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 Rv1948c/-:

update plot	correlation	link to info on gene
Rv3429/PPE59	(cc=0.5502)	info on Rv3429/PPE59
Rv1504c/-	(cc=0.5446)	info on Rv1504c/-
Rv3142c/-	(cc=0.5371)	info on Rv3142c/-
Rv2107/PE22	(cc=0.5334)	info on Rv2107/PE22
Rv2735c/-	(cc=0.5311)	info on Rv2735c/-
Rv2519/PE26	(cc=0.5278)	info on Rv2519/PE26
Rv2666/-	(cc=0.5261)	info on Rv2666/-
Rv2819c/-	(cc=0.5251)	info on Rv2819c/-
Rv2929/-	(cc=0.5198)	info on Rv2929/-
Rv2134c/-	(cc=0.5166)	info on Rv2134c/-

Correlation of Rv1948c/- with Rv2134c/-

Normalized LFCs for Rv1948c/-:
(description and provenance of datasets)

	Rv1948c/-	Rv2134c/-
Fe_supp_jason_reseq	-0.508	0.297
low_pH_jason_reseq	-0.206	1.402
NO_jason_reseq	0.887	-0.142
B6_jason_reseq	-2.506	-0.671
MHCII_jason_reseq	-1.292	-1.365
Isoniazid02	-0.185	1.529
Rifampicin4	-0.791	0.07
Ethambutol3	1.612	-0.032
Meropenem3	-0.38	-0.25
Vancomycin16	0.361	-0.361
Rv2680_day32	0.915	0.576
H37Rv_KO_MarP	-0.123	0.164
hypoxia_3wks	0.219	0.79
hypoxia_6wks	-0.885	0.449
glycerol	-0.348	1.514
cholesterol	0.064	0.072
AJ	1.086	2.664
Bibs02	-0.817	0.135
Bibs02c	1.984	0.053
BL6	1.445	1.098
BL6a	1.709	1.845
BXD01	0.512	1.944
BXD010	0.421	0.894
BXD011	0.163	1.787
BXD03	-0.513	2.13
BXD04	0.322	2.684
BXD05	0.991	1.601
BXD06	0.525	1.723
BXD07	0.707	1.997
BXD08	0.437	1.765
BXD09	0.152	1.672
CAST	-0.277	-0.06
CCcont	1.509	2.265
DS01	0.571	-0.123
DS02	0.321	-0.635
DS04	1.292	0.738
DS0c	1.31	0.707
GP01	1.547	1.676
GP02	0.019	0.119
GP0c	1.727	1.772
NOD	-0.576	2.185
NZO	0.483	2.438
PWK	0.74	0.526
H37Rv_KO_CtpC	0.981	0.646
H37Rv_KO_CtpD	1.213	2.104
H37Rv_KO_Rv1272	1.702	0.767
H37Rv_KO_SugABC	0.706	0.539
H37Rv_KO_MbtN	1.766	2.6
Trans05	1.32	2.043
macrophage_unactivated	-0.521	0.297
IL1	0.0	-1.089
Rapamycin	-0.856	-0.417
Tcell	-0.831	0.052
GMCSF	-0.053	-0.129
IFNab	-0.121	1.376
IFNg	0.0	-0.818
IFNg_GMCSF1	-0.126	-0.657
Rv1432_day32	0.117	-0.442
Rv1565c_day32	-0.839	-0.518
secA2_input	-0.87	-1.199
delta_Rv3594	0.193	1.104
delta_Rv3717	0.06	0.985
delta_Rv3811	0.419	1.38
delta_Rv0954	0.041	1.147
PonA1	-0.058	-1.337
EccD1_KO	-0.493	-0.276
EspI_KO	-0.687	-0.653
PE35_KO	0.312	-0.586
PPE68_KO	0.294	-0.921
glycerol2	-0.233	-0.214
lignocerate	0.216	-0.725
oleate	0.211	-1.345
phosphatidylcholine	0.127	-1.246
acetate	0.514	0.118
glucAc	0.319	-0.055
Rv0950ko	0.217	0.0
Rv1096ko	-1.342	-1.71
Rv3684ko	-2.319	-2.122
delta_otsA_trehalose	-0.785	-0.164