Owen R. Dailey Week 10

The purpose of this lab is to analyze the impact that different databases and different searches impact the number and type of articles that biological database searches yield.

Methods/Results

Information Literacy

To begin, I completed the warm-up exercise that was announced in class
To do this, I performed a search in Google Scholar
- The keywords that I entered into the search bar were "D614G mutation"
Record the number of “hits” you found
- The search of "D614G mutation" in Google Scholar yielded 1,030 results in 0.08 seconds
Record the top 10 papers, this time using APA format:
- Paper 1: Daniloski, Z., Guo, X., & Sanjana, N. E. (2020). The D614G mutation in SARS-CoV-2 Spike increases transduction of multiple human cell types. BioRxiv.
- Paper 2: Hu, J., He, C. L., Gao, Q., Zhang, G. J., Cao, X. X., Long, Q. X., ... & Tang, N. (2020). The D614G mutation of SARS-CoV-2 spike protein enhances viral infectivity. BioRxiv.
- Paper 3: Grubaugh, N. D., Hanage, W. P., & Rasmussen, A. L. (2020). Making sense of mutation: what D614G means for the COVID-19 pandemic remains unclear. Cell, 182(4), 794-795.
- Paper 4: Ogawa, J., Zhu, W., Tonnu, N., Singer, O., Hunter, T., Ryan, A. L., & Pao, G. M. (2020). The D614G mutation in the SARS-CoV2 Spike protein increases infectivity in an ACE2 receptor dependent manner. Biorxiv.
- Paper 5: Plante, J. A., Liu, Y., Liu, J., Xia, H., Johnson, B. A., Lokugamage, K. G., ... & Mirchandani, D. (2020). Spike mutation D614G alters SARS-CoV-2 fitness and neutralization susceptibility. bioRxiv.
- Paper 6: Bhattacharyya, C., Das, C., Ghosh, A., Singh, A. K., Mukherjee, S., Majumder, P. P., ... & Biswas, N. K. (2020). Global Spread of SARS-CoV-2 Subtype with Spike Protein Mutation D614G is Shaped by Human Genomic Variations that Regulate Expression of TMPRSS2 and MX1 Genes. bioRxiv.
- Paper 7: Weissman, D., Alameh, M. G., de Silva, T., Collini, P., Hornsby, H., Brown, R., ... & Mansouri, K. (2020). D614G Spike Mutation Increases SARS CoV-2 Susceptibility to Neutralization. medRxiv.
- Paper 8: Daniloski, Z., Jordan, T. X., Ilmain, J. K., Guo, X., Bhabha, G., & Sanjana, N. E. (2020). The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types. bioRxiv.
- Paper 9: McAuley, A. J., Kuiper, M. J., Durr, P. A., Bruce, M. P., Barr, J., Todd, S., ... & Marsh, G. A. (2020). Experimental and in silico evidence suggests vaccines are unlikely to be affected by D614G mutation in SARS-CoV-2 spike protein. NPJ vaccines, 5(1), 1-5.
- Paper 10: Korber, B., Fischer, W. M., Gnanakaran, S., Yoon, H., Theiler, J., Abfalterer, W., ... & Hastie, K. M. (2020). Tracking changes in SARS-CoV-2 Spike: evidence that D614G increases infectivity of the COVID-19 virus. Cell, 182(4), 812-827.
I then sorted my results by date (instead of relevance), and recorded the top 5 papers, using APA format:
- Paper 1: Okell, L. C., Verity, R., Katzourakis, A., Volz, E. M., Watson, O. J., Mishra, S., ... & Ghani, A. C. (2020). Host or pathogen-related factors in COVID-19 severity?–Authors' reply. The Lancet, 396(10260), 1397.
- Paper 2: Gortázar, C., del-Río, F. J. R., Domínguez, L., & de la Fuente, J. (2020). Host or pathogen-related factors in COVID-19 severity?. The Lancet, 396(10260), 1396-1397.
- Paper 3: Hashemi, S. A., Ghafouri, M., Khoshi, A. H., Ghasemzadeh-moghaddam, H., Namdar-Ahmadabad, H., & Azimian, A. (2020). Is 614G mutant of SARS-CoV-2 is an agent of the third wave of COVID-19 in Iran?. Authorea Preprints.
- Paper 4: Meng, Q., Wang, X., Wang, Y., Dang, L., Ma, X., Chi, T., ... & Ma, P. (2020). Detect the SARS-CoV-2 D614G mutation using engineered Cas12a guide RNA. Authorea Preprints.
- Paper 5: Xie, X., Plante, K. S., Weaver, S. C., & Shi, P. Y. Jessica A. Plante1, 2, 3, 12, Yang Liu4, 12, Jianying Liu2, 3, 12, Hongjie Xia4, Bryan A. Johnson2, Kumari G. Lokugamage3, Xianwen Zhang4, Antonio E. Muruato2, 3, Jing Zou4, Camila R. Fontes-Garfias4, Divya Mirchandani1, 2, 3, Dionna Scharton1, 2, 3, John P. Bilello5, Zhiqiang Ku6, Zhiqiang An6, Birte Kalveram7, Alexander N. Freiberg2, 7, 9, 10, Vineet D. Menachery2, 3.
I then filtered the results using “Since 2019”, and recorded the top 5 papers, using APA format:
- Paper 1: Daniloski, Z., Guo, X., & Sanjana, N. E. (2020). The D614G mutation in SARS-CoV-2 Spike increases transduction of multiple human cell types. BioRxiv.
- Paper 2: Hu, J., He, C. L., Gao, Q., Zhang, G. J., Cao, X. X., Long, Q. X., ... & Tang, N. (2020). The D614G mutation of SARS-CoV-2 spike protein enhances viral infectivity. BioRxiv.
- Paper 3: Plante, J. A., Liu, Y., Liu, J., Xia, H., Johnson, B. A., Lokugamage, K. G., ... & Mirchandani, D. (2020). Spike mutation D614G alters SARS-CoV-2 fitness and neutralization susceptibility. bioRxiv.
- Paper 4: Daniloski, Z., Jordan, T. X., Ilmain, J. K., Guo, X., Bhabha, G., & Sanjana, N. E. (2020). The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types. bioRxiv.
- Paper 5: Ogawa, J., Zhu, W., Tonnu, N., Singer, O., Hunter, T., Ryan, A. L., & Pao, G. M. (2020). The D614G mutation in the SARS-CoV2 Spike protein increases infectivity in an ACE2 receptor dependent manner. Biorxiv.
I then filtered the results using “Since 2016”, and recorded the top 5 papers, using APA format:
- Paper 1: Daniloski, Z., Guo, X., & Sanjana, N. E. (2020). The D614G mutation in SARS-CoV-2 Spike increases transduction of multiple human cell types. BioRxiv.
- Paper 2: Hu, J., He, C. L., Gao, Q., Zhang, G. J., Cao, X. X., Long, Q. X., ... & Tang, N. (2020). The D614G mutation of SARS-CoV-2 spike protein enhances viral infectivity. BioRxiv.
- Paper 3: Plante, J. A., Liu, Y., Liu, J., Xia, H., Johnson, B. A., Lokugamage, K. G., ... & Mirchandani, D. (2020). Spike mutation D614G alters SARS-CoV-2 fitness and neutralization susceptibility. bioRxiv.
- Paper 4: Daniloski, Zharko, et al. "The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types." bioRxiv (2020).
- Daniloski, Z., Jordan, T. X., Ilmain, J. K., Guo, X., Bhabha, G., & Sanjana, N. E. (2020). The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types. bioRxiv.
- Paper 5: McAuley, A. J., Kuiper, M. J., Durr, P. A., Bruce, M. P., Barr, J., Todd, S., ... & Marsh, G. A. (2020). Experimental and in silico evidence suggests vaccines are unlikely to be affected by D614G mutation in SARS-CoV-2 spike protein. NPJ vaccines, 5(1), 1-5.
I then made a list of the search terms that were used by each student in the class, and I recorded the list here:
- Warm-up exercise keywords
  - COVID-19 deaths
  - COVID-19 transmission
  - SARS-CoV-2 dying, getting better/worse
  - COVID-19 transmission
  - D614G
  - civet
  - long-term respiratory effects of COVID
  - SARS-CoV-2 antibodies
  - D614G mutation
  - SARS-CoV-2 immune response
  - 2019-nCoV transmission
  - SARS-CoV-2 antibodies
- Assigned keywords
  - Nathan: COVID-19 and immune response (241,000)
  - Yaniv: COVID-19 and antibodies (62,900)
  - Ian: COVID-19 and immunity (77,500)
  - JT: COVID-19 and immune reaction (104,000)
  - Taylor: SARS-CoV-2 and immune response (48,800)
  - Nida: SARS-CoV-2 and antibodies (48,200)
  - Owen: SARS-CoV-2 and immunity (57,000)
  - Anna: SARS-CoV-2 and immune reaction (97,700)
  - Aiden: 2019-nCoV and immune response (25,600)
  - Fatimah: 2019-nCoV and antibodies (17,400)
  - Kam: 2019-nCoV and immunity (24,500)
  - Macie: 2019-nCoV and immune reaction (20,800)
Next, I accessed the PubMed database by using the LMU-specific link, and I performed an unrestricted search on my assigned keywords ("SARS-CoV-2 and immunity")
- I recorded the total number of hits:
  - 4,707 search results
- I then recorded the top 10 papers:
  - Paper 1: Sette A, Crotty S. Pre-existing immunity to SARS-CoV-2: the knowns and unknowns. Nat Rev Immunol. 2020 Aug;20(8):457-458. doi: 10.1038/s41577-020-0389-z. Erratum in: Nat Rev Immunol. 2020 Oct;20(10):644. PMID: 32636479; PMCID: PMC7339790.
  - Paper 2: Ni L, Ye F, Cheng ML, Feng Y, Deng YQ, Zhao H, Wei P, Ge J, Gou M, Li X, Sun L, Cao T, Wang P, Zhou C, Zhang R, Liang P, Guo H, Wang X, Qin CF, Chen F, Dong C. Detection of SARS-CoV-2-Specific Humoral and Cellular Immunity in COVID-19 Convalescent Individuals. Immunity. 2020 Jun 16;52(6):971-977.e3. doi: 10.1016/j.immuni.2020.04.023. Epub 2020 May 3. PMID: 32413330; PMCID: PMC7196424.
  - Paper 3: Tu YF, Chien CS, Yarmishyn AA, Lin YY, Luo YH, Lin YT, Lai WY, Yang DM, Chou SJ, Yang YP, Wang ML, Chiou SH. A Review of SARS-CoV-2 and the Ongoing Clinical Trials. Int J Mol Sci. 2020 Apr 10;21(7):2657. doi: 10.3390/ijms21072657. PMID: 32290293; PMCID: PMC7177898.
  - Paper 4: Netea MG, Giamarellos-Bourboulis EJ, Domínguez-Andrés J, Curtis N, van Crevel R, van de Veerdonk FL, Bonten M. Trained Immunity: a Tool for Reducing Susceptibility to and the Severity of SARS-CoV-2 Infection. Cell. 2020 May 28;181(5):969-977. doi: 10.1016/j.cell.2020.04.042. Epub 2020 May 4. PMID: 32437659; PMCID: PMC7196902.
  - Paper 5: Zhou G, Zhao Q. Perspectives on therapeutic neutralizing antibodies against the Novel Coronavirus SARS-CoV-2. Int J Biol Sci. 2020 Mar 15;16(10):1718-1723. doi: 10.7150/ijbs.45123. PMID: 32226289; PMCID: PMC7098029.
  - Paper 6: Wang L, Wang Y, Ye D, Liu Q. Review of the 2019 novel coronavirus (SARS-CoV-2) based on current evidence. Int J Antimicrob Agents. 2020 Jun;55(6):105948. doi: 10.1016/j.ijantimicag.2020.105948. Epub 2020 Mar 19. Erratum in: Int J Antimicrob Agents. 2020 Sep;56(3):106137. PMID: 32201353; PMCID: PMC7156162.
  - Paper 7: Rokni M, Ghasemi V, Tavakoli Z. Immune responses and pathogenesis of SARS-CoV-2 during an outbreak in Iran: Comparison with SARS and MERS. Rev Med Virol. 2020 May;30(3):e2107. doi: 10.1002/rmv.2107. Epub 2020 Apr 8. PMID: 32267987; PMCID: PMC7235481.
  - Paper 8: Chu H, Chan JF, Wang Y, Yuen TT, Chai Y, Hou Y, Shuai H, Yang D, Hu B, Huang X, Zhang X, Cai JP, Zhou J, Yuan S, Kok KH, To KK, Chan IH, Zhang AJ, Sit KY, Au WK, Yuen KY. Comparative Replication and Immune Activation Profiles of SARS-CoV-2 and SARS-CoV in Human Lungs: An Ex Vivo Study With Implications for the Pathogenesis of COVID-19. Clin Infect Dis. 2020 Sep 12;71(6):1400-1409. doi: 10.1093/cid/ciaa410. PMID: 32270184; PMCID: PMC7184390.
  - Paper 9: Ahsan W, Javed S, Bratty MA, Alhazmi HA, Najmi A. Treatment of SARS-CoV-2: How far have we reached? Drug Discov Ther. 2020 May 6;14(2):67-72. doi: 10.5582/ddt.2020.03008. Epub 2020 Apr 25. PMID: 32336723.
  - Paper 10: Kellam P, Barclay W. The dynamics of humoral immune responses following SARS-CoV-2 infection and the potential for reinfection. J Gen Virol. 2020 Aug;101(8):791-797. doi: 10.1099/jgv.0.001439. PMID: 32430094.
I then performed a title/abstract search on my assigned keywords
- I recorded the total number of hits:
  - There were 959 search results
- I then recorded the top 10 papers:
  - Paper 1: Le Bert N, Tan AT, Kunasegaran K, Tham CYL, Hafezi M, Chia A, Chng MHY, Lin M, Tan N, Linster M, Chia WN, Chen MI, Wang LF, Ooi EE, Kalimuddin S, Tambyah PA, Low JG, Tan YJ, Bertoletti A. SARS-CoV-2-specific T cell immunity in cases of COVID-19 and SARS, and uninfected controls. Nature. 2020 Aug;584(7821):457-462. doi: 10.1038/s41586-020-2550-z. Epub 2020 Jul 15. PMID: 32668444.
  - Paper 2: Grifoni A, Weiskopf D, Ramirez SI, Mateus J, Dan JM, Moderbacher CR, Rawlings SA, Sutherland A, Premkumar L, Jadi RS, Marrama D, de Silva AM, Frazier A, Carlin AF, Greenbaum JA, Peters B, Krammer F, Smith DM, Crotty S, Sette A. Targets of T Cell Responses to SARS-CoV-2 Coronavirus in Humans with COVID-19 Disease and Unexposed Individuals. Cell. 2020 Jun 25;181(7):1489-1501.e15. doi: 10.1016/j.cell.2020.05.015. Epub 2020 May 20. PMID: 32473127; PMCID: PMC7237901.
  - Paper 3: Sette A, Crotty S. Pre-existing immunity to SARS-CoV-2: the knowns and unknowns. Nat Rev Immunol. 2020 Aug;20(8):457-458. doi: 10.1038/s41577-020-0389-z. Erratum in: Nat Rev Immunol. 2020 Oct;20(10):644. PMID: 32636479; PMCID: PMC7339790.
    - Review
  - Paper 4: Zost SJ, Gilchuk P, Case JB, Binshtein E, Chen RE, Nkolola JP, Schäfer A, Reidy JX, Trivette A, Nargi RS, Sutton RE, Suryadevara N, Martinez DR, Williamson LE, Chen EC, Jones T, Day S, Myers L, Hassan AO, Kafai NM, Winkler ES, Fox JM, Shrihari S, Mueller BK, Meiler J, Chandrashekar A, Mercado NB, Steinhardt JJ, Ren K, Loo YM, Kallewaard NL, McCune BT, Keeler SP, Holtzman MJ, Barouch DH, Gralinski LE, Baric RS, Thackray LB, Diamond MS, Carnahan RH, Crowe JE Jr. Potently neutralizing and protective human antibodies against SARS-CoV-2. Nature. 2020 Aug;584(7821):443-449. doi: 10.1038/s41586-020-2548-6. Epub 2020 Jul 15. PMID: 32668443; PMCID: PMC7584396.
  - Paper 5: Ni L, Ye F, Cheng ML, Feng Y, Deng YQ, Zhao H, Wei P, Ge J, Gou M, Li X, Sun L, Cao T, Wang P, Zhou C, Zhang R, Liang P, Guo H, Wang X, Qin CF, Chen F, Dong C. Detection of SARS-CoV-2-Specific Humoral and Cellular Immunity in COVID-19 Convalescent Individuals. Immunity. 2020 Jun 16;52(6):971-977.e3. doi: 10.1016/j.immuni.2020.04.023. Epub 2020 May 3. PMID: 32413330; PMCID: PMC7196424.
  - Paper 6: Nikolich-Zugich J, Knox KS, Rios CT, Natt B, Bhattacharya D, Fain MJ. SARS-CoV-2 and COVID-19 in older adults: what we may expect regarding pathogenesis, immune responses, and outcomes. Geroscience. 2020 Apr;42(2):505-514. doi: 10.1007/s11357-020-00186-0. Epub 2020 Apr 10. Erratum in: Geroscience. 2020 May 3;: PMID: 32274617; PMCID: PMC7145538.
    - Review
  - Paper 7: Kissler SM, Tedijanto C, Goldstein E, Grad YH, Lipsitch M. Projecting the transmission dynamics of SARS-CoV-2 through the postpandemic period. Science. 2020 May 22;368(6493):860-868. doi: 10.1126/science.abb5793. Epub 2020 Apr 14. PMID: 32291278; PMCID: PMC7164482.
  - Paper 8: Kellam P, Barclay W. The dynamics of humoral immune responses following SARS-CoV-2 infection and the potential for reinfection. J Gen Virol. 2020 Aug;101(8):791-797. doi: 10.1099/jgv.0.001439. PMID: 32430094.
    - Review
  - Paper 9: Netea MG, Giamarellos-Bourboulis EJ, Domínguez-Andrés J, Curtis N, van Crevel R, van de Veerdonk FL, Bonten M. Trained Immunity: a Tool for Reducing Susceptibility to and the Severity of SARS-CoV-2 Infection. Cell. 2020 May 28;181(5):969-977. doi: 10.1016/j.cell.2020.04.042. Epub 2020 May 4. PMID: 32437659; PMCID: PMC7196902.
    - Review
  - Paper 10: Haveri A, Smura T, Kuivanen S, Österlund P, Hepojoki J, Ikonen N, Pitkäpaasi M, Blomqvist S, Rönkkö E, Kantele A, Strandin T, Kallio-Kokko H, Mannonen L, Lappalainen M, Broas M, Jiang M, Siira L, Salminen M, Puumalainen T, Sane J, Melin M, Vapalahti O, Savolainen-Kopra C. Serological and molecular findings during SARS-CoV-2 infection: the first case study in Finland, January to February 2020. Euro Surveill. 2020 Mar;25(11):2000266. doi: 10.2807/1560-7917.ES.2020.25.11.2000266. PMID: 32209163; PMCID: PMC7096774.
I then added the word “Review” to any articles that are review articles that I listed in the last question
Next, I picked an author that showed up in multiple citations (Kaur SP, Gupta V.) and I performed an author search on the name
- Do you find any new articles that you did not find before on PubMed?
  - I found one new article:
    - Paper 1: Kaur SP, Cummings BS. Role of glypicans in regulation of the tumor microenvironment and cancer progression. Biochem Pharmacol. 2019 Oct;168:108-118. doi: 10.1016/j.bcp.2019.06.020. Epub 2019 Jun 26. PMID: 31251939.
Finally, I accessed the Web of Science database, and performed an unrestricted search on my assigned keywords
- I recorded the total number of hits:
  - There were 669 search results
- I then recorded the top 10 papers:
  - Paper 1: Peripheral blood CD4+cell counts but not CD3+and CD8+cell counts are reduced in SARS-CoV-2 infection By: Huang, Zhi-Xin; Li, Wenli; Lu, Eying; et al. JOURNAL OF AFFECTIVE DISORDERS Volume: ‏ 277 Pages: ‏ 375-378 Published: ‏ DEC 1 2020
  - Paper 2: Corona-Like Illness: Did we get it before WHO Announcement of the Disease? A Cross-sectional Survey By: Mohamed-Hussein, Aliae A. R.; Makhlouf, Nahed A.; Yassa, Heba; et al. ELECTRONIC JOURNAL OF GENERAL MEDICINE Volume: ‏ 17 Issue: ‏ 6 Article Number: em258 Published: ‏ DEC 2020
  - Paper 3: The role of host genetics in susceptibility to severe viral infections in humans and insights into host genetics of severe COVID-19: A systematic review By: Elhabyan, Abdelazeem; Elyaacoub, Saja; Sanad, Ehab; et al.VIRUS RESEARCH Volume: ‏ 289 Article Number: 198163 Published: ‏ NOV 2020
  - Paper 4: Vitamin D and COVID-19 By: Bilezikian, John P.; Bikle, Daniel; Hewison, Martin; et al. EUROPEAN JOURNAL OF ENDOCRINOLOGY Volume: ‏ 183 Issue: ‏ 5Pages: ‏ R133-R147 Published: ‏ NOV 2020
  - Paper 5: COVID-19: A Case for Inhibiting NLRP3 Inflammasome, Suppression of Inflammation with Curcumin?By: Saeedi-Boroujeni, Ali; Mahmoudian-Sani, Mohammad-Reza; Bahadoram, Mohammad; et al.BASIC & CLINICAL PHARMACOLOGY & TOXICOLOGY
  - Paper 6: Inborn errors of type I IFN immunity in patients with life-threatening COVID-19 Associated Data By: Zhang, Qian; Bastard, Paul; Liu, Zhiyong; et al.Group Author(s): COVID-STORM Clinicians; COVID Clinicians; Imagine COVID Grp; et al. SCIENCE Volume: ‏370 Issue: ‏ 6515 Pages: ‏ 422-+ Published: OCT 23 2020
  - Paper 7: Autoantibodies against type I IFNs in patients with life-threatening COVID-19 By: Bastard, Paul; Rosen, Lindsey B.; Zhang, Qian; et al. Group Author(s): HGID Lab; NIAID-USUHS Immune Response COVID; COVID Clinicians; et al. SCIENCE Volume: ‏ 370 Issue: ‏ 6515 Pages: ‏ 423-+ Published: ‏ OCT 23 202
  - Paper 8: Self-amplifying RNA vaccines for infectious diseases By: Bloom, Kristie; van den Berg, Fiona; Arbuthnot, Patrick GENE THERAPY early accession Early Access: OCT 2020
  - Paper 9: Micronutrients and bioactive compounds in the immunological pathways related to SARS-CoV-2 (adults and elderly) By: Arruda de Souza Monnerat, Juliana; Ribeiro de Souza, Pedro; Monteiro da Fonseca Cardoso, Leticia; et al. EUROPEAN JOURNAL OF NUTRITION early access iconEarly Access: OCT 2020
  - Paper 10: Immunity, endothelial injury and complement-induced coagulopathy in COVID-19 By: Perico, Luca; Benigni, Ariela; Casiraghi, Federica; et al. NATURE REVIEWS NEPHROLOGY early access iconEarly Access: OCT 2020

Shared Bibliography

The class then created a shared bibliography for the entire class
I went through the search results that I found and added articles to the class shared bibliography page
Now that the class has a shared bibliography, each student chose one article
I recorded the citation for my article in APA format:
- Netea MG, Giamarellos-Bourboulis EJ, Domínguez-Andrés J, Curtis N, van Crevel R, van de Veerdonk FL, Bonten M. Trained Immunity: a Tool for Reducing Susceptibility to and the Severity of SARS-CoV-2 Infection. Cell. 2020 May 28;181(5):969-977. doi: 10.1016/j.cell.2020.04.042. Epub 2020 May 4. PMID: 32437659; PMCID: PMC7196902.
In Web of Science, I then searched for the article
How many cited references did that article have?
- The article had 44 cited references
How many articles have cited the article you have been assigned?
- The article had been cited 39 times

Reflection Questions

What are the relative merits of searching with Google Scholar, PubMed, and Web of Science? Name two advantages and disadvantages for each.
- Google Scholar: advantages
  - Google scholar gives you the ability to easily cite articles in a variety of formats (MLA, APA, Chicago, etc.) simply by clicking their citation button
  - Googe scholar has the same interface as google, which is an interface that almost everyone is undoubtedly familiar with, so it is very easy to navigate
- Google Scholar: disadvantages
- A large number of search results are yielded from each search, so it is very hard to filter through the sheer amount of information that each search result yields
- PubMed: advantages
  - PubMed has a lot of filters that you can apply to narrow down search results
  - Pubmed allows users who are logged in to save articles that they are interested in
- Pubmed: disadvantages
  - Pubmed is inferior to Google Scholar when it comes to citing the articles
- Web of Science: advantages
  - Similar to PubMed, logged in users can also save articles that they are interested in on Web of Science
  - You can search and keep track of authors' work via Web of Science, so one can follow an author's work
- Web of Science: disadvantages
  - Web of Science can only be accessed if you pay for it or are part of a subscription that pays for it
What impact does the choice of keywords have on your results?
- I was quite surprised by how dramatic not only the database had on the number of search results were yielded but also the specific words themselves. It was staggering to see how little results 2019-nCoV yielded to SARS-CoV-2 because people quit using the name 2019-nCOV. It is something that I need to keep in mind when I am searching through the literature.
For your Conclusion section, write a short reflection about what you learned by doing this exercise. Include in your answer what you knew previously about searching the biological literature, and what you learned that was new today.

Conclusion

In this lab, I learned that different databases and different search entries greatly impact the number and type of articles that biological database searches yield. For most of my undergraduate career, I have used simple searches in Google Scholar and PubMed to sort through biological literature. However, today I learned about the Web of Science database. Furthermore, I never used filters to limit my search results in regards to date published, title/abstract search, or by review articles. I have learned that the filters that one places on the search as well as the specific words used for the search itself greatly impact what articles are yielded.

Acknowledgements

I worked with my partner Nida Patel over Zoom
I copied and modified procedures from the Week 10 assignment page
Except for what is noted above, this individual journal entry was completed by me and not copied from another source

Owen R. Dailey (talk) 17:32, 11 November 2020 (PST)

References

Google Scholar. (2020). Google Scholar. Retrieved 5 November 2020, from https://scholar.google.com/.
OpenWetWare. (2020). BIOL368/F20:Week 10. Retrieved 5 November 2020, from https://openwetware.org/wiki/BIOL368/F20:Week_10.
PubMed. (2020). Retrieved 5 November 2020, from https://pubmed.ncbi.nlm.nih.gov/?holding=calmulib
Web of Science. (2020). Web of Science. Retrieved 5 November 2020, from http://electra.lmu.edu:2048/login?url=http://webofknowledge.com/WOS.
Articles found are cited in the Methods/Results section

Owen R. Dailey Week 10

Contents

Template

User Page

Assignments

Individual Journals

Class Journals

Purpose

Methods/Results

Information Literacy

Shared Bibliography

Reflection Questions

Conclusion

Acknowledgements

References

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