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 Rv2978c/-:

update plot	correlation	link to info on gene
Rv1422/-	(cc=0.5113)	info on Rv1422/-
Rv2270/lppN	(cc=0.5113)	info on Rv2270/lppN
Rv1962A/vapB35	(cc=0.51)	info on Rv1962A/vapB35
Rv3768/-	(cc=0.5032)	info on Rv3768/-
Rv1946c/lppG	(cc=0.4917)	info on Rv1946c/lppG
Rv0581/vapB26	(cc=0.4892)	info on Rv0581/vapB26
Rv1079/metB	(cc=0.4711)	info on Rv1079/metB
Rv2673/aftC	(cc=0.4682)	info on Rv2673/aftC
Rv1225c/-	(cc=0.4676)	info on Rv1225c/-
Rv2980/-	(cc=0.4671)	info on Rv2980/-

Correlation of Rv2978c/- with Rv1422/-

Normalized LFCs for Rv2978c/-:
(description and provenance of datasets)

	Rv2978c/-	Rv1422/-
Fe_supp_jason_reseq	-0.052	1.358
low_pH_jason_reseq	-0.261	-0.234
NO_jason_reseq	-0.221	0.068
B6_jason_reseq	-1.303	-1.947
MHCII_jason_reseq	-1.184	-1.4
Isoniazid02	0.611	-0.579
Rifampicin4	0.753	0.138
Ethambutol3	1.126	0.753
Meropenem3	0.223	-0.383
Vancomycin16	-0.146	-1.61
Rv2680_day32	-0.586	-0.19
H37Rv_KO_MarP	0.179	2.572
hypoxia_3wks	0.211	-2.237
hypoxia_6wks	0.762	-1.8
glycerol	0.0	-2.06
cholesterol	0.526	-0.114
AJ	0.605	-1.262
Bibs02	-0.49	-1.191
Bibs02c	0.377	-0.233
BL6	0.505	1.148
BL6a	0.517	0.199
BXD01	0.473	0.852
BXD010	0.334	1.191
BXD011	0.445	-0.186
BXD03	1.353	0.191
BXD04	0.341	0.518
BXD05	-0.054	1.044
BXD06	0.263	1.083
BXD07	1.436	0.961
BXD08	0.367	0.636
BXD09	0.491	0.617
CAST	0.377	-0.546
CCcont	0.478	0.531
DS01	0.387	0.0
DS02	-0.944	-1.676
DS04	-1.154	-1.32
DS0c	-0.696	-1.413
GP01	0.257	1.051
GP02	0.627	0.406
GP0c	0.169	1.159
NOD	0.0	-1.956
NZO	-0.806	-0.757
PWK	0.418	-0.465
H37Rv_KO_CtpC	0.32	0.525
H37Rv_KO_CtpD	0.786	0.276
H37Rv_KO_Rv1272	-0.086	0.218
H37Rv_KO_SugABC	1.188	-0.293
H37Rv_KO_MbtN	-0.809	0.959
Trans05	0.38	-0.386
macrophage_unactivated	0.922	-0.578
IL1	0.234	-1.163
Rapamycin	-0.7	-0.632
Tcell	-0.619	-0.485
GMCSF	0.0	0.356
IFNab	-0.2	-0.03
IFNg	-0.609	-0.428
IFNg_GMCSF1	0.342	-0.097
Rv1432_day32	0.541	-0.039
Rv1565c_day32	-3.101	-2.854
secA2_input	0.095	-0.762
delta_Rv3594	1.892	2.034
delta_Rv3717	0.165	1.443
delta_Rv3811	0.617	1.377
delta_Rv0954	1.336	1.081
PonA1	1.051	-1.154
EccD1_KO	2.601	2.625
EspI_KO	2.524	0.918
PE35_KO	2.018	1.488
PPE68_KO	2.323	1.561
glycerol2	-0.112	0.191
lignocerate	-0.51	-3.01
oleate	0.159	-1.591
phosphatidylcholine	0.0	-3.013
acetate	-1.358	0.043
glucAc	-1.16	-0.38
Rv0950ko	0.0	0.488
Rv1096ko	0.76	-0.217
Rv3684ko	0.219	0.033
delta_otsA_trehalose	-0.659	1.62