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 Rv3162c/-:

update plot	correlation	link to info on gene
Rv0968/-	(cc=0.5573)	info on Rv0968/-
Rv3566c/nat	(cc=0.5406)	info on Rv3566c/nat
Rv2313c/-	(cc=0.5117)	info on Rv2313c/-
Rv2066/cobI	(cc=0.51)	info on Rv2066/cobI
Rv2322c/rocD1	(cc=0.5047)	info on Rv2322c/rocD1
Rv1997/ctpF	(cc=0.4969)	info on Rv1997/ctpF
Rv0342/iniA	(cc=0.4851)	info on Rv0342/iniA
Rv0925c/-	(cc=0.4821)	info on Rv0925c/-
Rv3191c/-	(cc=0.4711)	info on Rv3191c/-
Rv3233c/-	(cc=0.4645)	info on Rv3233c/-

Correlation of Rv3162c/- with Rv0968/-

Normalized LFCs for Rv3162c/-:
(description and provenance of datasets)

	Rv3162c/-	Rv0968/-
Fe_supp_jason_reseq	-0.226	0.704
low_pH_jason_reseq	-0.803	-0.738
NO_jason_reseq	-0.971	0.423
B6_jason_reseq	-0.461	0.01
MHCII_jason_reseq	0.937	0.27
Isoniazid02	-3.406	-3.296
Rifampicin4	0.26	0.831
Ethambutol3	-2.873	-2.914
Meropenem3	-1.185	-3.018
Vancomycin16	-1.271	-1.112
Rv2680_day32	1.982	0.91
H37Rv_KO_MarP	0.882	0.883
hypoxia_3wks	-1.116	-0.203
hypoxia_6wks	-2.318	-1.349
glycerol	-0.252	0.677
cholesterol	-0.131	0.845
AJ	0.215	0.528
Bibs02	-0.906	-0.278
Bibs02c	0.491	0.671
BL6	-1.419	-0.789
BL6a	-0.96	-0.393
BXD01	-1.792	-0.379
BXD010	-2.305	-0.019
BXD011	-0.726	-0.923
BXD03	-1.018	-0.794
BXD04	-1.594	-0.426
BXD05	-2.741	0.48
BXD06	-1.288	-0.954
BXD07	-0.841	-0.699
BXD08	-0.799	-0.379
BXD09	-0.999	-0.542
CAST	-0.132	0.265
CCcont	-1.124	-0.929
DS01	-0.25	-0.469
DS02	0.153	0.635
DS04	-0.571	0.093
DS0c	-0.212	-0.211
GP01	-0.987	0.345
GP02	-0.733	-0.744
GP0c	-1.739	-0.329
NOD	0.085	0.885
NZO	-0.689	-0.27
PWK	-0.041	-0.254
H37Rv_KO_CtpC	-0.348	-0.14
H37Rv_KO_CtpD	-0.883	1.622
H37Rv_KO_Rv1272	0.812	1.062
H37Rv_KO_SugABC	0.424	0.86
H37Rv_KO_MbtN	-1.021	-1.047
Trans05	0.424	-0.921
macrophage_unactivated	-0.442	-0.843
IL1	0.475	-0.946
Rapamycin	-1.139	-1.105
Tcell	-0.544	-0.472
GMCSF	-0.37	-0.055
IFNab	0.0	-0.13
IFNg	-0.233	-0.516
IFNg_GMCSF1	1.109	-0.569
Rv1432_day32	0.177	-0.215
Rv1565c_day32	0.0	0.445
secA2_input	-0.335	1.842
delta_Rv3594	-1.36	0.096
delta_Rv3717	-0.943	-0.593
delta_Rv3811	-1.039	-0.167
delta_Rv0954	-2.12	-0.105
PonA1	0.204	1.324
EccD1_KO	0.217	1.237
EspI_KO	-0.707	-0.074
PE35_KO	0.263	0.111
PPE68_KO	-0.666	-0.192
glycerol2	-0.455	0.146
lignocerate	0.388	0.072
oleate	-1.326	0.18
phosphatidylcholine	-0.115	0.326
acetate	-0.407	0.352
glucAc	-0.013	0.061
Rv0950ko	0.992	0.458
Rv1096ko	-0.739	1.2
Rv3684ko	1.307	0.652
delta_otsA_trehalose	0.445	1.843