Emek Demir

13.2k total citations · 1 hit paper
53 papers, 2.1k citations indexed

About

Emek Demir is a scholar working on Molecular Biology, Cancer Research and Computational Theory and Mathematics. According to data from OpenAlex, Emek Demir has authored 53 papers receiving a total of 2.1k indexed citations (citations by other indexed papers that have themselves been cited), including 45 papers in Molecular Biology, 7 papers in Cancer Research and 6 papers in Computational Theory and Mathematics. Recurrent topics in Emek Demir's work include Bioinformatics and Genomic Networks (36 papers), Microbial Metabolic Engineering and Bioproduction (17 papers) and Biomedical Text Mining and Ontologies (13 papers). Emek Demir is often cited by papers focused on Bioinformatics and Genomic Networks (36 papers), Microbial Metabolic Engineering and Bioproduction (17 papers) and Biomedical Text Mining and Ontologies (13 papers). Emek Demir collaborates with scholars based in United States, Türkiye and Canada. Emek Demir's co-authors include Chris Sander, Özgün Babur, Nikolaus Schultz, Ethan Cerami, Gary D. Bader, Igor Rodchenkov, Nadia Anwar, Uğur Doğrusöz, Barry S. Taylor and Bülent Arman Aksoy and has published in prestigious journals such as Nucleic Acids Research, Nature Communications and Blood.

In The Last Decade

Emek Demir

51 papers receiving 2.1k citations

Hit Papers

Pathway Commons, a web resource for biological pathway data 2010 2026 2015 2020 2010 250 500 750
What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

  1. Pathway Commons, a web resource for biological pathway data
    2010 764 citations Emek Demir, Özgün Babur et al. Nucleic Acids Research profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name h Career Trend Papers Cites
Emek Demir United States 22 1.8k 323 320 153 121 53 2.1k
Özgün Babur United States 20 1.6k 0.9× 398 1.2× 275 0.9× 138 0.9× 308 2.5× 42 2.0k
Kristina Hanspers United States 19 2.3k 1.3× 450 1.4× 255 0.8× 274 1.8× 210 1.7× 25 3.1k
Laurence Calzone France 25 2.0k 1.1× 166 0.5× 352 1.1× 151 1.0× 173 1.4× 69 2.3k
Yukiko Matsuoka Japan 13 1.6k 0.9× 146 0.5× 243 0.8× 118 0.8× 286 2.4× 20 2.2k
Jianhua Xuan United States 22 1.4k 0.8× 303 0.9× 148 0.5× 176 1.2× 191 1.6× 126 2.2k
Martijn van Iersel Netherlands 13 1.5k 0.9× 169 0.5× 198 0.6× 160 1.0× 119 1.0× 22 1.9k
Monica Nicolau United States 15 862 0.5× 250 0.8× 223 0.7× 74 0.5× 305 2.5× 24 1.5k
David W. Kane United States 15 1.8k 1.0× 315 1.0× 106 0.3× 183 1.2× 184 1.5× 18 2.4k
Jiajie Peng China 26 2.0k 1.1× 599 1.9× 577 1.8× 152 1.0× 57 0.5× 107 2.6k
Martina Kutmon Netherlands 17 1.4k 0.8× 325 1.0× 176 0.6× 218 1.4× 138 1.1× 51 2.1k

Countries citing papers authored by Emek Demir

Since Specialization
Citations

This map shows the geographic impact of Emek Demir's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Emek Demir with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Emek Demir more than expected).

Fields of papers citing papers by Emek Demir

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Emek Demir. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Emek Demir. The network helps show where Emek Demir may publish in the future.

Co-authorship network of co-authors of Emek Demir

This figure shows the co-authorship network connecting the top 25 collaborators of Emek Demir. A scholar is included among the top collaborators of Emek Demir based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Emek Demir. Emek Demir is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

20 of 20 papers shown
1.
Estabrook, Joseph, Julia Somers, Olga Nikolova, et al.. (2024). Predicting transcription factor activity using prior biological information. iScience. 27(3). 109124–109124. 1 indexed citations
2.
Thibault, Guillaume, Erik A. Burlingame, Jennifer Eng, et al.. (2024). Multiplex imaging of localized prostate tumors reveals altered spatial organization of AR-positive cells in the microenvironment. iScience. 27(9). 110668–110668. 1 indexed citations
3.
Coleman, Daniel J., Joseph Estabrook, Emek Demir, et al.. (2023). Disruption of the MYC Superenhancer Complex by Dual Targeting of FLT3 and LSD1 in Acute Myeloid Leukemia. Molecular Cancer Research. 21(7). 631–647. 5 indexed citations
4.
Babur, Özgün, Augustin Luna, Anil Korkut, et al.. (2021). Causal interactions from proteomic profiles: Molecular data meet pathway knowledge. Patterns. 2(6). 100257–100257. 41 indexed citations
5.
Franz, Max, Jeffrey V. Wong, Metin Can Siper, et al.. (2021). A flexible search system for high-accuracy identification of biological entities and molecules. The Journal of Open Source Software. 6(67). 3756–3756. 1 indexed citations
6.
Grzadkowski, Michal R., et al.. (2021). Systematic interrogation of mutation groupings reveals divergent downstream expression programs within key cancer genes. BMC Bioinformatics. 22(1). 233–233. 1 indexed citations
7.
Luna, Augustin, Metin Can Siper, Anil Korkut, et al.. (2021). Analyzing causal relationships in proteomic profiles using CausalPath. STAR Protocols. 2(4). 100955–100955. 6 indexed citations
8.
Vedanayagam, Jeffrey, Walid K. Chatila, Bülent Arman Aksoy, et al.. (2019). Cancer-associated mutations in DICER1 RNase IIIa and IIIb domains exert similar effects on miRNA biogenesis. Nature Communications. 10(1). 3682–3682. 53 indexed citations
9.
Luna, Augustin, Özgün Babur, Bülent Arman Aksoy, Emek Demir, & Chris Sander. (2015). PaxtoolsR: pathway analysis in R using Pathway Commons. Bioinformatics. 32(8). 1262–1264. 20 indexed citations
10.
Moodie, Stuart, Nicolas Le Novère, Emek Demir, Huaiyu Mi, & Alice Villéger. (2015). Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3. Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics. 12(2). 213–280. 12 indexed citations
11.
Mi, Huaiyu, Falk Schreiber, Stuart Moodie, et al.. (2015). Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2. PubMed. 12(2). 265–265. 19 indexed citations
12.
Babur, Özgün, Mithat Gönen, Bülent Arman Aksoy, et al.. (2015). Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations. Genome Biology. 16(1). 45–45. 106 indexed citations
13.
Hucka, Michael, David Nickerson, Gary D. Bader, et al.. (2015). Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative. Frontiers in Bioengineering and Biotechnology. 3. 19–19. 51 indexed citations
14.
Aksoy, Bülent Arman, Emek Demir, Özgün Babur, et al.. (2014). Prediction of individualized therapeutic vulnerabilities in cancer from genomic profiles. Bioinformatics. 30(14). 2051–2059. 25 indexed citations
15.
Babur, Özgün, Uğur Doğrusöz, Merve Çakır, et al.. (2014). Integrating biological pathways and genomic profiles with ChiBE 2. BMC Genomics. 15(1). 642–642. 20 indexed citations
16.
Nishi, Hafumi, Emek Demir, & Anna R. Panchenko. (2014). Crosstalk between Signaling Pathways Provided by Single and Multiple Protein Phosphorylation Sites. Journal of Molecular Biology. 427(2). 511–520. 40 indexed citations
17.
Babur, Özgün, Emek Demir, Mithat Gönen, Chris Sander, & Uğur Doğrusöz. (2010). Discovering modulators of gene expression. Nucleic Acids Research. 38(17). 5648–5656. 27 indexed citations
18.
Doğrusöz, Uğur, et al.. (2009). Algorithms for effective querying of compound graph-based pathway databases. BMC Bioinformatics. 10(1). 376–376. 21 indexed citations
19.
Babur, Özgün, Recep Çolak, Emek Demir, & Uğur Doğrusöz. (2008). PATIKAmad: Putting microarray data into pathway context. PROTEOMICS. 8(11). 2196–2198. 6 indexed citations
20.
Babur, Özgün, Emek Demir, Aslı Ayaz, Uğur Doğrusöz, & Onur Sakarya. (2004). Microarray data analysis and pathway activity inference in PATIKA. Bilkent University Institutional Repository (Bilkent University). 1 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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