TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0647c/-:

update plot	correlation	link to info on gene
Rv0473/-	(cc=0.5503)	info on Rv0473/-
Rv0742/PE_PGRS8	(cc=0.5395)	info on Rv0742/PE_PGRS8
Rv1128c/-	(cc=0.5296)	info on Rv1128c/-
Rv1787/PPE25	(cc=0.5248)	info on Rv1787/PPE25
Rv0148/-	(cc=0.5141)	info on Rv0148/-
Rv3020c/esxS	(cc=0.5091)	info on Rv3020c/esxS
Rv2584c/apt	(cc=0.501)	info on Rv2584c/apt
Rv3840/-	(cc=0.4988)	info on Rv3840/-
Rv0844c/narL	(cc=0.4885)	info on Rv0844c/narL
Rv1622c/cydB	(cc=0.4879)	info on Rv1622c/cydB

Correlation of Rv0647c/- with Rv1128c/-

Normalized LFCs for Rv0647c/-:
(description and provenance of datasets)

	Rv0647c/-	Rv1128c/-
Fe_supp_jason_reseq	-0.965	1.403
low_pH_jason_reseq	-0.893	0.254
NO_jason_reseq	0.263	-1.137
B6_jason_reseq	-0.411	-0.403
MHCII_jason_reseq	-1.082	-0.355
Isoniazid02	-0.678	0.175
Rifampicin4	0.176	0.325
Ethambutol3	-0.283	0.074
Meropenem3	0.68	0.4
Vancomycin16	0.377	0.753
Rv2680_day32	1.282	0.715
H37Rv_KO_MarP	0.083	0.467
hypoxia_3wks	0.594	0.371
hypoxia_6wks	0.593	0.0
glycerol	0.401	-0.168
cholesterol	-0.545	-0.475
AJ	-0.57	0.578
Bibs02	0.789	-0.234
Bibs02c	-0.45	-0.805
BL6	-0.232	0.312
BL6a	0.27	0.364
BXD01	0.828	0.994
BXD010	-0.096	0.435
BXD011	1.056	0.396
BXD03	0.805	0.053
BXD04	0.494	1.334
BXD05	1.346	0.675
BXD06	1.106	0.566
BXD07	0.382	1.608
BXD08	2.15	1.091
BXD09	0.25	0.838
CAST	-0.174	-0.192
CCcont	-0.977	0.592
DS01	0.166	0.589
DS02	-0.468	-0.279
DS04	0.424	0.659
DS0c	0.431	0.0
GP01	2.005	0.961
GP02	1.541	0.064
GP0c	1.998	1.224
NOD	-1.181	-0.093
NZO	0.14	0.433
PWK	0.75	0.489
H37Rv_KO_CtpC	-0.45	1.005
H37Rv_KO_CtpD	1.267	1.504
H37Rv_KO_Rv1272	0.586	1.373
H37Rv_KO_SugABC	-0.901	-0.127
H37Rv_KO_MbtN	1.806	0.936
Trans05	0.665	1.784
macrophage_unactivated	2.25	2.235
IL1	0.955	0.658
Rapamycin	1.182	2.081
Tcell	1.254	1.235
GMCSF	2.131	1.869
IFNab	0.774	1.769
IFNg	0.861	0.911
IFNg_GMCSF1	1.012	0.952
Rv1432_day32	1.669	-0.439
Rv1565c_day32	0.359	-0.196
secA2_input	0.606	0.839
delta_Rv3594	-1.41	0.867
delta_Rv3717	-0.077	-0.068
delta_Rv3811	-0.578	0.226
delta_Rv0954	-1.143	-0.655
PonA1	-1.249	-0.34
EccD1_KO	-0.099	-0.753
EspI_KO	-0.536	-0.248
PE35_KO	-0.359	-0.388
PPE68_KO	-0.394	-0.278
glycerol2	-0.319	-0.053
lignocerate	-0.229	-0.095
oleate	0.525	0.052
phosphatidylcholine	-0.319	-0.053
acetate	0.223	-0.607
glucAc	-0.569	-1.073
Rv0950ko	-0.603	-0.546
Rv1096ko	-0.793	0.814
Rv3684ko	-1.189	0.648
delta_otsA_trehalose	-2.372	-0.965