Renata Rezende Miranda

Ph.D. from @USCchemistry | Chemical Biology, Organic Chemistry, Medicinal Chemistry | She/her/hers

[Anna Clemens, PhD @scientistswrite]

15 bookmark-worthy tools for researchers that cost you nothing and will save you time (& nerves) when researching, writing and publishing.

A thread. 🧵

#AcademicTwitter #AcWri #PostDoc

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#1: Track your time with Toggl ⌛

https://t.co/CSjKRFoS0i

• Understand how you are spending your time
• Track how long each task is taking you so you can plan accordingly
• Be more focused on the task at hand

I use Toggl daily.

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#2: Proof-read your papers with Writefull 🔎

https://t.co/vcYBY2XFni

• AI-powered proof-reading tool specifically for scientific texts
• Integrates into Word and Overleaf

Members of my program - the Researchers' Writing Academy - love this one!

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#3: Organise your references with Zotero 🗃️

https://t.co/5svcJL5Jly

• Open-source program
• Saves references from your browser
• Organises them in folders and using tags
• Creates bibliographies for your article
• Lets you co-create citation libraries with co-authors

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#4: Stay focused with Forest 🌳

https://t.co/tToDcNi0Vv

• Start the app when you want to write or deep work
• A virtual tree starts growing
• When you leave the app to do something else, the tree dies
• The larger your forest, the more deep work you got done!

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#5: Discover papers with Research Rabbit 🐰

https://t.co/LsfFCoGGRr

• Build your own citation network
• Label network entries
• Download paper PDFs
• Get alerts for new papers

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#6: Visualise your thoughts with XMind 🧠

https://t.co/vVEhz5GIJl

• Intuitive mindmapping tool
• Embed hyperlinks, images & attachments

Excellent for organising references for review papers or brainstorming the story of your paper!

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#7: Notion 🖥️

https://t.co/rCzNNJVHOr

• Powerful all-rounder
• Note-taking
• Project management
• Wikis & databases

Some members of my program - the Researchers’ Writing Academy - swear by it!

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#8: Listen to scientific papers with Audemic 🎧

https://t.co/947nFj8RQF

• Highlight text while listening
• Take notes
• Get summaries that go beyond the abstract

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#9: Record training or feedback videos with Loom 🎥

https://t.co/16fRAIIYvi

• Record your screen, webcam and/or audio
• Share the video link after recording
• 25x 5-min videos included in free plan

I use this one all the time!

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#10: Project manage your papers with Trello 🗂️

https://t.co/ITAn01Y2R9

• Use lists, cards & checklist to organise the tasks in each project
• Collaborate with co-authors
• Communicate via comment function

PS: We provide you with several Trello templates inside our program!

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#11: Choose your target journal with SciRev 📗

https://t.co/w4gbPzZd1g

• Compare publication speeds, peer review quality and journal statistics
• Contribute your own publishing experiences
• Made by researchers

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#12: Compare journal policies with Transpose ↗️

https://t.co/nHtjkyRPBY

• Compare journal policies on open peer review, co-reviewing and preprint policies

You might be surprised how vague some journals are on these topics!

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#13: Share methods on Protocols 🧪

https://t.co/Z2ZdpWbHWo

• Publish your chemical synthesis protocols, clinical trial descriptions or computational workflows
• Keep them updated
• Receive a DOI
• Run protocols as checklists
• Free for open research

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#14: Cite correctly with CiteAs 💬

https://t.co/uMYRKULRZv

• Obtain the correct citation for preprints, software and datasets in one click
• Open-source tool

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#15: Understand your research landscape with Dimensions 🌆

https://t.co/WAF5uRwmYl

• Analyse all research-related data (grants, papers, patents, datasets, online mentions, clinical trials, policy documents)
• Identify collaborators
• Find who has cited and used your work

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TL;DR - 15 free tools for researchers you should bookmark now

#1: Toggl
#2: Writefull
#3: Zotero
#4: Forest
#5: ResearchRabbit
#6: XMind
#7: Notion
#8: Audemic
#9: Loom
#10: Trello
#11: SciRev
#12: Transpose
#13: Protocols
#14: CiteAs
#15: Dimensions

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However, the best tools won’t make you more efficient at writing papers if you don’t have a streamlined writing process in place.

💻Therefore, if you liked this thread: Watch my free writing training 👇

[André O. Hudson, PhD @HudsonLabRIT]

We are recruiting our next colleague in the Hudson Lab (https://t.co/GjSuMwkvFq) @RITscience. For more information and how to apply, visit https://t.co/NRAaDHyhHi & search using 8140BR. Don't hesitate to contact me if you have any questions. Please RT.

[André O. Hudson, PhD @HudsonLabRIT]

We are so incredibly proud of all the young scholars that participated in the @RochesterPrepHS/@RITtigers Capstone Program. Huge thanks to my Hudson Lab Colleagues, Dr. Miranda, and UG scholars, and also to our fantastic partners in the K-12 University Center @RITK12UC.

[Renata Rezende Miranda @renatarezendem]

@HudsonLabRIT @NIH Excited to unpack and starting using this!

[Renata Rezende Miranda @renatarezendem]

@beforourspring Aconteceu comigo tbm!! Qual a explicação gente?!

[RSC Medicinal Chemistry @rsc_medchem]

Chao Zhang & @renatarezendem discuss chemical-genetic strategies that use covalent inhibitors to target cysteine residues to dissect the cellular functions of individual protein kinases in this review as part of our covalent drug discovery collection ➡
https://t.co/6Stz85wZmx

[The Nobel Prize @NobelPrize]

BREAKING NEWS:
The Royal Swedish Academy of Sciences has decided to award the 2022 #NobelPrize in Chemistry to Carolyn R. Bertozzi, Morten Meldal and K. Barry Sharpless “for the development of click chemistry and bioorthogonal chemistry.”

[André O. Hudson, PhD @HudsonLabRIT]

The COVID-19 pandemic generates ~7,200 tons of waste/day. Disposable masks pose a health risk if disposed of improperly in the environment. Pittsford Sutherland HS Scholar, Angie Mozrall published her senior capstone project on this topic. @renatarezendem @CristaWadsworth #RIT

[André O. Hudson, PhD @HudsonLabRIT]

Fun collab with Drs. Parthasarathy, @renatarezendem, @achristytyler, Eddingsaas & @RITGSOLS @RITscience students-Polystyrene Degradation by Exiguobacterium sp. RIT 594: Preliminary Evidence for a Pathway Containing an Atypical Oxygenase https://t.co/5FCzIpxQY5 via @Micro_MDPI

[André O. Hudson, PhD @HudsonLabRIT]

The Hudson Lab Scholars did great at the RIT UG research symposium. Congratulations on a successful summer and onward and upward into the next AY! Well Done! @renatarezendem @MaryVisingard

[Renata Rezende Miranda @renatarezendem]

Check out the cover art I designed for the current issue of RSC Med Chem to illustrate our review on covalent chemical-genetic strategies to study protein kinases

[RSC Medicinal Chemistry @rsc_medchem]

Issue 7 is now online 🎉

On the cover of this issue: @renatarezendem & Chao Zang review chemical-genetic strategies covalently targeting cysteine residues to study protein kinases 👉 https://t.co/6Stz85wZmx

[André O. Hudson, PhD @HudsonLabRIT]

Thank you @NIH for funding our lab. This funding will provide the resources for Dr. @renatarezendem and I to continue on our mission of training and mentoring UG/G students and will significantly enhance the various antibiotic prospecting projects in our lab. #ThankYou #Grateful

[Renata Rezende Miranda @renatarezendem]

Welcome, @MaryVisingard :)

[André O. Hudson, PhD @HudsonLabRIT]

Please help me welcome my colleague,Mary Emily Visingard @MaryVisingard, 2nd year Biochemistry major to our lab. Mary Emily is working with Dr. Miranda @renatarezendem and I to synthesize probes to facilitate downstream studies for our various antibiotic resistance studies.

[RSC Medicinal Chemistry @rsc_medchem]

Check out this review in our Covalent Drug Discovery collection (https://t.co/pamM7Jln0z) by @renatarezendem and Chao Zhang at @USCChemistry on chemical-genetic strategies covalently targeting cysteine residues to study protein kinases ➡ https://t.co/6Stz85OAL7

[Renata Rezende Miranda @renatarezendem]

I wrote this while a 5th-year PhD candidate at @USCChemistry and I'm happy to finally be able to share our review on using reactivity-based (covalent) chemical-genetic strategies to study protein kinases and kinase inhibitors!
@rsc_medchem
https://t.co/P74cFAq6mP

[Covalent Modifiers @CovalentMod]

Structure-based design of a dual-warhead covalent inhibitor of FGFR4 https://t.co/3HHsk978F5

[Renata Rezende Miranda @renatarezendem]

Excited to share our most recent publication in the @HudsonLabRIT discussing chemical biology approaches to facilitate the discovery and development of novel antibiotics https://t.co/l3io7cpITl

[André O. Hudson, PhD @HudsonLabRIT]

Congratulations Drs. Miranda (@renatarezendem) and Parthasarathy. Exploration of Chemical Biology Approaches to Facilitate the Discovery and Development of Novel Antibiotics https://t.co/xyx1WE2jpj

[André O. Hudson, PhD @HudsonLabRIT]

Angie Mozrall, a high school student that @renatarezendem and I are mentoring screened bacteria for antibiotic resistance that she isolated from the environment. She identified 2 strains that are resistant to 5 out of the 7 antibiotics we tested. The next step to seq the genomes.

[André O. Hudson, PhD @HudsonLabRIT]

Please help me welcome Angie Mozrall to our research team. Angie is a senior at Pittsford Sutherland High School and is commencing her senior internship in lab and will be working on our antibiotic resistance project. Welcome Young Scholar! #ExperientialLearning