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1 2 3 4 1 
MIX 
BIOGLYPHICS 
VISUAL LAB PROTOCOLS. CREATED USING A SIMPLE DRAG & DROP WEB APP. 
100% OPEN SOURCE. COMPATIBLE WITH LAB AUTOMATION SOFTWARE. 
42 C 0 C 
37ºC 
A 2014 GENSPACE IGEM PROJECT
2 
Right 
now 
lab 
protocols 
are 
usually 
wri4en 
in 
text. 
Example:
3 
There 
are 
4 
problems 
with 
text 
protocols. 
1. 
Poor 
Consistency 
Each 
person 
wri0ng 
a 
protocol 
phrases 
things 
a 
bit 
differently 
and 
focuses 
on 
different 
content. 
For 
a 
beginner 
in 
the 
lab 
this 
can 
be 
confusing. 
“Spin 
down” 
vs. 
“Centrifuge” 
2. 
Poor 
VisualizaBon 
It 
can 
be 
hard 
for 
a 
beginner 
in 
a 
lab 
to 
connect 
the 
text 
of 
a 
protocol 
with 
clear 
ac0ons 
they 
need 
to 
perform. 
3. 
Low 
Efficiency 
Wri0ng 
text 
protocols 
is 
not 
very 
0me 
efficient. 
You 
need 
to 
spend 
0me 
deciding 
word 
choice 
and 
what 
level 
of 
detail 
to 
cover. 
4. 
Machine 
Illegible 
Because 
the 
text 
of 
protocols 
is 
not 
consistent 
in 
language 
or 
formaHng, 
computer 
programs 
that 
run 
lab 
automa0on 
soJware 
are 
not 
able 
to 
use 
it.
4 
What 
if... 
Instead 
of 
this. You 
had 
this.
5 
MAKING 
THE 
DREAM 
REAL: 
WE 
GOT 
THE 
COMMUNITY 
INVOLVED 
On 
7/7/14 
we 
hosted 
a 
public 
event 
-­‐ 
The 
BioGlyphics 
Iconathon. 
We 
brought 
together 
graphic 
designers 
and 
ar0sts 
from 
all 
over 
the 
NYC 
metro 
area 
and 
invited 
them 
to 
design 
BIOGLYPHICS 
at 
a 
event 
hosted 
in 
a 
Brooklyn 
community 
work 
space.
6 
BIOGLYPHICS: A GENSPACE PROJECT 7/3/14 
IGEM TRANSFORMATION PROTOCOL 
An 
Early 
PURPOSE 
Prototype MATERIALS 
This procedure allows you to insert a BioBrick part (from the IGEM distribution kit) into cells. The IGEM distrubution kit contains an array of 
wells that contain plasmids. These plasmids contain the DNA for the BioBrick part. This plasmid will be inserted into the cell and then the cell 
will be plated on a petri dish. 
1 
2 
B 
C 
3 
W 
A 
competent 
cells 
IGEM 
distribution 
w/ DNA 
petri dish 
w/ LB agar 
& appropriate 
antibiotic 
2 ml tube 
SOC 
media 
deionized 
water 
RFP 
control 
50μL 2μL MIX 2μL 2μL 
1 A W A 2 A 
42 C 
1 2 3 4 1 
MIX 
B B B 
30 MIN 1 MIN 
0 C 
200μL 
A A 3 
A 
5 MIN 
0 C 
A 
2 HOURS 
37ºC 
SHAKE OR TUMBLE 
A 
200μL 
A C 
SPREAD 
C 
13 HOURS 
AGAR SIDE UP 
37ºC 
C 
PROCEDURE 
1 2 3 4 5 
6 7 8 9 10 
11 12 13 
The 
complete 
IGEM 
transforma0on 
protocol 
in 
BIOGLYPHICS.
50μL 2μL MIX 2μL 2μL 
1 A W A 2 A 
2 HOURS 
7 
Why 
We 
Like 
It. 
100% 
consistent. 
Each 
protocol 
follows 
the 
same 
logical 
format. 
Easy 
to 
understand 
and 
visualize. 
Materials 
and 
Procedures 
are 
visually 
defined 
just 
like 
IKEA 
instruc0ons. 
Fast 
& 
easy 
to 
create. 
Simple 
drag 
and 
drop 
web/ 
android/iOS 
app 
interface. 
Will 
be 
100% 
machine 
readable 
for 
lab 
automaBon 
so^ware. 
Making 
a 
protocol 
in 
this 
format 
will 
automa0cally 
build 
machine 
code 
behind 
the 
scenes. 
MATERIALS 
1 
2 
B 
SOC 
media 
A competent 
cells 
C 
3 
W 
IGEM 
distribution 
w/ DNA 
petri dish 
w/ LB agar 
& appropriate 
antibiotic 
2 ml tube 
deionized 
water 
RFP 
control 
42 C 
1 2 3 4 1 
MIX 
B B B 
30 MIN 1 MIN 
0 C 
200μL 
A A 3 
A 
5 MIN 
0 C 
A 
37ºC 
SHAKE OR TUMBLE 
A 
200μL 
A C 
SPREAD 
C 
13 HOURS 
AGAR SIDE UP 
37ºC 
C 
PROCEDURE 
1 2 3 4 5 
6 7 8 9 10 
11 12 13
8 
Our 
Dream 
is... 
To 
create 
a 
fully 
featured 
online 
community 
and 
repository 
of 
visual 
laboratory 
protocols. 
Imagine 
a 
Thingiverse.com 
or 
allrecipies.com 
for 
visual 
laboratory 
protocols.
Drag 
and 
drop 
web 
app 
for 
creaBng 
a 
BIOGLYPHICS 
protocol. 
Simply 
drag 
and 
drop 
the 
correct 
icons 
and 
then 
fill 
in 
the 
details. 
In 
under 
2 
mins 
you 
can 
build 
a 
complete 
protocol.
10 
It 
works 
just 
like 
IKEA 
InstrucBons 
STEP 
1: 
DEFINE 
YOUR 
MATERIALS 
We 
have 
a 
test 
tube 
of 
Soc 
Media 
defined 
as 
1 
STEP 
2: 
CREATE 
YOUR 
PROCEDURE 
Use 
procedure 
icons 
and 
materials 
to 
create 
your 
protocol. 
We 
have 
an 
empty 
2ml 
Tube 
defined 
as 
A 
We 
are 
pipeHng 
5 
microliters 
of 
1 
into 
A. 
We 
centrifuge 
A 
for 
30 
sec. 
We 
incubate 
& 
shake 
A 
for 
24 
hours.
11 
When 
you 
create 
a 
visual 
protocol... 
The 
web 
app 
will 
automaBcally 
generate 
lab 
automaBon 
code. 
The 
code 
you 
see 
here 
is 
an 
early 
a4empt 
at 
translaBng 
Bioglyphics 
input 
into 
Pr-­‐Pr
BIOGLYPHICS: 
A 3 STAGE PROCESS OF DEVELOPMENT 
12 
STAGE 
1 
Proof 
of 
concept 
and 
basic 
early 
prototype. 
Ini0al 
development 
of 
Bioglyphic 
icons 
and 
explora0on 
into 
lab 
automa0on 
programming. 
STAGE 
2 
Raise 
funding 
and 
find 
dedicated 
volunteers 
for 
the 
full 
development 
of 
the 
web 
applica0on 
and 
online 
community. 
STAGE 
3 
Spread 
BioGlyphics 
to 
other 
community 
labs, 
teachers, 
and 
bio 
makers 
across 
the 
country. 
WE 
ARE 
HERE 2015-­‐2016 Late 
2016

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BIOGLYPHICS: A 2014 GENSPACE IGEM TEAM PROJECT

  • 1. 1 2 3 4 1 MIX BIOGLYPHICS VISUAL LAB PROTOCOLS. CREATED USING A SIMPLE DRAG & DROP WEB APP. 100% OPEN SOURCE. COMPATIBLE WITH LAB AUTOMATION SOFTWARE. 42 C 0 C 37ºC A 2014 GENSPACE IGEM PROJECT
  • 2. 2 Right now lab protocols are usually wri4en in text. Example:
  • 3. 3 There are 4 problems with text protocols. 1. Poor Consistency Each person wri0ng a protocol phrases things a bit differently and focuses on different content. For a beginner in the lab this can be confusing. “Spin down” vs. “Centrifuge” 2. Poor VisualizaBon It can be hard for a beginner in a lab to connect the text of a protocol with clear ac0ons they need to perform. 3. Low Efficiency Wri0ng text protocols is not very 0me efficient. You need to spend 0me deciding word choice and what level of detail to cover. 4. Machine Illegible Because the text of protocols is not consistent in language or formaHng, computer programs that run lab automa0on soJware are not able to use it.
  • 4. 4 What if... Instead of this. You had this.
  • 5. 5 MAKING THE DREAM REAL: WE GOT THE COMMUNITY INVOLVED On 7/7/14 we hosted a public event -­‐ The BioGlyphics Iconathon. We brought together graphic designers and ar0sts from all over the NYC metro area and invited them to design BIOGLYPHICS at a event hosted in a Brooklyn community work space.
  • 6. 6 BIOGLYPHICS: A GENSPACE PROJECT 7/3/14 IGEM TRANSFORMATION PROTOCOL An Early PURPOSE Prototype MATERIALS This procedure allows you to insert a BioBrick part (from the IGEM distribution kit) into cells. The IGEM distrubution kit contains an array of wells that contain plasmids. These plasmids contain the DNA for the BioBrick part. This plasmid will be inserted into the cell and then the cell will be plated on a petri dish. 1 2 B C 3 W A competent cells IGEM distribution w/ DNA petri dish w/ LB agar & appropriate antibiotic 2 ml tube SOC media deionized water RFP control 50μL 2μL MIX 2μL 2μL 1 A W A 2 A 42 C 1 2 3 4 1 MIX B B B 30 MIN 1 MIN 0 C 200μL A A 3 A 5 MIN 0 C A 2 HOURS 37ºC SHAKE OR TUMBLE A 200μL A C SPREAD C 13 HOURS AGAR SIDE UP 37ºC C PROCEDURE 1 2 3 4 5 6 7 8 9 10 11 12 13 The complete IGEM transforma0on protocol in BIOGLYPHICS.
  • 7. 50μL 2μL MIX 2μL 2μL 1 A W A 2 A 2 HOURS 7 Why We Like It. 100% consistent. Each protocol follows the same logical format. Easy to understand and visualize. Materials and Procedures are visually defined just like IKEA instruc0ons. Fast & easy to create. Simple drag and drop web/ android/iOS app interface. Will be 100% machine readable for lab automaBon so^ware. Making a protocol in this format will automa0cally build machine code behind the scenes. MATERIALS 1 2 B SOC media A competent cells C 3 W IGEM distribution w/ DNA petri dish w/ LB agar & appropriate antibiotic 2 ml tube deionized water RFP control 42 C 1 2 3 4 1 MIX B B B 30 MIN 1 MIN 0 C 200μL A A 3 A 5 MIN 0 C A 37ºC SHAKE OR TUMBLE A 200μL A C SPREAD C 13 HOURS AGAR SIDE UP 37ºC C PROCEDURE 1 2 3 4 5 6 7 8 9 10 11 12 13
  • 8. 8 Our Dream is... To create a fully featured online community and repository of visual laboratory protocols. Imagine a Thingiverse.com or allrecipies.com for visual laboratory protocols.
  • 9. Drag and drop web app for creaBng a BIOGLYPHICS protocol. Simply drag and drop the correct icons and then fill in the details. In under 2 mins you can build a complete protocol.
  • 10. 10 It works just like IKEA InstrucBons STEP 1: DEFINE YOUR MATERIALS We have a test tube of Soc Media defined as 1 STEP 2: CREATE YOUR PROCEDURE Use procedure icons and materials to create your protocol. We have an empty 2ml Tube defined as A We are pipeHng 5 microliters of 1 into A. We centrifuge A for 30 sec. We incubate & shake A for 24 hours.
  • 11. 11 When you create a visual protocol... The web app will automaBcally generate lab automaBon code. The code you see here is an early a4empt at translaBng Bioglyphics input into Pr-­‐Pr
  • 12. BIOGLYPHICS: A 3 STAGE PROCESS OF DEVELOPMENT 12 STAGE 1 Proof of concept and basic early prototype. Ini0al development of Bioglyphic icons and explora0on into lab automa0on programming. STAGE 2 Raise funding and find dedicated volunteers for the full development of the web applica0on and online community. STAGE 3 Spread BioGlyphics to other community labs, teachers, and bio makers across the country. WE ARE HERE 2015-­‐2016 Late 2016