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Non-human and non-rodent vertebrate genomics

Section edited by Shane Burgess and Jacqueline Smith

This section covers all aspects of the genomics of vertebrates, excluding humans, primates and rodents, including livestock species.

Page 1 of 20

  1. T zone lymphoma (TZL), a histologic variant of peripheral T cell lymphoma, represents about 12% of all canine lymphomas. Golden Retrievers appear predisposed, representing over 40% of TZL cases. Prior research...

    Authors: Julia D. Labadie, Ingegerd Elvers, Heather Spencer Feigelson, Sheryl Magzamen, Janna Yoshimoto, Jeremy Dossey, Robert Burnett and Anne C. Avery

    Citation: BMC Genomics 2020 21:464

    Content type: Research article

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  2. Cashmere goat is known for its precious undercoat. Being photoperiod-dictated, cashmere growth has been studied focusing mainly on hair follicle cycle phases (anagen, catagen and telogen). An accurate molecula...

    Authors: Cristina Nocelli, Katia Cappelli, Stefano Capomaccio, Luisa Pascucci, Francesca Mercati, Irene Pazzaglia, Samanta Mecocci, Marco Antonini and Carlo Renieri

    Citation: BMC Genomics 2020 21:458

    Content type: Research article

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  3. The gonad is the major factor affecting animal reproduction. The regulatory mechanism of the expression of protein-coding genes involved in reproduction still remains to be elucidated. Increasing evidence has ...

    Authors: Xiao Ma, Shuangshuang Cen, Luming Wang, Chao Zhang, Limin Wu, Xue Tian, Qisheng Wu, Xuejun Li and Xiaoqing Wang

    Citation: BMC Genomics 2020 21:443

    Content type: Research article

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  4. In the past several years, the use of resistant starch (RS) as prebiotic has extensively been studied in pigs, and this mostly in the critical period around weaning. RS is believed to exert beneficial effects ...

    Authors: Martine Schroyen, Julie Leblois, Julie Uerlings, Bing Li, Ester Arévalo Sureda, Sébastien Massart, José Wavreille, Jérôme Bindelle and Nadia Everaert

    Citation: BMC Genomics 2020 21:439

    Content type: Research article

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  5. Sex-related genes play a crucial role in gonadal differentiation into testes or ovaries. However, the genetic control of gonadal differentiation in Muscovy ducks remains unknown. Therefore, the objective of ou...

    Authors: Ding-Ping Bai, Yue Chen, Yu-Qiong Hu, Wen-Feng He, Yu-Zhu Shi, Qin-Ming Fan, Ru-Tang Luo and Ang Li

    Citation: BMC Genomics 2020 21:438

    Content type: Research article

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  6. During goat embryonic morphogenesis and postnatal initiation of hair follicle (HF) regeneration, dermal papilla (DP) cells play a vital role in hair formation. Growing evidence shows that microRNAs (miRNAs) pa...

    Authors: Yuelang Zhang, Sizhe Xia, Tianci Wang, Shanhe Wang, Dan Yuan, Fang Li and Xin Wang

    Citation: BMC Genomics 2020 21:430

    Content type: Research article

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  7. Vespa velutina, one of the most aggressive and fearful wasps in China, can cause grievous allergies and toxic reactions, leading to organ failure and even death. However, there is little evidence on molecular dat...

    Authors: Junjie Tan, Wenbo Wang, Fan Wu, Yunming Li and Quanshui Fan

    Citation: BMC Genomics 2020 21:427

    Content type: Research article

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  8. In recent years, increased attention has been focused on breast muscle yield and meat quality in poultry production. Supplementation with nicotinamide and butyrate sodium can improve the meat quality of broile...

    Authors: Yuqin Wu, Youli Wang, Dafei Yin, Tahir Mahmood and Jianmin Yuan

    Citation: BMC Genomics 2020 21:412

    Content type: Research article

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  9. Coilia nasus (C. nasus) is an important anadromous fish species that resides in the Yangtze River of China, and has high ecological and economical value. However, wild resources have suffered from a serious reduc...

    Authors: Meiyao Wang, Gangchun Xu, Yongkai Tang and Pao Xu

    Citation: BMC Genomics 2020 21:410

    Content type: Research article

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  10. Cashmere goats make an outstanding contribution to the livestock textile industry and their cashmere is famous for its slenderness and softness and has been extensively studied. However, there are few reports ...

    Authors: Feng Yang, Zhihong Liu, Meng Zhao, Qing Mu, Tianyu Che, Yuchun Xie, Lina Ma, Lu Mi, Jinquan Li and Yanhong Zhao

    Citation: BMC Genomics 2020 21:392

    Content type: Research article

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  11. Pancreas disease (PD) is a contagious disease caused by salmonid alphavirus (SAV) with significant economic and welfare impacts on salmon farming. Previous work has shown that higher resistance against PD has und...

    Authors: Borghild Hillestad, Shokouh Makvandi-Nejad, Aleksei Krasnov and Hooman K. Moghadam

    Citation: BMC Genomics 2020 21:388

    Content type: Research article

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  12. Lipopolysaccharide (LPS) endotoxin stimulates pro-inflammatory pathways and is a key player in the pathological mechanisms involved in the development of endometritis. This study aimed to investigate LPS-induc...

    Authors: Naveed Jhamat, Adnan Niazi, Yongzhi Guo, Metasu Chanrot, Elena Ivanova, Gavin Kelsey, Erik Bongcam-Rudloff, Göran Andersson and Patrice Humblot

    Citation: BMC Genomics 2020 21:385

    Content type: Research article

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  13. Use of genomic tools to characterize wildlife populations has increased in recent years. In the past, genetic characterization has been accomplished with more traditional genetic tools (e.g., microsatellites)....

    Authors: Shawna J. Zimmerman, Cameron L. Aldridge and Sara J. Oyler-McCance

    Citation: BMC Genomics 2020 21:382

    Content type: Research article

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  14. The systematic interrogation of reproduction-related genes was key to gain a comprehensive understanding of the molecular mechanisms underlying male reproductive traits in mammals. Here, based on the data coll...

    Authors: Wenjing Yang, Feiyang Zhao, Mingyue Chen, Ye Li, Xianyong Lan, Ruolin Yang and Chuanying Pan

    Citation: BMC Genomics 2020 21:381

    Content type: Research article

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  15. The microscopic process of postnatal testicular development in early-puberty animals is poorly understood. Therefore, in this study, 21 male Yiling goats with average ages of 0, 30, 60, 90, 120, 150 and 180 da...

    Authors: Dongdong Bo, Xunping Jiang, Guiqiong Liu, Feng Xu, Ruixue Hu, Teketay Wassie, Yuqing Chong, Sohail Ahmed, Chenhui Liu and Shishay Girmay

    Citation: BMC Genomics 2020 21:372

    Content type: Research article

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  16. Mammalian hair play an important role in mammals’ ability to adapt to changing climatic environments. The seasonal circulation of yak hair helps them adapt to high altitude but the regulation mechanisms of the...

    Authors: Pengjia Bao, Jiayu Luo, Yanbin Liu, Min Chu, Qingmiao Ren, Xian Guo, Bolin Tang, Xuezhi Ding, Qiang Qiu, Heping Pan, Kun Wang and Ping Yan

    Citation: BMC Genomics 2020 21:355

    Content type: Research article

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  17. The inaccuracy of DNA sequence data is becoming a serious problem, as the amount of molecular data is multiplying rapidly and expectations are high for big data to revolutionize life sciences and health care. ...

    Authors: Reza Zolfaghari Emameh, Marianne Kuuslahti, Hassan Nosrati, Hannes Lohi and Seppo Parkkila

    Citation: BMC Genomics 2020 21:352

    Content type: Research article

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  18. The Intramuscular fat (IMF) content in meat products, which is positively correlated with meat quality, is an important trait considered by consumers. The regulation of IMF deposition is species specific. Howe...

    Authors: Hui Wang, Jincheng Zhong, Chengfu Zhang, Zhixin Chai, Hanwen Cao, Jikun Wang, Jiangjiang Zhu, Jiabo Wang and Qiumei Ji

    Citation: BMC Genomics 2020 21:347

    Content type: Research article

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  19. More teats are necessary for sows to nurse larger litters to provide immunity and nutrient for piglets prior to weaning. Previous studies have reported the strong effect of an insertion mutation in the Vertebr...

    Authors: Zhanwei Zhuang, Rongrong Ding, Longlong Peng, Jie Wu, Yong Ye, Shenping Zhou, Xingwang Wang, Jianping Quan, Enqin Zheng, Gengyuan Cai, Wen Huang, Jie Yang and Zhenfang Wu

    Citation: BMC Genomics 2020 21:344

    Content type: Research article

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  20. Grass carp (Ctenopharyngodon idellus) are important species in Asian aquaculture. A draft genome for grass carp has already been published in 2015. However, there is still a requirement for a suitable genetic lin...

    Authors: Xiaoli Huang, Yanxin Jiang, Wanting Zhang, Yingyin Cheng, Yaping Wang, Xiaocui Ma, You Duan, Lei Xia, Yaxin Chen, Nan Wu, Mijuan Shi and Xiao-Qin Xia

    Citation: BMC Genomics 2020 21:313

    Content type: Research article

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  21. Göttingen Minipigs (GMP) is the smallest commercially available minipig breed under a controlled breeding scheme and is globally bred in five isolated colonies. The genetic isolation harbors the risk of strati...

    Authors: Christian Reimer, Ngoc-Thuy Ha, Ahmad Reza Sharifi, Johannes Geibel, Lars Friis Mikkelsen, Martin Schlather, Steffen Weigend and Henner Simianer

    Citation: BMC Genomics 2020 21:308

    Content type: Research article

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  22. 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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  23. 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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  24. 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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  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. 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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  27. 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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  28. 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

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  29. 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

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  30. The mammary gland is a unique organ for milk synthesis, secretion and storage, and it undergoes cyclical processes of development, differentiation, lactation and degeneration. At different developmental period...

    Authors: Zhibin Ji, Tianle Chao, Zhaohua Liu, Lei Hou, Jin Wang, Aili Wang, Jie Zhou, Rong Xuan, Guizhi Wang and Jianmin Wang

    Citation: BMC Genomics 2020 21:254

    Content type: Research article

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  31. 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

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  32. Gene expression regulators identified in transcriptome profiling experiments may serve as ideal targets for genetic manipulations in farm animals.

    Authors: Tinghua Huang, Min Yang, Kaihui Dong, Mingjiang Xu, Jinhui Liu, Zhi Chen, Shijia Zhu, Wang Chen, Jun Yin, Kai Jin, Yu Deng, Zhou Guan, Xiali Huang, Jun Yang, Rongxun Han and Min Yao

    Citation: BMC Genomics 2020 21:229

    Content type: Research article

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  33. Cope’s gray treefrog, Dryophytes chrysoscelis, withstands the physiological challenges of corporeal freezing, partly by accumulating cryoprotective compounds of hepatic origin, including glycerol, urea, and gluco...

    Authors: M. Clara F. do Amaral, James Frisbie, Raphael J. Crum, David L. Goldstein and Carissa M. Krane

    Citation: BMC Genomics 2020 21:226

    Content type: Research article

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  34. Growth is a major economic production trait in aquaculture. Improvements in growth performance will reduce time and cost for fish to reach market size. However, genes underlying growth have not been fully expl...

    Authors: Ali Ali, Rafet Al-Tobasei, Daniela Lourenco, Tim Leeds, Brett Kenney and Mohamed Salem

    Citation: BMC Genomics 2020 21:209

    Content type: Research article

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  35. Gills of euryhaline fishes possess great physiological and structural plasticity to adapt to large changes in external osmolality and to participate in ion uptake/excretion, which is essential for the re-estab...

    Authors: Hoi Man Ng, Jeff Cheuk Hin Ho, Wenyan Nong, Jerome Ho Lam Hui, Keng Po Lai and Chris Kong Chu Wong

    Citation: BMC Genomics 2020 21:208

    Content type: Research article

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  36. The trading of individual animal genotype information often involves only the exchange of the called genotypes and not necessarily the additional information required to effectively call structural variants. T...

    Authors: Pierce Rafter, Isobel Claire Gormley, Andrew C. Parnell, John Francis Kearney and Donagh P. Berry

    Citation: BMC Genomics 2020 21:205

    Content type: Research article

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  37. The yak is a species of livestock which is crucial for local communities of the Qinghai-Tibet Plateau and adjacent regions and naturally owns one more thoracic vertebra than cattle. Recently, a sub-population ...

    Authors: Yu Wang, Haoyang Cai, Xiaolin Luo, Yi Ai, Mingfeng Jiang and Yongli Wen

    Citation: BMC Genomics 2020 21:201

    Content type: Research article

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  38. Aohan fine wool sheep (AFWS) is a historically bred fine wool sheep, cultivated in China. The wool has excellent quality and good textile performance. Investigating the molecular mechanisms that regulate wool ...

    Authors: Ranran Zhao, Nan Liu, Fuhui Han, Hegang Li, Jifeng Liu, Lanlan Li, Guoyi Wang and Jianning He

    Citation: BMC Genomics 2020 21:187

    Content type: Research article

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  39. Growth regulation is a complex process influenced by genetic and environmental factors. We examined differences between growth hormone (GH) transgenic (T) and non-transgenic (NT) coho salmon to elucidate wheth...

    Authors: Erin Kathleen McClelland, Michelle T. T. Chan, Xiang Lin, Dionne Sakhrani, Felicia Vincelli, Jin-Hyoung Kim, Daniel D. Heath and Robert H. Devlin

    Citation: BMC Genomics 2020 21:185

    Content type: Research article

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  40. Gang goose is a native species with gray plumage in Sichuan, China. As a result of overhunting, the number of gray Gang geese has decreased dramatically. To keep the species from extinction, conservation work ...

    Authors: Yang Xi, Lei Wang, Hehe Liu, Shengchao Ma, Yanying Li, Liang Li, Jiwen Wang, Han Chunchun, Lili Bai, Ahsan Mustafa and Hua He

    Citation: BMC Genomics 2020 21:162

    Content type: Research article

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  41. Retinal degenerative diseases affect millions of people and represent the leading cause of vision loss around the world. Retinal degeneration has been attributed to a wide variety of causes, such as disruption...

    Authors: Madhu Sudhana Saddala, Anton Lennikov, Adam Bouras and Hu Huang

    Citation: BMC Genomics 2020 21:132

    Content type: Research article

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  42. Duck hepatitis A virus type 3 (DHAV-3) is one of the most harmful pathogens in the duck industry. However, the molecular mechanism underlying DHAV-3 infection in ducklings remains poorly understood. To study t...

    Authors: Fengyao Wu, Fengying Lu, Xin Fan, Jin Chao, Chuanmin Liu, Qunxing Pan, Huawei Sun and Xiaofei Zhang

    Citation: BMC Genomics 2020 21:123

    Content type: Research article

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  43. Osmotic stress is a widespread phenomenon in aquatic animal. The ability to cope with salinity stress and alkaline stress is quite important for the survival of aquatic species under natural conditions. Tilapi...

    Authors: Huanhuan Su, Dongmei Ma, Huaping Zhu, Zhigang Liu and Fengying Gao

    Citation: BMC Genomics 2020 21:110

    Content type: Research article

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  44. The fasting-refeeding perturbation has been used extensively to reveal specific genes and metabolic pathways that control energy metabolism in the chicken. Most global transcriptional scans of the fasting-refe...

    Authors: Larry A. Cogburn, Nares Trakooljul, Xiaofei Wang, Laura E. Ellestad and Tom E. Porter

    Citation: BMC Genomics 2020 21:109

    Content type: Research article

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  45. Siberian musk deer, one of the seven species, is distributed in coniferous forests of Asia. Worldwide, the population size of Siberian musk deer is threatened by severe illegal poaching for commercially valuab...

    Authors: Li Yi, Menggen Dalai, Rina Su, Weili Lin, Myagmarsuren Erdenedalai, Batkhuu Luvsantseren, Chimedragchaa Chimedtseren, Zhen Wang and Surong Hasi

    Citation: BMC Genomics 2020 21:108

    Content type: Research article

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  46. Neutrophils are the first effectors of inflammatory response triggered by mastitis infection, and are important defense cells against pathogenic Escherichia coli (E. coli). DNA methylation, as a critical epigenet...

    Authors: Zhihua Ju, Qiang Jiang, Jinpeng Wang, Xiuge Wang, Chunhong Yang, Yan Sun, Yaran Zhang, Changfa Wang, Yaping Gao, Xiaochao Wei, Minghai Hou and Jinming Huang

    Citation: BMC Genomics 2020 21:102

    Content type: Research article

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  47. Sustainability challenges are currently hampering an increase in salmon production. Using sterile salmon can solve problems with precocious puberty and genetic introgression from farmed escapees to wild popula...

    Authors: Lene Kleppe, Rolf Brudvik Edvardsen, Tomasz Furmanek, Eva Andersson, Kai Ove Skaftnesmo, Frida Thyri Segafredo and Anna Wargelius

    Citation: BMC Genomics 2020 21:99

    Content type: Research article

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