| Algae site catalog | |||
| use these for the alt tags | |||
| folder | subfolder | doc | description |
| images | png | all png images | |
| images | 3box.gif | nitrate and temperature with depth | |
| images | axis.gif | used in excel tutorial | |
| images | bi445logo.gif | components and Algal Physiology | |
| images | blackman.gif | blackman PvsI model | |
| images | boolean.gif | venn diagram for 3 states with boolean | |
| images | cell_slice.gif | slice of a cell that is 3 um by 1 um | |
| images | columns.gif | how to arrange Excel and the tutrorial into columns | |
| images | competitive-inhibition.gif | two enzymes with competitive inhibition | |
| images | components.gif | P, E, R, S image | |
| images | concept-map.gif | hierarchical disciplines and algae concept map | |
| images | final_step.gif | final step in plotting a graph that includes putting the values in reverse order _ such as a depth plot | |
| images | format_axis_dialog_box.gif | what the dialog box from Excel for formating the axes looks like | |
| images | growth-20-time-periods.gif | time step model for growth over 20 time periods | |
| images | growth-5-time-periods.gif | time step model for growth only using 5 time periods | |
| images | ivsz.gif | irradiance vs. depth chart | |
| images | lect09_1.gif | stella model image for regulation | |
| images | lect11_fixed_ratio.gif | stella model image | |
| images | lect11_nadph.gif | Stella model image for the feedback inhibition of NADPH on photosytnthetic processes | |
| images | logo.gif | small component model logo | |
| images | logo2.gif | small component model with words "go home" on it | |
| images | metab.gif | schematic of the metabolism | |
| images | non-competitive-inhibition.gif | chart of non-competitive enzyme inhibition | |
| images | nutrient_uptake_in_series.gif | NO3 uptake process from outside of the cell to proteins - very simple | |
| images | nutrient_uptake_Ks.gif | drawn chart of uptake rate (y) vs. nutrient concentration (x) with higher Ks shown | |
| images | nutrient_uptake_large_cell.gif | drawn chart of uptake rate (y) vs. nutrient concentration (x) with an extension that shows how potential uptake rate could increase for large cells at high concentrations of S | |
| images | nutrient_uptake_small_cell.gif | drawn chart of uptake rate (y) vs. nutrient concentration (x) with an extension that shows how potential uptake is limited by cell volumne | |
| images | nutrient_uptake_two_species.gif | drawn chart of uptake rate (y) vs. nutrient concentration (x) that shows two different species with different Km and Vmax | |
| images | nutrient_uptake_vmax.gif | drawn chart of uptake rate (y) vs. nutrient concentration (x) that shows two different Vmax | |
| images | photoinhib1.gif | excel chart (unlabelled axes) that shows photoinhibition | |
| images | photoinhib2.gif | excel chart (unlabelled axes) that shows photoinhibition with lines drawn in for alpha, Pmax and beta | |
| images | poisson-targets-1.gif | empty targets for the Poisson discription | |
| images | poisson-targets-2.gif | progression of targets from hit, to not ready, to ready in the poisson model for light saturation | |
| images | poisson-targets-3.gif | 10 photosystem targets receiving 5 photons, one target is getting hit twice | |
| images | pvsi.gif | drawn chart of productivity versus Z (depth in the water column) showing the exponential decay of P with Z | |
| images | pvsi-simulation2.gif | Excel chart showing y axis is productivity (with no dimensions given) vs.x axis of light intensity from 0 to 2500 (but with no units given). Two curves, A has a steeper slope at low light than B. Both saturate at the same level. | |
| images | pvsi-simulation2-partb.gif | Excel chart showing y axis is productivity (with no dimensions given) vs.x axis of light intensity from 0 to 2500 (but with no units given). One function, that levels off abruptly at low light and is saturated at productivity =3 (no units given) | |
| images | pvsz.gif | Excel chart showing P on the X axis representing productivity vs. depth on the Y axis (with zero at the top and 125 at the bottom) representing depth. Productivity has a maximum at 60 meters. This chart relates to the photoinhibition charts. | |
| images | setup.gif | Top two rows of an Excel simulation. Can't really see what is in the cells. | |
| images | sigmoidal-inhibition.gif | Excel derived chart that shows enzyme velocity (y) vs. substrate concentration [S] on the x axis. There are two sigmoidal shaped curves that both saturate at 1. The lower curve is shifted down and to the right (i.e. to higer S values) and is labelled inhibited in the legend. | |
| images | sim1a-1.gif | screen shot of the top left hand corner of an Excel spreadsheet showing how to set up the named variables. | |
| images | sim1a-2.gif | screen shot of some portion of the tutorial | |
| images | sim1a-3.gif | screen shot of some portion of the tutorial | |
| images | sim1a-4.gif | screen shot of example chart | |
| images | sim1a-5.gif | screen shot of how to select the XY scatter plot in the chart type, chart wizard | |
| images | sim1c-1.gif | screen shot of some portion of the tutorial | |
| images | sim1c-2.gif | screen shot of some portion of the tutorial | |
| images | sim1c-3.gif | screen shot of example chart | |
| images | step1.gif | screen shot of how to name a cell, used in the PvsI tutorial | |
| images | step5.gif | screen shot of how to select the XY scatter plot in the chart type, chart wizard, and how to select for straight line segment between points | |
| images | step5b.gif | Excel chart of P vs I with dramatic photoinhibition. Neither axis is labelled. | |
| images | step6.gif | Excel chart of P (on the X axis) vs depth (on the y axis) showing a maximum productivity at about 20 meters | |
| images | tanh.gif | Excel chart showing the tanh function as used for P vs. I curve. Neither axis is given, nor is the equation identified. | |
| images | vvss_graph.gif | velocity (y axis) vs. substrate (x axis) for three different combinations of Vmax and Km. The axes are not labelled nor is there any indication of the Vmax and Km values. | |
| esr445 | grades-199902 | ||
| esr445 | assignments.htm | assignments for previous class | |
| esr445 | calendar.htm | ||
| esr445 | challenge1.htm | ||
| esr445 | challenge2.htm | ||
| esr445 | concept-map.htm | ||
| esr445 | index.htm | ||
| esr445 | notes-on-course.htm | ||
| esr445 | redirect_index.htm | redirects from Bi445 | |
| esr445 | resource_database.xls | multisheet Excel document with useful stuff | |
| esr445 | syllabus.htm | ||
| esr445 | topics.htm | generated from resource_database.xls | |
| course_notes | biochemical_components.htm | ||
| course_notes | biochemical_molecules_list.htm | ||
| course_notes | boolean.htm | ||
| course_notes | conversion-factors.htm | ||
| course_notes | elemental_composition.htm | ||
| course_notes | EnzBiosynth.htm | content of the enzBiosynth fraction | |
| esr445 | final_exam.htm | final exam for 1999 | |
| course_notes | growth_rate.htm | ||
| course_notes | lect02.htm | optimization problem with light levels | |
| course_notes | lect03.htm | optimization problem -- refers to reasons.htm -- can't find this | |
| course_notes | lect11.htm | transfering from excel to stella | |
| course_notes | lect09.htm | help with Stella | |
| course_notes | major_concepts.htm | concepts with linear and time scale | |
| course_notes | morphology.htm | size and shape and Reynolds diagram | |
| course_notes | nutrient_uptake.htm | nutrient uptake with 5 figures | |
| course_notes | photosynthesis-overview.htm | just text | |
| course_notes | pvsi.htm | good introduction to P vs. I curve | |
| esr445 | question_list.htm | questions posed in class 1999 | |
| course_notes | regulation_cognition.htm | defining cognition as bringing forth | |
| course_notes | regulation1.htm | levels of regulation | |
| course_notes | regulation2.htm | simple regulation of enzyme activity | |
| course_notes | regulation3.htm | gene level | |
| course_notes | ultrastructure.htm | calculation sheet for cell area and volume with table of what is in each component | |
| models | models.htm | list of these models | |
| models | poisson.htm | how to construct a poisson model for light in Excel | |
| models | ten_models.htm | a list of modelling approaches | |
| models | mechanistic_models.htm | models including MAH | |
| models | 3_models_draft.htm | old version of the 3 models paper - get update | |
| simulations | stella_models | old stuff | |
| index.htm | lists five simulation models - links to htm documents which then link to xls | ||
| E4_poisson.xls | excel ver 4 | ||
| E4_simulation2.xls | |||
| excel_skills.htm | |||
| Excel4_sim1a.xls | |||
| Excel4_sim1b.xls | |||
| Excel4_sim1c.xls | |||
| inhibition.xls | allosteric inhibition | ||
| intermediate.xls | like the two cup model | ||
| mu and Q vs rho.xls | |||
| mu,Q,rho, resolving worksheet.xls | |||
| nurtient_uptake_and _growth v2.xls | |||
