Spreadsheet: b9dbbadb-6bb4-4dc9-ad33-f6be3bcee797
Sheet: Sheet1

Subsystem details | Unnamed: 1 | Unnamed: 2 | study 1 | Unnamed: 4 | Unnamed: 5 | study 2 | Unnamed: 7 | Unnamed: 8 | study 3 | Unnamed: 10 | Unnamed: 11 | All 3 HDF studies | Unnamed: 13 | Unnamed: 14 | Subsystem annotation details | Unnamed: 16 | Unnamed: 17 | Unnamed: 18 | Unnamed: 19 | Unnamed: 20 | Study 1 | Unnamed: 22 | Unnamed: 23 | Study 2 | Unnamed: 25 | Unnamed: 26 | Study 3 | Unnamed: 28 | Unnamed: 29 | All 3 HDF studies.1 | Unnamed: 31 | Unnamed: 32
name | biclusters | human genes | intersection with HDFs | p value | [NAME] | intersection with HDFs | p value | [NAME] | intersection with HDFs | p value | [NAME] | intersection with HDFs | p value | [NAME] | annotation type | subsystem annotation | no of human genes in cluster fitting profile | proportion of human genes in cluster fitting profile | p value | [NAME] | HDFs fitting subsystem annotation | p value | [NAME] | HDFs fitting subsystem annotation | p value | [NAME] | HDFs fitting subsystem annotation | p value | [NAME] | HDFs fitting subsystem annotation | p value | [NAME]
CYTOKINE ACTIVITY | 93 | 27 | 2 | 0.165478238701471 | 0.817657179466091 | 0 | 0.621701641705514 | 1 | 3 | 0.0346509683524825 | 0.323409037956503 | 3 | 0.732168588792044 | 1.20592473448101 | GO term | GO:0005125 | 16 | 0.5925925925925926 | 1.11720555201469e-26 | 1.34064666241763e-24 | 1 | 0.225444483119801 | 0.807236697622512 | 2 | 0.49946541019799 | 1 | 2 | 0.542586919173942 | 1 | 5 | 0.3275077286486 | 0.757361622499888
PROTEASOME CORE COMPLEX | 2 | 3 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0005839 | 2 | 0.6666666666666666 | 4.20294235308196e-06 | 0.000109276501180131 | 0 | 1 | 1 | 5 | <<0.001 | <<0.001 | 0 | 1 | 1 | 5 | 4.05731148733768e-06 | 5.0040175010498e-05
NUCLEAR FACTOR | 5 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.43778976369477 | protein name contains | nuclear factor of activated T-cells | 4 | 0.6666666666666666 | – | – | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
INTERLEUKIN | 5 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.152727708945052 | 0.842387176966769 | 1 | 0.440359426452552 | 1.34451008670146 | protein name contains | interleukin | 5 | 0.8333333333333334 | – | – | 0 | 1 | 1 | 1 | 0.565184350160462 | 1 | 2 | 0.642432709302851 | 1 | 3 | 0.761229839727348 | 1
INTERFERON ALPHA | 1 | 4 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | protein name contains | [NAME] | 4 | 1 | – | – | 0 | 1 | 1 | 0 | 1 | 1 | 2 | 0.443893944909644 | 1 | 2 | 0.568155170505221 | 0.955533695849689
LIPID KINASE ACTIVITY | 12 | 16 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0.388216592773228 | 1.55286637109291 | GO term | GO:0001727 | 9 | 0.5625 | 4.86074984391712e-22 | 1.11797246410094e-20 | 1 | 0.682291721532759 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.638518624817759 | 0.984382879927379
MAP KINASE ACTIVITY | 15 | 11 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.262422567064206 | 1 | 1 | 0.999999999999999 | 1.57777777777778 | GO term | GO:0004707 | 4 | 0.3636363636363636 | 6.25018329128946e-10 | 5.00014663303157e-08 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
PROMOTER BINDING | 13 | 8 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.198391091652706 | 0.854982607400475 | 1 | 0.539073388866894 | 1.09811245880293 | GO term | GO:0010843 | 3 | 0.375 | 4.2739861096518e-06 | 7.58632534463195e-05 | 1 | 0.864747964670463 | 1 | 0 | 1 | 1 | 2 | 0.14354818532119 | 0.612840329640466 | 3 | 0.339553767971834 | 0.739028789115169
PEPTIDASE ACTIVITY | 4 | 5 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.43778976369477 | GO term | GO:0008233 | 3 | 0.6 | 6.82483996939581e-07 | 1.84270679173687e-05 | 9 | 0.429856309832637 | 1 | 9 | 0.603052136336093 | 1 | 13 | 0.0264215276346007 | 0.162932753746704 | 31 | 0.00841729373332822 | 0.0444914097333063
CYTOSOLIC CALCIUM ION TRANSPORT | 4 | 7 | 1 | 0.175867498406637 | 0.83243949245808 | 0 | 1 | 1 | 1 | 0.175867498406637 | 0.83243949245808 | 1 | 0.492090908040972 | 1.10228363401178 | GO term | GO:0060401 | 2 | 0.2857142857142857 | 6.33121652047628e-09 | 1.57704847873682e-07 | 0 | 1 | 1 | 0 | 1 | 1 | 2 | 0.15400382331468 | 0.610515156711767 | 2 | 0.865128666541991 | 1.10378485041564
REGULATION OF APOPTOSIS | 3 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.152727708945052 | 0.842387176966769 | 1 | 0.440359426452552 | 1.34451008670146 | GO term | GO:0042981 | 5 | 0.8333333333333334 | 4.93444549867861e-09 | 1.03098414461753e-07 | 5 | 0.159835573097619 | 0.611784434959854 | 10 | 0.96337678773455 | 1 | 23 | 5.08107478469633e-06 | 0.000112799860220258 | 37 | 0.0255839576588327 | 0.094660643337681
T CELL RECEPTOR COMPLEX | 6 | 8 | 1 | 0.198391091652706 | 0.854982607400475 | 0 | 1 | 1 | 1 | 0.198391091652706 | 0.854982607400475 | 1 | 0.539073388866894 | 1.09811245880293 | GO term | GO:0042101 | 5 | 0.625 | 3.33891915538988e-15 | 1.46912442837155e-13 | 1 | 0.289976181367659 | 0.975374428236672 | 0 | 1 | 1 | 1 | 0.304517032528751 | 0.965754017448323 | 1 | 0.719664486224123 | 1
MHC PROTEIN COMPLEX | 16 | 26 | 2 | 0.155787329786731 | 0.79309913345972 | 0 | 0.621463815759339 | 1 | 3 | 0.031381788649297 | 0.310125911357759 | 3 | 0.726781844475742 | 1.23332676638308 | GO term | GO:0042611 | 20 | 0.7692307692307693 | 1.27245065661873e-245 | 7.6347039397124e-244 | 1 | 0.397164008613052 | 1 | 0 | 1 | 1 | 2 | 0.902451744896148 | 1 | 3 | 0.311715054514752 | 0.768897134469721
T CELL ACTIVATION | 28 | 23 | 2 | 0.127497885492386 | 0.764987312954316 | 0 | 1 | 1 | 4 | 0.00285371345992898 | 0.0799039768780114 | 4 | 0.154613838855272 | 0.865837497589522 | GO term | GO:0042110 | 12 | 0.5217391304347826 | 9.00244504103581e-12 | 6.19239612465534e-10 | 2 | 0.540539071869398 | 1 | 1 | 0.180182993838927 | 0.666677077204029 | 7 | 0.012776589802775 | 0.101300104864859 | 9 | 0.66245759015762 | 0.980437233433277
CYTOSKELETAL PROTEIN BINDING | 3 | 5 | 2 | 0.00684625376227035 | 0.128861709703177 | 0 | 1 | 1 | 2 | 0.00684625376227035 | 0.128861709703177 | 2 | 0.069879019584465 | 0.489153137091255 | GO term | GO:0008092 | 3 | 0.6 | 0.000249794415331339 | 0.00407997545041187 | 10 | 0.0928710555306403 | 0.468576689268231 | 4 | 0.290145147672145 | 0.947238570341416 | 7 | 0.761205847294915 | 1 | 19 | 0.573222779117153 | 0.922140992492811
REGULATION OF TRANSCRIPTION | 23 | 21 | 3 | 0.0176296493037301 | 0.246815090252222 | 3 | 0.041540562686764 | 0.367306027967176 | 4 | 0.00200618810562356 | 0.0674079203489517 | 8 | 0.000303750339241209 | 0.00340200379950154 | GO term | GO:0045449 | 20 | 0.9523809523809523 | 3.54232934682748e-18 | 1.71907159478392e-16 | 44 | 0.0170487429942482 | 0.126160698157437 | 50 | 0.00500534536062613 | 0.0505084850026819 | 43 | 0.0520245865961256 | 0.303933111166839 | 126 | 0.000408749900729699 | 0.00378093658174972
CAMP DEPENDENT PROTEIN KINASE COMPLEX | 6 | 9 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.43778976369477 | GO term | GO:0005952 OR GO:0004691 | 5 | 0.5555555555555556 | 1.77774705714426E-12 and 5.29413958051683e-09 | 8.53318587429243E-11 and 8.29415200947637e-08 | 1 | 0.394371500666552 | 1 | 1 | 0.433061621500022 | 1 | 1 | 0.410813703776289 | 1 | 3 | 0.0046139086092214 | 0.0284524364235319
PROTEIN KINASE C ACTIVITY | 6 | 12 | 0 | 1 | 1 | 1 | 0.370243332338279 | 1 | 0 | 1 | 1 | 1 | 1 | 1.31782945736434 | GO term | GO:0004697 | 8 | 0.6666666666666666 | 3.52445198803604e-26 | 1.90320407353946e-24 | 0 | 1 | 1 | 1 | 0.466130838907456 | 1 | 1 | 0.443346877985666 | 1 | 2 | 0.179294249738883 | 0.473849088595619
[NAME] | 3 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.152727708945052 | 0.842387176966769 | 1 | 0.440359426452552 | 1.34451008670146 | GO term | GO:0005874 OR GO:0007017 | 6 | 1 | 7.95075925804898E-14 AND 2.12169005341934e-11 | 1.98768981451224E-12 AND 2.01560555074838e-10 | 8 | 0.086920938494806 | 0.459439246329689 | 7 | 0.329690762144526 | 1 | 8 | 0.109678487456199 | 0.507263004484919 | 20 | 0.0240589823825975 | 0.0989091497951231
MRNA TRANSPORT | 3 | 5 | 0 | 1 | 1 | 3 | 0.0004790897795555 | 0.020121770741331 | 2 | 0.00684625376227035 | 0.128861709703177 | 5 | 6.16416461620726e-06 | 0.000345193218507606 | GO term | GO:0051028 | 2 | 0.4 | 3.6502414926267e-06 | 3.90295051903932e-05 | 7 | 4.09571681014853e-08 | 1 | 7 | 2.57379316859208e-07 | 7.14227604284301e-06 | 3 | 0.152852326853126 | 0.628392899285073 | 15 | 2.08357775477452e-11 | 3.85461884633287e-10
CLATHRIN ADAPTOR COMPLEX | 4 | 9 | 0 | 1 | 1 | 1 | 0.292801944276571 | 1 | 0 | 1 | 1 | 1 | 0.581739807288752 | 1.06839956005289 | GO term | GO:0030131 | 8 | 0.8888888888888888 | 5.18761798767711e-17 | 6.01763686570545e-16 | 1 | 0.682291721532759 | 1 | 1 | 0.723574600228431 | 1 | 0 | 1 | 1 | 2 | 0.511710229610047 | 0.946663924778588
PROTEIN PHOSPHATASE TYPE 2A COMPLEX | 2 | 14 | 1 | 0.321460148585102 | 1 | 1 | 0.417180985785447 | 1 | 0 | 1 | 1 | 2 | 0.374374250698181 | 1.61268907993063 | GO term | GO:0000159 OR GO:0008601 | 13 | 0.9285714285714286 | 5.15750444190619E-41 AND 2.192700405791e-32 | 2.01142673234341E-39 AND 1.05249619477968e-30 | 1 | 0.639535182993575 | 1 | 1 | 0.68157974517469 | 1 | 1 | 0.657648872192123 | 1 | 3 | 0.0656685203259194 | 0.220885022914456
NUCLEAR IMPORT | 3 | 9 | 0 | 1 | 1 | 1 | 0.292801944276571 | 1 | 0 | 1 | 1 | 1 | 0.581739807288752 | 1.06839956005289 | GO term | GO:0051170 OR GO:0008139 | 8 | 0.8888888888888888 | 2.24195665953996E-17 AND 1.90234590897542e-16 | 5.45542787154723E-16 AND 1.42675943173157e-15 | 3 | 0.40630794284096 | 1 | 4 | 0.143432896985752 | 0.636842062616741 | 5 | 0.0176983009595294 | 0.122781962906735 | 10 | 0.0161903180102748 | 0.074880220797521
DNA INTEGRATION | 2 | 3 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0015074 | 2 | 0.6666666666666666 | 4.01143882266497e-06 | 0.000214611977012576 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.341402710276986 | 1 | 1 | 0.751778115520907 | 1
V-AKT | 2 | 3 | 1 | 0.0794450066228506 | 0.593482460542243 | 0 | 1 | 1 | 1 | 0.0794450066228506 | 0.593482460542243 | 1 | 0.251669797914117 | 1.28122806210823 | protein name contains | v-akt murine thymoma viral oncogene | 3 | 1 | – | – | 1 | 0.0025332741680919 | 0.040170490379743 | 0 | 1 | 1 | 1 | 0.00308468544868024 | 0.0380444538670562 | 1 | 0.0893333630449445 | 0.275444536055246
M PHASE | 2 | 3 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0000279 | 3 | 1 | 1.285615859702e-05 | 0.000239981627144374 | 4 | 0.752095349570168 | 1 | 5 | 0.955069256709436 | 1 | 5 | 0.909238652310656 | 1 | 13 | 0.871715433632552 | 1
LACTATE DEHYDROGENASE ACTIVITY | 1 | 2 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0004457 | 2 | 1 | 6.31015276685685e-11 | 2.83956874508558e-10 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
GLUTAMATE RECEPTOR ACTIVITY | 2 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.152727708945052 | 0.842387176966769 | 1 | 0.440359426452552 | 1.34451008670146 | GO term | GO:0008066 | 5 | 0.8333333333333334 | 3.25863243269689e-14 | 3.42156405433174e-13 | 1 | 0.802915929838001 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 1 | 0.518714649613829 | 0.913925811224365
ENDOSOME | 1 | 3 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0005768 | 3 | 1 | 4.30148254119886e-06 | 0.000107537063529972 | 9 | 0.00279924248926666 | 0.0388394895385749 | 1 | 0.107212916516222 | 0.517418857969592 | 6 | 0.227412499009003 | 0.78883710593748 | 15 | 0.105210721912509 | 0.299445900827909
UBIQUITIN | 1 | 3 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | protein name contains | ubiquitin | 3 | 1 | – | – | 3 | 0.629658001540865 | 1 | 5 | 0.0819185100033584 | 0.454647730518639 | 6 | 0.00982195388988261 | 0.0838643755213054 | 14 | 0.000665358095005231 | 0.00492364990303871
HEAT SHOCK 70kDA PROTEIN | 1 | 8 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.31782945736434 | protein name contains | heat shock 70kDa protein | 8 | 1 | – | – | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
[NAME] | 1 | 3 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0006956 | 3 | 1 | 1.9796001020725e-08 | 5.08097359531941e-07 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
CYTOSKELETON | 2 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.43778976369477 | GO term | GO:0005856 | 6 | 1 | 2.20157703221305e-07 | 1.14482005675078e-05 | 24 | 0.0243742426315483 | 0.159149466594227 | 16 | 0.858113572010371 | 1 | 17 | 0.77554043526648 | 1 | 52 | 0.354027094762681 | 0.727722361456623
DNA HELICASE ACTIVITY | 1 | 2 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.13686342617988 | GO term | GO:0003678 OR GO:0006303 OR GO:0000783 | 2 | 1 | 5.65225623938436E-06 AND 1.5209281230662e-07 AND 8.19882000778708e-08 | 0.0000522833702143053 AND 1.82511374767944e-05 AND 2.39815485227772e-06 | 3 | 0.00679093527901697 | 0.062816151330907 | 0 | 1 | 1 | 0 | 1 | 1 | 3 | 0.453547259251488 | 0.883223610121318
RNAP POLYMERASE ACTIVITY | 1 | 9 | 0 | 1 | 1 | 4 | 0.000197109836127425 | 0.0110381508231358 | 0 | 1 | 1 | 4 | 0.00599697283738762 | 0.047975782699101 | GO term | GO:0034062 | 9 | 1 | 2.09012502468686e-24 | 4.07574379813938e-23 | 3 | 0.00356312471487452 | 0.0395506843351072 | 5 | 4.48986127166151e-08 | 1.66124867051476e-06 | 4 | 2.22309986936953e-05 | 0.000411273475833362 | 12 | 0 | 0
GLUCOSIDASE ACTIVITY | 1 | 6 | 0 | 1 | 1 | 1 | 0.206034954820782 | 0.83419030488414 | 0 | 1 | 1 | 1 | 0.440359426452552 | 1.34451008670146 | GO term | GO:0015926 | 4 | 0.6666666666666666 | 3.62280454306677e-14 | 7.60788954044021e-13 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
ADENYLATE CYCLASE ACTIVITY | 1 | 9 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1.43778976369477 | GO term | GO:0004016 | 9 | 1 | 5.42466577411647e-31 | 1.24767312804679e-29 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1
Studies to identify host dependency factors (HDFs)
(1) Brass A, Dykxhoorn D, Benita Y, [NAME], [NAME], Xavier R, [NAME], Elledge S. Identiﬁcation of host proteins required for HIV infection through a functional genomic screen. Science 2008, 319(5865):921–926.
(2) [NAME] R, [NAME] Y, Elleder D, Diamond T, Bonamy G, Irelan J, Chiang C, [NAME], De Jesus P, [NAME], et al. Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication. Cell 2008, 135:49–60.
(3) [NAME], [NAME], [NAME], Gates A, [NAME], Castle J, Stec E, [NAME], Strulovici B, Hazuda D, et al. Genome-scale RNAi screen for host factors required for HIV replication. Cell Host & Microbe 2008, 4(5):495–504.