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 Rv2205c/-:

update plot	correlation	link to info on gene
Rv1468c/PE_PGRS29	(cc=0.5487)	info on Rv1468c/PE_PGRS29
Rv1992c/ctpG	(cc=0.5479)	info on Rv1992c/ctpG
Rv1735c/-	(cc=0.5399)	info on Rv1735c/-
Rv3607c/folB	(cc=0.5271)	info on Rv3607c/folB
Rv3344c/PE_PGRS49	(cc=0.5265)	info on Rv3344c/PE_PGRS49
Rv0578c/PE_PGRS7	(cc=0.5229)	info on Rv0578c/PE_PGRS7
Rv3367/PE_PGRS51	(cc=0.5211)	info on Rv3367/PE_PGRS51
Rv2741/PE_PGRS47	(cc=0.5117)	info on Rv2741/PE_PGRS47
Rv2030c/-	(cc=0.5101)	info on Rv2030c/-
Rv0332/-	(cc=0.5095)	info on Rv0332/-

Correlation of Rv2205c/- with Rv3344c/PE_PGRS49

Normalized LFCs for Rv2205c/-:
(description and provenance of datasets)

	Rv2205c/-	Rv3344c/PE_PGRS49
Fe_supp_jason_reseq	0.469	-1.058
low_pH_jason_reseq	0.0	-1.604
NO_jason_reseq	-0.368	-0.845
B6_jason_reseq	-0.02	-0.895
MHCII_jason_reseq	0.0	-0.171
Isoniazid02	0.646	1.292
Rifampicin4	0.455	0.948
Ethambutol3	0.845	2.134
Meropenem3	1.636	4.472
Vancomycin16	-0.329	0.276
Rv2680_day32	-0.144	-0.261
H37Rv_KO_MarP	0.704	0.505
hypoxia_3wks	-0.367	-0.933
hypoxia_6wks	-1.161	-1.357
glycerol	0.13	2.652
cholesterol	-0.108	1.799
AJ	0.602	1.861
Bibs02	0.07	0.823
Bibs02c	0.294	2.53
BL6	-0.654	-0.53
BL6a	0.108	1.121
BXD01	-0.014	0.89
BXD010	-0.483	-1.192
BXD011	-0.854	-0.762
BXD03	-0.151	0.459
BXD04	0.179	0.156
BXD05	-0.192	-0.235
BXD06	-0.422	-0.621
BXD07	-0.468	0.388
BXD08	-0.342	-0.111
BXD09	-0.402	-0.386
CAST	0.324	0.179
CCcont	-0.767	-0.462
DS01	0.388	-0.488
DS02	0.621	0.113
DS04	0.822	1.127
DS0c	0.047	-0.52
GP01	0.763	0.754
GP02	0.318	0.963
GP0c	0.332	-0.841
NOD	0.464	-0.322
NZO	0.535	0.344
PWK	-0.112	-0.163
H37Rv_KO_CtpC	-0.112	0.205
H37Rv_KO_CtpD	-0.628	1.136
H37Rv_KO_Rv1272	0.245	2.135
H37Rv_KO_SugABC	-0.574	0.101
H37Rv_KO_MbtN	1.578	1.843
Trans05	0.078	0.964
macrophage_unactivated	-0.735	-0.9
IL1	-0.86	-2.856
Rapamycin	-0.994	-3.182
Tcell	-0.583	-3.138
GMCSF	0.024	-1.127
IFNab	-0.774	-3.622
IFNg	-0.898	-2.771
IFNg_GMCSF1	0.421	-1.668
Rv1432_day32	-0.541	1.031
Rv1565c_day32	0.117	-1.579
secA2_input	-0.645	0.02
delta_Rv3594	0.489	4.285
delta_Rv3717	0.228	2.782
delta_Rv3811	1.023	2.231
delta_Rv0954	0.213	1.371
PonA1	0.309	2.185
EccD1_KO	0.506	0.132
EspI_KO	0.499	0.302
PE35_KO	0.07	0.117
PPE68_KO	-0.106	0.064
glycerol2	-0.957	1.078
lignocerate	-0.578	1.432
oleate	-0.242	0.951
phosphatidylcholine	-0.422	1.032
acetate	-0.678	0.086
glucAc	-0.955	1.829
Rv0950ko	0.694	0.76
Rv1096ko	-0.259	0.956
Rv3684ko	0.265	1.965
delta_otsA_trehalose	0.673	0.654