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This fall I attended an event called “Lab Data to Machine Learning in 30 Seconds”, put on by Riffyn (@riffyn, https://riffyn.com/) and AWS, as part of the synbiobeta 2018 (@SynBioBeta) Synthetic Biology Week. It included a panel discussion lead by Riffyn’s CEO Tim Gardner and a panel of data science experts from Amyris, GSK, and Novartis (all three are listed on NASDAQ or NYSE). The focus of the panel was the rapid advance of machine learning and AI in biotech and pharmaceutical R&D; however, the discussion also ventured into other interesting areas like structuring and integration in data systems and the goals and challenges of dealing with data in the biotech industry.
In order to understand how data science had changed the directions and shaped the perspectives of the panelists, the panel explored some of the challenges that they were dealing with in their projects. Sometimes their challenges included acquiring a deeper grasp of where signals or noise came from in the data. Sometimes the challenges included strenuous efforts to ‘wrangle’ and structure the data (possibly from thousands of data sources) in order to create new molecules and compounds. Most of the time, however, the challenges involved long and painful analysis of countless spreadsheets. It was also interesting to hear about the kind of goals the panelists had for the data. When data poured in quickly, the panelists wanted to find ways to motivate teams while minding timelines, and to define objectives and limits for the data gathering. Often though, the goals were centered around creating better data models (which are only as good as the data that is fed them); but there was also a longing for an easier system.
The panelists had learned a lot about working with data in their projects and about trying to automate data-related processes. For instance, sometimes the ‘secret sauce’ they were looking for was buried deep within the data, and could only be ‘discovered’ through painstaking data combing and company cross-learning. Sometimes to ensure that they had good data, they had to hire outside help. Sometimes there was excitement in joining data, which connected the scientists with the data’s impact. Other times, they had to mitigate the risk of using ‘biased’ data, since the way the data was trained could result in missed discoveries. In some cases, data that was valuable actually lived in the outliers, yet was still thrown away. Sifting through ‘garbage’ data had to be done in a large-scale automated way so that biased decisions would not be relied on.
They also talked in depth about the aspect of private data (known as “dark data”), which is the data that companies keep to themselves. But how can incentive be increased for companies to start to bring the different sources of data together? There was no simple answer for this! There is usually a lot of mistrust inside of the organizations themselves, and often, the data is not easily available or sharable, hidden away in numerous SharePoint drives and Excel sheets. Most of the time, there is simply too much ego and territoriality attached to the data to allow the data to be accessible by everyone. The scientists working on the data are not cross-training enough or learning about each others’ processes. The culture of sharing data and cross-company involvement definitely needs to change and it usually starts at the top of the organizations. One big thing that could help this happen faster is the development of standards for the data sharing process itself. Such standards have often driven industries to the next level by making it easier for different companies and products to work together; however, standards take a long time to develop because they require companies to ‘opt-in’ to them first.
In tuning into this panel, I also found that there was a genuine enjoyment from the panelists in working with data, especially when it led to discoveries. They even had names for themselves like “data detective” and “molecule artist”. When all of their data could be used, it was very gratifying, as was the ability to navigate the space of billions of predictions in their models. When their work lead to a big landmark finding, it was all worth it! After all, isn’t science all about making discoveries?
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hello this is hela short Day 13 of Winter OTP Prompts
The concept of mistletoe was one lost to Night Watcher. The assassin could only tilt her head as Wind Sneaker presented one to her, practically beaming.
“In some cultures, mistletoe is symbol of love and friendship, which is where the practice of “kissing under the mistletoe” came from!
“Isn’t mistletoe actually a parasite spread by bird feces…?”
“That makes it less romantic, Night Watcher!”
“U-Uhm… I find… the concept of mistletoe to be… quite romantic…? Love is… quite poisonous, much like mistletoe…”
“Night Watcher!” The assassin flinched at Wind Sneaker’s tone, her counterpart looking upset. She held Wind Sneaker’s gaze, eyes apologetic, before the fighter finally sighed. She rested the mistletoe away, her smile not quite reaching her eyes anymore. “I suppose it is rather silly, isn’t it…”
Night Watcher didn’t reply. Instead, she reached her hand out, brushing her fingers against Wind Sneaker’s cheek. They followed her jawline, grasping her chin and turning the fighter to her. Night Watcher’s smile was small – she meant no offense. Searching her eyes, Wind Sneaker’s smile slowly grew to a tiny grin. It was then Night Watcher knew she was forgiven.
“As… charming as the concept is,” Night Watcher chose her words carefully, her free hand resting on Wind Sneaker’s waist as she stepped closer to her lover, “you do not need it to practice kissing.”
Wind Sneaker opened her mouth, but her words were silenced by Night Watcher’s lips. The assassin caressed her cheek, brushing her hair behind her ear before holding the back of her head, gently keeping the fighter in place. As if Wind Sneaker would object, circling her arms around Night Watcher’s neck and pressing herself as close as possible to the other.
oh I’m not that far behind yay Day 11 of Winter OTP Prompts
With Jack Frost constantly nipping at his nose every time he went outside, Dreadlord enjoyed staying near the fireplace. He would throw classical Christmas music on to drown out the silence before stretching out on the plush carpet beside the warm fire – just like now. With a very content sigh, the lord of terror crossed his arms behind his head and finally, fully, relaxed. The warmth of the fireplace eased away the troubles of the day and soon his stiff limbs were back to a normal, unfreezing temperature.
Dreadlord would stay in that very same spot for hours, completely content with listening to Christmas music on repeat and letting his mind unwind. Only when the heat of the fireplace became unbearably hot did he ever decide to move, which wouldn’t be until some odd time later on in the night. Although Dreadlord enjoyed these relaxing moments, he wished for a different sort of warmth –
The sound of footsteps shuffling closer made Dreadlord open his eyes, glancing over to see who it was: Royal Guard. Usually the butler had his head held high, eyes holding a look of superiority, always so pressed, posh, and even snobby, but not right then. As he approached Dreadlord, his eyes were gazing off to the side, looking almost troubled.
Dreadlord knew that look anywhere, and instantly, he sat up. Royal Guard stopped just short of him, eyes unable to meet his. The lord of terror did his best to stop his grin from growing, managing a small, what he hoped was welcoming, smile, beckoning the butler closer. Royal Guard dropped to his knees beside the Dreadlord, but the lord had other plans. He pulled the butler on top of him, Royal Guard straddling his hips.
Dreadlord’s grin finally broke through and his hands rested on Royal Guard’s hips, fingers skimming under his shirt and dancing along the skin that greeted him. A shiver ran down the butler’s spine, and Dreadlord’s grin grew, his searching fingers climbing more and more, seeking the warmth only Royal Guard could provide him. The butler scowled, his hands locking around Dreadlord’s wrists and pull them away, pinning them beside the lord’s head. Still, Dreadlord’s grin was still ever so present, along with the excitement now dancing in his eyes.
“… Are you a masochist?” The butler murmured, staring down at the man with a pointed stare.
“If it means you’ll touch me, then yes?” Royal Guard’s scowl grew to a look of aggravation and he was quick to try and leave. Try, because as soon as his weight shifted away, the lord rolled over, turning the tables and pinning the butler down. “Where are you going?”
“I am not a means for you to satisfy your libido, Dreadlord,” Royal Guard growled, eyes dark with scorn. The look almost took Dreadlord by surprise, what with how fierce the hatred in the butler’s eyes burned, and he hesitated. Sighing deeply, the lord leaned down, placing gentle kisses along Royal Guard’s jaw and jawline, trailing them to the corner of his lips, his cheek, his temple, and lastly, his forehead.
“… Be a means to satisfy my craving for you, then,” the lord mumbled against his skin, leaning back to meet the butler’s eyes, “My every fiber yearns for you….”
It was quiet, Royal Guard’s eyes searching Dreadlord’s, looking for something in them Dreadlord knew he couldn’t put into words. At one point, he looked away, that same troubled look appearing once again, before he sighed softly and nodded his head. Dreadlord’s expression lit up before he pressed his lips to the butler’s.
tfw this is really self-indulging Day 10 of Winter OTP Prompts
Even the Prince of Hamel needed a break every once in awhile.
“Not so fast, Chaser!”
“Hurry, before the guards stop us!”
They spoke is harsh whispers, Iron Paladin confused as to where Deadly Chaser was taking him. Together, they snuck out of Hamel’s castle, Deadly Chaser with one hand pulling Iron Paladin along, the other better fitting the satchel against his shoulder. Once they were covered some distance between them and the castle, their placed slow, yet Deadly Chaser didn’t let Iron Paladin’s hand go. Not that the prince seemed to mind, walking a step faster to stand beside the other.
Together, they wondered the outskirts of Hamel together, though the assassin seemed to know where he was going, and soon, it was clear to Iron Paladin as well. The ground gave way to an opening, a frozen over lake at the center of the clearing.
“Uh, Chaser –“ Iron Paladin turned to the other, seeing the assassin resting near a stump. He shrugged the satchel over his shoulder, opening it to finally reveal what was inside: two pairs of ice skates. Once his were on, the assassin beckoned the prince over. Warily, Iron Paladin made his way to the stump before sitting down before the assassin. With great care, Deadly Chaser eased the prince’s first shoe off, Iron Paladin shivering at the difference in temperature.
The assassin pressed a kiss to his knee, as if apologizing, before helping the prince into the ice skates, then again with the other. Iron Paladin sighed softly, a small smile on his face as Deadly Chaser stood, reaching his hands out for him to take. Hand in hand, the two slowly made their way to the lake, and though Iron Paladin stared it with uncertainty, Deadly Chaser managed to convince him it was safe.
Not once as the two were out did they let go of each other’s hand.
Psyker stretched his arms over his head as he yawned, walking into the kitchen. Mastermind was there, making himself a cup of coffee, and Esper too, munching away at his breakfast. Noticing the berserker first, the scientist turned to look at him. He nodded his head in greeting, leaning against the counter, “Morning.”
Psyker’s reply was a string of incoherent words. He messed around with the cabinets, trying to find anything that looked satisfying. His eyes caught something, making him pause in his search and look at it: a bowl full of candy. Shrugging his shoulders, Psyker dug around and picked a jawbreaker out.
Mastermind raised an eyebrow, “Candy, first thing in the morning? That’s healthy.”
Psyker ignored him, squeezing the wrapper until it popped. The jawbreaker flew in the air and Psyker caught it with ease, turning to throw the wrapper away.
That is, until he collided with Esper. The berserker rested his hands on the other’s shoulders, making sure Esper was steady on his feet. Psyker stepped around him, the dimension hopper humming a “thank you”. Psyker shook his head, already used to Esper’s ever-cheerfulness so early in the morning.
The berserker was about to pop the candy in his mouth when he noticed it wasn’t there. Looking down, he saw it on the ground. Oh, he must have dropped it when he bumped into Esper. Psyker felt Mastermind’s eyes glued to him as he reached down and picked it up, throwing it in his mouth without a second thought.
Mastermind looked horrified. “Excuse me, do you know how many germs have found their way on that piece of candy now that it touched the floor? That’s disgusting, Psyker.”
Psyker set him with a blank look, eyes meeting his with a look that questioned if he should care. Mastermind scoffed, shaking his head distastefully. He mumbled something that sounded like “barbarian” into his coffee as he took a sip.
“… You sure as fuck don’t mind putting this barbarian’s dick in your mouth, despite it having germs. I will gladly shove this jawbreaker in mine, you pompous windbag.”
Mastermind proceeded to spit his coffee out, sputtering nonsense. His face was beat red with embarrassment and anger while Esper laughed out loud in the background.
My personal blog. I use it to gather information and discussion about lab apps, LIMS, tablet computers etc.
A wiki with information about loads of LIMS, ELNs and lab informatics - very useful resource
Do you work in a lab doing scientific research?
Do you use a tablet computer? (iPad, Samsung Galaxy Tab, Kindle Fire, Google Nexus etc.)
I want to speak to you!