PharmKG: a dedicated knowledge graph benchmark for bomedical data mining. Zheng S, Rao J, Song Y, Zhang J, Xiao X, Fang EF, Yang Y, Niu Z. Brief Bioinform. 2020 Dec 21:bbaa344. doi: 10.1093/bib/bbaa344. PMID: 33341877
Learning from metabolic networks: current trends and future directions for precision medicine. Granata I, Manzo M, Kusumastuti A, Guarracino MR. Curr Med Chem. 2020 Dec 16. doi: 10.2174/0929867328666201217103148. PMID: 33334277
Drug Repurposing for COVID-19 using Graph Neural Network with Genetic, Mechanistic, and Epidemiological Validation. Hsieh KL, Wang Y, Chen L, Zhao Z, Savitz S, Jiang X, Tang J, Kim Y. Res Sq. 2020 Dec 11:rs.3.rs-114758. doi: 10.21203/rs.3.rs-114758/v1. Preprint. PMID: 33330858
Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. Gordon DE, Hiatt J, Bouhaddou M, [...] Beltrao P, Krogan NJ. Science. 2020 Dec 4;370(6521):eabe9403. PMID: 33060197
The role of the microbiota in human genetic adaptation. Suzuki TA, Ley RE. Science. 2020 Dec 4;370(6521):eaaz6827. doi: 10.1126/science.aaz6827. PMID: 33273073 Review.
A systematic comprehensive longitudinal evaluation of dietary factors associated with acute myocardial infarction and fatal coronary heart disease. Milanlouei S, Menichetti G, Li Y, Loscalzo J, Willett WC, Barabási AL. Nat Commun. 2020 Nov 27;11(1):6074. doi: 10.1038/s41467-020-19888-2. PMID: 33247093
Multi-omics integration in biomedical research - A metabolomics-centric review. Wörheide MA, Krumsiek J, Kastenmüller G, Arnold M. Anal Chim Acta. 2021 Jan 2;1141:144-162. doi: 10.1016/j.aca.2020.10.038. PMID: 33248648
DRIM: A Web-Based System for Investigating Drug Response at the Molecular Level by Condition-Specific Multi-Omics Data Integration.
Oh M, Park S, Lee S, Lee D, Lim S, Jeong D, Jo K, Jung I, Kim S.
Front Genet. 2020 Nov 12;11:564792. doi: 10.3389/fgene.2020.564792.
PMID: 33281870
Web server:
http://biohealth.snu.ac.kr/software/DRIM/
Drug2ways: Reasoning over causal paths in biological networks for drug discovery. Rivas-Barragan D, Mubeen S, Guim Bernat F, Hofmann-Apitius M, Domingo-Fernández D. PLoS Comput Biol. 2020 Dec 2;16(12):e1008464. doi: 10.1371/journal.pcbi.1008464. PMID: 33264280
KinaseMD: kinase mutations and drug response database. Hu R, Xu H, Jia P, Zhao Z. Nucleic Acids Res. 2020 Nov 2:gkaa945. PMID: 33137204
Multi-omics analyses of radiation survivors identify radioprotective microbes and metabolites. Guo H, Chou WC, Lai Y, Liang K, Tam JW, Brickey WJ, Chen L, Montgomery ND, Li X, Bohannon LM, Sung AD, Chao NJ, Peled JU, Gomes ALC, van den Brink MRM, French MJ, Macintyre AN, Sempowski GD, Tan X, Sartor RB, Lu K, Ting JPY. Science. 2020 Oct 30;370(6516):eaay9097. PMID: 33122357
CGINet: graph convolutional network-based model for identifying chemical-gene interaction in an integrated multi-relational graph. Wang W, Yang X, Wu C, Yang C. BMC Bioinformatics. 2020 Nov 26;21(1):544. doi: 10.1186/s12859-020-03899-3. PMID: 33243142
Preclinical validation of therapeutic targets predicted by tensor factorization on heterogeneous graphs. Paliwal S, de Giorgio A, Neil D, Michel JB, Lacoste AM. Sci Rep. 2020 Oct 26;10(1):18250. doi: 10.1038/s41598-020-74922-z. PMID: 33106501
Designing a Network Proximity-Based Drug Repurposing Strategy for COVID-19. Stolfi P, Manni L, Soligo M, Vergni D, Tieri P. Front Cell Dev Biol. 2020 Oct 6;8:545089. PMID: 33123533
PIMD: An Integrative Approach for Drug Repositioning Using Multiple Characterization Fusion. He S, Wen Y, Yang X, Liu Z, Song X, Huang X, Bo X. Genomics Proteomics Bioinformatics. 2020 Oct 16:S1672-0229(20)30123-6. PMID: 33075523
Exploring food contents in scientific literature with FoodMine.
Hooton F, Menichetti G, Barabási AL.
Sci Rep. 2020 Oct 1;10(1):16191.
PMID: 33004889
Data and code: https://github.com/fhooton/FoodMine
...alternative to FooDB
if data problems persist, or would the processing be too long/complex?
Integration of anatomy ontology data with protein-protein interaction networks improves the candidate gene prediction accuracy for anatomical entities. Fernando PC, Mabee PM, Zeng E. BMC Bioinformatics. 2020 Oct 7;21(1):442. PMID: 33028186
Analysis of the infant gut microbiome reveals metabolic functional roles associated with healthy infants and infants with atopic dermatitis using metaproteomics. Kingkaw A, Nakphaichit M, Suratannon N, Nitisinprasert S, Wongoutong C, Chatchatee P, Krobthong S, Charoenlappanit S, Roytrakul S, Vongsangnak W. PeerJ. 2020 Sep 25;8:e9988. PMID: 33033661
PheMap: a multi-resource knowledge base for high-throughput phenotyping within electronic health records. Zheng NS, Feng Q, Kerchberger VE, Zhao J, Edwards TL, Cox NJ, Stein CM, Roden DM, Denny JC, Wei WQ. J Am Med Inform Assoc. 2020 Sep 24:ocaa104. PMID: 32974638
Microbiome-derived inosine modulates response to checkpoint inhibitor immunotherapy. Mager LF, Burkhard R, Pett N, Cooke NCA, Brown K, Ramay H, Paik S, Stagg J, Groves RA, Gallo M, Lewis IA, Geuking MB, McCoy KD. Science. 2020 Sep 18;369(6510):1481-1489. PMID: 32792462
Drug Repurposing for COVID-19 using Graph Neural Network with Genetic, Mechanistic, and Epidemiological Validation. Hsieh K, Wang Y, Chen L, Zhao Z, Savitz S, Jiang X, Tang J, Kim Y. ArXiv. 2020 Sep 23. pii: arXiv:2009.10931v1. PMID: 32995367
Artificial intelligence in COVID-19 drug repurposing. Zhou Y, Wang F, Tang J, Nussinov R, Cheng F. Lancet Digit Health. 2020 Sep 18. PMID: 32984792
RepCOOL: computational drug repositioning via integrating heterogeneous biological networks. Fahimian G, Zahiri J, Arab SS, Sajedi RH. J Transl Med. 2020 Oct 2;18(1):375. PMID: 33008415
NEDD: a network embedding based method for predicting drug-disease associations. Zhou R, Lu Z, Luo H, Xiang J, Zeng M, Li M. BMC Bioinformatics. 2020 Sep 17;21(Suppl 13):387. PMID: 32938396
The COVID-19 Drug and Gene Set Library.
Kuleshov MV, Stein DJ, Clarke DJB, Kropiwnicki E, Jagodnik KM, Bartal A, Evangelista JE, Hom J, Cheng M, Bailey A, Zhou A, Ferguson LB, Lachmann A, Ma'ayan A.
Patterns (N Y). 2020 Sep 11;1(6):100090.
PMID: 32838343
Website:
https://amp.pharm.mssm.edu/covid19/
Nutriome-metabolome relationships provide insights into dietary intake and metabolism. Posma JM, Garcia-Perez I, Frost G, Aljuraiban GS, Chan Q, Van Horn L, Daviglus M, Stamler J, Holmes E, Elliott P, Nicholson JK. Nat Food. 2020 Jul;1(7):426-436. PMID: 32954362
A global network for network medicine. Maron BA, Altucci L, Balligand JL, Baumbach J, Ferdinandy P, Filetti S, Parini P, Petrillo E, Silverman EK, Barabási AL, Loscalzo J; International Network Medicine Consortium. NPJ Syst Biol Appl. 2020 Aug 31;6(1):29. doi: 10.1038/s41540-020-00143-9. PMID: 32868765
CaNDis: A web server for investigation of causal relationships between diseases, drugs, and drug targets.
Škrlj B, Eržen N, Lavrač N, Kunej T, Konc J.
Bioinformatics. 2020 Sep 1:btaa762. doi: 10.1093/bioinformatics/btaa762.
PMID: 32871004
Web server: candis.insilab.org
(3D network visualization implemented in WebGL)
Prediction of drug-target interactions from multi-molecular network based on LINE network representation method. Ji BY, You ZH, Jiang HJ, Guo ZH, Zheng K. J Transl Med. 2020 Sep 7;18(1):347. doi: 10.1186/s12967-020-02490-x. PMID: 32894154
ImmunoGlobe: enabling systems immunology with a manually curated intercellular immune interaction network. Atallah MB, Tandon V, Hiam KJ, Boyce H, Hori M, Atallah W, Spitzer MH, Engleman E, Mallick P. BMC Bioinformatics. 2020 Aug 10;21(1):346. doi: 10.1186/s12859-020-03702-3. PMID: 32778050
The Anatomy of SARS-CoV-2 BioMedical Literature: Introducing the CovidX Network Algorithm for Drug Repurposing Recommendation. Gates LE, Hamed AA. J Med Internet Res. 2020 Jul 24. doi: 10.2196/21169. PMID: 32735546
Knowledge-driven drug repurposing using a comprehensive drug knowledge graph. Zhu Y, Che C, Jin B, Zhang N, Su C, Wang F. Health Informatics J. 2020 Jul 17:1460458220937101. doi: 10.1177/1460458220937101. PMID: 32674665
iDrug: Integration of drug repositioning and drug-target prediction via cross-network embedding. Chen H, Cheng F, Li J. PLoS Comput Biol. 2020 Jul 15;16(7):e1008040. doi: 10.1371/journal.pcbi.1008040. PMID: 32667925
A machine learning and network framework to discover new indications for small molecules. Gilvary C, Elkhader J, Madhukar N, Henchcliffe C, Goncalves MD, Elemento O. PLoS Comput Biol. 2020 Aug 7;16(8):e1008098. doi: 10.1371/journal.pcbi.1008098. PMID: 32764756
Repurpose Open Data to Discover Therapeutics for COVID-19 using Deep Learning. Zeng X, Song X, Ma T, Pan X, Zhou Y, Hou Y, Zhang Z, Li K, Karypis G, Cheng F. J Proteome Res. 2020 Jul 12. doi: 10.1021/acs.jproteome.0c00316. PMID: 32654489
PrGeFNE: Predicting disease-related genes by fast network embedding.
Xiang J, Zhang NR, Zhang JS, Lv XY, Li M.
Methods. 2020 Jun 28:S1046-2023(20)30102-X. doi: 10.1016/j.ymeth.2020.06.015.
PMID: 32610158
Web tool:
http://bioinformatics.csu.edu.cn/prgefne/
uKIN Combines New and Prior Information with Guided Network Propagation to Accurately Identify Disease Genes.
Hristov BH, Chazelle B, Singh M. Cell Syst. 2020 Jun 24;10(6):470-479.e3.
doi: 10.1016/j.cels.2020.05.008. PMID: 32684276
Code (Ruby, requires Matlab): https://github.com/Singh-Lab/uKIN
A Survey of Network Embedding for Drug Analysis and Prediction. Liu Z, Chen Q, Lan W, Liang J, Chen YP, Chen B. Curr Protein Pept Sci. 2020 Jul 2. doi: 10.2174/1389203721666200702145701. PMID: 32614745
Integrated Multi-Omics Analyses in Oncology: A Review of Machine Learning Methods and Tools. Nicora G, Vitali F, Dagliati A, Geifman N, Bellazzi R. Front Oncol. 2020 Jun 30;10:1030. doi: 10.3389/fonc.2020.01030. PMID: 32695678
Toward heterogeneous information fusion: bipartite graph convolutional networks for in silico drug repurposing.
Wang Z, Zhou M, Arnold C.
Bioinformatics. 2020 Jul 1;36(Supplement_1):i525-i533.
doi: 10.1093/bioinformatics/btaa437. PMID: 32657387
Code and data: https://github.com/zcwang0702/BiFusion
Network Medicine Framework for Identifying Drug Repurposing Opportunities for COVID-19.
Gysi DM, Do Valle Í, Zitnik M, Ameli A, Gan X, Varol O, Sanchez H, Baron RM, Ghiassian D, Loscalzo J, Barabási AL.
ArXiv. 2020 Apr 15:arXiv:2004.07229v1. Preprint.
PMID: 32550253
Presentation:
HTML slides
Rapid repurposing of drugs for COVID-19. Guy RK, DiPaola RS, Romanelli F, Dutch RE. Science. 2020 May 22;368(6493):829-830. doi: 10.1126/science.abb9332. PMID: 32385101
miRNet 2.0: network-based visual analytics for miRNA functional analysis and systems biology.
Chang L, Zhou G, Soufan O, Xia J.
Nucleic Acids Res. 2020 Jun 2:gkaa467. doi: 10.1093/nar/gkaa467.
PMID: 32484539
Website:
https://www.mirnet.ca/
Scoring functions for drug-effect similarity.
Struckmann S, Ernst M, Fischer S, Mah N, Fuellen G, Möller S.
Brief Bioinform. 2020 Jun 2:bbaa072. doi: 10.1093/bib/bbaa072.
PMID: 32484516
Scripts and data:
https://bitbucket.org/ibima/moldrugeffectsdb
The human tumor microbiome is composed of tumor type–specific intracellular bacteria. Nejman D, Livyatan I, Fuks G, [...] Straussman R. Science. 2020 May 29;368(6494):973-980. doi: 10.1126/science.aay9189. PMID: 32467386
Drug repositioning for psychiatric and neurological disorders through a network medicine approach. Lüscher Dias T, Schuch V, Beltrão-Braga PCB, Martins-de-Souza D, Brentani HP, Franco GR, Nakaya HI. Transl Psychiatry. 2020 May 12;10(1):141. doi: 10.1038/s41398-020-0827-5. PMID: 32398742
Meet the psychobiome. Pennisi E. Science. 2020 May 8;368(6491):570-573. doi: 10.1126/science.368.6491.570. PMID: 32381701
COVID-19 Open Research Dataset (CORD-19)
a collection of >100,000 related papers (aggregated mainly
for use with automated approaches, e.g. machine learning)
Personalized whole-body models integrate metabolism, physiology, and the gut microbiome.
Thiele I, Sahoo S, Heinken A, Hertel J, Heirendt L, Aurich MK, Fleming RM.
Mol Syst Biol. 2020 May;16(5):e8982. doi: 10.15252/msb.20198982. PMID: 32463598
Website: Virtual Metabolic Human
MATLAB scripts: COBRA (COnstraint-Based Reconstruction and Analysis) Toolbox
Disease Module Identification Based on Representation Learning of Complex Networks Integrated From GWAS, eQTL Summaries, and Human Interactome. Wang T, Peng Q, Liu B, Liu Y, Wang Y. Front Bioeng Biotechnol. 2020 May 6;8:418. doi: 10.3389/fbioe.2020.00418. PMID: 32435638
Abstract only (Elsevier): LINCS Dataset-Based Repositioning of Rosiglitazone as a Potential Anti-human Adenovirus Drug. Wang X, He S, Zhou Z, Bo X, Qi D, Fu X, Wang Z, Yang J, Wang S. Antiviral Res. 2020 Apr 27:104789. doi: 10.1016/j.antiviral.2020.104789. [Epub ahead of print] PMID: 32353383
Learning Representations to Predict Intermolecular Interactions on Large-Scale Heterogeneous Molecular Association Network. Yi HC, You ZH, Huang DS, Guo ZH, Chan KCC, Li Y. iScience. 2020 Jun 11;23(7):101261. doi: 10.1016/j.isci.2020.101261. PMID: 32580123
The Integrated Landscape of Biological Candidate Causal Genes in Coronary Artery Disease. Zheng Q, Ma Y, Chen S, Che Q, Chen D. Front Genet. 2020 Apr 21;11:320. doi: 10.3389/fgene.2020.00320. PMID: 32373157
Network Medicine Imperative and the Need for an International Network Medicine Consortium.
Parini P, Altucci L, Balligand JL, Baumbach PDJ, Ferdinandy P, Filetti S, Maron BM, Petrillo E, Silverman EK, Barabasi AL, Loscalzo J; International Network Medicine Consortium**.
Am J Med. 2020 Apr 19. pii: S0002-9343(20)30340-5. doi: 10.1016/j.amjmed.2020.03.034. [Epub ahead of print]
PMID: 32320696
Presentation:
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Drug research meets network science: where are we? Recanatini M, Cabrelle C. J Med Chem. 2020 Apr 27. doi: 10.1021/acs.jmedchem.9b01989. [Epub ahead of print] PMID: 32338900
Predicting miRNA-disease association from heterogeneous information network with GraRep embedding model. Ji BY, You ZH, Cheng L, Zhou JR, Alghazzawi D, Li LP. Sci Rep. 2020 Apr 20;10(1):6658. doi: 10.1038/s41598-020-63735-9. PMID: 32313121
Recent Advances in Systems and Network Medicine: Meeting Report from the First International Conference in Systems and Network Medicine. Kurnat-Thoma E, Baranova A, Baird P, Brodsky E, Butte AJ, Cheema AK, Cheng F, Dutta S, Grant C, Giordano J, Maitland-van der Zee AH, Fridsma DB, Jarrin R, Kann MG, Keeney J, Loscalzo J, Madhavan G, Maron BA, McBride DK, McKean M, Mun SK, Palmer JC, Patel B, Parakh K, Pariser AR, Pristipino C, Radstake TRDJ, Rajasimha HK, Rouse WB, Rozman D, Saleh A, Schmidt HHHW, Schultz N, Sethi T, Silverman EK, Skopac J, Svab I, Trujillo S, Valentine JE, Verma D, West BJ, Vasudevan S. Syst Med (New Rochelle). 2020 Feb 26;3(1):22-35. doi: 10.1089/sysm.2020.0001. PMID: 32226924
SCNrank: spectral clustering for network-based ranking to reveal potential drug targets and its application in pancreatic ductal adenocarcinoma. Liu E, Zhang ZZ, Cheng X, Liu X, Cheng L. BMC Med Genomics. 2020 Apr 3;13(Suppl 5):50. doi: 10.1186/s12920-020-0681-6. PMID: 32241274
A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.
Gordon DE, Jang GM, ... Shoichet BK, Krogan NJ.
Nature. 2020 Jul 16;583(7816):459–468.
PMID: 32353859
(Related: human-SARS-CoV-2 interactome inferred through homology
by the Korkin lab, WPI, available as Cytoscape file
here)
Renin–Angiotensin–Aldosterone System Inhibitors in Patients with Covid-19.
Vaduganathan M, Vardeny O, Michel T, McMurray JJV, Pfeffer MA, Solomon SD.
N Eng J Med. 2020 Mar 30; DOI: 10.1056/NEJMsr2005760
Presentation:
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Exploring Integrative Analysis Using the BioMedical Evidence Graph.
Struck A, Walsh B, Buchanan A, Lee JA, Spangler R, Stuart JM, Ellrott K.
JCO Clin Cancer Inform. 2020 Feb;4:147-159. doi: 10.1200/CCI.19.00110.
PMID: 32097025
Presentation:
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Oral lichen planus interactome reveals CXCR4 and CXCL12 as candidate therapeutic targets. Rivera C, Crisóstomo MF, Peña C, González-Díaz P, González-Arriagada WA. Sci Rep. 2020 Mar 25;10(1):5454. doi: 10.1038/s41598-020-62258-7. PMID: 32214134
NBIA: a network-based integrative analysis framework - applied to pathway analysis. Nguyen T, Shafi A, Nguyen TM, Schissler AG, Draghici S. Sci Rep. 2020 Mar 6;10(1):4188. doi: 10.1038/s41598-020-60981-9. PMID: 32144346
An atlas of the protein-coding genes in the human, pig, and mouse brain.
Sjöstedt E, Zhong W, Fagerberg L, Karlsson M, Mitsios N, Adori C, Oksvold P, Edfors F, Limiszewska A, Hikmet F, Huang J, Du Y, Lin L, Dong Z, Yang L, Liu X, Jiang H, Xu X, Wang J, Yang H, Bolund L, Mardinoglu A, Zhang C, von Feilitzen K, Lindskog C, Pontén F, Luo Y, Hökfelt T, Uhlén M, Mulder J.
Science. 2020 Mar 6;367(6482). pii: eaay5947. doi: 10.1126/science.aay5947.
PMID: 32139519
...Brain Atlas is part of the Human Protein Atlas
Prediction of Side Effects Using Comprehensive Similarity Measures. Seo S, Lee T, Kim MH, Yoon Y. Biomed Res Int. 2020 Feb 27;2020:1357630. doi: 10.1155/2020/1357630. PMID: 32190647
Deep graph embedding for prioritizing synergistic anticancer drug combinations. Jiang P, Huang S, Fu Z, Sun Z, Lakowski TM, Hu P. Comput Struct Biotechnol J. 2020 Feb 15;18:427-438. doi: 10.1016/j.csbj.2020.02.006. PMID: 32153729
Prediction of new associations between ncRNAs and diseases exploiting multi-type hierarchical clustering. Barracchia EP, Pio G, D'Elia D, Ceci M. BMC Bioinformatics. 2020 Feb 24;21(1):70. doi: 10.1186/s12859-020-3392-2. PMID: 32093606
Cooperative driver pathway discovery via fusion of multi-relational data of genes, miRNAs and pathways. Wang J, Yang Z, Domeniconi C, Zhang X, Yu G. Brief Bioinform. 2020 Feb 26. pii: bbz167. doi: 10.1093/bib/bbz167. [Epub ahead of print] PMID: 32103253
Heterogeneous Multi-Layered Network Model for Omics Data Integration and Analysis. Lee B, Zhang S, Poleksic A, Xie L. Front Genet. 2020 Jan 28;10:1381. doi: 10.3389/fgene.2019.01381. Review. PMID: 32063919
Optimisation of cancer classification by machine learning generates an enriched list of candidate drug targets and biomarkers. Ramroach S, Joshi A, John M. Mol Omics. 2020 Feb 25. doi: 10.1039/c9mo00198k. [Epub ahead of print] PMID: 32095794
Biomedical data and computational models for drug repositioning: a comprehensive review. Luo H, Li M, Yang M, Wu FX, Li Y, Wang J. Brief Bioinform. 2020 Feb 10. pii: bbz176. doi: 10.1093/bib/bbz176. [Epub ahead of print] PMID: 32043521
The exposome and health: Where chemistry meets biology.
Vermeulen R, Schymanski EL, Barabási AL, Miller GW.
Science. 2020 Jan 24;367(6476):392-396. doi: 10.1126/science.aay3164. Review.
PMID: 31974245
Presentation:
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Next-generation drug repurposing using human genetics and network biology. Nabirotchkin S, Peluffo AE, Rinaudo P, Yu J, Hajj R, Cohen D. Curr Opin Pharmacol. 2020 Jan 22. pii: S1471-4892(19)30123-7. doi: 10.1016/j.coph.2019.12.004. [Epub ahead of print] Review. PMID: 31982325
Tissue-guided LASSO for prediction of clinical drug response using preclinical samples. Huang EW, Bhope A, Lim J, Sinha S, Emad A. PLoS Comput Biol. 2020 Jan 22;16(1):e1007607. doi: 10.1371/journal.pcbi.1007607. PMID: 31967990
Combined network pharmacology and virtual reverse pharmacology approaches for identification of potential targets to treat vascular dementia. Lagunin AA, Ivanov SM, Gloriozova TA, Pogodin PV, Filimonov DA, Kumar S, Goel RK. Sci Rep. 2020 Jan 14;10(1):257. doi: 10.1038/s41598-019-57199-9. PMID: 31937840
Metabolic Network Reconstructions to Predict Drug Targets and Off-Target Effects. Rawls K, Dougherty BV, Papin J. Methods Mol Biol. 2020;2088:315-330. doi: 10.1007/978-1-0716-0159-4_14. PMID: 31893380
Incorporating Multisource Knowledge to Predict Drug Synergy based on Graph Co-regularization. Ding P, Shen C, Lai Z, Liang C, Li G, Luo J. J Chem Inf Model. 2019 Dec 31. doi: 10.1021/acs.jcim.9b00793. [Epub ahead of print] PMID: 31891264
Prediction of comorbid diseases using weighted geometric embedding of human interactome. Akram P, Liao L. BMC Med Genomics. 2019 Dec 30;12(Suppl 7):161. doi: 10.1186/s12920-019-0605-5. PMID: 31888634