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 Rv1977/-:

update plot	correlation	link to info on gene
Rv2961/-	(cc=0.4584)	info on Rv2961/-
Rv2329c/narK1	(cc=0.4524)	info on Rv2329c/narK1
Rv2327/-	(cc=0.4454)	info on Rv2327/-
Rv3135/PPE50	(cc=0.4136)	info on Rv3135/PPE50
Rv1030/kdpB	(cc=0.4133)	info on Rv1030/kdpB
Rv2627c/-	(cc=0.3919)	info on Rv2627c/-
Rv2018/-	(cc=0.3851)	info on Rv2018/-
Rv1132/-	(cc=0.3846)	info on Rv1132/-
Rv1185c/fadD21	(cc=0.3805)	info on Rv1185c/fadD21
Rv0071/-	(cc=0.3792)	info on Rv0071/-

Correlation of Rv1977/- with Rv2018/-

Normalized LFCs for Rv1977/-:
(description and provenance of datasets)

	Rv1977/-	Rv2018/-
Fe_supp_jason_reseq	0.316	0.169
low_pH_jason_reseq	0.027	-0.634
NO_jason_reseq	0.281	0.541
B6_jason_reseq	0.913	-0.421
MHCII_jason_reseq	1.289	1.899
Isoniazid02	-0.221	-0.69
Rifampicin4	-0.046	-1.072
Ethambutol3	0.444	0.734
Meropenem3	0.232	-0.302
Vancomycin16	-0.287	-0.854
Rv2680_day32	2.328	0.0
H37Rv_KO_MarP	-0.085	-0.476
hypoxia_3wks	-0.152	-0.821
hypoxia_6wks	-0.568	-0.209
glycerol	0.477	-1.463
cholesterol	0.184	-0.521
AJ	-0.018	0.286
Bibs02	0.564	0.362
Bibs02c	-0.061	-1.028
BL6	0.108	-1.144
BL6a	-0.564	-0.839
BXD01	-0.316	-0.552
BXD010	-0.075	-1.172
BXD011	0.11	0.923
BXD03	-0.4	-0.867
BXD04	-0.521	-1.131
BXD05	-0.535	0.216
BXD06	-0.096	-0.566
BXD07	-0.372	-1.267
BXD08	-0.497	-0.653
BXD09	-0.21	-0.596
CAST	0.199	-0.102
CCcont	-0.141	-0.733
DS01	-0.058	0.197
DS02	0.137	0.983
DS04	0.308	1.086
DS0c	0.596	0.855
GP01	-0.723	-0.903
GP02	-0.237	-0.761
GP0c	-0.525	-0.057
NOD	0.53	-0.952
NZO	0.231	0.465
PWK	-0.406	-0.831
H37Rv_KO_CtpC	0.14	0.488
H37Rv_KO_CtpD	0.674	0.642
H37Rv_KO_Rv1272	0.127	1.513
H37Rv_KO_SugABC	-0.43	0.122
H37Rv_KO_MbtN	0.108	1.471
Trans05	-0.559	1.251
macrophage_unactivated	0.398	0.0
IL1	1.528	0.317
Rapamycin	0.813	-0.74
Tcell	0.642	0.349
GMCSF	0.114	-0.304
IFNab	0.538	1.654
IFNg	0.82	0.802
IFNg_GMCSF1	0.814	1.216
Rv1432_day32	2.198	0.541
Rv1565c_day32	0.218	0.0
secA2_input	-0.982	-0.495
delta_Rv3594	0.193	1.53
delta_Rv3717	0.604	0.881
delta_Rv3811	0.549	1.041
delta_Rv0954	0.258	-0.079
PonA1	0.287	0.315
EccD1_KO	-0.122	-0.595
EspI_KO	0.202	-0.516
PE35_KO	-0.128	-0.528
PPE68_KO	0.022	-0.896
glycerol2	0.723	0.369
lignocerate	0.303	0.826
oleate	0.184	0.0
phosphatidylcholine	0.342	0.531
acetate	0.71	1.127
glucAc	-0.062	1.034
Rv0950ko	-0.648	0.0
Rv1096ko	-0.446	0.0
Rv3684ko	-0.301	0.0
delta_otsA_trehalose	-0.879	0.0