Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses

Stegle, Oliver, Parts, Leopold, Piipari, Matias, Winn, John, Durbin, Richard·2012·Nature Protocols
DOI 10.1038/nprot.2011.457

Cited by (999)

Items 901–999 of 999

  1. Additional file 12 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  2. Additional file 2 of Contribution and clinical relevance of germline variation to the cancer transcriptome
    Bernard Pereira, Emma Labrot, Durand, Eric, Joshua M. Korn, Audrey Kauffmann, Campbell, Catarina D. · 2022 · Figshare
  3. Additional file 2 of Identification of TBX15 as an adipose master trans regulator of abdominal obesity genes
    David Z. Pan, Zong Miao, Caroline Comenho, Sandhya Rajkumar, Amogha Koka, Seung Hyuk Lee, Marcus Alvarez, Dorota Kamińska, Ko, Arthur, Janet S. Sinsheimer et al. · 2021 · Figshare
  4. Additional file 22 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  5. Additional file 8 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Richard Van, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  6. Additional file 1 of Control of false discoveries in grouped hypothesis testing for eQTL data
    Pratyaydipta Rudra, Yi‐Hui Zhou, Andrew B. Nobel, Fred A. Wright · 2024 · Figshare
  7. Additional file 12 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  8. Additional file 2 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Tsuchida, Yumi, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  9. Additional file 2 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  10. Additional file 6 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  11. Additional file 11 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  12. Additional file 6 of Contribution and clinical relevance of germline variation to the cancer transcriptome
    Bernard Pereira, Emma Labrot, Durand, Eric, Joshua M. Korn, Audrey Kauffmann, Campbell, Catarina D. · 2022 · Figshare
  13. Additional file 7 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  14. Additional file 8 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  15. Additional file 3 of The genetic and evolutionary basis of gene expression variation in East Africans
    Derek E. Kelly, Shweta Ramdas, Rong Ma, Renata Rawlings-Goss, Gregory R. Grant, Alessia Ranciaro, Jibril B Hirbo, William R. Beggs, Meredith Yeager, Stephen Jacob Chanock et al. · 2023 · Figshare
  16. Additional file 5 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  17. Additional file 3 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  18. Additional file 17 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  19. Additional file 16 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  20. Additional file 4 of Contribution and clinical relevance of germline variation to the cancer transcriptome
    Bernard Pereira, Emma Labrot, Durand, Eric, Joshua M. Korn, Audrey Kauffmann, Campbell, Catarina D. · 2022 · Figshare
  21. Additional file 18 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  22. Additional file 1 of Tissue-specific atlas of trans-models for gene regulation elucidates complex regulation patterns
    Robert D. D’Agostino, Assaf Gottlieb · 2024 · Figshare
  23. Additional file 10 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  24. Additional file 5 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  25. Additional file 16 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  26. Additional file 3 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  27. Additional file 1 of Optimizing expression quantitative trait locus mapping workflows for single-cell studies
    Cuomo, Anna S. E., Giordano Alvari, Christina Brady Del Azodi, Davis James McCarthy, Marc Jan Bonder · 2021 · Figshare
  28. Additional file 1 of Combinatorial patterns of gene expression changes contribute to variable expressivity of the developmental delay-associated 16p12.1 deletion
    Jensen, Matthew, Anastasia Tyryshkina, Lucilla Pizzo, Corrine Smolen, Maitreya Das, Emily Huber, Krishnan, Arjun, Santhosh Girirajan · 2021 · Figshare
  29. Additional file 1 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  30. Additional file 20 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  31. Additional file 11 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Tsuchida, Yumi, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  32. Additional file 7 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  33. Additional file 11 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Yapeng Zhang, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  34. Additional file 1 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  35. Additional file 1 of Pitfalls and opportunities for applying latent variables in single-cell eQTL analyses
    Angli Xue, Seyhan Yazar, Drew R. Neavin, Joseph E. Powell · 2023 · Figshare
  36. Additional file 3 of Optimizing expression quantitative trait locus mapping workflows for single-cell studies
    Cuomo, Anna S. E., Giordano Alvari, Christina Brady Del Azodi, Davis James McCarthy, Marc Jan Bonder · 2021 · Figshare
  37. Additional file 1 of Identification of human mitochondrial RNA cleavage sites and candidate RNA processing factors
    Guillermo Carbajosa, Aminah Tasnim Ali, Alan Hodgkinson · 2022 · Figshare
  38. Additional file 4 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  39. Additional file 3 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  40. Additional file 1 of Evaluation of noninvasive biospecimens for transcriptome studies
    Molly Martorella, Kasela, Silva, Renee Garcia-Flores, Alper Gokden, Stephane E. Castel, Tuuli Lappalainen · 2024 · Figshare
  41. Additional file 2 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  42. Additional file 3 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  43. Additional file 13 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  44. Additional file 1 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  45. Additional file 14 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  46. Additional file 18 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  47. Additional file 25 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  48. Additional file 4 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  49. Additional file 9 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  50. Additional file 8 of Contribution and clinical relevance of germline variation to the cancer transcriptome
    Bernard Pereira, Emma Labrot, Durand, Eric, Joshua M. Korn, Audrey Kauffmann, Campbell, Catarina D. · 2022 · Figshare
  51. Additional file 6 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Richard Van, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  52. Additional file 6 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Tsuchida, Yumi, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  53. Additional file 2 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  54. Additional file 5 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  55. Additional file 23 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  56. Additional file 8 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  57. Additional file 2 of Pitfalls and opportunities for applying latent variables in single-cell eQTL analyses
    Angli Xue, Seyhan Yazar, Drew R. Neavin, Joseph E. Powell · 2023 · Figshare
  58. Additional file 8 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  59. Additional file 8 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Tsuchida, Yumi, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  60. Additional file 15 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  61. Additional file 10 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  62. Additional file 2 of Single-cell multiomics of the human retina reveals hierarchical transcription factor collaboration in mediating cell type-specific effects of genetic variants on gene regulation
    Wang, Jun, Cheng, Xuesen, Liang, Qingnan, Leah A. Owen, Lu, Jiaxiong, Yiqiao Zheng, Meng Wang, Shiming Chen, Margaret M. DeAngelis, Li, Yumei et al. · 2024 · Figshare
  63. Additional file 3 of GBAT: a gene-based association test for robust detection of trans-gene regulation
    Xuanyao Liu, Joel Mefford, Dahl, Andrew, He, Yuan, Subramaniam, Meena, Alexis J. Battle, Alkes L. Price, Noah Zaitlen · 2020 · Figshare
  64. Additional file 6 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  65. Additional file 27 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  66. Additional file 13 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Tsuchida, Yumi, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  67. Additional file 5 of Contribution and clinical relevance of germline variation to the cancer transcriptome
    Bernard Pereira, Emma Labrot, Durand, Eric, Joshua M. Korn, Audrey Kauffmann, Campbell, Catarina D. · 2022 · Figshare
  68. Additional file 13 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  69. Additional file 3 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  70. Additional file 12 of Single cell eQTL analysis identifies cell type-specific genetic control of gene expression in fibroblasts and reprogrammed induced pluripotent stem cells
    Drew R. Neavin, Quan Hoang Nguyen, Maciej Daniszewski, Liang, Helena H., Han Sheng Chiu, Yong Kiat Wee, Anne Senabouth, Samuel W. Lukowski, Duncan E. Crombie, Grace E. Lidgerwood et al. · 2021 · Figshare
  71. Additional file 1 of PCA outperforms popular hidden variable inference methods for molecular QTL mapping
    Heather J. Zhou, Lei Li, Li, Yumei, Li, Wei, Jingyi Jessica Li · 2022 · Figshare
  72. Additional file 1 of Single-cell multiomics of the human retina reveals hierarchical transcription factor collaboration in mediating cell type-specific effects of genetic variants on gene regulation
    Wang, Jun, Xuesen Cheng, Liang, Qingnan, Leah A. Owen, Lu, Jiaxiong, Yiqiao Zheng, Meng Wang, Shiming Chen, Margaret M. DeAngelis, Li, Yumei et al. · 2023 · Figshare
  73. Additional file 24 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  74. Additional file 4 of Comparison of confound adjustment methods in the construction of gene co-expression networks
    Alanna C. Cote, Hannah E. Young, Laura M. Huckins · 2022 · Figshare
  75. Additional file 1 of The genetic and evolutionary basis of gene expression variation in East Africans
    Derek E. Kelly, Shweta Ramdas, Rong Ma, Renata Rawlings-Goss, Gregory R. Grant, Alessia Ranciaro, Jibril B Hirbo, William R. Beggs, Meredith Yeager, Stephen Jacob Chanock et al. · 2023 · Figshare
  76. Additional file 4 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Richard Van, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  77. Additional file 4 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  78. Additional file 1 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Jingjing Liang, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  79. Additional file 14 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  80. Additional file 2 of PCA outperforms popular hidden variable inference methods for molecular QTL mapping
    Heather J. Zhou, Li, Lei, Li, Yumei, Li, Wei, Jingyi Jessica Li · 2022 · Figshare
  81. Additional file 21 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  82. Additional file 8 of Comparison of confound adjustment methods in the construction of gene co-expression networks
    Alanna C. Cote, Hannah E. Young, Huckins, Laura M. · 2022 · Figshare
  83. Additional file 5 of Graph construction method impacts variation representation and analyses in a bovine super-pangenome
    Alexander S. Leonard, Danang Crysnanto, Xena Marie Mapel, Meenu Bhati, Hubert Pausch · 2024 · Figshare
  84. Additional file 5 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Richard Van, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  85. Additional file 8 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Hu, Jian, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  86. Additional file 9 of Rare coding variants in RCN3 are associated with blood pressure
    He, Karen Y., Kelly, Tanika N., Wang, Heming, Liang, Jingjing, Luke Zhu, Cade, Brian E., Themistocles L. Assimes, Becker, Lewis C., Beitelshees, Amber L., Lawrence F. Bielak et al. · 2022 · Figshare
  87. Additional file 12 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  88. Additional file 10 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Yumi Tsuchida, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Shirai, Harumi, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  89. Additional file 7 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Van, Richard, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  90. Additional file 1 of Compressing gene expression data using multiple latent space dimensionalities learns complementary biological representations
    Gregory P. Way, Michael Zietz, Vincent Rubinetti, Himmelstein, Daniel S., Greene, Casey S. · 2020 · Figshare
  91. Additional file 9 of Transcriptome analysis of immune cells from Behçet’s syndrome patients: the importance of IL-17-producing cells and antigen-presenting cells in the pathogenesis of Behçet’s syndrome
    Okubo, Mai, Sumitomo, Shuji, Tsuchida, Yumi, Nagafuchi, Yasuo, Takeshima, Yusuke, Haruyuki Yanaoka, Harumi Shirai, Kobayashi, Satomi, Yusuke Sugimori, Junko Maeda et al. · 2022 · Figshare
  92. Additional file 2 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Richard Van, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  93. Additional file 10 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Jian Hu, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  94. Additional file 1 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  95. Additional file 19 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Yapeng Zhang, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  96. Additional file 15 of The eQTL colocalization and transcriptome-wide association study identify potentially causal genes responsible for economic traits in Simmental beef cattle
    Cai, Wentao, Zhang, Yapeng, Tianpeng Chang, Wang, Zezhao, Zhu, Bo, Chen, Yan, Gao, Xue, Xu, Lingyang, Zhang, Lupei, Gao, Huijiang et al. · 2024 · Figshare
  97. Additional file 2 of Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits
    Cai, Wentao, Hu, Jian, Yunsheng Zhang, Guo ZhanBao, Zhou, Zhengkui, Hou, Shuisheng · 2024 · Figshare
  98. Additional file 3 of A comparison of RNA-Seq data preprocessing pipelines for transcriptomic predictions across independent studies
    Richard Van, Alvarez, Daniel, Travis J. Mize, Sravani Gannavarapu, Lohitha Chintham Reddy, Fatma Nasoz, Mira Han · 2024 · Figshare
  99. Additional file 3 of Single-cell multiomics of the human retina reveals hierarchical transcription factor collaboration in mediating cell type-specific effects of genetic variants on gene regulation
    Wang, Jun, Xuesen Cheng, Liang, Qingnan, Leah A. Owen, Lu, Jiaxiong, Yiqiao Zheng, Meng Wang, Shiming Chen, Margaret M. DeAngelis, Li, Yumei et al. · 2024 · Figshare