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 Rv2144c/-:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.4953)	info on Rv2190c/-
Rv2696c/-	(cc=0.4887)	info on Rv2696c/-
Rv3818/-	(cc=0.4757)	info on Rv3818/-
Rv1836c/-	(cc=0.469)	info on Rv1836c/-
Rv1623c/cydA	(cc=0.4666)	info on Rv1623c/cydA
Rv0019c/fhaB	(cc=0.4603)	info on Rv0019c/fhaB
Rv1821/secA2	(cc=0.4565)	info on Rv1821/secA2
Rv1551/plsB1	(cc=0.4482)	info on Rv1551/plsB1
Rv3862c/whiB6	(cc=0.4464)	info on Rv3862c/whiB6
Rv3593/lpqF	(cc=0.4459)	info on Rv3593/lpqF

Correlation of Rv2144c/- with Rv1551/plsB1

Normalized LFCs for Rv2144c/-:
(description and provenance of datasets)

	Rv2144c/-	Rv1551/plsB1
Fe_supp_jason_reseq	0.521	0.923
low_pH_jason_reseq	0.626	-0.266
NO_jason_reseq	-0.927	-0.079
B6_jason_reseq	-3.023	-1.362
MHCII_jason_reseq	0.455	-0.572
Isoniazid02	0.029	-0.127
Rifampicin4	-0.485	-0.799
Ethambutol3	-1.29	-0.186
Meropenem3	-0.875	0.818
Vancomycin16	-1.297	-0.164
Rv2680_day32	-1.589	-0.362
H37Rv_KO_MarP	-2.815	-0.041
hypoxia_3wks	1.156	0.467
hypoxia_6wks	0.764	0.501
glycerol	1.074	0.0
cholesterol	1.058	0.54
AJ	-0.698	0.471
Bibs02	-0.634	-0.216
Bibs02c	-0.147	0.077
BL6	0.877	1.452
BL6a	-0.423	1.027
BXD01	0.361	0.776
BXD010	-0.09	0.664
BXD011	-0.71	1.181
BXD03	0.9	0.654
BXD04	3.075	1.037
BXD05	-0.095	0.698
BXD06	0.951	0.992
BXD07	0.906	1.126
BXD08	-0.015	0.874
BXD09	0.289	1.168
CAST	0.474	-0.043
CCcont	-0.105	0.858
DS01	-0.782	0.368
DS02	0.922	0.474
DS04	-0.673	0.846
DS0c	-2.19	0.662
GP01	-0.107	1.403
GP02	1.782	2.109
GP0c	0.59	1.501
NOD	-0.641	-0.085
NZO	-2.982	-0.114
PWK	-1.377	-0.037
H37Rv_KO_CtpC	0.918	1.161
H37Rv_KO_CtpD	0.097	0.714
H37Rv_KO_Rv1272	0.629	1.832
H37Rv_KO_SugABC	-1.308	1.585
H37Rv_KO_MbtN	3.1	1.287
Trans05	0.462	1.442
macrophage_unactivated	0.843	0.29
IL1	0.231	0.602
Rapamycin	-1.274	1.169
Tcell	-1.124	0.85
GMCSF	2.289	0.473
IFNab	0.157	0.925
IFNg	2.528	0.786
IFNg_GMCSF1	1.895	0.487
Rv1432_day32	0.0	-0.587
Rv1565c_day32	-0.978	0.665
secA2_input	-2.481	-0.983
delta_Rv3594	1.26	0.433
delta_Rv3717	2.162	0.371
delta_Rv3811	-0.431	-0.284
delta_Rv0954	0.305	0.366
PonA1	-1.445	0.669
EccD1_KO	0.408	0.043
EspI_KO	0.374	0.724
PE35_KO	-0.744	0.508
PPE68_KO	-0.666	0.557
glycerol2	-1.24	-0.147
lignocerate	-1.292	0.035
oleate	0.084	0.322
phosphatidylcholine	-1.769	0.265
acetate	-0.155	0.095
glucAc	-2.339	-0.124
Rv0950ko	-2.409	-0.356
Rv1096ko	-0.856	0.112
Rv3684ko	0.776	0.121
delta_otsA_trehalose	-1.141	0.34