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Table representation of search results timeline featuring number of search results per year.

Year Number of Results
1970 1
1976 3
1978 2
1979 1
1980 3
1982 4
1983 8
1984 5
1985 4
1986 2
1987 6
1988 3
1989 3
1990 5
1991 9
1992 8
1993 10
1994 14
1995 11
1996 9
1997 5
1998 14
1999 11
2000 17
2001 18
2002 23
2003 44
2004 72
2005 59
2006 63
2007 67
2008 41
2009 49
2010 38
2011 49
2012 42
2013 65
2014 88
2015 94
2016 88
2017 90
2018 112
2019 151
2020 162
2021 210
2022 255
2023 300
2024 97

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2,240 results

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Page 1
TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data.
Colaprico A, Silva TC, Olsen C, Garofano L, Cava C, Garolini D, Sabedot TS, Malta TM, Pagnotta SM, Castiglioni I, Ceccarelli M, Bontempi G, Noushmehr H. Colaprico A, et al. Nucleic Acids Res. 2016 May 5;44(8):e71. doi: 10.1093/nar/gkv1507. Epub 2015 Dec 23. Nucleic Acids Res. 2016. PMID: 26704973 Free PMC article.
However, mining the TCGA data presents several bioinformatics challenges, such as data retrieval and integration with clinical data and other molecular data types (e.g. RNA and DNA methylation). We developed an R/Bioconductor package called TCGAbiolinks to address t …
However, mining the TCGA data presents several bioinformatics challenges, such as data retrieval and integration with clinical data a …
A bibliometric analysis of autophagy in lung diseases from 2012 to 2021.
Lin F, Chen Y, Mo W, Zhou H, Xiao Z, Hu S, Shi X, Liu M, Wei J, Zhu W, Wang S, Lv X. Lin F, et al. Front Immunol. 2022 Dec 16;13:1092575. doi: 10.3389/fimmu.2022.1092575. eCollection 2022. Front Immunol. 2022. PMID: 36591291 Free PMC article.
The aim of the present study was to clarify the role of autophagy in lung diseases by bibliometric analysis. METHODS: Publications were retrieved from the 2012-2021 Science Citation Index Expanded of Web of Science Core Collection on 20 September 2022. Bibliometrix pack …
The aim of the present study was to clarify the role of autophagy in lung diseases by bibliometric analysis. METHODS: Publications were r …
PAReTT: A Python Package for the Automated Retrieval and Management of Divergence Time Data from the TimeTree Resource for Downstream Analyses.
Le Clercq LS, Kotzé A, Grobler JP, Dalton DL. Le Clercq LS, et al. J Mol Evol. 2023 Aug;91(4):502-513. doi: 10.1007/s00239-023-10106-3. Epub 2023 Apr 20. J Mol Evol. 2023. PMID: 37079046 Free PMC article.
However, there is limited functionality when studying lists of species that require batch retrieval. To overcome this, a PYTHON package termed Python-Automated Retrieval of TimeTree data (PAReTT) was created to facilitate a biologist-friendly interaction with …
However, there is limited functionality when studying lists of species that require batch retrieval. To overcome this, a PYTHON pa …
compendiumdb: an R package for retrieval and storage of functional genomics data.
Nandal UK, van Kampen AH, Moerland PD. Nandal UK, et al. Bioinformatics. 2016 Sep 15;32(18):2856-7. doi: 10.1093/bioinformatics/btw335. Epub 2016 Jun 9. Bioinformatics. 2016. PMID: 27323392
This provides a rich source of information for novel biological discoveries. However, unlocking this potential often requires retrieving and storing a large number of expression profiles from a wide range of different studies and platforms. ...AVAILABILITY AND IMPLEMENTATI …
This provides a rich source of information for novel biological discoveries. However, unlocking this potential often requires retrieving …
Oxidative Stress Response Biomarkers of Ovarian Cancer Based on Single-Cell and Bulk RNA Sequencing.
Zheng M, Hu Y, Liu O, Li S, Wang Y, Li X, Liu J, Yang Q, Li X, Lin B. Zheng M, et al. Oxid Med Cell Longev. 2023 Jan 27;2023:1261039. doi: 10.1155/2023/1261039. eCollection 2023. Oxid Med Cell Longev. 2023. PMID: 36743693 Free PMC article.
The Seurat R package and SingleR package were used to analyze scRNA-seq and to identify OS response-related clusters based on ROS markers. ...The risk model was constructed using the least absolute shrinkage and selection operator (LASSO) regression analysis. The im …
The Seurat R package and SingleR package were used to analyze scRNA-seq and to identify OS response-related clusters based on …
HPAanalyze: an R package that facilitates the retrieval and analysis of the Human Protein Atlas data.
Tran AN, Dussaq AM, Kennell T Jr, Willey CD, Hjelmeland AB. Tran AN, et al. BMC Bioinformatics. 2019 Sep 9;20(1):463. doi: 10.1186/s12859-019-3059-z. BMC Bioinformatics. 2019. PMID: 31500569 Free PMC article.
Access of the HPA data is mainly via web-based interface allowing views of individual proteins, which may not be optimal for data analysis of a gene set, or automatic retrieval of original images. RESULTS: HPAanalyze is an R package for retrieving and perform …
Access of the HPA data is mainly via web-based interface allowing views of individual proteins, which may not be optimal for data analysis o …
PyCellBase, an efficient python package for easy retrieval of biological data from heterogeneous sources.
Perez-Gil D, Lopez FJ, Dopazo J, Marin-Garcia P, Rendon A, Medina I. Perez-Gil D, et al. BMC Bioinformatics. 2019 Mar 28;20(1):159. doi: 10.1186/s12859-019-2726-4. BMC Bioinformatics. 2019. PMID: 30922213 Free PMC article.
This package offers a fast and user-friendly access to biological information without the need of installing any local database. ...It allows to perform tasks that require a comprehensive set of knowledge resources, as for example variant annotation. Queries can be easily …
This package offers a fast and user-friendly access to biological information without the need of installing any local database. ...I …
Identification and Verification of Diagnostic Biomarkers for Glomerular Injury in Diabetic Nephropathy Based on Machine Learning Algorithms.
Han H, Chen Y, Yang H, Cheng W, Zhang S, Liu Y, Liu Q, Liu D, Yang G, Li K. Han H, et al. Front Endocrinol (Lausanne). 2022 May 19;13:876960. doi: 10.3389/fendo.2022.876960. eCollection 2022. Front Endocrinol (Lausanne). 2022. PMID: 35663304 Free PMC article.
Using the limma package, 140 differentially expressed genes (DEGs) were screened out between 81 glomerular DN samples and 41 normal ones from the training cohort. With the help of the ConsensusClusterPlus and WGCNA packages, the 81 glomerular DN samples were distinc …
Using the limma package, 140 differentially expressed genes (DEGs) were screened out between 81 glomerular DN samples and 41 normal o …
Biomartr: genomic data retrieval with R.
Drost HG, Paszkowski J. Drost HG, et al. Bioinformatics. 2017 Apr 15;33(8):1216-1217. doi: 10.1093/bioinformatics/btw821. Bioinformatics. 2017. PMID: 28110292 Free PMC article.
However, the current poor usability and transparency of retrieval methods hinders reproducibility. Here we present an open source R package, biomartr , which provides a comprehensive easy-to-use framework for automating data retrieval and functional annotatio …
However, the current poor usability and transparency of retrieval methods hinders reproducibility. Here we present an open source R …
BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests.
Komljenovic A, Roux J, Wollbrett J, Robinson-Rechavi M, Bastian FB. Komljenovic A, et al. F1000Res. 2016 Nov 23;5:2748. doi: 10.12688/f1000research.9973.2. eCollection 2016. F1000Res. 2016. PMID: 30467516 Free PMC article.
BgeeDB facilitates downstream analyses, such as gene expression analyses with other Bioconductor packages. Moreover, BgeeDB includes a new gene set enrichment test for preferred localization of expression of genes in anatomical structures ("TopAnat"). Along with the classi …
BgeeDB facilitates downstream analyses, such as gene expression analyses with other Bioconductor packages. Moreover, BgeeDB includes …
2,240 results