IDG Publications
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The Target Watch series in Nature Reviews Drug Discovery::
- "Novel drug targets in 2018" by O. Ursu, M. Glick, T. Oprea (Nature Reviews Drug Discovery 18, 328 (2019), doi: https://doi.org/10.1038/d41573-019-00052-5.)
- "CDK16: the pick of the understudied PCTAIRE kinases" by Alison Axtman, David Drewry & Carrow Wells (Nature Reviews Drug Discovery 2019 Jul;18(7):489. doi: https://doi.org/10.1038/d41573-019-00076-x.)
- "RIOK2: straddling the kinase/ATPase line" by Christopher R. M. Asquith, Michael P. East & William J. Zuercher (Nature Reviews Drug Discovery 18, 574 (2019). doi: https://doi.org/10.1038/d41573-019-00107-7)
- "TRIC-B: an under-explored druggable ion channel" by Zicheng Hu & Olga Gulyaeva (Nature Reviews Drug Discovery 18, 657 (2019). doi: https://doi.org/10.1038/d41573-019-00131-7
- "ADCK3/COQ8A: the choice target of the UbiB protein kinase-like family" by Christopher R. M. Asquith, Nathan H. Murray & David J. Pagliarini (Nature Reviews Drug Discovery 18, 815 (2019). doi: https://doi.org/10.1038/d41573-019-00158-w)
- "PKMYT1: a forgotten member of the WEE1 family" by Christopher R. M. Asquith, Tuomo Laitinen & Michael P. East (Nature Reviews Drug Discovery 19, 157 (2020) doi: https://doi.org/10.1038/d41573-019-00202-9)
- "GPR84: an immune response dial?" by Megan L. Wojciechowicz & Avi Ma’ayan (Nature Reviews Drug Discovery 19, 374 (2020) doi: https://doi.org/10.1038/d41573-020-00029-9)
- "Novel drug targets in 2019" by Sorin Avram, Liliana Halip, Ramona Curpan & Tudor I. Oprea (Nature Reviews Drug Discovery 19, 300 (2020) doi: https://doi.org/10.1038/d41573-020-00052-w)
- "PIP5K1A: a potential target for cancers with KRAS or TP53 mutations" by Michael P. East, Tuomo Laitinen & Christopher R. M. Asquith (Nature Reviews Drug Discovery 19, 436 (2020) doi: https://doi.org/10.1038/d41573-020-00067-3)
- "KNa1.1 channels as a target for treating early-onset epilepsy" by Zicheng Hu, Hannah N. Gruner, Jana Gagacheva & Olga Gulyaeva (Nature Reviews Drug Discovery 19, 502 (2020) doi: https://doi.org/10.1038/d41573-020-00092-2)
- "STK19: a new target for NRAS-driven cancer" by Christopher R. M. Asquith & Louisa Temme (Nature Reviews Drug Discovery 19, 579 (2020) doi: https://doi.org/10.1038/d41573-020-00116-x)
- "HCAR3: an underexplored metabolite sensor" by Nicholas J. Kapolka & Daniel G. Isom (Nature Reviews Drug Discovery 19, 745 (2020) doi: https://doi.org/10.1038/d41573-020-00173-2)
- "WNK kinases: an untapped opportunity to modulate ion transport" by Michael P. East, Tuomo Laitinen & Christopher R. M. Asquith (Nature Reviews Drug Discovery 19, 828 (2020) doi: https://doi.org/10.1038/d41573-020-00196-9)
- "CDC42BPA/MRCKα: a kinase target for brain, ovarian and skin cancers" by Michael P. East & Christopher R. M. Asquith (Nature Reviews Drug Discovery 20, 167 (2021) doi: https://doi.org/10.1038/d41573-021-00023-9)
- "Novel drug targets in 2020" by Sorin Avram , Liliana Halip , Ramona Curpan & Tudor I. Oprea (Nature Reviews Drug Discovery 20, 333 (2021) https://doi.org/10.1038/d41573-021-00057-z)
- "BCKDK: an emerging kinase target for metabolic diseases and cancer" by Michael P. East , Tuomo Laitinen & Christopher R. M. Asquith (Nature Reviews Drug Discovery 20, 498 (2021) https://doi.org/10.1038/d41573-021-00107-6)
- "PIKfyve: a lipid kinase target for COVID-19, cancer and neurodegenerative disorders" by Pei-Tzu Huang , Shirit Einav & Christopher R. M. Asquith (Nature Reviews Drug Discovery 20, 730 (2021) https://doi.org/10.1038/d41573-021-00158-9 )
- “eEF2K: an atypical kinase target for cancer” by Louisa Temme & Christopher R. M. Asquith (Nature Reviews Drug Discovery, 20, 577 (2021) https://doi.org/10.1038/d41573-021-00124-5
- "Novel drug targets in 2021" by Sorin Avram , Liliana Halip , Ramona Curpan & Tudor I. Oprea (Nature Reviews Drug Discovery, 21, 328 (2022)) https://doi.org/10.1038/d41573-022-00057-7
- "PKN3: a target in cancer metastasis" by Louisa Temme, Tuomo Laitinen & Christopher R. M. Asquith (Nature Reviews Drug Discovery, 21, 704 (2022)) https://doi.org/10.1038/d41573-022-00154-7
- "Novel drug targets in 2022" by Sorin Avram, Liliana Halip, Ramona Curpan & Tudor I. Oprea (Nature Reviews Drug Discovery, 22, 437 (2023)) https://doi.org/10.1038/d41573-023-00068-y
- "Novel drug targets in 2023" by Sorin Avram, Liliana Halip, Ramona Curpan & Tudor I. Oprea (Nature Reviews Drug Discovery, 23, 330 (2024)) https://doi.org/10.1038/d41573-024-00057-9
- "TLK2: a target for cancer and viral latency" by Luca Pozzetti, Michael P. East, Tuomo Laitinen & Christopher R. M. Asquith (Nature Reviews Drug Discovery, ** (2024)) https://doi.org/10.1038/d41573-024-00163-8
| Publication Title | Authors | Journal | Publication Date | Page No | PubMedID |
|---|---|---|---|---|---|
| Quantitative proteomic mass spectrometry of protein kinases to determine dynamic heterogeneity of the human kinome. | Michael P East, Robert W Sprung, Denis O Okumu, J Felix Olivares-Quintero, Chinmaya U Joisa, Xin Chen, Qiang Zhang, Petra Erdmann-Gilmore, Yiling Mi, Noah Sciaky, James P Malone, Sonam Bhatia, Ian C McCabe, Yi Xu, Matthew D Sutcliffe, Jingqin Luo, Patricia A Spears, Charles M Perou, H Shelton Earp, Lisa A Carey, Jen Jen Yeh, David L Spector, Shawn M Gomez, Philip M Spanheimer, R Reid Townsend, Gary L Johnson. | bioRxiv | 2024 Oct 4; | 39464086 | |
| Kinome state is predictive of cell viability in pancreatic cancer tumor and cancer-associated fibroblast cell lines. | Matthew E Berginski, Madison R Jenner, Chinmaya U Joisa, Gabriela Herrera Loeza, Brian T Golitz, Matthew B Lipner, Jack R Leary, Naim Rashid, Gary L Johnson, Jen Jen Yeh, Shawn M Gomez. | PeerJ. | 2024 Aug 28; | 39221276 | |
| Multiomics2Targets identifies targets from cancer cohorts profiled with transcriptomics, proteomics, and phosphoproteomics. | Eden Z Deng, Giacomo B Marino, Daniel J B Clarke, Ido Diamant, Adam C Resnick, Weiping Ma, Pei Wang, Avi Ma'ayan. | Cell Rep Methods. | 2024 Aug 4; | 39127042 | |
| PIP4K2C inhibition reverses autophagic flux impairment induced by SARS-CoV-2. | Karim M, Mishra M, Lo CW, Saul S, Cagirici HB, Tran DHN, Agrawal A, Ghita L, Ojha A, East MP, Gammeltoft KA, Sahoo MK, Johnson GL, Das S, Jochmans D, Cohen CA, Gottwein J, Dye J, Neff N, Pinsky BA, Laitinen T, Pantsar T, Poso A, Zanini F, Jonghe S, Asquith CRM, Einav S. | bioRxiv. | 2024 Apr 17; | 38659941 | |
| MRGPRX4 mediates phospho-drug-associated pruritus in a humanized mouse model. | Chien D CC, Limjunyawong N, Cao C, Meixiong J, Peng Q, Ho C, Fay JF, Roth BL, Dong X. | Sci Transl Med. | 2024 May 8; | 38718132 | |
| Rummagene: massive mining of gene sets from supporting materials of biomedical research publications. | Clarke DJB, Marino GB, Deng EZ, Xie Z, Evangelista JE, Ma'ayan A. | Commun Biol. | 2024 Apr 20; | 38643247 | |
| Discovery and optimization of narrow spectrum inhibitors of Tousled like kinase 2 (TLK2) using quantitative structure activity relationships. | Asquith CRM, East MP, Laitinen T, Alamillo-Ferrer C, Hartikainen E, Wells CI, Axtman AD, Drewry DH, Tizzard GJ, Poso A, Willson TM, Johnson GL. | Eur J Med Chem. | 2024 Apr 2; | 38636130 | |
| Bitter taste receptor activation by cholesterol and an intracellular tastant. | Kim Y, Gumpper RH, Liu Y, Kocak DD, Xiong Y, Cao C, Deng Z, Krumm BE, Jain MK, Zhang S, Jin J, Roth BL. | Nature. | 2024 Apr 10; | 38600377 | |
| Utilizing Low-Dimensional Molecular Embeddings for Rapid Chemical Similarity Search. | Kirchoff KE, Wellnitz J, Hochuli JE, Maxfield T, Popov KI, Gomez S, Tropsha A.. | Adv Inf Retr. | 2024 Mar; | 38585224 | |
| Synthesis of 5-Benzylamino and 5-Alkylamino-Substituted Pyrimido[4,5-c]quinoline Derivatives as CSNK2A Inhibitors with Antiviral Activity. | Asressu KH, Smith JL, Dickmander RJ, Moorman NJ, Wellnitz J, Popov KI, Axtman AD, Willson TM.. | Pharmaceuticals (Basel). | 2024 Feb 27; | 38543092 | |
| Kinome-Wide Virtual Screening by Multi-Task Deep Learning. | Hu J, Allen BK, Stathias V, Ayad NG, Schürer SC.. | Int J Mol Sci. | 2024 Feb 22; | 38473785 | |
| Bioinformatic analysis of human ZPR1 gene pathogenic exome mutations. | Abok JI, Garver WS, Edwards JS.. | bioRxiv. | 2024 Mar 1; | 38464185 | |
| Pan-cancer proteogenomics characterization of tumor immunity. | Petralia F, Ma W, Yaron TM, Caruso FP, Tignor N, Wang JM, Charytonowicz D, Johnson JL, Huntsman EM, Marino GB, Calinawan A, Evangelista JE, Selvan ME, Chowdhury S, Rykunov D, Krek A, Song X, Turhan B, Christianson KE, Lewis DA, Deng EZ, Clarke DJB, Whiteaker JR, Kennedy JJ, Zhao L, Segura RL, Batra H, Raso MG, Parra ER, Soundararajan R, Tang X, Li Y, Yi X, Satpathy S, Wang Y, Wiznerowicz M, González-Robles TJ, Iavarone A, Gosline SJC, Reva B, Robles AI, Nesvizhskii AI, Mani DR, Gillette MA, Klein RJ, Cieslik M, Zhang B, Paulovich AG, Sebra R, Gümüş ZH, Hostetter G, Fenyö D, Omenn GS, Cantley LC, Ma'ayan A, Lazar AJ, Ceccarelli M, Wang P; Clinical Proteomic Tumor Analysis Consortium.. | Cell. | 2024 Feb 29; | 38359819 | |
| Alternative splicing of latrophilin-3 controls synapse formation. | Wang S, DeLeon C, Sun W, Quake SR, Roth BL, Südhof TC.. | Nature. | 2024 Feb; | 38233523 | |
| Overview of the Knowledge Management Center for Illuminating the Druggable Genome. | Oprea TI, Bologa C, Holmes J, Mathias S, Metzger VT, Waller A, Yang JJ, Leach AR, Jensen LJ, Kelleher KJ, Sheils TK, Mathé E, Avram S, Edwards JS.. | Drug Discov Today. | 2024 Mar; | 38218214 | |
| Illuminating function of the understudied druggable kinome. | Gomez SM, Axtman AD, Willson TM, Major MB, Townsend RR, Sorger PK, Johnson GL.. | Drug Discov Today. | 2024 Mar; | 38218213 | |
| GRAPE for fast and scalable graph processing and random-walk-based embedding. | Cappelletti L, Fontana T, Casiraghi E, Ravanmehr V, Callahan TJ, Cano C, Joachimiak MP, Mungall CJ, Robinson PN, Reese J, Valentini G.. | Nat Comput Sci. | 2023 Jun; | 38177435 | |
| Detection of neoplastic-immune hybrid cells with metastatic properties in uveal melanoma. | Anderson AN, Conley P, Klocke CD, Sengupta SK, Pang A, Farley HC, Gillingham AR, Dawson AD, Fan Y, Jones JA, Gibbs SL, Skalet AH, Wu G, Wong MH.. | Res Sq. | 2023 Dec 6; | 38106024 | |
| Identification of 4-(6-((2-methoxyphenyl)amino)pyrazin-2-yl)benzoic acids as CSNK2A inhibitors with antiviral activity and improved selectivity over PIM3. | Galal KA, Krämer A, Strickland BG, Smith JL, Dickmander RJ, Moorman NJ, Willson TM.. | bioRxiv. | 2023 Dec 5; | 38106118 | |
| Dark kinase annotation, mining, and visualization using the Protein Kinase Ontology. | Soleymani S, Gravel N, Huang LC, Yeung W, Bozorgi E, Bendzunas NG, Kochut KJ, Kannan N.. | PeerJ. | 2023 Dec 5; | 38077442 | |
| Genome-wide prediction of pathogenic gain- and loss-of-function variants from ensemble learning of a diverse feature set. | Stein D, Kars ME, Wu Y, Bayrak ÇS, Stenson PD, Cooper DN, Schlessinger A, Itan Y.. | Genome Med. | 2023 Nov 30; | 38037155 | |
| Integrated single-dose kinome profiling data is predictive of cancer cell line sensitivity to kinase inhibitors. | Joisa CU, Chen KA, Berginski ME, Golitz BT, Jenner MR, Herrera Loeza G, Yeh JJ, Gomez SM.. | PeerJ. | 2023 Nov 16; | 38025707 | |
| Identification of Cellular Interactions in the Tumor Immune Microenvironment Underlying CD8 T Cell Exhaustion. | Klocke C, Moran A, Adey A, McWeeney S, Wu G.. | bioRxiv. | 2023 Nov 13; | 38014233 | |
| SGC-CLK-1: A chemical probe for the Cdc2-like kinases CLK1, CLK2, and CLK4. | Tiek D, Wells CI, Schröder M, Song X, Alamillo-Ferrer C, Goenka A, Iglesia R, Lu M, Hu B, Kwarcinski F, Sintha P, de Silva C, Hossain MA, Picado A, Zuercher W, Zutshi R, Knapp S, Riggins RB, Cheng SY, Drewry DH.. | Curr Res Chem Biol. | 2023; | 38009092 | |
| ChatGPT usage in the Reactome curation process. | Tiwari K, Matthews L, May B, Shamovsky V, Orlic-Milacic M, Rothfels K, Ragueneau E, Gong C, Stephan R, Li N, Wu G, Stein L, D'Eustachio P, Hermjakob H.. | bioRxiv. | 2023 Nov 8; | 37986970 | |
| A small molecule exerts selective antiviral activity by targeting the human cytomegalovirus nuclear egress complex. | Chen H, Lye MF, Gorgulla C, Ficarro SB, Cuny GD, Scott DA, Wu F, Rothlauf PW, Wang X, Fernandez R, Pesola JM, Draga S, Marto JA, Hogle JM, Arthanari H, Coen DM.. | PLoS Pathog. | 2023 Nov 17; | 37976321 | |
| Covalent Stapling of the Cereblon Sensor Loop Histidine Using Sulfur-Heterocycle Exchange. | Cruite JT, Nowak RP, Donovan KA, Ficarro SB, Huang H, Liu H, Liu Y, Marto JA, Metivier RJ, Fischer ES, Jones LH.. | ACS Med Chem Lett. | 2023 Oct 24; | 37974938 | |
| Dex-Benchmark: datasets and code to evaluate algorithms for transcriptomics data analysis. | Xie Z, Chen C, Ma'ayan A.. | PeerJ. | 2023 Nov 8; | 37953774 | |
| The Reactome Pathway Knowledgebase 2024. | Milacic M, Beavers D, Conley P, Gong C, Gillespie M, Griss J, Haw R, Jassal B, Matthews L, May B, Petryszak R, Ragueneau E, Rothfels K, Sevilla C, Shamovsky V, Stephan R, Tiwari K, Varusai T, Weiser J, Wright A, Wu G, Stein L, Hermjakob H, D'Eustachio P.. | Nucleic Acids Res. | 2024 Jan 5; | 37941124 | |
| Development of a covalent cereblon-based PROTAC employing a fluorosulfate warhead. | Nowak RP, Ragosta L, Huerta F, Liu H, Ficarro SB, Cruite JT, Metivier RJ, Donovan KA, Marto JA, Fischer ES, Zerfas BL, Jones LH.. | RSC Chem Biol. | 2023 Aug 31; | 37920397 | |
| Optimization of 3-Cyano-7-cyclopropylamino-pyrazolo[1,5-a]pyrimidines toward the Development of an In Vivo Chemical Probe for CSNK2A. | Yang X, Ong HW, Dickmander RJ, Smith JL, Brown JW, Tao W, Chang E, Moorman NJ, Axtman AD, Willson TM.. | ACS Omega. | 2023 Oct 10; | 37901516 | |
| Predicting protein and pathway associations for understudied dark kinases using pattern-constrained knowledge graph embedding. | Salcedo MV, Gravel N, Keshavarzi A, Huang LC, Kochut KJ, Kannan N.. | PeerJ. | 2023 Oct 18; | 37868056 | |
| KSFinder-a knowledge graph model for link prediction of novel phosphorylated substrates of kinases. | Anandakrishnan M, Ross KE, Chen C, Shanker V, Cowart J, Wu CH.. | PeerJ. | 2023 Oct 6; | 37818330 | |
| Targeted Proteomic Quantitation of NRF2 Signaling and Predictive Biomarkers in HNSCC. | Wamsley NT, Wilkerson EM, Guan L, LaPak KM, Schrank TP, Holmes BJ, Sprung RW, Gilmore PE, Gerndt SP, Jackson RS, Paniello RC, Pipkorn P, Puram SV, Rich JT, Townsend RR, Zevallos JP, Zolkind P, Le QT, Goldfarb D, Major MB.. | Mol Cell Proteomics. | 2023 Nov; | 37716475 | |
| Exploring DrugCentral: from molecular structures to clinical effects. | Halip L, Avram S, Curpan R, Borota A, Bora A, Bologa C, Oprea TI.. | J Comput Aided Mol Des. | 2023 Dec; | 37707619 | |
| Molecular Complexity: You Know It When You See It. | Oprea TI, Bologa C.. | J Med Chem. | 2023 Sep 28; | 37675804 | |
| How many kinases are druggable? A review of our current understanding. | Anderson B, Rosston P, Ong HW, Hossain MA, Davis-Gilbert ZW, Drewry DH.. | Biochem J. | 2023 Aug 30; | 37642371 | |
| Investigation of the Host Kinome Response to Coronavirus Infection Reveals PI3K/mTOR Inhibitors as Betacoronavirus Antivirals. | Fritch EJ, Mordant AL, Gilbert TSK, Wells CI, Yang X, Barker NK, Madden EA, Dinnon KH 3rd, Hou YJ, Tse LV, Castillo IN, Sims AC, Moorman NJ, Lakshmanane P, Willson TM, Herring LE, Graves LM, Baric RS.. | J Proteome Res. | 2023 Oct 6; | 37634194 | |
| A proteogenomics data-driven knowledge base of human cancer. | Liao Y, Savage SR, Dou Y, Shi Z, Yi X, Jiang W, Lei JT, Zhang B.. | Cell Syst. | 2023 Sep 20; | 37619559 | |
| A Hybrid Structure-Based Machine Learning Approach for Predicting Kinase Inhibition by Small Molecules. | Liu C, Kutchukian P, Nguyen ND, AlQuraishi M, Sorger PK.. | J Chem Inf Model. | 2023 Sep 11; | 37595065 | |
| Combined kinome inhibition states are predictive of cancer cell line sensitivity to kinase inhibitor combination therapies. | Joisa CU, Chen KA, Beville S, Stuhlmiller T, Berginski ME, Okumu D, Golitz BT, Johnson GL, Gomez SM.. | bioRxiv. | 2023 Aug 3; | 37577663 | |
| A peroxiredoxin-P38 MAPK scaffold increases MAPK activity by MAP3K-independent mechanisms. | Cao M, Day AM, Galler M, Latimer HR, Byrne DP, Foy TW, Dwyer E, Bennett E, Palmer J, Morgan BA, Eyers PA, Veal EA.. | Mol Cell. | 2023 Sep 7; | 37572670 | |
| Discovery and characterization of a specific inhibitor of serine-threonine kinase cyclin-dependent kinase-like 5 (CDKL5) demonstrates role in hippocampal CA1 physiology. | Castano A, Silvestre M, Wells CI, Sanderson JL, Ferrer CA, Ong HW, Lang Y, Richardson W, Silvaroli JA, Bashore FM, Smith JL, Genereux IM, Dempster K, Drewry DH, Pabla NS, Bullock AN, Benke TA, Ultanir SK, Axtman AD.. | Elife. | 2023 Jul 25; | 37490324 | |
| Illuminate the Functions of Dark Proteins Using the Reactome-IDG Web Portal. | Beavers D, Brunson T, Sanati N, Matthews L, Haw R, Shorser S, Sevilla C, Viteri G, Conley P, Rothfels K, Hermjakob H, Stein L, D'Eustachio P, Wu G.. | Curr Protoc. | 2023 Jul; | 37467006 | |
| Combined CDK4/6 and ERK1/2 Inhibition Enhances Antitumor Activity in NF1-Associated Plexiform Neurofibroma. | Flint AC, Mitchell DK, Angus SP, Smith AE, Bessler W, Jiang L, Mang H, Li X, Lu Q, Rodriguez B, Sandusky GE, Masters AR, Zhang C, Dang P, Koenig J, Johnson GL, Shen W, Liu J, Aggarwal A, Donoho GP, Willard MD, Bhagwat SV, Clapp DW, Rhodes SD.. | Clin Cancer Res. | 2023 Sep 1; | 37406085 | |
| KG-Hub-building and exchanging biological knowledge graphs. | Caufield JH, Putman T, Schaper K, Unni DR, Hegde H, Callahan TJ, Cappelletti L, Moxon SAT, Ravanmehr V, Carbon S, Chan LE, Cortes K, Shefchek KA, Elsarboukh G, Balhoff J, Fontana T, Matentzoglu N, Bruskiewich RM, Thessen AE, Harris NL, Munoz-Torres MC, Haendel MA, Robinson PN, Joachimiak MP, Mungall CJ, Reese JT.. | Bioinformatics. | 2023 Jul 1; | 37389415 | |
| Illuminating Dark Proteins using Reactome Pathways. | Brunson T, Sanati N, Matthews L, Haw R, Beavers D, Shorser S, Sevilla C, Viteri G, Conley P, Rothfels K, Hermjakob H, Stein L, D'Eustachio P, Wu G.. | bioRxiv. | 2023 Jun 5; | 37333417 | |
| Optimization of 3-Cyano-7-cyclopropylamino-pyrazolo[1,5-a]pyrimidines Toward the Development of an In Vivo Chemical Probe for CSNK2A. | Yang X, Ong HW, Dickmander RJ, Smith JL, Brown JW, Tao W, Chang E, Moorman NJ, Axtman AD, Willson TM.. | bioRxiv. | 2023 Jul 23; | 37292607 | |
| AI-Assisted chemical probe discovery for the understudied Calcium-Calmodulin Dependent Kinase, PNCK. | Essegian DJ, Chavez V, Khurshid R, Merchan JR, Schürer SC.. | PLoS Comput Biol. | 2023 May 26; | 37235579 | |
| VIGET: A web portal for study of vaccine-induced host responses based on Reactome pathways and ImmPort data. | Brunson T, Sanati N, Huffman A, Masci AM, Zheng J, Cooke MF, Conley P, He Y, Wu G.. | Front Immunol. | 2023 Mar 21; | 37180100 | |
| Enrichr-KG: bridging enrichment analysis across multiple libraries. | Evangelista JE, Xie Z, Marino GB, Nguyen N, Clarke DJB, Ma'ayan A.. | Nucleic Acids Res. | 2023 Jul 5; | 37166973 | |
| GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery. | Marino GB, Ngai M, Clarke DJB, Fleishman RH, Deng EZ, Xie Z, Ahmed N, Ma'ayan A.. | Nucleic Acids Res. | 2023 Jul 5; | 37166966 | |
| Editorial: The next generation of tools and technologies for studying human neurons in a dish. | Durcan TM, Axtman AD.. | Front Cell Neurosci. | 2023 Apr 14; | 37124399 | |
| Proteomic approaches to study ubiquitinomics. | Sahu I, Zhu H, Buhrlage SJ, Marto JA.. | Biochim Biophys Acta Gene Regul Mech. | 2023 Jun; | 37121501 | |
| Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells. | Deng EZ, Fleishman RH, Xie Z, Marino GB, Clarke DJB, Ma'ayan A.. | Aging Cell. | 2023 Jun; | 37082798 | |
| Discovery of a Potent and Selective CDKL5/GSK3 Chemical Probe That Is Neuroprotective. | Ong HW, Liang Y, Richardson W, Lowry ER, Wells CI, Chen X, Silvestre M, Dempster K, Silvaroli JA, Smith JL, Wichterle H, Pabla NS, Ultanir SK, Bullock AN, Drewry DH, Axtman AD.. | ACS Chem Neurosci. | 2023 May 3; | 37084253 | |
| Discovery of a Potent and Selective Naphthyridine-Based Chemical Probe for Casein Kinase 2. | Davis-Gilbert ZW, Krämer A, Dunford JE, Howell S, Senbabaoglu F, Wells CI, Bashore FM, Havener TM, Smith JL, Hossain MA, Oppermann U, Drewry DH, Axtman AD.. | ACS Med Chem Lett. | 2023 Mar 14; | 37077385 | |
| Modulation of tau tubulin kinases (TTBK1 and TTBK2) impacts ciliogenesis. | Bashore FM, Marquez AB, Chaikuad A, Howell S, Dunn AS, Beltran AA, Smith JL, Drewry DH, Beltran AS, Axtman AD.. | Sci Rep. | 2023 Apr 14; | 37059819 | |
| Using the Reactome Database. | Rothfels K, Milacic M, Matthews L, Haw R, Sevilla C, Gillespie M, Stephan R, Gong C, Ragueneau E, May B, Shamovsky V, Wright A, Weiser J, Beavers D, Conley P, Tiwari K, Jassal B, Griss J, Senff-Ribeiro A, Brunson T, Petryszak R, Hermjakob H, D'Eustachio P, Wu G, Stein L.. | Curr Protoc. | 2023 Apr; | 37053306 | |
| Development of Cell Permeable NanoBRET Probes for the Measurement of PLK1 Target Engagement in Live Cells. | Yang X, Smith JL, Beck MT, Wilkinson JM, Michaud A, Vasta JD, Robers MB, Willson TM.. | Molecules. | 2023 Mar 25; | 37049713 | |
| SARS-CoV-2 ORF3A interacts with the Clic-like chloride channel-1 (CLCC1) and triggers an unfolded protein response. | Gruner HN, Zhang Y, Shariati K, Yiv N, Hu Z, Wang Y, Hejtmancik JF, McManus MT, Tharp K, Ku G.. | PeerJ. | 2023 Apr 3; | 37033725 | |
| Leveraging biochemical reactions to unravel functional impacts of cancer somatic variants affecting protein interaction interfaces. | Raimondi F, Burkhart JG, Betts MJ, Russell RB, Wu G.. | F1000Res. | 2021 Nov 3; | 36569594 | |
| PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices. | Lachmann A, Rizzo KA, Bartal A, Jeon M, Clarke DJB, Ma'ayan A.. | PeerJ. | 2023 Feb 27; | 36874981 | |
| lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs. | Marino GB, Wojciechowicz ML, Clarke DJB, Kuleshov MV, Xie Z, Jeon M, Lachmann A, Ma'ayan A.. | Database (Oxford). | 2023 Mar 4; | 36869839 | |
| The structure, function, and pharmacology of MRGPRs. | Cao C, Roth BL.. | Trends Pharmacol Sci. | 2023 Apr; | 36870785 | |
| Reversal of Lactate and PD-1-mediated Macrophage Immunosuppression Controls Growth of PTEN/p53-deficient Prostate Cancer. | Chaudagar K, Hieromnimon HM, Khurana R, Labadie B, Hirz T, Mei S, Hasan R, Shafran J, Kelley A, Apostolov E, Al-Eryani G, Harvey K, Rameshbabu S, Loyd M, Bynoe K, Drovetsky C, Solanki A, Markiewicz E, Zamora M, Fan X, Schürer S, Swarbrick A, Sykes DB, Patnaik A.. | Clin Cancer Res. | 2023 May 15; | 36862086 | |
| Kinome inhibition states and multiomics data enable prediction of cell viability in diverse cancer types. | Berginski ME, Joisa CU, Golitz BT, Gomez SM.. | PLoS Comput Biol. | 2023 Feb 21; | 36809237 | |
| A Potent and Selective CDKL5/GSK3 Chemical Probe is Neuroprotective. | Ong HW, Liang Y, Richardson W, Lowry ER, Wells CI, Chen X, Silvestre M, Dempster K, Silvaroli JA, Smith JL, Wichterle H, Pabla NS, Ultanir SK, Bullock AN, Drewry DH, Axtman AD.. | bioRxiv. | 2023 Feb 10; | 36798313 | |
| Accelerating inhibitor discovery for deubiquitinating enzymes. | Chan WC, Liu X, Magin RS, Girardi NM, Ficarro SB, Hu W, Tarazona Guzman MI, Starnbach CA, Felix A, Adelmant G, Varca AC, Hu B, Bratt AS, DaSilva E, Schauer NJ, Jaen Maisonet I, Dolen EK, Ayala AX, Marto JA, Buhrlage SJ.. | Nat Commun. | 2023 Feb 8; | 36754960 | |
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| Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing. | Clarke DJB, Rebman AW, Bailey A, Wojciechowicz ML, Jenkins SL, Evangelista JE, Danieletto M, Fan J, Eshoo MW, Mosel MR, Robinson W, Ramadoss N, Bobe J, Soloski MJ, Aucott JN, Ma'ayan A.. | Front Immunol. | 2021 Mar 8; | 33763080 | |
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