. Although genome-wide identification and analysis of the DOF transcription factor famil...

    Authors: Yue Liu, Nannan Liu, Xiong Deng, Dongmiao Liu, Mengfei Li, Dada Cui, Yingkao Hu and Yueming Yan

    Citation: BMC Genomics 2020 21:276

    Content type: Research article

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  28. Phytopathogens secreted effectors during host colonization to suppress or trigger plant immunity. Identification of new effectors is one of the research focuses in recent years. There is only a limited knowled...

    Authors: Shixue Zhao, Bang An, Yanhua Guo, Xingrong Hou, Hongli Luo, Chaozu He and Qiannan Wang

    Citation: BMC Genomics 2020 21:275

    Content type: Research article

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  29. The common marmoset (Callithrix jacchus) is one of the most studied primate model organisms. However, the marmoset genomes available in the public databases are highly fragmented and filled with sequence gaps, hi...

    Authors: Vasanthan Jayakumar, Hiromi Ishii, Misato Seki, Wakako Kumita, Takashi Inoue, Sumitaka Hase, Kengo Sato, Hideyuki Okano, Erika Sasaki and Yasubumi Sakakibara

    Citation: BMC Genomics 2020 21(Suppl 3):243

    Content type: Research

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    This article is part of a Supplement: Volume 21 Supplement 3

  30. DNA methylation is a crucial epigenomic mechanism in various biological processes. Using whole-genome bisulfite sequencing (WGBS) technology, methylated cytosine sites can be revealed at the single nucleotide ...

    Authors: Sheng-Yao Su, I-Hsuan Lu, Wen-Chih Cheng, Wei-Chun Chung, Pao-Yang Chen, Jan-Ming Ho, Shu-Hwa Chen and Chung-Yen Lin

    Citation: BMC Genomics 2020 21(Suppl 3):163

    Content type: Software

    Published on:

    This article is part of a Supplement: Volume 21 Supplement 3

  31. Most eukaryotic genes produce different transcripts of multiple isoforms by inclusion or exclusion of particular exons. The isoforms of a gene often play diverse functional roles, and thus it is necessary to a...

    Authors: Wei Zhang, Raphael Petegrosso, Jae-Woong Chang, Jiao Sun, Jeongsik Yong, Jeremy Chien and Rui Kuang

    Citation: BMC Genomics 2020 21:272

    Content type: Research Article

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  32. Gill health is one of the main concerns for Atlantic salmon aquaculture, and Amoebic Gill Disease (AGD), attributable to infection by the amoeba Neoparamoeba perurans, is a frequent cause of morbidity. In the abs...

    Authors: Diego Robledo, Alastair Hamilton, Alejandro P. Gutiérrez, James E. Bron and Ross D. Houston

    Citation: BMC Genomics 2020 21:271

    Content type: Research article

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  33. The C:G > T:A substitution at the CpG dinucleotide contexts is the most frequent substitution type in genome evolution. The mutational process is obviously ongoing in the human germline; however, its impact on...

    Authors: Jeonghwan Youk, Yohan An, Seongyeol Park, June-Koo Lee and Young Seok Ju

    Citation: BMC Genomics 2020 21:270

    Content type: Research article

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  34. The nucleoli, including their proteomes, of higher eukaryotes have been extensively studied, while few studies about the nucleoli of the lower eukaryotes – protists were reported. Giardia lamblia, a protist with ...

    Authors: Jin-Mei Feng, Chun-Lin Yang, Hai-Feng Tian, Jiang-Xin Wang and Jian-Fan Wen

    Citation: BMC Genomics 2020 21:269

    Content type: Research article

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  35. Polydactyly is one of the most common congenital limb dysplasia in many animal species. Although preaxial polydactyly (PPD) has been comprehensively studied in humans as a common abnormality, the genetic varia...

    Authors: Cheng Ma, Saber Khederzadeh, Adeniyi C. Adeola, Xu-Man Han, Hai-Bing Xie and Ya-Ping Zhang

    Citation: BMC Genomics 2020 21:268

    Content type: Research article

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  36. Fertility is an important economic trait in the production of meat goat, and follicular development plays an important role in fertility. Although many mRNAs and microRNAs (miRNAs) have been found to play crit...

    Authors: Xian Zou, Tingting Lu, Zhifeng Zhao, Guangbin Liu, Zhiquan Lian, Yongqing Guo, Baoli Sun, Dewu Liu and Yaokun Li

    Citation: BMC Genomics 2020 21:267

    Content type: Research article

    Published on:

  37. Marmots are large Holarctic rodents with unique biological features, making them potential animal models in various research fields. Due to the rapid accumulation of the genetic data in marmots, a highly integ...

    Authors: Baoning Liu, Liang Bai, Qingqing Yu, Fang Hu, Jing Wu, Sihai Zhao, Rong Wang, Weirong Wang, Yuanqing Tao, Jianglin Fan and Enqi Liu

    Citation: BMC Genomics 2020 21:266

    Content type: Database

    Published on:

  38. Marine endophytic fungi (MEF) are good sources of structurally unique and biologically active secondary metabolites. Due to the increase in antimicrobial resistance, the secondary metabolites from MEF ought to...

    Authors: Ethel Juliet Blessie, Wasco Wruck, Benaiah Annertey Abbey, Audrey Ncube, Nina Graffmann, Vincent Amarh, Patrick Kobina Arthur and James Adjaye

    Citation: BMC Genomics 2020 21:265

    Content type: Research article

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  39. Brassica is a very important genus of Brassicaceae, including many important oils, vegetables, forage crops, and ornamental horticultural plants. TLP family genes play important regulatory roles in the growth and...

    Authors: Tong Wang, Jingjing Hu, Xiao Ma, Chunjin Li, Qihang Yang, Shuyan Feng, Miaomiao Li, Nan Li and Xiaoming Song

    Citation: BMC Genomics 2020 21:264

    Content type: Research article

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  40. Emergence of antibiotic resistance is a global public health concern. The relationships between antibiotic use, the gut community composition, normal physiology and metabolism, and individual and public health...

    Authors: Lei Xu, Anil Surathu, Isaac Raplee, Ashok Chockalingam, Sharron Stewart, Lacey Walker, Leonard Sacks, Vikram Patel, Zhihua Li and Rodney Rouse

    Citation: BMC Genomics 2020 21:263

    Content type: Research article

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  41. The non-climacteric ‘Yellow’ melon (Cucumis melo, inodorus group) is an economically important crop and its quality is mainly determined by the sugar content. Thus, knowledge of sugar metabolism and its related p...

    Authors: Michelle Orane Schemberger, Marília Aparecida Stroka, Letícia Reis, Kamila Karoline de Souza Los, Gillize Aparecida Telles de Araujo, Michelle Zibetti Tadra Sfeir, Carolina Weigert Galvão, Rafael Mazer Etto, Amanda Regina Godoy Baptistão and Ricardo Antonio Ayub

    Citation: BMC Genomics 2020 21:262

    Content type: Research article

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  42. The nucleotide second messengers, i.e., guanosine tetraphosphate and pentaphosphate [collectively referred to as (p) ppGpp], trigger the stringent response under nutrient starvation conditions and play an esse...

    Authors: Ho-wen Yang, Menghao Yu, Jae Hoon Lee, Tiyakhon Chatnaparat and Youfu Zhao

    Citation: BMC Genomics 2020 21:261

    Content type: Research article

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  43. Upstream open reading frames (uORFs) in the 5′-untranslated regions (5′-UTRs) of certain eukaryotic mRNAs encode evolutionarily conserved functional peptides, such as cis-acting regulatory peptides that contro...

    Authors: Hiro Takahashi, Noriya Hayashi, Yuta Hiragori, Shun Sasaki, Taichiro Motomura, Yui Yamashita, Satoshi Naito, Anna Takahashi, Kazuyuki Fuse, Kenji Satou, Toshinori Endo, Shoko Kojima and Hitoshi Onouchi

    Citation: BMC Genomics 2020 21:260

    Content type: Research article

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  44. The olive fruit fly, Bactrocera oleae, is the most important pest in the olive fruit agribusiness industry. This is because female flies lay their eggs in the unripe fruits and upon hatching the larvae feed on th...

    Authors: Anthony Bayega, Haig Djambazian, Konstantina T. Tsoumani, Maria-Eleni Gregoriou, Efthimia Sagri, Eleni Drosopoulou, Penelope Mavragani-Tsipidou, Kristina Giorda, George Tsiamis, Kostas Bourtzis, Spyridon Oikonomopoulos, Ken Dewar, Deanna M. Church, Alexie Papanicolaou, Kostas D. Mathiopoulos and Jiannis Ragoussis

    Citation: BMC Genomics 2020 21:259

    Content type: Research article

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  45. Ribosomally synthesized and post-translationally modified peptides (RiPPs) are a highly diverse group of secondary metabolites (SM) of bacterial and fungal origin. While RiPPs have been intensively studied in ...

    Authors: Gabriel A. Vignolle, Robert L. Mach, Astrid R. Mach-Aigner and Christian Derntl

    Citation: BMC Genomics 2020 21:258

    Content type: Methodology article

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  46. The Brazilian endemic clone Pseudomonas aeruginosa ST277 carries important antibiotic resistance determinants, highlighting the gene coding for SPM-1 carbapenemase. However, the resistance and persistence of this...

    Authors: Melise Chaves Silveira, Cláudio Marcos Rocha-de-Souza, Rodolpho Mattos Albano, Ivson Cassiano de Oliveira Santos and Ana Paula D’Alincourt Carvalho-Assef

    Citation: BMC Genomics 2020 21:255

    Content type: Research article

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  47. The process of alternative splicing provides a unique mechanism by which eukaryotes are able to produce numerous protein products from the same gene. Heightened variability in the proteome has been thought to ...

    Authors: Andrew S. Lang, Suzanne H. Austin, Rayna M. Harris, Rebecca M. Calisi and Matthew D. MacManes

    Citation: BMC Genomics 2020 21:251

    Content type: Research article

    Published on:

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