00:00You started a new semester and got assigned your first real research paper and suddenly you're staring at a completely blank document

00:05Where do I even start? How many papers are enough? And once I have written, how do I make sure the paper actually sounds academic? In this video, I'm going to walk you through a complete first research paper workflow using Jenny AI

00:20We'll start with reading and understanding our research papers, then we'll synthesize findings, generate outline, create a first draft with citations, and finally conduct a mock peer review

00:31So, let's get started

00:34Now, once you sign up and log in to Jenny AI, the first thing that we need to do is to create our project inside Jenny AI or a new document, for which we are going to click on new button right here and click on create new document

00:48For this example, I'm going to name this project immunotherapy resistance paper

01:00This is the title

01:02Now, right here Jenny gives you the option to type a prompt and have AI start generating an outline or content for you

01:10You can also upload your documents right here, but here we are not going to do that

01:14I don't want AI taking control of the entire writing process from the beginning

01:20Instead, we are going to start with our own research sources

01:21So, what we are going to do, we are going to set up our references library first before we start any writing

01:29So, we will skip this

01:33We are going to head over to library and here you can see the different collections that I have already created for different research papers that I'm currently working on

01:45What we are going to do for this paper is to create a collection right here where we can store all of the research papers that we have found for this topic

01:53So, let's go ahead and click on this add collection button

01:55Let's give it a title

01:59So, our collection is created

01:59As you can see, right now it's empty

02:02When I click on it, here we can add sources and research papers to our collection that we just created

02:11What we can do is that we can add papers from any existing collection we have inside Jenny AI, or we can click on import sources and upload our PDFs or research papers directly right here if we have the PDFs downloaded

02:29If we have Zotero account, we can connect our Zotero and it will instantly pull all the papers in your Zotero collection

02:38Similarly, if you are using Mendeley as your reference manager, you can connect your Mendeley and Jenny will be able to talk to your Mendeley and retrieve papers that you have saved there related to your research topic

02:52Then we have the import feature where you can simply paste the BibTeX or RIS content right here and click on import library and it will import those references

03:01And finally, you can also paste any DOI, PMID, ISBN number

03:10Now, since I have already done some research and downloaded a few papers, what I'm going to do, I'm going to upload all those papers and I'm also going to connect my Zotero because I have also saved some papers in my Zotero collection

03:26So, let's first go ahead and upload the PDFs that I have downloaded

03:31We are going to click on the folder containing all the papers, select all of them, click on open, and it's going to start uploading all the sources into our library inside Jenny AI

03:45Now that our PDFs are uploaded, I'm going to now connect our Zotero, which is pretty simple

03:49Simply click on connect Zotero button right here, which will direct you to the Zotero login page

03:57Once you log in, click on accept default permissions for Jenny AI, and here we go

04:02Here are all the collections we have inside our Zotero library

04:07And as you can see, we also have immunotherapy resistant collection

04:11We are going to click on import, and it's going to start importing all the papers inside that specific collection

04:21Okay, so here are all the papers that we have added to our collection

04:25For each paper, you can see the title, the authors, the journal

04:28You can create a citation right here

04:31You can click on details to read about the paper, such as the abstract

04:38Or if you want to chat with the paper and ask questions, you can use the ask AI feature right here, which we are going to discuss later in this video

04:48You can also open the PDF by clicking on it, and it will direct you to the page where you can read the actual paper

04:56For each paper, you also see the impact factor, as you can see, which gives you uh rough idea about the quality of your sources as well

05:06Now, once all of the sources that you have collected are uploaded into Jenny AI, then the next thing that you need to do is to understand your sources

05:14So, before you start writing anything, you need to understand what you have actually collected

05:20And for that, we are going to use the AI chat feature, which will allow us to chat with our sources and ask it a bunch of questions, and it is going to give us answers based on those papers that we have collected

05:35At the top right, you can see the AI chat button right here

05:37When you click on it, here you can basically ask questions

05:42But before we ask anything, the first thing we need to do is to configure which source Jenny should use when answering your questions

05:50You can choose web where Jenny can answer questions using online sources

05:55You can also choose the library feature right here where it will work specifically with the papers inside your library

06:01If we click on the library, we have these different options where we can either select a specific source that we want to talk with or we can select a specific collection

06:11So, for example, here we have When you click on it, you can actually see that the immunotherapy resistance collection is selected right here

06:20Now, before we ask anything, I also want to show you that you can select a specific type of papers that you want to talk with

06:27So, for example, you need to ask questions or analyze papers that are published in last 5 years or you want to interact with papers that have a specific impact factors

06:37For example, 3 plus or 10 plus impact factor or you want papers that have a specific number of citations

06:44So, for example, more than 20 citations or more than 50 citations

06:49Okay, so once we have selected our sources right here, we can start asking questions

06:55So, instead of immediately asking Jenny AI to write your literature review or research paper for you, it's a good idea to first ask it to help you understand the literature

07:03So, let's go ahead and ask it a question

07:07Summarize the key findings across these papers on the tumor immune microenvironment in prostate cancer

07:14Highlight the methodologies used and where the studies disagree

07:18Let's go ahead and click on submit

07:24Okay, so here we go

07:24Jenny AI has given us a comprehensive answer with key findings on the tumor immune microenvironment in prostate cancer

07:31It has structured the response into these different sections and this is not something that Jenny made up or responded using sources from anywhere on the internet

07:43These are sources from your own collection, so you can actually verify them

07:48If you click on the index citation, it can show you the exact paper and the exact section this sentence was taken from

07:55You can copy this and paste it anywhere, or you can add this to the document, and it will be pasted right here

08:02But, we don't want to add that right now

08:08Now that we have some understanding of the literature, let's build our outline

08:11So, before we start writing anything, we're going to build an outline, a skeleton of our research paper

08:20Create a detailed outline for a research paper on tumor immune microenvironment and mechanisms of immunotherapy resistance in prostate cancer

08:26Include the key sections and major points that should be covered

08:30Let's go ahead and click submit

08:36Okay, so here we go

08:36Here is a detailed outline that Jenny AI has suggested us

08:42It has suggested us a proposed title

08:44Then we have the abstract, then the introduction

08:47Inside the introduction, it has broken down on the introduction into these subsections, the background, the statement of the problem, the aims and scope

08:55Then we have the tumor immune microenvironment in prostate cancer subsections for these

09:03And for each section, it has given us these bullet points that we can use to start writing

09:08And for each bullet point, it has given us the exact citation from our collection

09:14So, if you hover your mouse, you can actually see the paper

09:17It also suggests the table and figures to include in your paper

09:23Now, once you're satisfied with the outline, you can simply click on copy and paste it right here, or you can click on add to document, and Jenny AI will add the outline to your document right here

09:38This is where the document starts becoming uh your actual workspace

09:39Think of it like Microsoft Word, but with AI tools and AI agents integrated directly into the writing environment

09:47So, this is basically your Word document, and you can use it to make changes manually to your document right here

09:56So, you can type anything right here, and then let AI improve it or expand on it

10:02Or you can let AI complete the sentences for you

10:05So, I'm going to show you a demonstration where we are going to write the introduction section of our paper right here

10:15I'm going to select all the bullet points, and then I'm going to click on this AI edit button right here, and then I'm going to type my prompt

10:24For example, expand these bullet points into complete background paragraph

10:31I can turn on the library search right here to make sure that it is pulling the citations from the library that I have already verified

10:40When you click submit, it's going to start working on it

10:43It will use the highlighted text and the papers in your collection to write the first paragraph of your introduction section

10:51You can read it, as you can see, and if you're satisfied with it, you can click on replace selection, or if you want to further modify it, you can simply type in your follow-up prompt right here

11:04Let's go ahead and click on replace selection

11:07And once we do that, it's going to add this first paragraph

11:11Don't think of this as your final paragraph that you're going to use in your research paper

11:15Think of it as a rough draft from a smart classmate or from a smart research assistant

11:21You still need to read it, evaluate it, and decide whether it actually belongs in your paper or not

11:27Since this is a Word document, you can also chime in and write your own sentences, and then let AI complete it

11:34So, for example, right here we have the aim and scope section

11:36I'm going to get rid of this text right here, and then I'm going to start typing myself

11:42So, I want to write the final paragraph of the introduction myself, at least the first two sentences, so that AI has a better understanding of how I want to start this paragraph

11:54So, let's go ahead and type

12:00Okay, so here as you can see I have written the first sentence of this paragraph

12:05Now, what I will do I will click on the auto complete button right here, and will turn on the auto complete setting, after which as you can see it's going to immediately start suggesting me the second sentence

12:17So, if you're happy with the citation, you can click on accept, or you can click on refine suggestion, and give it a prompt on how you want to refine it

12:26For this one, we are going to click on stay on topic, and then the AI is going to rewrite the sentence

12:38I'm happy with this sentence, so let's go ahead and click on accept

12:39As soon as you accept, Jenny is going to write the third sentence for you

12:45And this is what I like about Jenny

12:49It does not go ahead and write the entire research paper for you in one go, where you have to then spend so much time analyzing each and every sentence one by one in all the references

13:02It gives you one sentence at a time, so that you can read it, review it, and then hit accept

13:08You can also click on refine suggestion, and then you have these different options such as stay on topic, complete this paragraph, increase the novelty, simplify language, rewrite without citations, validate supporting evidence, and cite from library

13:20We're going to click on complete, so that AI can complete this paragraph for us

13:27Okay, so here is our completed paragraph

13:29Now, you can always turn on and off the auto complete because sometime it can be a bit too much when AI is writing every sentence for you and you want to take control of the writing yourself, you can simply turn off the auto complete and start writing yourself

13:45Once you have written a few paragraphs and then you want AI to help you expand on it, you can then turn on the auto complete and let AI do its job

13:57Now, Jenny also give you some other useful rewriting features

13:58So, for example, if you highlight a text and click on this AI edit button, you can improve the fluency, you can paraphrase this to make it more academic or write it in a casual tone

14:13You can click on simplify, strengthen the argument, and add a counter argument

14:18You can change the tense, convert to bullet list, or convert to number list, or prose, or table, as you can see

14:26Then, we have some academic styles right here, increase formality, technical precision, increase claim confidence, or hedge claim confidence, which we are going to discuss later in this video

14:36Let's say I want to increase the formality of my text

14:37So, let's go ahead and click on increase formality and Jenny AI is going to rewrite the entire paragraph for you in a more formal tone

14:49That's how you can go section by section and start writing each section uh yourself and then let AI help you complete it and further expand on it

14:58One other super helpful feature of Jenny AI is that when you're writing yourself and not letting AI write for you, it can help you find citations within Jenny AI, so you don't have to go outside Jenny AI and find the papers

15:15Uh what you can do is that once you're done writing the sentence or a paragraph, you can simply highlight it and then click on find citations and Jenny AI will start looking for relevant papers that are supporting that specific sentence that you have highlighted

15:31So, as you can see, it has found citation inside my library

15:35So, these are all the papers inside the library I have created

15:39But, let's say that you have written something that you cannot support from the papers inside your library, for which you can click on discover option right here and Jenny AI will find papers outside your library and on internet, basically, uh that best support your highlighted claim or sentence

16:03And not only that, it also gives you an overview, uh basically telling you why Jenny AI think this is a good fit for your highlighted claim

16:15To add a citation, you can simply click on site button right here

16:19And as you can see, our citation is added right here

16:22And not only that, if you scroll down, you can actually see that Jenny AI is maintaining a bibliography for you

16:31But, you can also choose Chicago, Harvard, IEEE, MLA 9th edition, or any of the available styles

16:35So, Jenny AI have more than 10,000 styles for your references

16:40You can also export your references right here

16:45Once the writing is finished and you're happy with the final document, we can go to the review feature, uh which is here at the top

16:52When you click on review, this gives you uh several different ways to review the paper

16:57First, we have claim confidence

16:59This checks the writing for things like weak or missing citations and helps identify areas where the claim need stronger support from the literature

17:09Then we have the peer review, uh as you can see, which can simulate an expert academic review of the paper and give you structured feedback on how to further improve it

17:18Then we have the source quality

17:18We check citations for issues such as retractions and whether any of these citations are actual papers or preprints

17:28Then we have tone of voice, which you can use to change the tone of your writing

17:34And finally, we have proofread, which identifies grammatical and punctuation mistakes in your document

17:42For our paper, let's start with claim confidence

17:44So, I'm going to click on review right here

17:47When you click on it, Jenny is going to start reading your document, but also the papers that you have cited and make sure that all the papers that you have cited are actually supporting the claims

17:59Okay, so the review is completed and here are the results

18:04As you can see, it has given us a detailed breakdown

18:08A total of 17 suggestions are here

18:08Two are citations that are misrepresented

18:13So, these are claims incorrectly attributed to a source, which means we need to replace these citations with the ones that clearly support these claims

18:23Then we have contradicted citations, which are the claims that conflict with the cited evidence

18:27And we have claims without evidence or citations, which means we need to add a couple of citations here

18:35And then we have weakly supported citations, which means claims with insufficient supporting evidence

18:43And it also shows you claims that exaggerate the underlying evidence or claims that cannot be verified with available sources, which means you will need to find other sources

18:53So, okay, so here is the citation that is misrepresented

18:59It also gives you an explanation on why it think this citation is misrepresented

19:05Click on accept, it will uh basically add that citation for you

19:11And as you can see, the misrepresented issue is now resolved

19:14It is important to not simply accept uh the new suggested citation, but to always verify it before clicking on the accept button

19:26Once you're finished writing your document and reviewing it, you can simply export your document by by clicking on the three dots right here

19:34Click on export

19:34Let's go ahead and click on Word

19:37You can choose whether you want uh Microsoft Word native citations or hyperlink

19:41Uh we're going to keep it native, and then click on download file, and it will download the final file for you

19:49And that's the complete workflow for writing your first research paper with Jenny AI

19:54We started with our research sources

19:57We organized everything into a library, used AI chat to understand the literature and identify gaps, and then use the same AI chat to build an outline for our research paper, then drafted each section with autocomplete and manual human writing, then added citations and verified the citations, and then we reviewed and edited the final paper within Jenny AI.