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 Rv0140/-:

update plot	correlation	link to info on gene
Rv3576/lppH	(cc=0.4595)	info on Rv3576/lppH
Rv0198c/zmp1	(cc=0.4388)	info on Rv0198c/zmp1
Rv3813c/-	(cc=0.435)	info on Rv3813c/-
Rv1925/fadD31	(cc=0.4289)	info on Rv1925/fadD31
Rv2243/fabD	(cc=0.4233)	info on Rv2243/fabD
Rv1923/lipD	(cc=0.4057)	info on Rv1923/lipD
Rv0572c/-	(cc=0.3972)	info on Rv0572c/-
Rv1604/impA	(cc=0.3941)	info on Rv1604/impA
Rv0104/-	(cc=0.3929)	info on Rv0104/-
Rv1981c/nrdF1	(cc=0.3888)	info on Rv1981c/nrdF1

Correlation of Rv0140/- with Rv0198c/zmp1

Normalized LFCs for Rv0140/-:
(description and provenance of datasets)

	Rv0140/-	Rv0198c/zmp1
Fe_supp_jason_reseq	-0.043	0.358
low_pH_jason_reseq	0.258	-0.577
NO_jason_reseq	0.095	-0.249
B6_jason_reseq	0.473	-0.566
MHCII_jason_reseq	0.738	-0.193
Isoniazid02	-0.511	-0.728
Rifampicin4	-0.108	-0.674
Ethambutol3	-0.254	0.24
Meropenem3	-0.273	-1.471
Vancomycin16	-0.042	-0.342
Rv2680_day32	-0.291	0.75
H37Rv_KO_MarP	-0.075	0.068
hypoxia_3wks	-0.032	0.219
hypoxia_6wks	-0.017	0.954
glycerol	0.414	0.233
cholesterol	0.68	0.977
AJ	-0.734	-0.299
Bibs02	0.123	-0.236
Bibs02c	0.049	1.096
BL6	-0.376	0.796
BL6a	0.552	1.096
BXD01	0.723	0.562
BXD010	0.591	1.257
BXD011	2.057	2.338
BXD03	0.804	1.15
BXD04	0.305	0.911
BXD05	0.039	0.725
BXD06	0.126	0.639
BXD07	0.277	1.003
BXD08	0.167	1.145
BXD09	0.22	0.912
CAST	0.382	0.636
CCcont	0.076	0.929
DS01	0.014	-0.729
DS02	-0.621	-0.602
DS04	-0.343	-0.537
DS0c	0.515	0.201
GP01	0.668	0.931
GP02	0.757	0.411
GP0c	-0.062	0.541
NOD	-0.08	0.208
NZO	0.023	-0.1
PWK	-0.216	0.614
H37Rv_KO_CtpC	0.431	0.593
H37Rv_KO_CtpD	-0.832	0.302
H37Rv_KO_Rv1272	0.662	0.28
H37Rv_KO_SugABC	0.697	1.236
H37Rv_KO_MbtN	-0.688	0.669
Trans05	0.574	0.898
macrophage_unactivated	-0.407	-0.407
IL1	-0.383	0.463
Rapamycin	-0.325	-0.261
Tcell	-0.274	0.199
GMCSF	-0.523	0.0
IFNab	-0.148	0.124
IFNg	-0.206	0.053
IFNg_GMCSF1	-0.5	-0.405
Rv1432_day32	-0.064	0.171
Rv1565c_day32	-0.73	1.005
secA2_input	-0.778	-0.235
delta_Rv3594	-0.054	-0.208
delta_Rv3717	-0.445	0.433
delta_Rv3811	0.665	-0.232
delta_Rv0954	0.253	-0.34
PonA1	0.339	-0.329
EccD1_KO	-0.559	-1.043
EspI_KO	-0.26	-0.222
PE35_KO	-0.193	0.0
PPE68_KO	-0.659	0.678
glycerol2	0.562	0.369
lignocerate	0.69	0.349
oleate	0.448	0.44
phosphatidylcholine	0.268	0.118
acetate	0.216	1.004
glucAc	0.222	0.344
Rv0950ko	0.184	-0.368
Rv1096ko	0.558	0.057
Rv3684ko	0.606	0.124
delta_otsA_trehalose	0.52	0.428