Endy:PiP: Difference between revisions

Latest revision as of 14:04, 16 June 2009

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This page is for keeping track of the status of papers in the Endy writing queue.

Research Manuscripts

Barry #1: Model-based forward engineering of autocatalytic, self-regulating, and orthogonal gene expression systems in Escherichia coli

Authors: Barry, Drew
Status: Drew drafting for PNAS
Writing: On Google Docs
Project page & Paper page.
Goal: Submit June 2009

Jason #2: Programmed selection and preferential promotion of microbes using a selectostat

Authors: JK & DE
Status: Endy drafting for PNAS
Main Text on Google Docs
Figures
Supplement
OWW Page
Goal: Submit June 2009

Reshma #1: Using genetically encoded odorant reporters to engineer bacteria that smell like wintergreen and banana

Authors: RS & DE
Status: reviews received, revision complete, sent to RC3 for his comments
Goal: submitted

Reshma #2: Signal levels, load, and error rates in engineered transcriptional devices

Authors: RS & DE
Status: RS working on figures
Goal: Submit by end of August

Samantha #1: Controlling cellular location by engineering phosphorylation

Authors: SS & DE
Status: In review at PLoS Biology
Goal: Have in press in 2008

Samantha #2: Signals and specifications for a family of phosphorylation-dependent devices, or equivalent

Authors: SS & DE
Status: Outline and structure finalized, SS leading writing
Goal: Submit by end of August

Ty #1: Tools for making systems biology models more scientific

Authors: TT, DE
Status: DE to do final edit, send to RB and TT for final approval
Goal: Submit by end of August

Ty #2: Scaffold number in yeast signaling system sets tradeoff between system output and dynamic range

Authors: TT, DE
Status: Submitted to MSB
Goal: Get published ASAP.

Ty #3: Mechanics, Controls, and Modeling of Mating Pheromone-Initiated Signaling in the Yeast Saccharomyces cerevisiae: A Comprehensive Analysis

Authors: TT, DE
Status: JT and TT to edit (not working well, what should DE do?)
Goal: Submit by ???

Sri #1: Measures & models of phage T7 mRNA

Authors: HK, DE, SK
Status: Sri needs to provide Fig 4, Drew needs to edit
Goal: Submit by end of August

Drew #1: A common signal carrier for genetic devices

Authors: Austin, Drew, Tom, Randy, Samantha
Status: DE to expand and rewrite
Goal: Submit by end of August

Drew #2: Free as in phosphoramidites, or equivalent

Authors: DG and DE
Status: DE to write
Goal: Submit by end of August

BOOKS

DE #1:CoTS

Authors: DE
Status: DE outlining
Goal: Proposal by end of August

DE #2:I2SB

Authors: DE
Status: DE outlining
Goal: Outline by end of August

BLANK

Blank #1: Title, or equivalent

Authors: your names here
Status: your names here
Goal: Submit by some date

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{{#widget:Google Documents |key=d7z7wrm_5cgnvmwcn |width=800 |height=600 }}

@@ Line 6: / Line 6: @@
 ===Research Manuscripts===
-===='''<font color="green">FSP #1</font>''': ''Deterministic cell fate selection during phage lambda infection''====
-*Authors: FSP, DE
-*Status: Manuscript submitted to PNAS Track II on 5 September
-===='''<font color="green">Barry #1</font>''': ''Towards a biological virtual machine: an autoregulating network of RNA polymerases and ribosomes in Escherichia coli'', or equivalent====
+===='''<font color="green">Barry #1</font>''': ''Model-based forward engineering of autocatalytic, self-regulating, and orthogonal gene expression systems in Escherichia coli''====
 *Authors: Barry, Drew
-*Status: RNA work underway, Barry praying for good RNA data, Barry coordinating getting some micrographs and perhaps cytometer data
+*Status: Drew drafting for PNAS
-*Writing: First outline complete and under revision, Figures discussed
+*Writing: On Google Docs
 *[[User:Barry Canton/Notebook/T7 RNAP transcription of rRNA | Project page]] & [[Endy:Chassis engineering/Paper|Paper page]].
-*<font color="red">Goal</font>: Submit by September 15
+*<font color="red">Goal</font>: Submit June 2009
-===='''<font color="green">Jason #1</font>''': ''Measurement kits and reference standards for characterizing BioBrick promoters and ribosome binding sites''====
-*Authors: JK & DE
-*Status: reviews received, JK and DE struggling through standards theory
-*[[Endy:Measkit_draft | Open questions]]
-*[[Endy:Measkit_PLO | New paragraph level outline]]
-*<font color="red">Goal</font>: Resubmit by end of August
-===='''<font color="green">Jason #2</font>''': ''Programmed selection and preferential promotion of disadvantaged bacteria in a microfluidic sortostat,'' or equivalent====
+===='''<font color="green">Jason #2</font>''': ''Programmed selection and preferential promotion of microbes using a selectostat''====
 *Authors: JK & DE
-*Status: Modeling scope, data analysis and writing needs to be completed
+*Status: Endy drafting for PNAS
+*Main Text on Google Docs
+*Figures
+*Supplement
 *[[Endy:Notebook/Sortostat_Paper | OWW Page]]
-*<font color="red">Goal</font>: Submit by end of August
+*<font color="red">Goal</font>: Submit June 2009
 ===='''<font color="green">Reshma #1</font>''': ''Using genetically encoded odorant reporters to engineer bacteria that smell like wintergreen and banana''====
 *Authors: RS & DE
 *Status: reviews received, revision complete, sent to RC3 for his comments
-*<font color="red">Goal</font>: Resubmit by end of August
+*<font color="red">Goal</font>: submitted
 ===='''<font color="green">Reshma #2</font>''': ''Signal levels, load, and error rates in engineered transcriptional devices''====
@@ Line 57: / Line 51: @@
 ===='''<font color="green">Ty #2</font>''': ''Scaffold number in yeast signaling system sets tradeoff between system output and dynamic range''====
 *Authors: TT, DE
-*Status: sent to RB and TT for final review and approval
+*Status: Submitted to MSB
-*<font color="red">Goal</font>: Submit by end of August
+*<font color="red">Goal</font>: Get published ASAP.
 ===='''<font color="green">Ty #3</font>''': ''Mechanics, Controls, and Modeling of Mating Pheromone-Initiated Signaling in the Yeast Saccharomyces cerevisiae:  A Comprehensive Analysis''====
@@ Line 98: / Line 92: @@
 *Status: your names here
 *<font color="red">Goal</font>: Submit by some date
+{{ShowGoogleExcel|id=pPNCEiE71Bq1I759bMAFhTg|width=800|height=600}}
+{{ShowGoogleWord|id=d7z7wrm_5cgnvmwcn|width=800|height=600}}