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 Rv3241c/-:

update plot	correlation	link to info on gene
Rv0712/-	(cc=0.4472)	info on Rv0712/-
Rv0242c/fabG4	(cc=0.4154)	info on Rv0242c/fabG4
Rv0241c/htdX	(cc=0.4078)	info on Rv0241c/htdX
Rv3160c/-	(cc=0.3979)	info on Rv3160c/-
Rv3704c/gshA	(cc=0.3631)	info on Rv3704c/gshA
Rv2407/-	(cc=0.3609)	info on Rv2407/-
Rv0391/metZ	(cc=0.3566)	info on Rv0391/metZ
Rv3213c/-	(cc=0.3551)	info on Rv3213c/-
Rv1537/dinX	(cc=0.3547)	info on Rv1537/dinX
Rv1596/nadC	(cc=0.3522)	info on Rv1596/nadC

Correlation of Rv3241c/- with Rv0712/-

Normalized LFCs for Rv3241c/-:
(description and provenance of datasets)

	Rv3241c/-	Rv0712/-
Fe_supp_jason_reseq	-0.205	0.398
low_pH_jason_reseq	-1.429	-1.066
NO_jason_reseq	-0.966	-3.898
B6_jason_reseq	-0.505	0.84
MHCII_jason_reseq	0.012	-1.194
Isoniazid02	-0.614	-2.506
Rifampicin4	0.542	-0.06
Ethambutol3	0.009	-0.068
Meropenem3	0.15	0.114
Vancomycin16	-0.382	-0.875
Rv2680_day32	0.469	-0.588
H37Rv_KO_MarP	0.137	1.29
hypoxia_3wks	-0.343	-1.631
hypoxia_6wks	-1.117	-1.756
glycerol	-1.084	-0.546
cholesterol	-0.835	-1.745
AJ	0.39	-1.724
Bibs02	0.083	-0.987
Bibs02c	-1.043	-1.716
BL6	0.122	-0.565
BL6a	-0.776	-1.01
BXD01	-0.154	-1.235
BXD010	-0.286	-0.615
BXD011	-0.284	-0.407
BXD03	-0.31	0.096
BXD04	-1.042	-0.594
BXD05	-0.277	-0.051
BXD06	-0.344	-0.33
BXD07	-0.301	-0.31
BXD08	-0.486	-0.678
BXD09	-0.569	-0.675
CAST	-0.345	-1.627
CCcont	0.286	0.641
DS01	-1.006	-0.583
DS02	-1.438	-0.862
DS04	-0.982	-1.93
DS0c	0.222	0.079
GP01	0.908	0.843
GP02	-0.427	-0.186
GP0c	0.599	-0.447
NOD	1.054	-0.503
NZO	-0.225	-1.984
PWK	0.909	-1.12
H37Rv_KO_CtpC	0.088	0.059
H37Rv_KO_CtpD	-0.941	-0.436
H37Rv_KO_Rv1272	-0.159	-1.101
H37Rv_KO_SugABC	-0.329	0.582
H37Rv_KO_MbtN	0.625	-0.766
Trans05	-0.876	-0.705
macrophage_unactivated	0.931	-0.48
IL1	0.113	0.139
Rapamycin	0.187	0.0
Tcell	0.437	0.153
GMCSF	-1.088	-0.496
IFNab	0.931	0.46
IFNg	0.414	-0.313
IFNg_GMCSF1	-0.305	0.0
Rv1432_day32	-0.705	-0.806
Rv1565c_day32	-0.667	-1.234
secA2_input	-0.205	0.686
delta_Rv3594	-0.113	0.0
delta_Rv3717	-0.315	-0.79
delta_Rv3811	-0.608	0.122
delta_Rv0954	0.328	0.394
PonA1	-0.764	0.786
EccD1_KO	0.802	1.924
EspI_KO	0.222	0.893
PE35_KO	-0.426	0.913
PPE68_KO	-0.227	1.059
glycerol2	0.149	-0.518
lignocerate	-0.701	-0.648
oleate	-0.641	-0.38
phosphatidylcholine	-1.475	-0.819
acetate	0.095	-0.577
glucAc	0.317	-0.816
Rv0950ko	0.211	0.971
Rv1096ko	0.6	1.855
Rv3684ko	1.287	1.395
delta_otsA_trehalose	2.036	0.632