Se Jin Song - Publications, H-index & Citations

Se Jin Song

university of california san diego

51H指数

121论文数

4.5W被引数

收录论文 59

发表时间

Five-country analysis of geographic and dietary drivers of gut microbiome composition and genomic variation 五国分析：肠道微生物组组成和基因组变异的地理和饮食驱动因素

Nature Communications

IF15.7

2026-09-21

OAAI

Lora Khatib; Renee Oles; Alejandra Ríos Hernández; Tyler Myers; Jianshu Zhao; Megha Kumar; Ana Laroya; Veronica Tolosa-Enguis; Nobuko Matsunami; Daisuke Suzuki; Nodoka Chiba; Katharine E. Gilbert; Promi Das; Jon G. Sanders; Lucas Patel; Nicole Litwin; Brent Nowinski; Amanda Birmingham; Sawyer Farmer; Caitriona Brennan; MacKenzie Bryant; Caitlin Tribelhorn; Karenina Sanders-Bodai; Charles Cowart; Oliver Nizet; Edgar A. Diaz; Patrick Veiga; Sudarshan A. Shetty; Jan Knol; Christophe Lay; Hana Koutnikova; Soline Chaumont; Julien Tap; Aurélie Cotillard; Muriel Derrien; Manolo Laiola; Antonio González; Armando R. Tovar; Nimbe Torres; Yolanda Sanz; Takuji Yamada; Daniel McDonald; Se Jin Song; Andrew Bartko; Rob Knight

Multi-omics analyses of facial skin in acne identify distinct microbial and metabolic features at lesional and non-lesional sites 痤疮面部皮肤的多组学分析识别病灶和非病灶部位的独特微生物和代谢特征

npj Biofilms and Microbiomes

IF9.2

2026-08-06

OAAI

Yang Chen; Britta De Pessemier; Tyler Myers; Simone Zuffa; Jasmine Zemlin; Sayeh Pourhamidi; Susi Elaine Dal Belo; Anthony Woo; Magali Moreau; Jolanta Idkowiak-Baldys; Iveta Kalcheva; Paulo Wender Portal Gomes; Chloe Lieng; Samia Almoughrabie; Anna Dan Nguyen; Josh L. Espinoza; Christopher Dupont; Tom Van de Wiele; Chris Callewaert; Daniel McDonald; Karsten Zengler; Andrew Bartko; Luc Aguilar; Philippe Barbarat; Richard L. Gallo; Pieter C. Dorrestein; Qian Zheng; Amina Bouslimani; Se Jin Song; Rob Knight

Calculating fast differential genome coverages among metagenomic sources using micov 使用micov计算元基因组来源之间的快速差异基因组覆盖度

Communications Biology

IF5.1

2025-11-20

OAAI

Yuhan Weng; Caitlin Guccione; Daniel McDonald; Renee Oles; Suzanne Devkota; Evguenia Kopylova; Gregory D. Sepich-Poore; Rodolfo A. Salido; M. Omar Din; Se Jin Song; Kit Curtius; Hiutung Chu; Andrew Bartko; Jeff Hasty; Rob Knight

Streamlined extraction of nucleic acids and metabolites from low- and high-biomass samples using isopropanol and matrix tubes 使用异丙醇和基质管从低生物量和高生物量样品中简化的核酸和代谢物提取

MICROBIOLOGY SPECTRUM

IF3.8

2025-10-01

PREAI

Brennan, Caitriona; Shaffer, Justin P.; Belda-Ferre, Pedro; Mohanty, Ipsita; Weng, Yuhan; Cantrell, Kalen; Ackermann, Gail; Allaband, Celeste; Bryant, Mackenzie; Farmer, Sawyer; Gonzalez, Antonio; Mcdonald, Daniel; Martino, Cameron; Meehan, Michael J.; Rahman, Gibraan; Salido, Rodolfo A.; Schwartz, Tara; Song, Se Jin; Tribelhorn, Caitlin; Tubb, Helena M.; Dorrestein, Pieter C.; Knight, Rob

Temporal nutrition analysis associates dietary regularity and quality with gut microbiome diversity: insights from the Food & You digital cohort 时间营养分析将饮食规律性与质量与肠道微生物多样性联系起来：来自Food & You数字队列的见解

Nature Communications

IF15.7

2025-09-30

OAAI

Rohan Singh; Daniel McDonald; Alejandra Rios Hernandez; Se Jin Song; Andrew Bartko; Rob Knight; Marcel Salathé

Chronological age estimation from human microbiomes with transformer-based Robust Principal Component Analysis 基于Transformer的鲁棒主成分分析的人类微生物组年龄估算

Communications Biology

IF5.1

2025-08-06

OAAI

Tyler Myers; Se Jin Song; Yang Chen; Britta De Pessemier; Lora Khatib; Daniel McDonald; Shi Huang; Richard Gallo; Chris Callewaert; Aki S. Havulinna; Leo Lahti; Guus Roeselers; Manolo Laiola; Sudarshan A. Shetty; Scott T. Kelley; Rob Knight; Andrew Bartko

SARS-CoV-2 infectivity can be modulated through bacterial grooming of the glycocalyx SARS-CoV-2感染性可以通过糖萼的细菌修饰来调节

MBIO

IF4.7

2025-02-25

OAAI

Martino, Cameron; Kellman, Benjamin P.; Sandoval, Daniel R.; Clausen, Thomas Mandel; Cooper, Robert; Benjdia, Alhosna; Soualmia, Feryel; Clark, Alex E.; Garretson, Aaron F.; Marotz, Clarisse A.; Song, Se Jin; Wandro, Stephen; Zaramela, Livia S.; Salido, Rodolfo A.; Zhu, Qiyun; Armingol, Erick; Vazquez-Baeza, Yoshiki; Mcdonald, Daniel; Sorrentino, James T.; Taylor, Bryn; Belda-Ferre, Pedro; Das, Promi; Ali, Farhana; Liang, Chenguang; Zhang, Yujie; Schifanella, Luca; Covizzi, Alice; Lai, Alessia; Riva, Agostino; Basting, Christopher; Broedlow, Courtney Ann; Havulinna, Aki S.; Jousilahti, Pekka; Estaki, Mehrbod; Kosciolek, Tomasz; Kuplicki, Rayus; Victor, Teresa A.; Paulus, Martin P.; Savage, Kristen E.; Benbow, Jennifer L.; Spielfogel, Emma S.; Anderson, Cheryl A. M.; Martinez, Maria Elena; Lacey, James V.; Huang, Shi; Haiminen, Niina; Parida, Laxmi; Kim, Ho-Cheol; Gilbert, Jack A.; Sweeney, Daniel A.; Allard, Sarah M.; Swafford, Austin D.; Cheng, Susan; Inouye, Michael; Niiranen, Teemu; Jain, Mohit; Salomaa, Veikko; Zengler, Karsten; Klatt, Nichole R.; Hasty, Jeff; Berteau, Olivier; Carlin, Aaron F.; Esko, Jeffrey D.; Lewis, Nathan E.; Knight, Rob

ChIP provides 10-fold microbial DNA enrichment from tissue while minimizing bias ChIP方法可从组织中富集10倍微生物DNA，同时最大限度地减少偏差

MOLECULAR BIOLOGY REPORTS

IF2.8

2025-02-21

OAAI

Bhute, Shrikant; Sanders, Jon G.; Song, Se Jin; Lavoie, Sydney; Swafford, Austin; Guccione, Caitlin; Patel, Lucas; Gonzalez, Antonio; Rooks, Michelle G.; Knight, Rob; Bartko, Andrew

Clearing the plate: a strategic approach to mitigate well-to-well contamination in large-scale microbiome studies 清理板块: 在大规模微生物组研究中减轻井对井污染的战略方法

MSYSTEMS

IF4.6

2024-10-22

OAAI

Brennan, Caitriona; Belda-Ferre, Pedro; Zuffa, Simone; Charron-Lamoureux, Vincent; Mohanty, Ipsita; Ackermann, Gail; Allaband, Celeste; Ambre, Madison; Boyer, Tara; Bryant, MacKenzie; Cantrell, Kalen; Gonzalez, Antonio; McDonald, Daniel; Salido, Rodolfo A.; Song, Se Jin; Wright, Gillian; Dorrestein, Pieter C.; Knight, Rob

Social behaviour mediates the microbiome response to antibiotic treatment in a wild mammal 社会行为介导野生哺乳动物对抗生素治疗的微生物组反应

PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

IF3.5

2024-10-02

OAAI

Brown, Bianca R. P.; Williams, Allison E.; Sabey, Kate A.; Onserio, Aaron; Ewoi, John; Song, Se Jin; Knight, Rob; Ezenwa, Vanessa O.

The impact of breastfeeding on the preterm infant's microbiome and metabolome: a pilot study

PEDIATRIC RESEARCH

IF3.1

2024-08-13

OAAI

Escalante, Keriann Schulkers; Bai-Tong, Shiyu S.; Allard, Sarah M.; Ecklu-Mensah, Gertrude; Sanchez, Concepcion; Song, Se Jin; Gilbert, Jack; Bode, Lars; Dorrestein, Pieter; Knight, Rob; Gonzalez, David J.; Leibel, Sydney A.; Leibel, Sandra L.

Robustness of cancer microbiome signals over a broad range of methodological variation (vol 43, pg 1127, 2024)

ONCOGENE

IF7.3

2024-04-05

OAAI

Sepich-Poore, Gregory D.; McDonald, Daniel; Kopylova, Evguenia; Guccione, Caitlin; Zhu, Qiyun; Austin, George; Carpenter, Carolina; Fraraccio, Serena; Wandro, Stephen; Kosciolek, Tomasz; Janssen, Stefan; Metcalf, Jessica L.; Song, Se Jin; Kanbar, Jad; Miller-Montgomery, Sandrine; Heaton, Robert; Mckay, Rana; Patel, Sandip Pravin; Swafford, Austin D.; Korem, Tal; Knight, Rob

Robustness of cancer microbiome signals over a broad range of methodological variation 癌症微生物组信号在广泛的方法学变化范围内的稳健性

ONCOGENE

IF7.3

2024-02-23

OAAI

Sepich-Poore, Gregory D.; Mcdonald, Daniel; Kopylova, Evguenia; Guccione, Caitlin; Zhu, Qiyun; Austin, George; Carpenter, Carolina; Fraraccio, Serena; Wandro, Stephen; Kosciolek, Tomasz; Janssen, Stefan; Metcalf, Jessica L.; Song, Se Jin; Kanbar, Jad; Miller-Montgomery, Sandrine; Heaton, Robert; Mckay, Rana; Patel, Sandip Pravin; Swafford, Austin D.; Korem, Tal; Knight, Rob

Effects of variation in sample storage conditions and swab order on 16S vaginal microbiome analyses 样品储存条件和拭子顺序的变化对16s阴道微生物组分析的影响

MICROBIOLOGY SPECTRUM

IF3.8

2024-01-11

OAAI

Kumar, Tanya; Bryant, MacKenzie; Cantrell, Kalen; Song, Se Jin; McDonald, Daniel; Tubb, Helena M.; Farmer, Sawyer; Lewis, Amanda; Lukacz, Emily S.; Brubaker, Linda; Knight, Rob

A multi-study analysis enables identification of potential microbial features associated with skin aging signs

FRONTIERS IN AGING

IF4.3

2024-01-11

OAAI

Myers, Tyler; Bouslimani, Amina; Huang, Shi; Hansen, Shalisa T.; Clavaud, Cecile; Azouaoui, Anissa; Ott, Alban; Gueniche, Audrey; Bouez, Charbel; Zheng, Qian; Aguilar, Luc; Knight, Rob; Moreau, Magali; Song, Se Jin

Tomato salt-responsive pseudo-response regulator 1, SlSRP1, negatively regulates the high-salt and dehydration stress responses

PHYSIOLOGIA PLANTARUM

IF3.6

2023-11-15

PREAI

Bae, Yeongil; Song, Se Jin; Lim, Chae Woo; Kim, Chul Min; Lee, Sung Chul

Greengenes2 unifies microbial data in a single reference tree (Jul, 10.1038/s41587-023-01845-1, 2023)Greengenes2将微生物数据统一在一个参考树中 (7月，10.1038/s41587-023-01845-1，2023)

NATURE BIOTECHNOLOGY

IF41.7

2023-10-18

OAAI

McDonald, Daniel; Jiang, Yueyu; Balaban, Metin; Cantrell, Kalen; Zhu, Qiyun; Gonzalez, Antonio; Morton, James T.; Nicolaou, Giorgia; Parks, Donovan H.; Karst, Soren M.; Albertsen, Mads; Hugenholtz, Philip; DeSantis, Todd; Song, Se Jin; Bartko, Andrew; Havulinna, Aki S.; Jousilahti, Pekka; Cheng, Susan; Inouye, Michael; Niiranen, Teemu; Jain, Mohit; Salomaa, Veikko; Lahti, Leo; Mirarab, Siavash; Knight, Rob

Greengenes2 unifies microbial data in a single reference tree Greengenes2将微生物数据统一在一个参考树中

NATURE BIOTECHNOLOGY

IF41.7

2023-07-27

OAAI

McDonald, Daniel; Jiang, Yueyu; Balaban, Metin; Cantrell, Kalen; Zhu, Qiyun; Gonzalez, Antonio; Morton, James T. T.; Nicolaou, Giorgia; Parks, Donovan H. H.; Karst, Soren M.; Albertsen, Mads; Hugenholtz, Philip; DeSantis, Todd; Song, Se Jin; Bartko, Andrew; Havulinna, Aki S. S.; Jousilahti, Pekka; Cheng, Susan; Inouye, Michael; Niiranen, Teemu; Jain, Mohit; Salomaa, Veikko; Lahti, Leo; Mirarab, Siavash; Knight, Rob

Global branches and local states of the human gut microbiome define associations with environmental and intrinsic factors

NATURE COMMUNICATIONS

IF15.7

2023-06-20

OAAI

Tap, Julien; Lejzerowicz, Franck; Cotillard, Aurelie; Pichaud, Matthieu; McDonald, Daniel; Song, Se Jin; Knight, Rob; Veiga, Patrick; Derrien, Muriel

Effects of Variation in Urine Sample Storage Conditions on 16S Urogenital Microbiome Analyses

MSYSTEMS

IF4.6

2023-02-23

OAAI

Kumar, Tanya; Bryant, MacKenzie; Cantrell, Kalen; Song, Se Jin; McDonald, Daniel; Tubb, Helena M. M.; Farmer, Sawyer; Lukacz, Emily S. S.; Brubaker, Linda; Knight, Rob

研究方向