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1

Academic Journal

Effect of metabolically divergent pig breeds and tissues on mesenchymal stem cell expression patterns during adipogenesis.

Authors: Ponsuksili, Siriluck¹ (AUTHOR) ponsuksili@fbn-dummerstorf.de, Siengdee, Puntita^1,2 (AUTHOR), Li, Shuaichen¹ (AUTHOR), Kriangwanich, Wannapimol^1,3 (AUTHOR), Oster, Michael¹ (AUTHOR), Reyer, Henry¹ (AUTHOR), Wimmers, Klaus^1,4 (AUTHOR)

Superior Title: BMC Genomics. 4/25/2024, Vol. 25 Issue 1, p1-15. 15p.

Subject Terms: *ADIPOGENESIS, *MESENCHYMAL stem cells, *MESENCHYMAL stem cell differentiation, *CELL aggregation, *AMINO acid metabolism, *CELL migration

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2

Academic Journal

Metabolomics and proteomics insights into subacute ruminal acidosis etiology and inhibition of proliferation of yak rumen epithelial cells in vitro.

Authors: Wang, JunMei¹ (AUTHOR), Shi, Liyuan¹ (AUTHOR), Zhang, Xiaohong¹ (AUTHOR), Hu, Rui¹ (AUTHOR), Yue, Ziqi¹ (AUTHOR), Zou, Huawei¹ (AUTHOR), Peng, Quanhui¹ (AUTHOR), Jiang, Yahui¹ (AUTHOR), Wang, Zhisheng¹ (AUTHOR) zswangsicau@126.com

Superior Title: BMC Genomics. 4/22/2024, Vol. 25 Issue 1, p1-19. 19p.

Subject Terms: *EPITHELIAL cells, *METABOLOMICS, *YAK, *SHORT-chain fatty acids, *PROTEOMICS, *CELL physiology, *CELL cycle

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3

Academic Journal

Integrated analysis of single-cell and bulk RNA sequencing data reveals prognostic characteristics of lysosome-dependent cell death-related genes in osteosarcoma.

Authors: Wu, Yueshu^1,2 (AUTHOR), Yang, Jun^1,2 (AUTHOR), Xu, Gang^1,2 (AUTHOR), Chen, Xiaolin³ (AUTHOR) chenxiaolin@cqmu.edu.cn, Qu, Xiaochen^1,2 (AUTHOR) xiaochen13@hotmail.com

Superior Title: BMC Genomics. 4/17/2024, Vol. 25 Issue 1, p1-17. 17p.

Subject Terms: *MYELOID cells, *RNA sequencing, *OSTEOSARCOMA, *CELL death, *DISEASE risk factors

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4

Academic Journal

HMGB1 prefers to interact with structural RNAs and regulates rRNA methylation modification and translation in HeLa cells.

Authors: Liao, Meimei¹ (AUTHOR), Cao, Jiarui² (AUTHOR), Chen, Wen^3,4 (AUTHOR), Wang, Mengwei² (AUTHOR), Jin, Zhihui² (AUTHOR), Ye, Jia² (AUTHOR), Ren, Yijun² (AUTHOR), Wei, Yaxun³ (AUTHOR), Xue, Yaqiang^3,4 (AUTHOR), Chen, Dong^3,4 (AUTHOR), Zhang, Yi^3,4 (AUTHOR), Chen, Sen² (AUTHOR) ahsen1211@whu.edu.cn

Superior Title: BMC Genomics. 4/5/2024, Vol. 25 Issue 1, p1-16. 16p.

Subject Terms: *GENE expression, *HELA cells, *CANCER cell differentiation, *RIBOSOMAL RNA, *GENETIC translation, *ORGANELLE formation, *CHONDROITIN sulfate proteoglycan, *RIBOSOMAL proteins

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5

Academic Journal

Crosstalk of disulfidptosis-related subtypes identifying a prognostic signature to improve prognosis and immunotherapy responses of clear cell renal cell carcinoma patients.

Authors: Ren, Lei¹ (AUTHOR), Liu, Jinwen¹ (AUTHOR), Lin, Qingyuan² (AUTHOR), He, Tianyi³ (AUTHOR), Huang, Guankai¹ (AUTHOR), Wang, Weifeng⁴ (AUTHOR), Zhan, Xunhao¹ (AUTHOR), He, Yu¹ (AUTHOR), Huang, Bin¹ (AUTHOR) huangb48@mail.sysu.edu.cn, Mao, Xiaopeng¹ (AUTHOR) maoxp3@mail.sysu.edu.cn

Superior Title: BMC Genomics. 4/26/2024, Vol. 25 Issue 1, p1-21. 21p.

Subject Terms: *RENAL cell carcinoma, *IMMUNOTHERAPY, *PROGRESSION-free survival, *APOPTOSIS, *PROGNOSIS, *BREAST, *IMMUNE checkpoint proteins

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6

Academic Journal

Chromatin profiling reveals TFAP4 as a critical transcriptional regulator of bovine satellite cell differentiation.

Authors: Lyu, Pengcheng¹ (AUTHOR), Jiang, Honglin¹ (AUTHOR) hojiang@vt.edu

Superior Title: BMC Genomics. 3/12/2024, Vol. 25 Issue 1, p1-18. 18p.

Subject Terms: *SATELLITE cells, *IMMUNOPRECIPITATION, *CELL differentiation, *AP-1 transcription factor, *INHIBITION of cellular proliferation, *CHROMATIN

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7

Academic Journal

Loss of chromosome Y in regulatory T cells.

Authors: Mattisson, Jonas¹ (AUTHOR), Halvardson, Jonatan¹ (AUTHOR), Davies, Hanna¹ (AUTHOR), Bruhn-Olszewska, Bożena¹ (AUTHOR), Olszewski, Paweł² (AUTHOR), Danielsson, Marcus¹ (AUTHOR), Bjurling, Josefin¹ (AUTHOR), Lindberg, Amanda¹ (AUTHOR), Zaghlool, Ammar¹ (AUTHOR), Rychlicka-Buniowska, Edyta² (AUTHOR), Dumanski, Jan P.^1,2 (AUTHOR), Forsberg, Lars A.^1,3 (AUTHOR)

Superior Title: BMC Genomics. 3/5/2024, Vol. 25 Issue 1, p1-11. 11p.

Subject Terms: *REGULATORY T cells, *Y chromosome, *T cells, *MOSAICISM, *REGULATOR genes, *PROSTATE cancer patients, CAUSE of death statistics

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8

Academic Journal

Identification of common stria vascularis cellular alteration in sensorineural hearing loss based on ScRNA-seq.

Authors: Gu, Xi^1,2,3 (AUTHOR), Jiang, Kanglun⁴ (AUTHOR), Chen, Ruru⁵ (AUTHOR), Chen, Zhifeng^1,2,3 (AUTHOR), Wu, Xianmin⁶ (AUTHOR), Xiang, Haijie⁵ (AUTHOR), Huang, Xinsheng⁴ (AUTHOR) huang.xinsheng@zs-hospital.sh.cn, Nan, Benyu⁵ (AUTHOR) benyu2003@icloud.com

Superior Title: BMC Genomics. 2/27/2024, Vol. 25, p1-17. 17p.

Subject Terms: *SENSORINEURAL hearing loss, *CELL communication, *NOISE-induced deafness, *ELECTRON transport, *CELL anatomy, *SOUND waves

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9

Academic Journal

Single-cell transcriptome analyses reveal critical regulators of spermatogonial stem cell fate transitions.

Authors: Li, Shuang^1,2,3 (AUTHOR), Yan, Rong-Ge^1,2 (AUTHOR), Gao, Xue^1,2 (AUTHOR), He, Zhen^1,2 (AUTHOR), Wu, Shi-Xin^1,2 (AUTHOR), Wang, Yu-Jun^1,2 (AUTHOR), Zhang, Yi-Wen^1,2 (AUTHOR), Tao, Hai-Ping^1,2 (AUTHOR), Zhang, Xiao-Na^1,2 (AUTHOR), Jia, Gong-Xue^1,2,4 (AUTHOR), Yang, Qi-En^1,2,4 (AUTHOR) yangqien@nwipb.cas.cn

Superior Title: BMC Genomics. 2/3/2024, Vol. 25 Issue 1, p1-17. 17p.

Subject Terms: *STEM cells, *CELL cycle, *TRANSCRIPTOMES, *SPERMATOGENESIS, *CRITICAL analysis, *TRANSCRIPTION factors

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10

Academic Journal

Lipid metabolism-related genes are involved in the occurrence of asthma and regulate the immune microenvironment.

Authors: Jia, Yuanmin¹ (AUTHOR), Wang, Haixia¹ (AUTHOR), Ma, Bin¹ (AUTHOR), Zhang, Zeyi¹ (AUTHOR), Wang, Jingjing¹ (AUTHOR), Wang, Jin² (AUTHOR) 351337075@qq.com, Chen, Ou¹ (AUTHOR) chenou@sdu.edu.cn

Superior Title: BMC Genomics. 2/1/2024, Vol. 25 Issue 1, p1-27. 27p.

Subject Terms: *COMPETITIVE endogenous RNA, *T cells, *ASTHMA, *KILLER cells, *GENE expression, *GENE regulatory networks, *IMMUNOCOMPUTERS

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11

Academic Journal

Transcriptomic analysis of glucosidase II beta subunit (GluIIß) knockout A549 cells reveals its roles in regulation of cell adhesion molecules (CAMs) and anti-tumor immunity.

Authors: Khaodee, Worapong¹ (AUTHOR), Xiyuan, Guo^1,2 (AUTHOR), Han, Moe Thi Thi¹ (AUTHOR), Tayapiwatana, Chatchai¹ (AUTHOR), Chiampanichayakul, Sawitree^1,3 (AUTHOR), Anuchapreeda, Songyot^1,3 (AUTHOR), Cressey, Ratchada^1,3 (AUTHOR) Ratchada.cr@cmu.ac.th

Superior Title: BMC Genomics. 1/20/2024, Vol. 25 Issue 1, p1-20. 20p.

Subject Terms: *CELL adhesion molecules, *CELLULAR control mechanisms, *MONONUCLEAR leukocytes, *CELL adhesion, *GENE expression, *CELL morphology

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12

Academic Journal

Comparative and integrative single cell analysis reveals new insights into the transcriptional immaturity of stem cell-derived β cells.

Authors: Schmidt, Mason D.¹ (AUTHOR), Ishahak, Matthew¹ (AUTHOR), Augsornworawat, Punn^1,2,3 (AUTHOR), Millman, Jeffrey R.^1,2 (AUTHOR) jmillman@wustl.edu

Superior Title: BMC Genomics. 1/24/2024, Vol. 25 Issue 1, p1-18. 18p.

Subject Terms: *CELL analysis, *GENE regulatory networks, *GENE expression, *CELLULAR therapy

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13

Academic Journal

In-depth transcriptomic analysis of Anopheles gambiae hemocytes uncovers novel genes and the oenocytoid developmental lineage.

Authors: Saha, Banhisikha¹ (AUTHOR), McNinch, Colton M² (AUTHOR), Lu, Stephen³ (AUTHOR), Ho, Margaret C.W.² (AUTHOR), De Carvalho, Stephanie Serafim¹ (AUTHOR), Barillas-Mury, Carolina¹ (AUTHOR) cbarillas@niaid.nih.gov

Superior Title: BMC Genomics. 1/19/2024, Vol. 25 Issue 1, p1-15. 15p.

Subject Terms: *ANOPHELES gambiae, *BLOOD cells, *TRANSCRIPTOMES, *NON-coding RNA, *GENE expression, *MOSQUITOES, *AEDES aegypti, *RNA splicing

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14

Academic Journal

Polygenic risk score model for renal cell carcinoma in the Korean population and relationship with lifestyle-associated factors.

Authors: Hong, Joo Young¹ (AUTHOR), Han, Jang Hee^2,3 (AUTHOR), Jeong, Seung Hwan^2,3 (AUTHOR), Kwak, Cheol^2,3 (AUTHOR), Kim, Hyeon Hoe^2,3,4 (AUTHOR), Jeong, Chang Wook^2,3 (AUTHOR) drboss@snu.ac.kr

Superior Title: BMC Genomics. 1/10/2024, Vol. 25 Issue 1, p1-11. 11p.

Subject Terms: *DISEASE risk factors, *RENAL cell carcinoma, *KOREANS, *MONOGENIC & polygenic inheritance (Genetics), *GENOME-wide association studies

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15

Academic Journal

mosGILT controls innate immunity and germ cell development in Anopheles gambiae.

Authors: Arora, Gunjan¹ (AUTHOR) arorag1983@gmail.com, Tang, Xiaotian¹ (AUTHOR), Cui, Yingjun¹ (AUTHOR), Yang, Jing^1,2 (AUTHOR), Chuang, Yu-Min¹ (AUTHOR), Joshi, Jayadev³ (AUTHOR), Sajid, Andaleeb¹ (AUTHOR), Dong, Yuemei⁴ (AUTHOR), Cresswell, Peter⁵ (AUTHOR), Dimopoulos, George⁴ (AUTHOR), Fikrig, Erol¹ (AUTHOR) erol.fikrig@yale.edu

Superior Title: BMC Genomics. 1/9/2024, Vol. 25 Issue 1, p1-12. 12p.

Subject Terms: *ANOPHELES gambiae, *GERM cells, *NATURAL immunity, *BIOLOGICAL control of mosquitoes, *LIFE cycles (Biology)

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16

Academic Journal

Single-nucleus transcriptome sequencing reveals hepatic cell atlas in pigs.

Authors: Zhu, Jun-Hong^1,2 (AUTHOR), Guan, Xuan-Cheng^1,2 (AUTHOR), Yi, Lan-Lan^1,2 (AUTHOR), Xu, Hong³ (AUTHOR), Li, Qiu-Yan^1,2 (AUTHOR), Cheng, Wen-Jie^1,2 (AUTHOR), Xie, Yu-Xiao^1,4 (AUTHOR), Li, Wei-Zhen⁵ (AUTHOR), Zhao, Hong-Ye^2,5 (AUTHOR), Wei, Hong-Jiang^2,5 (AUTHOR) hongjiangwei@126.com, Zhao, Su-Mei^1,2 (AUTHOR) zhaosm2009@126.com

Superior Title: BMC Genomics. 12/12/2023, Vol. 24 Issue 1, p1-16. 16p.

Subject Terms: *LIVER cells, *B cell receptors, *KUPFFER cells, *SWINE, *FOCAL adhesions

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17

Academic Journal

An extract from the frass of swallowtail butterfly (Papilio machaon) larvae inhibits HCT116 colon cancer cell proliferation but not other cancer cell types.

Authors: Nakano, Miho¹ (AUTHOR), Sakamoto, Takuma² (AUTHOR), Kitano, Yoshikazu³ (AUTHOR), Bono, Hidemasa^4,5 (AUTHOR), Simpson, Richard J.^6,7 (AUTHOR), Tabunoki, Hiroko^1,2,7 (AUTHOR) h_tabuno@cc.tuat.ac.jp

Superior Title: BMC Genomics. 12/4/2023, Vol. 24 Issue 1, p1-12. 12p.

Subject Terms: *CANCER cell proliferation, *PAPILIONIDAE, *COLON cancer, *LARVAE, *CANCER cells, *COMPLEX compounds

Geographic Terms: ASIA

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18

Academic Journal

Transcriptome analysis reveals temporally regulated genetic networks during Drosophila border cell collective migration.

Authors: Burghardt, Emily¹ (AUTHOR), Rakijas, Jessica¹ (AUTHOR), Tyagi, Antariksh¹ (AUTHOR), Majumder, Pralay² (AUTHOR), Olson, Bradley J.S.C.¹ (AUTHOR) bjsco@ksu.edu, McDonald, Jocelyn A.¹ (AUTHOR) jmcdona@ksu.edu

Superior Title: BMC Genomics. 12/1/2023, Vol. 24 Issue 1, p1-23. 23p.

Subject Terms: *CELL migration, *ORGANELLE formation, *DROSOPHILA, *TRANSCRIPTOMES, *CELL adhesion, *PROTEIN-protein interactions, *GENE regulatory networks

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19

Academic Journal

Integrative genome-scale analyses reveal post-transcriptional signatures of early human small intestinal development in a directed differentiation organoid model.

Authors: Hung, Yu-Han¹ (AUTHOR), Capeling, Meghan² (AUTHOR), Villanueva, Jonathan W.¹ (AUTHOR), Kanke, Matt¹ (AUTHOR), Shanahan, Michael T.¹ (AUTHOR), Huang, Sha² (AUTHOR), Cubitt, Rebecca¹ (AUTHOR), Rinaldi, Vera D.¹ (AUTHOR), Schimenti, John C.¹ (AUTHOR), Spence, Jason R.^2,3 (AUTHOR), Sethupathy, Praveen¹ (AUTHOR) pr46@cornell.edu

Superior Title: BMC Genomics. 10/26/2023, Vol. 24 Issue 1, p1-19. 19p.

Subject Terms: *PLURIPOTENT stem cells, *SYSTEMS biology, *HUMAN stem cells, *GASTROINTESTINAL system, *REGULATOR genes, *WEB-based user interfaces

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20

Academic Journal

Cross-tissue patterns of DNA hypomethylation reveal genetically distinct histories of cell development.

Authors: Scott, Timothy J.¹ (AUTHOR), Hansen, Tyler J.^2,3 (AUTHOR), McArthur, Evonne^1,4 (AUTHOR), Hodges, Emily^1,2 (AUTHOR) emily.hodges@vanderbilt.edu

Superior Title: BMC Genomics. 10/19/2023, Vol. 24 Issue 1, p1-23. 23p.

Subject Terms: *EMBRYONIC stem cells, *EMBRYOLOGY, *HEMATOPOIETIC stem cells, *DNA, *REGULATOR genes

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